rowid,run.accession,experiment.accession,sample.accession,study.accession,bioproject,study.title,study.alias,study.type,study.abstract,study.attributes,study.PMIDs,sample.description,sample.title,sample.alias,sample.centername,sample.attributes,GEOsample.title,GEOsample.dataprocessing,GEOsample.source,GEOsample.treatmentprotocol,GEOsample.extractprotocol,GEOsample.growthprotocol,GEOsample.characteristics,GEOsample.accession,experiment.title,experiment.alias,experiment.library_name,experiment.design_description,experiment.library_construction_protocol,experiment.attributes,experiment.library_strategy,experiment.library_source,experiment.library_selection,experiment.library_layout,experiment.platform,experiment.instrument_model,experiment.spot_descriptor,experiment.study_ref,run.title,run.attributes,run.filename,run.semantic_name,run.total_bases,run.total_spots,run.alias,run.read_lengths,run.base_counts,run.r1_length,run.r2_length,run.r3_length,run.r4_length,run.Acount,run.Ccount,run.Gcount,run.Tcount,run.Ncount,run.experiment,run.pool_member,submission.accession,submission.srasource,submission.bioprojectsource,seqdetective.n_mates,seqdetective.mapping_rate.mate1,seqdetective.mapping_rate.mate2,seqdetective.nofeature_rate.mate1,seqdetective.nofeature_rate.mate2,seqdetective.sparsity.mate1,seqdetective.sparsity.mate2,seqdetective.pos_strand_rate.mate1,seqdetective.pos_strand_rate.mate2,seqdetective.readlen.mate1,seqdetective.readlen.mate2,seqdetective.judgement.mate1,seqdetective.judgement.mate2,seqdetective.judgement.reason,platform_family,instrument_generation,read_bias,selection_class,prep_kit,sc_or_bulk,tech_class,technology,tech_variant,submission.bioprojectsource.country,earliest_date,devstage_curation,devstage_curation_coarse,tissue_curation,tissue_curation_coarse
0,DRR314108,DRX303511,DRS233566,DRP008373,PRJDB12134,Comparison of expression profile between banp mutant and wildtype sibling.,DRP008373,Other,To characterize the physiological function of Banp  the expression profile of banp mutant and wild type sibling was obtained by ATAC sequencing and RNA sequencing. All data were obtained using embryo heads at 48 hpf.,,,,RNA seq of wild type sibling sample3,SAMD00399013,,sample name:rna rw337 48hpf WT rep 3|biological replicate:3,,,,,,,,,Illumina NovaSeq 6000 paired end sequencing of SAMD00399013,DRX303511,1,1,1,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina NovaSeq 6000,<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>151</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>76</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR>,DRP008373,Illumina NovaSeq 6000 paired end sequencing of SAMD00399013,,,,23076492885.0,76679376.0,DRR314108,0:150.51 1:150.44,A:6146969533;C:5373690527;G:5458576301;T:6095818756;N:1437768,150,150,,,6146969533,5373690527,5458576301,6095818756,1437768,DRX303511,DRS233566,DRA012572,OIST|Developmental Neurobiology Unit,Okinawa Institute of Science and Technology,2,0.94223,0.94614,0.10721,0.10288,0.68745,0.68621,0.4728,0.47157,151,150,B,B,biological fallback assumption,illumina,novaseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,Japan,2022-04-01,Hatching,Embryo,Undetermined,Embryo Imprecise
1,DRR314107,DRX303510,DRS233565,DRP008373,PRJDB12134,Comparison of expression profile between banp mutant and wildtype sibling.,DRP008373,Other,To characterize the physiological function of Banp  the expression profile of banp mutant and wild type sibling was obtained by ATAC sequencing and RNA sequencing. All data were obtained using embryo heads at 48 hpf.,,,,RNA seq of wild type sibling sample2,SAMD00399012,,sample name:rna rw337 48hpf WT rep 2|biological replicate:2,,,,,,,,,Illumina NovaSeq 6000 paired end sequencing of SAMD00399012,DRX303510,1,1,1,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina NovaSeq 6000,<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>151</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>76</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR>,DRP008373,Illumina NovaSeq 6000 paired end sequencing of SAMD00399012,,,,26091623771.0,86694066.0,DRR314107,0:150.51 1:150.45,A:6955374552;C:6050013285;G:6169385096;T:6915281392;N:1569446,150,150,,,6955374552,6050013285,6169385096,6915281392,1569446,DRX303510,DRS233565,DRA012572,OIST|Developmental Neurobiology Unit,Okinawa Institute of Science and Technology,2,0.94028,0.94277,0.11038,0.10462,0.68288,0.68134,0.46992,0.47227,150,150,B,B,biological fallback assumption,illumina,novaseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,Japan,2022-04-01,Hatching,Embryo,Undetermined,Embryo Imprecise
2,DRR314106,DRX303509,DRS233564,DRP008373,PRJDB12134,Comparison of expression profile between banp mutant and wildtype sibling.,DRP008373,Other,To characterize the physiological function of Banp  the expression profile of banp mutant and wild type sibling was obtained by ATAC sequencing and RNA sequencing. All data were obtained using embryo heads at 48 hpf.,,,,RNA seq of wild type sibling sample1,SAMD00399011,,sample name:rna rw337 48hpf WT rep 1|biological replicate:1,,,,,,,,,Illumina NovaSeq 6000 paired end sequencing of SAMD00399011,DRX303509,1,1,1,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina NovaSeq 6000,<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>151</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>76</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR>,DRP008373,Illumina NovaSeq 6000 paired end sequencing of SAMD00399011,,,,23833525756.0,79191795.0,DRR314106,0:150.51 1:150.44,A:6324521565;C:5556755459;G:5694025045;T:6256748423;N:1475264,150,150,,,6324521565,5556755459,5694025045,6256748423,1475264,DRX303509,DRS233564,DRA012572,OIST|Developmental Neurobiology Unit,Okinawa Institute of Science and Technology,2,0.94723,0.94975,0.09521,0.09114,0.6776,0.67819,0.46045,0.46153,151,151,B,B,biological fallback assumption,illumina,novaseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,Japan,2022-04-01,Hatching,Embryo,Undetermined,Embryo Imprecise
3,DRR314105,DRX303508,DRS233563,DRP008373,PRJDB12134,Comparison of expression profile between banp mutant and wildtype sibling.,DRP008373,Other,To characterize the physiological function of Banp  the expression profile of banp mutant and wild type sibling was obtained by ATAC sequencing and RNA sequencing. All data were obtained using embryo heads at 48 hpf.,,,,RNA seq of banp mutant sample3,SAMD00399010,,sample name:rna rw337 48hpf Mutant rep 3|biological replicate:3,,,,,,,,,Illumina NovaSeq 6000 paired end sequencing of SAMD00399010,DRX303508,1,1,1,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina NovaSeq 6000,<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>151</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>76</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR>,DRP008373,Illumina NovaSeq 6000 paired end sequencing of SAMD00399010,,,,27688386114.0,92009317.0,DRR314105,0:150.49 1:150.44,A:7681451080;C:6071566134;G:6242782106;T:7690830655;N:1756139,150,150,,,7681451080,6071566134,6242782106,7690830655,1756139,DRX303508,DRS233563,DRA012572,OIST|Developmental Neurobiology Unit,Okinawa Institute of Science and Technology,2,0.91038,0.91556,0.17971,0.16967,0.67718,0.67716,0.47042,0.46425,151,151,B,B,biological fallback assumption,illumina,novaseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,Japan,2022-04-01,Hatching,Embryo,Undetermined,Embryo Imprecise
4,DRR314104,DRX303507,DRS233562,DRP008373,PRJDB12134,Comparison of expression profile between banp mutant and wildtype sibling.,DRP008373,Other,To characterize the physiological function of Banp  the expression profile of banp mutant and wild type sibling was obtained by ATAC sequencing and RNA sequencing. All data were obtained using embryo heads at 48 hpf.,,,,RNA seq of banp mutant sample2,SAMD00399009,,sample name:rna rw337 48hpf Mutant rep 2|biological replicate:2,,,,,,,,,Illumina NovaSeq 6000 paired end sequencing of SAMD00399009,DRX303507,1,1,1,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina NovaSeq 6000,<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>151</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>76</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR>,DRP008373,Illumina NovaSeq 6000 paired end sequencing of SAMD00399009,,,,22970994572.0,76322352.0,DRR314104,0:150.52 1:150.46,A:6142535654;C:5310453740;G:5430124468;T:6086516676;N:1364034,150,150,,,6142535654,5310453740,5430124468,6086516676,1364034,DRX303507,DRS233562,DRA012572,OIST|Developmental Neurobiology Unit,Okinawa Institute of Science and Technology,2,0.93707,0.94063,0.12175,0.11613,0.67825,0.67649,0.46485,0.46905,147,151,B,B,biological fallback assumption,illumina,novaseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,Japan,2022-04-01,Hatching,Embryo,Undetermined,Embryo Imprecise
5,DRR314103,DRX303506,DRS233561,DRP008373,PRJDB12134,Comparison of expression profile between banp mutant and wildtype sibling.,DRP008373,Other,To characterize the physiological function of Banp  the expression profile of banp mutant and wild type sibling was obtained by ATAC sequencing and RNA sequencing. All data were obtained using embryo heads at 48 hpf.,,,,RNA seq of banp mutant sample1,SAMD00399008,,sample name:rna rw337 48hpf Mutant rep 1|biological replicate:1,,,,,,,,,Illumina NovaSeq 6000 paired end sequencing of SAMD00399008,DRX303506,1,1,1,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina NovaSeq 6000,<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>151</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>76</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR>,DRP008373,Illumina NovaSeq 6000 paired end sequencing of SAMD00399008,,,,23637901630.0,78541449.0,DRR314103,0:150.51 1:150.45,A:6359178134;C:5420730443;G:5530700546;T:6325864263;N:1428244,150,150,,,6359178134,5420730443,5530700546,6325864263,1428244,DRX303506,DRS233561,DRA012572,OIST|Developmental Neurobiology Unit,Okinawa Institute of Science and Technology,2,0.9308,0.93545,0.13172,0.12462,0.68219,0.6814,0.46842,0.46984,150,151,B,B,biological fallback assumption,illumina,novaseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,Japan,2022-04-01,Hatching,Embryo,Undetermined,Embryo Imprecise
288,DRR224554,DRX214839,DRS236362,DRP008458,PRJDB9741,RNA seq for developing pectoral fin in zebrafish,DRP008458,Other,From the developmental view of fin to limb transition  an important event in vertebrate evolution  we seek fish specific genes that show characteristic expression pattern in the developing fin.,,,,pectoral fin from RIKEN Wild type zebrafish Adult C,SAMD00222585,,sample name:Adult C,,,,,,,,,Illumina NovaSeq 6000 paired end sequencing of SAMD00222585,DRX214839,Adult C,1,Illumina TruSeq Stranded mRNA Library Prep Kit,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina NovaSeq 6000,<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>200</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>101</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR>,DRP008458,Illumina NovaSeq 6000 paired end sequencing of SAMD00222585,,,,11727505800.0,58637529.0,DRR224554,0:100 1:100,A:3137648588;C:2705013210;G:3191753451;T:2692963496;N:127055,100,100,,,3137648588,2705013210,3191753451,2692963496,127055,DRX214839,DRS236362,DRA010086,TOHOKUGL|Laboratory of organ morphogenesis,"Graduate School of Life Sciences, Tohoku University",2,0.95934,0.93156,0.03853,0.0394,0.72683,0.74625,0.45812,0.47098,100,100,B,B,biological fallback assumption,illumina,novaseq_era,unknown,poly_a,trueseq,bulk,unknown,unknown,,Japan,2022-04-21,Adult,Adult,Fin,Surface Structure
289,DRR224553,DRX214838,DRS236361,DRP008458,PRJDB9741,RNA seq for developing pectoral fin in zebrafish,DRP008458,Other,From the developmental view of fin to limb transition  an important event in vertebrate evolution  we seek fish specific genes that show characteristic expression pattern in the developing fin.,,,,pectoral fin from RIKEN Wild type zebrafish Adult B,SAMD00222584,,sample name:Adult B,,,,,,,,,Illumina NovaSeq 6000 paired end sequencing of SAMD00222584,DRX214838,Adult B,1,Illumina TruSeq Stranded mRNA Library Prep Kit,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina NovaSeq 6000,<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>200</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>101</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR>,DRP008458,Illumina NovaSeq 6000 paired end sequencing of SAMD00222584,,,,22010855600.0,110054278.0,DRR224553,0:100 1:100,A:5511440112;C:5498539659;G:5546758172;T:5453879750;N:237907,100,100,,,5511440112,5498539659,5546758172,5453879750,237907,DRX214838,DRS236361,DRA010086,TOHOKUGL|Laboratory of organ morphogenesis,"Graduate School of Life Sciences, Tohoku University",2,0.95774,0.95394,0.04568,0.04411,0.70701,0.70881,0.47041,0.47938,100,100,B,B,biological fallback assumption,illumina,novaseq_era,unknown,poly_a,trueseq,bulk,unknown,unknown,,Japan,2022-04-21,Adult,Adult,Fin,Surface Structure
290,DRR224552,DRX214837,DRS236360,DRP008458,PRJDB9741,RNA seq for developing pectoral fin in zebrafish,DRP008458,Other,From the developmental view of fin to limb transition  an important event in vertebrate evolution  we seek fish specific genes that show characteristic expression pattern in the developing fin.,,,,pectoral fin from RIKEN Wild type zebrafish Adult A,SAMD00222583,,sample name:Adult A,,,,,,,,,Illumina NovaSeq 6000 paired end sequencing of SAMD00222583,DRX214837,Adult A,1,Illumina TruSeq Stranded mRNA Library Prep Kit,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina NovaSeq 6000,<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>200</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>101</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR>,DRP008458,Illumina NovaSeq 6000 paired end sequencing of SAMD00222583,,,,17683281000.0,88416405.0,DRR224552,0:100 1:100,A:4386756926;C:4479415938;G:4578796094;T:4238125580;N:186462,100,100,,,4386756926,4479415938,4578796094,4238125580,186462,DRX214837,DRS236360,DRA010086,TOHOKUGL|Laboratory of organ morphogenesis,"Graduate School of Life Sciences, Tohoku University",2,0.95974,0.95566,0.05237,0.05086,0.74357,0.74742,0.48578,0.49971,100,100,B,B,biological fallback assumption,illumina,novaseq_era,unknown,poly_a,trueseq,bulk,unknown,unknown,,Japan,2022-04-21,Adult,Adult,Fin,Surface Structure
291,DRR224551,DRX214836,DRS236359,DRP008458,PRJDB9741,RNA seq for developing pectoral fin in zebrafish,DRP008458,Other,From the developmental view of fin to limb transition  an important event in vertebrate evolution  we seek fish specific genes that show characteristic expression pattern in the developing fin.,,,,pectoral fin from RIKEN Wild type zebrafish at 42dpf C,SAMD00222582,,sample name:42dpf C,,,,,,,,,Illumina NovaSeq 6000 paired end sequencing of SAMD00222582,DRX214836,42dpf C,1,Illumina TruSeq Stranded mRNA Library Prep Kit,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina NovaSeq 6000,<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>200</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>101</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR>,DRP008458,Illumina NovaSeq 6000 paired end sequencing of SAMD00222582,,,,14328721000.0,71643605.0,DRR224551,0:100 1:100,A:3545040254;C:3629416092;G:3695002549;T:3459108561;N:153544,100,100,,,3545040254,3629416092,3695002549,3459108561,153544,DRX214836,DRS236359,DRA010086,TOHOKUGL|Laboratory of organ morphogenesis,"Graduate School of Life Sciences, Tohoku University",2,0.9671,0.95979,0.04174,0.04058,0.71867,0.72143,0.44818,0.46122,100,100,B,B,biological fallback assumption,illumina,novaseq_era,unknown,poly_a,trueseq,bulk,unknown,unknown,,Japan,2022-04-21,Juvenile,Juvenile,Fin,Surface Structure
292,DRR224550,DRX214835,DRS236358,DRP008458,PRJDB9741,RNA seq for developing pectoral fin in zebrafish,DRP008458,Other,From the developmental view of fin to limb transition  an important event in vertebrate evolution  we seek fish specific genes that show characteristic expression pattern in the developing fin.,,,,pectoral fin from RIKEN Wild type zebrafish at 42dpf B,SAMD00222581,,sample name:42dpf B,,,,,,,,,Illumina NovaSeq 6000 paired end sequencing of SAMD00222581,DRX214835,42dpf B,1,Illumina TruSeq Stranded mRNA Library Prep Kit,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina NovaSeq 6000,<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>200</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>101</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR>,DRP008458,Illumina NovaSeq 6000 paired end sequencing of SAMD00222581,,,,14782437000.0,73912185.0,DRR224550,0:100 1:100,A:3652595601;C:3746189790;G:3788229051;T:3595263949;N:158609,100,100,,,3652595601,3746189790,3788229051,3595263949,158609,DRX214835,DRS236358,DRA010086,TOHOKUGL|Laboratory of organ morphogenesis,"Graduate School of Life Sciences, Tohoku University",2,0.96502,0.95776,0.0417,0.0399,0.71311,0.71423,0.46064,0.44469,100,100,B,B,biological fallback assumption,illumina,novaseq_era,unknown,poly_a,trueseq,bulk,unknown,unknown,,Japan,2022-04-21,Juvenile,Juvenile,Fin,Surface Structure
293,DRR224549,DRX214834,DRS236357,DRP008458,PRJDB9741,RNA seq for developing pectoral fin in zebrafish,DRP008458,Other,From the developmental view of fin to limb transition  an important event in vertebrate evolution  we seek fish specific genes that show characteristic expression pattern in the developing fin.,,,,pectoral fin from RIKEN Wild type zebrafish at 42dpf A,SAMD00222580,,sample name:42dpf A,,,,,,,,,Illumina NovaSeq 6000 paired end sequencing of SAMD00222580,DRX214834,42dpf A,1,Illumina TruSeq Stranded mRNA Library Prep Kit,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina NovaSeq 6000,<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>200</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>101</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR>,DRP008458,Illumina NovaSeq 6000 paired end sequencing of SAMD00222580,,,,17895751600.0,89478758.0,DRR224549,0:100 1:100,A:4428562207;C:4525140210;G:4573827895;T:4368029340;N:191948,100,100,,,4428562207,4525140210,4573827895,4368029340,191948,DRX214834,DRS236357,DRA010086,TOHOKUGL|Laboratory of organ morphogenesis,"Graduate School of Life Sciences, Tohoku University",2,0.96506,0.96043,0.04654,0.0446,0.70956,0.71153,0.49143,0.48957,100,100,B,B,biological fallback assumption,illumina,novaseq_era,unknown,poly_a,trueseq,bulk,unknown,unknown,,Japan,2022-04-21,Juvenile,Juvenile,Fin,Surface Structure
294,DRR224548,DRX214833,DRS236356,DRP008458,PRJDB9741,RNA seq for developing pectoral fin in zebrafish,DRP008458,Other,From the developmental view of fin to limb transition  an important event in vertebrate evolution  we seek fish specific genes that show characteristic expression pattern in the developing fin.,,,,pectoral fin from RIKEN Wild type zebrafish at 28dpf C,SAMD00222579,,sample name:28dpf C,,,,,,,,,Illumina NovaSeq 6000 paired end sequencing of SAMD00222579,DRX214833,28dpf C,1,Illumina TruSeq Stranded mRNA Library Prep Kit,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina NovaSeq 6000,<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>200</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>101</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR>,DRP008458,Illumina NovaSeq 6000 paired end sequencing of SAMD00222579,,,,16269568600.0,81347843.0,DRR224548,0:100 1:100,A:3978004953;C:4160626131;G:4174223034;T:3956539398;N:175084,100,100,,,3978004953,4160626131,4174223034,3956539398,175084,DRX214833,DRS236356,DRA010086,TOHOKUGL|Laboratory of organ morphogenesis,"Graduate School of Life Sciences, Tohoku University",2,0.9633,0.95842,0.0474,0.04564,0.72184,0.72253,0.47871,0.46471,100,100,B,B,biological fallback assumption,illumina,novaseq_era,unknown,poly_a,trueseq,bulk,unknown,unknown,,Japan,2022-04-21,Larval,Larval,Fin,Surface Structure
295,DRR224547,DRX214832,DRS236355,DRP008458,PRJDB9741,RNA seq for developing pectoral fin in zebrafish,DRP008458,Other,From the developmental view of fin to limb transition  an important event in vertebrate evolution  we seek fish specific genes that show characteristic expression pattern in the developing fin.,,,,pectoral fin from RIKEN Wild type zebrafish at 28dpf B,SAMD00222578,,sample name:28dpf B,,,,,,,,,Illumina NovaSeq 6000 paired end sequencing of SAMD00222578,DRX214832,28dpf B,1,Illumina TruSeq Stranded mRNA Library Prep Kit,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina NovaSeq 6000,<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>200</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>101</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR>,DRP008458,Illumina NovaSeq 6000 paired end sequencing of SAMD00222578,,,,19970979800.0,99854899.0,DRR224547,0:100 1:100,A:5064043525;C:4909415172;G:5303813974;T:4693498507;N:208622,100,100,,,5064043525,4909415172,5303813974,4693498507,208622,DRX214832,DRS236355,DRA010086,TOHOKUGL|Laboratory of organ morphogenesis,"Graduate School of Life Sciences, Tohoku University",2,0.95486,0.94587,0.05718,0.05404,0.73746,0.74754,0.51956,0.47088,100,100,B,B,biological fallback assumption,illumina,novaseq_era,unknown,poly_a,trueseq,bulk,unknown,unknown,,Japan,2022-04-21,Larval,Larval,Fin,Surface Structure
296,DRR224546,DRX214831,DRS236354,DRP008458,PRJDB9741,RNA seq for developing pectoral fin in zebrafish,DRP008458,Other,From the developmental view of fin to limb transition  an important event in vertebrate evolution  we seek fish specific genes that show characteristic expression pattern in the developing fin.,,,,pectoral fin from RIKEN Wild type zebrafish at 28dpf A,SAMD00222577,,sample name:28dpf A,,,,,,,,,Illumina NovaSeq 6000 paired end sequencing of SAMD00222577,DRX214831,28dpf A,1,Illumina TruSeq Stranded mRNA Library Prep Kit,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina NovaSeq 6000,<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>200</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>101</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR>,DRP008458,Illumina NovaSeq 6000 paired end sequencing of SAMD00222577,,,,17870876400.0,89354382.0,DRR224546,0:100 1:100,A:4431724830;C:4512913394;G:4543413766;T:4382632384;N:192026,100,100,,,4431724830,4512913394,4543413766,4382632384,192026,DRX214831,DRS236354,DRA010086,TOHOKUGL|Laboratory of organ morphogenesis,"Graduate School of Life Sciences, Tohoku University",2,0.9608,0.95643,0.045,0.04296,0.7236,0.7234,0.50029,0.50287,100,100,B,B,biological fallback assumption,illumina,novaseq_era,unknown,poly_a,trueseq,bulk,unknown,unknown,,Japan,2022-04-21,Larval,Larval,Fin,Surface Structure
297,DRR224545,DRX214830,DRS236353,DRP008458,PRJDB9741,RNA seq for developing pectoral fin in zebrafish,DRP008458,Other,From the developmental view of fin to limb transition  an important event in vertebrate evolution  we seek fish specific genes that show characteristic expression pattern in the developing fin.,,,,pectoral fin from RIKEN Wild type zebrafish at 14dpf C,SAMD00222576,,sample name:14dpf C,,,,,,,,,Illumina NovaSeq 6000 paired end sequencing of SAMD00222576,DRX214830,14dpf C,1,Illumina TruSeq Stranded mRNA Library Prep Kit,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina NovaSeq 6000,<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>200</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>101</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR>,DRP008458,Illumina NovaSeq 6000 paired end sequencing of SAMD00222576,,,,16979810200.0,84899051.0,DRR224545,0:100 1:100,A:4241907225;C:4256915446;G:4277991608;T:4202813567;N:182354,100,100,,,4241907225,4256915446,4277991608,4202813567,182354,DRX214830,DRS236353,DRA010086,TOHOKUGL|Laboratory of organ morphogenesis,"Graduate School of Life Sciences, Tohoku University",2,0.96662,0.96168,0.03768,0.03562,0.72368,0.72464,0.48494,0.48687,100,100,B,B,biological fallback assumption,illumina,novaseq_era,unknown,poly_a,trueseq,bulk,unknown,unknown,,Japan,2022-04-21,Larval,Larval,Fin,Surface Structure
298,DRR224544,DRX214829,DRS236352,DRP008458,PRJDB9741,RNA seq for developing pectoral fin in zebrafish,DRP008458,Other,From the developmental view of fin to limb transition  an important event in vertebrate evolution  we seek fish specific genes that show characteristic expression pattern in the developing fin.,,,,pectoral fin from RIKEN Wild type zebrafish at 14dpf B,SAMD00222575,,sample name:14dpf B,,,,,,,,,Illumina NovaSeq 6000 paired end sequencing of SAMD00222575,DRX214829,14dpf B,1,Illumina TruSeq Stranded mRNA Library Prep Kit,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina NovaSeq 6000,<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>200</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>101</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR>,DRP008458,Illumina NovaSeq 6000 paired end sequencing of SAMD00222575,,,,18273780000.0,91368900.0,DRR224544,0:100 1:100,A:4545336763;C:4589502978;G:4635310325;T:4503435996;N:193938,100,100,,,4545336763,4589502978,4635310325,4503435996,193938,DRX214829,DRS236352,DRA010086,TOHOKUGL|Laboratory of organ morphogenesis,"Graduate School of Life Sciences, Tohoku University",2,0.97073,0.96595,0.03063,0.02973,0.73632,0.73758,0.47494,0.46918,100,100,B,B,biological fallback assumption,illumina,novaseq_era,unknown,poly_a,trueseq,bulk,unknown,unknown,,Japan,2022-04-21,Larval,Larval,Fin,Surface Structure
299,DRR224543,DRX214828,DRS236351,DRP008458,PRJDB9741,RNA seq for developing pectoral fin in zebrafish,DRP008458,Other,From the developmental view of fin to limb transition  an important event in vertebrate evolution  we seek fish specific genes that show characteristic expression pattern in the developing fin.,,,,pectoral fin from RIKEN Wild type zebrafish at 14dpf A,SAMD00222574,,sample name:14dpf A,,,,,,,,,Illumina NovaSeq 6000 paired end sequencing of SAMD00222574,DRX214828,14dpf A,1,Illumina TruSeq Stranded mRNA Library Prep Kit,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina NovaSeq 6000,<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>200</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>101</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR>,DRP008458,Illumina NovaSeq 6000 paired end sequencing of SAMD00222574,,,,18294607600.0,91473038.0,DRR224543,0:100 1:100,A:4623135433;C:4539347940;G:4561846652;T:4570079366;N:198209,100,100,,,4623135433,4539347940,4561846652,4570079366,198209,DRX214828,DRS236351,DRA010086,TOHOKUGL|Laboratory of organ morphogenesis,"Graduate School of Life Sciences, Tohoku University",2,0.96261,0.9592,0.02999,0.02873,0.72699,0.72796,0.4679,0.46591,100,100,B,B,biological fallback assumption,illumina,novaseq_era,unknown,poly_a,trueseq,bulk,unknown,unknown,,Japan,2022-04-21,Larval,Larval,Fin,Surface Structure
300,DRR224542,DRX214827,DRS236350,DRP008458,PRJDB9741,RNA seq for developing pectoral fin in zebrafish,DRP008458,Other,From the developmental view of fin to limb transition  an important event in vertebrate evolution  we seek fish specific genes that show characteristic expression pattern in the developing fin.,,,,pectoral fin from RIKEN Wild type zebrafish at 5dpf C,SAMD00222573,,sample name:5dpf C,,,,,,,,,Illumina NovaSeq 6000 paired end sequencing of SAMD00222573,DRX214827,5dpf C,1,Illumina TruSeq Stranded mRNA Library Prep Kit,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina NovaSeq 6000,<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>200</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>101</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR>,DRP008458,Illumina NovaSeq 6000 paired end sequencing of SAMD00222573,,,,18736996000.0,93684980.0,DRR224542,0:100 1:100,A:4647244376;C:4733187951;G:4746515898;T:4609906214;N:141561,100,100,,,4647244376,4733187951,4746515898,4609906214,141561,DRX214827,DRS236350,DRA010086,TOHOKUGL|Laboratory of organ morphogenesis,"Graduate School of Life Sciences, Tohoku University",2,0.97229,0.96893,0.042,0.03995,0.74172,0.74328,0.44607,0.44755,100,100,B,B,biological fallback assumption,illumina,novaseq_era,unknown,poly_a,trueseq,bulk,unknown,unknown,,Japan,2022-04-21,Larval,Larval,Fin,Surface Structure
301,DRR224541,DRX214826,DRS236349,DRP008458,PRJDB9741,RNA seq for developing pectoral fin in zebrafish,DRP008458,Other,From the developmental view of fin to limb transition  an important event in vertebrate evolution  we seek fish specific genes that show characteristic expression pattern in the developing fin.,,,,pectoral fin from RIKEN Wild type zebrafish at 5dpf B,SAMD00222572,,sample name:5dpf B,,,,,,,,,Illumina NovaSeq 6000 paired end sequencing of SAMD00222572,DRX214826,5dpf B,1,Illumina TruSeq Stranded mRNA Library Prep Kit,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina NovaSeq 6000,<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>200</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>101</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR>,DRP008458,Illumina NovaSeq 6000 paired end sequencing of SAMD00222572,,,,22151021400.0,110755107.0,DRR224541,0:100 1:100,A:5555093734;C:5532777660;G:5592525988;T:5470461779;N:162239,100,100,,,5555093734,5532777660,5592525988,5470461779,162239,DRX214826,DRS236349,DRA010086,TOHOKUGL|Laboratory of organ morphogenesis,"Graduate School of Life Sciences, Tohoku University",2,0.96835,0.96645,0.04001,0.03872,0.72865,0.72934,0.46355,0.46428,100,100,B,B,biological fallback assumption,illumina,novaseq_era,unknown,poly_a,trueseq,bulk,unknown,unknown,,Japan,2022-04-21,Larval,Larval,Fin,Surface Structure
302,DRR224540,DRX214825,DRS236348,DRP008458,PRJDB9741,RNA seq for developing pectoral fin in zebrafish,DRP008458,Other,From the developmental view of fin to limb transition  an important event in vertebrate evolution  we seek fish specific genes that show characteristic expression pattern in the developing fin.,,,,pectoral fin from RIKEN Wild type zebrafish at 5dpf A,SAMD00222571,,sample name:5dpf A,,,,,,,,,Illumina NovaSeq 6000 paired end sequencing of SAMD00222571,DRX214825,5dpf A,1,Illumina TruSeq Stranded mRNA Library Prep Kit,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina NovaSeq 6000,<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>200</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>101</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR>,DRP008458,Illumina NovaSeq 6000 paired end sequencing of SAMD00222571,,,,18219864200.0,91099321.0,DRR224540,0:100 1:100,A:4485880313;C:4629712312;G:4617351502;T:4486786107;N:133966,100,100,,,4485880313,4629712312,4617351502,4486786107,133966,DRX214825,DRS236348,DRA010086,TOHOKUGL|Laboratory of organ morphogenesis,"Graduate School of Life Sciences, Tohoku University",2,0.97075,0.96902,0.04498,0.0432,0.72971,0.73044,0.45267,0.4604,100,100,B,B,biological fallback assumption,illumina,novaseq_era,unknown,poly_a,trueseq,bulk,unknown,unknown,,Japan,2022-04-21,Larval,Larval,Fin,Surface Structure
303,DRR224539,DRX214824,DRS236347,DRP008458,PRJDB9741,RNA seq for developing pectoral fin in zebrafish,DRP008458,Other,From the developmental view of fin to limb transition  an important event in vertebrate evolution  we seek fish specific genes that show characteristic expression pattern in the developing fin.,,,,pectoral fin bud from gM1116A zebrafish at 48hpf C,SAMD00222570,,sample name:48hpf C,,,,,,,,,Illumina NovaSeq 6000 paired end sequencing of SAMD00222570,DRX214824,48hpf C,1,Illumina TruSeq Stranded mRNA Library Prep Kit,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina NovaSeq 6000,<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>200</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>101</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR>,DRP008458,Illumina NovaSeq 6000 paired end sequencing of SAMD00222570,,,,16828182200.0,84140911.0,DRR224539,0:100 1:100,A:3957959900;C:4467368792;G:4483580218;T:3919146988;N:126302,100,100,,,3957959900,4467368792,4483580218,3919146988,126302,DRX214824,DRS236347,DRA010086,TOHOKUGL|Laboratory of organ morphogenesis,"Graduate School of Life Sciences, Tohoku University",2,0.97277,0.97115,0.05409,0.05185,0.76717,0.76836,0.46592,0.45571,100,100,B,B,biological fallback assumption,illumina,novaseq_era,unknown,poly_a,trueseq,bulk,unknown,unknown,,Japan,2022-04-21,Hatching,Embryo,Fin,Surface Structure
304,DRR224538,DRX214823,DRS236346,DRP008458,PRJDB9741,RNA seq for developing pectoral fin in zebrafish,DRP008458,Other,From the developmental view of fin to limb transition  an important event in vertebrate evolution  we seek fish specific genes that show characteristic expression pattern in the developing fin.,,,,pectoral fin bud from gM1116A zebrafish at 48hpf B,SAMD00222569,,sample name:48hpf B,,,,,,,,,Illumina NovaSeq 6000 paired end sequencing of SAMD00222569,DRX214823,48hpf B,1,Illumina TruSeq Stranded mRNA Library Prep Kit,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina NovaSeq 6000,<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>200</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>101</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR>,DRP008458,Illumina NovaSeq 6000 paired end sequencing of SAMD00222569,,,,22815822200.0,114079111.0,DRR224538,0:100 1:100,A:5651922913;C:5760379580;G:5844694518;T:5558658503;N:166686,100,100,,,5651922913,5760379580,5844694518,5558658503,166686,DRX214823,DRS236346,DRA010086,TOHOKUGL|Laboratory of organ morphogenesis,"Graduate School of Life Sciences, Tohoku University",2,0.96814,0.96379,0.03526,0.03362,0.71575,0.71697,0.47605,0.47359,100,100,B,B,biological fallback assumption,illumina,novaseq_era,unknown,poly_a,trueseq,bulk,unknown,unknown,,Japan,2022-04-21,Hatching,Embryo,Fin,Surface Structure
305,DRR224537,DRX214822,DRS236345,DRP008458,PRJDB9741,RNA seq for developing pectoral fin in zebrafish,DRP008458,Other,From the developmental view of fin to limb transition  an important event in vertebrate evolution  we seek fish specific genes that show characteristic expression pattern in the developing fin.,,,,pectoral fin bud from gM1116A zebrafish at 48hpf A,SAMD00222568,,sample name:48hpf A,,,,,,,,,Illumina NovaSeq 6000 paired end sequencing of SAMD00222568,DRX214822,48hpf A,1,Illumina TruSeq Stranded mRNA Library Prep Kit,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina NovaSeq 6000,<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>200</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>101</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR>,DRP008458,Illumina NovaSeq 6000 paired end sequencing of SAMD00222568,,,,13993230400.0,69966152.0,DRR224537,0:100 1:100,A:3484590137;C:3511805255;G:3624285719;T:3372446706;N:102583,100,100,,,3484590137,3511805255,3624285719,3372446706,102583,DRX214822,DRS236345,DRA010086,TOHOKUGL|Laboratory of organ morphogenesis,"Graduate School of Life Sciences, Tohoku University",2,0.96467,0.96428,0.04367,0.04212,0.72853,0.73125,0.49715,0.49652,100,100,B,B,biological fallback assumption,illumina,novaseq_era,unknown,poly_a,trueseq,bulk,unknown,unknown,,Japan,2022-04-21,Hatching,Embryo,Fin,Surface Structure
306,DRR224536,DRX214821,DRS236344,DRP008458,PRJDB9741,RNA seq for developing pectoral fin in zebrafish,DRP008458,Other,From the developmental view of fin to limb transition  an important event in vertebrate evolution  we seek fish specific genes that show characteristic expression pattern in the developing fin.,,,,pectoral fin bud from gM1116A zebrafish at 40hpf C,SAMD00222567,,sample name:40hpf C,,,,,,,,,Illumina NovaSeq 6000 paired end sequencing of SAMD00222567,DRX214821,40hpf C,1,Illumina TruSeq Stranded mRNA Library Prep Kit,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina NovaSeq 6000,<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>200</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>101</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR>,DRP008458,Illumina NovaSeq 6000 paired end sequencing of SAMD00222567,,,,14926054400.0,74630272.0,DRR224536,0:100 1:100,A:3647365116;C:3826172690;G:3866071867;T:3586333511;N:111216,100,100,,,3647365116,3826172690,3866071867,3586333511,111216,DRX214821,DRS236344,DRA010086,TOHOKUGL|Laboratory of organ morphogenesis,"Graduate School of Life Sciences, Tohoku University",2,0.96395,0.96168,0.05081,0.04957,0.75489,0.75607,0.51046,0.52135,100,100,B,B,biological fallback assumption,illumina,novaseq_era,unknown,poly_a,trueseq,bulk,unknown,unknown,,Japan,2022-04-21,Pharyngula,Embryo,Fin,Surface Structure
307,DRR224535,DRX214820,DRS236343,DRP008458,PRJDB9741,RNA seq for developing pectoral fin in zebrafish,DRP008458,Other,From the developmental view of fin to limb transition  an important event in vertebrate evolution  we seek fish specific genes that show characteristic expression pattern in the developing fin.,,,,pectoral fin bud from gM1116A zebrafish at 40hpf B,SAMD00222566,,sample name:40hpf B,,,,,,,,,Illumina NovaSeq 6000 paired end sequencing of SAMD00222566,DRX214820,40hpf B,1,Illumina TruSeq Stranded mRNA Library Prep Kit,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina NovaSeq 6000,<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>200</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>101</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR>,DRP008458,Illumina NovaSeq 6000 paired end sequencing of SAMD00222566,,,,14413995800.0,72069979.0,DRR224535,0:100 1:100,A:3598207137;C:3642219692;G:3750145663;T:3423315835;N:107473,100,100,,,3598207137,3642219692,3750145663,3423315835,107473,DRX214820,DRS236343,DRA010086,TOHOKUGL|Laboratory of organ morphogenesis,"Graduate School of Life Sciences, Tohoku University",2,0.97396,0.97107,0.04686,0.04549,0.7444,0.74968,0.50051,0.49798,100,100,B,B,biological fallback assumption,illumina,novaseq_era,unknown,poly_a,trueseq,bulk,unknown,unknown,,Japan,2022-04-21,Pharyngula,Embryo,Fin,Surface Structure
308,DRR224534,DRX214819,DRS236342,DRP008458,PRJDB9741,RNA seq for developing pectoral fin in zebrafish,DRP008458,Other,From the developmental view of fin to limb transition  an important event in vertebrate evolution  we seek fish specific genes that show characteristic expression pattern in the developing fin.,,,,pectoral fin bud from gM1116A zebrafish at 40hpf A,SAMD00222565,,sample name:40hpf A,,,,,,,,,Illumina NovaSeq 6000 paired end sequencing of SAMD00222565,DRX214819,40hpf A,1,Illumina TruSeq Stranded mRNA Library Prep Kit,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina NovaSeq 6000,<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>200</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>101</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR>,DRP008458,Illumina NovaSeq 6000 paired end sequencing of SAMD00222565,,,,14351831800.0,71759159.0,DRR224534,0:100 1:100,A:3552114377;C:3639389412;G:3719404253;T:3440817088;N:106670,100,100,,,3552114377,3639389412,3719404253,3440817088,106670,DRX214819,DRS236342,DRA010086,TOHOKUGL|Laboratory of organ morphogenesis,"Graduate School of Life Sciences, Tohoku University",2,0.96606,0.96569,0.04249,0.04107,0.7514,0.75367,0.49762,0.49753,100,100,B,B,biological fallback assumption,illumina,novaseq_era,unknown,poly_a,trueseq,bulk,unknown,unknown,,Japan,2022-04-21,Pharyngula,Embryo,Fin,Surface Structure
309,DRR224533,DRX214818,DRS236341,DRP008458,PRJDB9741,RNA seq for developing pectoral fin in zebrafish,DRP008458,Other,From the developmental view of fin to limb transition  an important event in vertebrate evolution  we seek fish specific genes that show characteristic expression pattern in the developing fin.,,,,pectoral fin bud from gM1116A zebrafish at 32hpf C,SAMD00222564,,sample name:32hpf C,,,,,,,,,Illumina NovaSeq 6000 paired end sequencing of SAMD00222564,DRX214818,32hpf C,1,Illumina TruSeq Stranded mRNA Library Prep Kit,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina NovaSeq 6000,<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>200</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>101</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR>,DRP008458,Illumina NovaSeq 6000 paired end sequencing of SAMD00222564,,,,18499667800.0,92498339.0,DRR224533,0:100 1:100,A:4655671152;C:4605325822;G:4688156846;T:4550378341;N:135639,100,100,,,4655671152,4605325822,4688156846,4550378341,135639,DRX214818,DRS236341,DRA010086,TOHOKUGL|Laboratory of organ morphogenesis,"Graduate School of Life Sciences, Tohoku University",2,0.9673,0.96864,0.04184,0.04008,0.73087,0.73318,0.48331,0.48043,100,100,B,B,biological fallback assumption,illumina,novaseq_era,unknown,poly_a,trueseq,bulk,unknown,unknown,,Japan,2022-04-21,Pharyngula,Embryo,Fin,Surface Structure
310,DRR224532,DRX214817,DRS236340,DRP008458,PRJDB9741,RNA seq for developing pectoral fin in zebrafish,DRP008458,Other,From the developmental view of fin to limb transition  an important event in vertebrate evolution  we seek fish specific genes that show characteristic expression pattern in the developing fin.,,,,pectoral fin bud from gM1116A zebrafish at 32hpf B,SAMD00222563,,sample name:32hpf B,,,,,,,,,Illumina NovaSeq 6000 paired end sequencing of SAMD00222563,DRX214817,32hpf B,1,Illumina TruSeq Stranded mRNA Library Prep Kit,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina NovaSeq 6000,<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>200</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>101</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR>,DRP008458,Illumina NovaSeq 6000 paired end sequencing of SAMD00222563,,,,19952418000.0,99762090.0,DRR224532,0:100 1:100,A:4972665902;C:5012518349;G:5094132814;T:4872951533;N:149402,100,100,,,4972665902,5012518349,5094132814,4872951533,149402,DRX214817,DRS236340,DRA010086,TOHOKUGL|Laboratory of organ morphogenesis,"Graduate School of Life Sciences, Tohoku University",2,0.97325,0.97252,0.03729,0.03575,0.71591,0.7163,0.47191,0.47859,100,100,B,B,biological fallback assumption,illumina,novaseq_era,unknown,poly_a,trueseq,bulk,unknown,unknown,,Japan,2022-04-21,Pharyngula,Embryo,Fin,Surface Structure
311,DRR224531,DRX214816,DRS236339,DRP008458,PRJDB9741,RNA seq for developing pectoral fin in zebrafish,DRP008458,Other,From the developmental view of fin to limb transition  an important event in vertebrate evolution  we seek fish specific genes that show characteristic expression pattern in the developing fin.,,,,pectoral fin bud from gM1116A zebrafish at 32hpf A,SAMD00222562,,sample name:32hpf A,,,,,,,,,Illumina NovaSeq 6000 paired end sequencing of SAMD00222562,DRX214816,32hpf A,1,Illumina TruSeq Stranded mRNA Library Prep Kit,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina NovaSeq 6000,<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>200</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>101</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR>,DRP008458,Illumina NovaSeq 6000 paired end sequencing of SAMD00222562,,,,16357024800.0,81785124.0,DRR224531,0:100 1:100,A:4049805675;C:4130985751;G:4172952730;T:4003159212;N:121432,100,100,,,4049805675,4130985751,4172952730,4003159212,121432,DRX214816,DRS236339,DRA010086,TOHOKUGL|Laboratory of organ morphogenesis,"Graduate School of Life Sciences, Tohoku University",2,0.97046,0.96886,0.03577,0.03489,0.73257,0.73231,0.4825,0.48849,100,100,B,B,biological fallback assumption,illumina,novaseq_era,unknown,poly_a,trueseq,bulk,unknown,unknown,,Japan,2022-04-21,Pharyngula,Embryo,Fin,Surface Structure
7898,ERR3446778,ERX3468777,ERS1806709,ERP023267,PRJEB21045,RNASeq of zebrafish metabolic mutants,RNASeq_of_zebrafish_metabolic_mutants-sc-4765,Transcriptome Analysis,RNAseq data was generated from one or more alleles of zebrafish metabolic mutants for transcriptome analysis.,ENA FIRST PUBLIC:2019 07 22|ENA LAST UPDATE:2017 05 25|ArrayExpress:E ERAD 683,,,zmp ph279 A7,SAMEA104147691,Wellcome Sanger Institute,ArrayExpress DEVELOPMENTAL STAGE:Larval:Protruding mouth   ZFS:0000035|ArrayExpress ORGANISM PART:Whole organism|ArrayExpress SPECIES:Danio rerio|ArrayExpress STRAIN OR LINE:mixed|ENA first public:2019 06 29|ENA last update:2017 06 29|External Id:SAMEA104147691|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2019 06 29T04:02:25Z|INSDC last update:2017 06 29T14:54:32Z|INSDC status:public|Submitter Id:3a44a000 41ed 11e7 b6fe 3c4a9275d6c8|common name:zebrafish|sample name:3a44a000 41ed 11e7 b6fe 3c4a9275d6c8|subject id:4765STDY6934993,,,,,,,,,Illumina HiSeq 2500 paired end sequencing,SC EXP 22829 8#48,DN488439N:H6,Illumina sequencing of library DN488439N:H6  constructed from sample accession ERS1806709 for study accession ERP023267.  This is part of an Illumina multiplexed sequencing run 22829 8.  This submission includes reads tagged with the sequence TTCAGCTC.,RNA seq dUTP eukaryotic,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,ERP023267,Illumina HiSeq 2500 paired end sequencing,ENA FIRST PUBLIC:2019 07 22|ENA LAST UPDATE:2019 07 22,22829_8#48.cram,cram,308695200.0,2057968.0,SC RUN 22829 8#48,0:75 1:75,A:81122866;C:71193244;G:71997258;T:83822324;N:559508,75,75,,,81122866,71193244,71997258,83822324,559508,ERX3468777,ERS1806709,ERA2044656,European Nucleotide Archive,Wellcome Sanger Institute,2,0.89599,0.93164,0.14865,0.15283,0.69217,0.69759,0.50417,0.50646,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,United Kingdom,2017-05-25,Larval,Larval,Whole Organism,All anatomical structures
7899,ERR3446777,ERX3468776,ERS1806708,ERP023267,PRJEB21045,RNASeq of zebrafish metabolic mutants,RNASeq_of_zebrafish_metabolic_mutants-sc-4765,Transcriptome Analysis,RNAseq data was generated from one or more alleles of zebrafish metabolic mutants for transcriptome analysis.,ENA FIRST PUBLIC:2019 07 22|ENA LAST UPDATE:2017 05 25|ArrayExpress:E ERAD 683,,,zmp ph279 A10,SAMEA104147690,Wellcome Sanger Institute,ArrayExpress DEVELOPMENTAL STAGE:Larval:Protruding mouth   ZFS:0000035|ArrayExpress ORGANISM PART:Whole organism|ArrayExpress SPECIES:Danio rerio|ArrayExpress STRAIN OR LINE:mixed|ENA first public:2019 06 29|ENA last update:2017 06 29|External Id:SAMEA104147690|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2019 06 29T04:02:25Z|INSDC last update:2017 06 29T14:54:32Z|INSDC status:public|Submitter Id:3a397c70 41ed 11e7 b6fe 3c4a9275d6c8|common name:zebrafish|sample name:3a397c70 41ed 11e7 b6fe 3c4a9275d6c8|subject id:4765STDY6934992,,,,,,,,,Illumina HiSeq 2500 paired end sequencing,SC EXP 22829 8#47,DN488439N:G6,Illumina sequencing of library DN488439N:G6  constructed from sample accession ERS1806708 for study accession ERP023267.  This is part of an Illumina multiplexed sequencing run 22829 8.  This submission includes reads tagged with the sequence TACTAGTC.,RNA seq dUTP eukaryotic,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,ERP023267,Illumina HiSeq 2500 paired end sequencing,ENA FIRST PUBLIC:2019 07 22|ENA LAST UPDATE:2019 07 22,22829_8#47.cram,cram,995580450.0,6637203.0,SC RUN 22829 8#47,0:75 1:75,A:262413326;C:232761029;G:232382381;T:266176133;N:1847581,75,75,,,262413326,232761029,232382381,266176133,1847581,ERX3468776,ERS1806708,ERA2044656,European Nucleotide Archive,Wellcome Sanger Institute,2,0.95746,0.96146,0.13411,0.13002,0.69954,0.70128,0.51593,0.51584,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,United Kingdom,2017-05-25,Larval,Larval,Whole Organism,All anatomical structures
7900,ERR3446776,ERX3468775,ERS1806707,ERP023267,PRJEB21045,RNASeq of zebrafish metabolic mutants,RNASeq_of_zebrafish_metabolic_mutants-sc-4765,Transcriptome Analysis,RNAseq data was generated from one or more alleles of zebrafish metabolic mutants for transcriptome analysis.,ENA FIRST PUBLIC:2019 07 22|ENA LAST UPDATE:2017 05 25|ArrayExpress:E ERAD 683,,,zmp ph279 A5,SAMEA104147689,Wellcome Sanger Institute,ArrayExpress DEVELOPMENTAL STAGE:Larval:Protruding mouth   ZFS:0000035|ArrayExpress ORGANISM PART:Whole organism|ArrayExpress SPECIES:Danio rerio|ArrayExpress STRAIN OR LINE:mixed|ENA first public:2019 06 29|ENA last update:2017 06 29|External Id:SAMEA104147689|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2019 06 29T04:02:25Z|INSDC last update:2017 06 29T14:54:32Z|INSDC status:public|Submitter Id:3a2b4ba0 41ed 11e7 b6fe 3c4a9275d6c8|common name:zebrafish|sample name:3a2b4ba0 41ed 11e7 b6fe 3c4a9275d6c8|subject id:4765STDY6934991,,,,,,,,,Illumina HiSeq 2500 paired end sequencing,SC EXP 22829 8#46,DN488439N:F6,Illumina sequencing of library DN488439N:F6  constructed from sample accession ERS1806707 for study accession ERP023267.  This is part of an Illumina multiplexed sequencing run 22829 8.  This submission includes reads tagged with the sequence TCAGATTC.,RNA seq dUTP eukaryotic,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,ERP023267,Illumina HiSeq 2500 paired end sequencing,ENA FIRST PUBLIC:2019 07 22|ENA LAST UPDATE:2019 07 22,22829_8#46.cram,cram,802088550.0,5347257.0,SC RUN 22829 8#46,0:75 1:75,A:215471665;C:183766661;G:183444943;T:217939641;N:1465640,75,75,,,215471665,183766661,183444943,217939641,1465640,ERX3468775,ERS1806707,ERA2044656,European Nucleotide Archive,Wellcome Sanger Institute,2,0.95288,0.95668,0.16762,0.16588,0.68785,0.6896,0.51555,0.51471,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,United Kingdom,2017-05-25,Larval,Larval,Whole Organism,All anatomical structures
7901,ERR3446775,ERX3468774,ERS1806706,ERP023267,PRJEB21045,RNASeq of zebrafish metabolic mutants,RNASeq_of_zebrafish_metabolic_mutants-sc-4765,Transcriptome Analysis,RNAseq data was generated from one or more alleles of zebrafish metabolic mutants for transcriptome analysis.,ENA FIRST PUBLIC:2019 07 22|ENA LAST UPDATE:2017 05 25|ArrayExpress:E ERAD 683,,,zmp ph279 E7,SAMEA104147688,Wellcome Sanger Institute,ArrayExpress DEVELOPMENTAL STAGE:Larval:Protruding mouth   ZFS:0000035|ArrayExpress ORGANISM PART:Whole organism|ArrayExpress SPECIES:Danio rerio|ArrayExpress STRAIN OR LINE:mixed|ENA first public:2019 06 29|ENA last update:2017 06 29|External Id:SAMEA104147688|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2019 06 29T04:02:25Z|INSDC last update:2017 06 29T14:54:32Z|INSDC status:public|Submitter Id:3a207630 41ed 11e7 b6fe 3c4a9275d6c8|common name:zebrafish|sample name:3a207630 41ed 11e7 b6fe 3c4a9275d6c8|subject id:4765STDY6934990,,,,,,,,,Illumina HiSeq 2500 paired end sequencing,SC EXP 22829 8#45,DN488439N:E6,Illumina sequencing of library DN488439N:E6  constructed from sample accession ERS1806706 for study accession ERP023267.  This is part of an Illumina multiplexed sequencing run 22829 8.  This submission includes reads tagged with the sequence TATGCCAG.,RNA seq dUTP eukaryotic,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,ERP023267,Illumina HiSeq 2500 paired end sequencing,ENA FIRST PUBLIC:2019 07 22|ENA LAST UPDATE:2019 07 22,22829_8#45.cram,cram,895634850.0,5970899.0,SC RUN 22829 8#45,0:75 1:75,A:237133265;C:208424547;G:207465996;T:240955635;N:1655407,75,75,,,237133265,208424547,207465996,240955635,1655407,ERX3468774,ERS1806706,ERA2044656,European Nucleotide Archive,Wellcome Sanger Institute,2,0.95242,0.95616,0.148,0.14527,0.68166,0.68489,0.49334,0.49766,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,United Kingdom,2017-05-25,Larval,Larval,Whole Organism,All anatomical structures
7902,ERR3446774,ERX3468773,ERS1806705,ERP023267,PRJEB21045,RNASeq of zebrafish metabolic mutants,RNASeq_of_zebrafish_metabolic_mutants-sc-4765,Transcriptome Analysis,RNAseq data was generated from one or more alleles of zebrafish metabolic mutants for transcriptome analysis.,ENA FIRST PUBLIC:2019 07 22|ENA LAST UPDATE:2017 05 25|ArrayExpress:E ERAD 683,,,zmp ph279 D5,SAMEA104147687,Wellcome Sanger Institute,ArrayExpress DEVELOPMENTAL STAGE:Larval:Protruding mouth   ZFS:0000035|ArrayExpress ORGANISM PART:Whole organism|ArrayExpress SPECIES:Danio rerio|ArrayExpress STRAIN OR LINE:mixed|ENA first public:2019 06 29|ENA last update:2017 06 29|External Id:SAMEA104147687|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2019 06 29T04:02:25Z|INSDC last update:2017 06 29T14:54:32Z|INSDC status:public|Submitter Id:3a15a0c0 41ed 11e7 b6fe 3c4a9275d6c8|common name:zebrafish|sample name:3a15a0c0 41ed 11e7 b6fe 3c4a9275d6c8|subject id:4765STDY6934989,,,,,,,,,Illumina HiSeq 2500 paired end sequencing,SC EXP 22829 8#44,DN488439N:D6,Illumina sequencing of library DN488439N:D6  constructed from sample accession ERS1806705 for study accession ERP023267.  This is part of an Illumina multiplexed sequencing run 22829 8.  This submission includes reads tagged with the sequence TGGCTCAG.,RNA seq dUTP eukaryotic,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,ERP023267,Illumina HiSeq 2500 paired end sequencing,ENA FIRST PUBLIC:2019 07 22|ENA LAST UPDATE:2019 07 22,22829_8#44.cram,cram,897162300.0,5981082.0,SC RUN 22829 8#44,0:75 1:75,A:236623845;C:209590114;G:209138794;T:240168869;N:1640678,75,75,,,236623845,209590114,209138794,240168869,1640678,ERX3468773,ERS1806705,ERA2044656,European Nucleotide Archive,Wellcome Sanger Institute,2,0.95642,0.95978,0.15673,0.15393,0.68941,0.69298,0.50945,0.51331,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,United Kingdom,2017-05-25,Larval,Larval,Whole Organism,All anatomical structures
7903,ERR3446773,ERX3468772,ERS1806704,ERP023267,PRJEB21045,RNASeq of zebrafish metabolic mutants,RNASeq_of_zebrafish_metabolic_mutants-sc-4765,Transcriptome Analysis,RNAseq data was generated from one or more alleles of zebrafish metabolic mutants for transcriptome analysis.,ENA FIRST PUBLIC:2019 07 22|ENA LAST UPDATE:2017 05 25|ArrayExpress:E ERAD 683,,,zmp ph279 B9,SAMEA104147686,Wellcome Sanger Institute,ArrayExpress DEVELOPMENTAL STAGE:Larval:Protruding mouth   ZFS:0000035|ArrayExpress ORGANISM PART:Whole organism|ArrayExpress SPECIES:Danio rerio|ArrayExpress STRAIN OR LINE:mixed|ENA first public:2019 06 29|ENA last update:2017 06 29|External Id:SAMEA104147686|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2019 06 29T04:02:25Z|INSDC last update:2017 06 29T14:54:32Z|INSDC status:public|Submitter Id:3a0acb50 41ed 11e7 b6fe 3c4a9275d6c8|common name:zebrafish|sample name:3a0acb50 41ed 11e7 b6fe 3c4a9275d6c8|subject id:4765STDY6934988,,,,,,,,,Illumina HiSeq 2500 paired end sequencing,SC EXP 22829 8#43,DN488439N:C6,Illumina sequencing of library DN488439N:C6  constructed from sample accession ERS1806704 for study accession ERP023267.  This is part of an Illumina multiplexed sequencing run 22829 8.  This submission includes reads tagged with the sequence TCATTGAG.,RNA seq dUTP eukaryotic,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,ERP023267,Illumina HiSeq 2500 paired end sequencing,ENA FIRST PUBLIC:2019 07 22|ENA LAST UPDATE:2019 07 22,22829_8#43.cram,cram,1041347100.0,6942314.0,SC RUN 22829 8#43,0:75 1:75,A:275192375;C:242588569;G:242047235;T:279597410;N:1921511,75,75,,,275192375,242588569,242047235,279597410,1921511,ERX3468772,ERS1806704,ERA2044656,European Nucleotide Archive,Wellcome Sanger Institute,2,0.95538,0.95935,0.12658,0.12175,0.68527,0.68594,0.49686,0.49869,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,United Kingdom,2017-05-25,Larval,Larval,Whole Organism,All anatomical structures
7904,ERR3446772,ERX3468771,ERS1806703,ERP023267,PRJEB21045,RNASeq of zebrafish metabolic mutants,RNASeq_of_zebrafish_metabolic_mutants-sc-4765,Transcriptome Analysis,RNAseq data was generated from one or more alleles of zebrafish metabolic mutants for transcriptome analysis.,ENA FIRST PUBLIC:2019 07 22|ENA LAST UPDATE:2017 05 25|ArrayExpress:E ERAD 683,,,zmp ph279 A9,SAMEA104147685,Wellcome Sanger Institute,ArrayExpress DEVELOPMENTAL STAGE:Larval:Protruding mouth   ZFS:0000035|ArrayExpress ORGANISM PART:Whole organism|ArrayExpress SPECIES:Danio rerio|ArrayExpress STRAIN OR LINE:mixed|ENA first public:2019 06 29|ENA last update:2017 06 29|External Id:SAMEA104147685|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2019 06 29T04:02:25Z|INSDC last update:2017 06 29T14:54:32Z|INSDC status:public|Submitter Id:39fff5e0 41ed 11e7 b6fe 3c4a9275d6c8|common name:zebrafish|sample name:39fff5e0 41ed 11e7 b6fe 3c4a9275d6c8|subject id:4765STDY6934987,,,,,,,,,Illumina HiSeq 2500 paired end sequencing,SC EXP 22829 8#42,DN488439N:B6,Illumina sequencing of library DN488439N:B6  constructed from sample accession ERS1806703 for study accession ERP023267.  This is part of an Illumina multiplexed sequencing run 22829 8.  This submission includes reads tagged with the sequence TGTATGCG.,RNA seq dUTP eukaryotic,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,ERP023267,Illumina HiSeq 2500 paired end sequencing,ENA FIRST PUBLIC:2019 07 22|ENA LAST UPDATE:2019 07 22,22829_8#42.cram,cram,1003046550.0,6686977.0,SC RUN 22829 8#42,0:75 1:75,A:264604462;C:234287668;G:233610516;T:268704610;N:1839294,75,75,,,264604462,234287668,233610516,268704610,1839294,ERX3468771,ERS1806703,ERA2044656,European Nucleotide Archive,Wellcome Sanger Institute,2,0.9545,0.95817,0.14837,0.14477,0.69075,0.69477,0.5059,0.50954,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,United Kingdom,2017-05-25,Larval,Larval,Whole Organism,All anatomical structures
7905,ERR3446771,ERX3468770,ERS1806702,ERP023267,PRJEB21045,RNASeq of zebrafish metabolic mutants,RNASeq_of_zebrafish_metabolic_mutants-sc-4765,Transcriptome Analysis,RNAseq data was generated from one or more alleles of zebrafish metabolic mutants for transcriptome analysis.,ENA FIRST PUBLIC:2019 07 22|ENA LAST UPDATE:2017 05 25|ArrayExpress:E ERAD 683,,,zmp ph279 D1,SAMEA104147684,Wellcome Sanger Institute,ArrayExpress DEVELOPMENTAL STAGE:Larval:Protruding mouth   ZFS:0000035|ArrayExpress ORGANISM PART:Whole organism|ArrayExpress SPECIES:Danio rerio|ArrayExpress STRAIN OR LINE:mixed|ENA first public:2019 06 29|ENA last update:2017 06 29|External Id:SAMEA104147684|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2019 06 29T04:02:25Z|INSDC last update:2017 06 29T14:54:32Z|INSDC status:public|Submitter Id:39f52070 41ed 11e7 b6fe 3c4a9275d6c8|common name:zebrafish|sample name:39f52070 41ed 11e7 b6fe 3c4a9275d6c8|subject id:4765STDY6934986,,,,,,,,,Illumina HiSeq 2500 paired end sequencing,SC EXP 22829 8#41,DN488439N:A6,Illumina sequencing of library DN488439N:A6  constructed from sample accession ERS1806702 for study accession ERP023267.  This is part of an Illumina multiplexed sequencing run 22829 8.  This submission includes reads tagged with the sequence TCCAGTCG.,RNA seq dUTP eukaryotic,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,ERP023267,Illumina HiSeq 2500 paired end sequencing,ENA FIRST PUBLIC:2019 07 22|ENA LAST UPDATE:2019 07 22,22829_8#41.cram,cram,941981400.0,6279876.0,SC RUN 22829 8#41,0:75 1:75,A:246347736;C:221993645;G:222033599;T:249879875;N:1726545,75,75,,,246347736,221993645,222033599,249879875,1726545,ERX3468770,ERS1806702,ERA2044656,European Nucleotide Archive,Wellcome Sanger Institute,2,0.95497,0.95862,0.14626,0.14366,0.68069,0.68219,0.51091,0.5108,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,United Kingdom,2017-05-25,Larval,Larval,Whole Organism,All anatomical structures
7906,ERR3446770,ERX3468769,ERS1806701,ERP023267,PRJEB21045,RNASeq of zebrafish metabolic mutants,RNASeq_of_zebrafish_metabolic_mutants-sc-4765,Transcriptome Analysis,RNAseq data was generated from one or more alleles of zebrafish metabolic mutants for transcriptome analysis.,ENA FIRST PUBLIC:2019 07 22|ENA LAST UPDATE:2017 05 25|ArrayExpress:E ERAD 683,,,zmp ph279 F3,SAMEA104147683,Wellcome Sanger Institute,ArrayExpress DEVELOPMENTAL STAGE:Larval:Protruding mouth   ZFS:0000035|ArrayExpress ORGANISM PART:Whole organism|ArrayExpress SPECIES:Danio rerio|ArrayExpress STRAIN OR LINE:mixed|ENA first public:2019 06 29|ENA last update:2017 06 29|External Id:SAMEA104147683|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2019 06 29T04:02:25Z|INSDC last update:2017 06 29T14:54:31Z|INSDC status:public|Submitter Id:39ea4b00 41ed 11e7 b6fe 3c4a9275d6c8|common name:zebrafish|sample name:39ea4b00 41ed 11e7 b6fe 3c4a9275d6c8|subject id:4765STDY6934985,,,,,,,,,Illumina HiSeq 2500 paired end sequencing,SC EXP 22829 8#40,DN488439N:H5,Illumina sequencing of library DN488439N:H5  constructed from sample accession ERS1806701 for study accession ERP023267.  This is part of an Illumina multiplexed sequencing run 22829 8.  This submission includes reads tagged with the sequence TAAGTTCG.,RNA seq dUTP eukaryotic,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,ERP023267,Illumina HiSeq 2500 paired end sequencing,ENA FIRST PUBLIC:2019 07 22|ENA LAST UPDATE:2019 07 22,22829_8#40.cram,cram,943793700.0,6291958.0,SC RUN 22829 8#40,0:75 1:75,A:248418195;C:220858029;G:220899307;T:251893736;N:1724433,75,75,,,248418195,220858029,220899307,251893736,1724433,ERX3468769,ERS1806701,ERA2044656,European Nucleotide Archive,Wellcome Sanger Institute,2,0.95501,0.95869,0.15165,0.15013,0.6858,0.68968,0.51097,0.51107,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,United Kingdom,2017-05-25,Larval,Larval,Whole Organism,All anatomical structures
7907,ERR3446769,ERX3468768,ERS1806700,ERP023267,PRJEB21045,RNASeq of zebrafish metabolic mutants,RNASeq_of_zebrafish_metabolic_mutants-sc-4765,Transcriptome Analysis,RNAseq data was generated from one or more alleles of zebrafish metabolic mutants for transcriptome analysis.,ENA FIRST PUBLIC:2019 07 22|ENA LAST UPDATE:2017 05 25|ArrayExpress:E ERAD 683,,,zmp ph279 A12,SAMEA104147682,Wellcome Sanger Institute,ArrayExpress DEVELOPMENTAL STAGE:Larval:Protruding mouth   ZFS:0000035|ArrayExpress ORGANISM PART:Whole organism|ArrayExpress SPECIES:Danio rerio|ArrayExpress STRAIN OR LINE:mixed|ENA first public:2019 06 29|ENA last update:2017 06 29|External Id:SAMEA104147682|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2019 06 29T04:02:25Z|INSDC last update:2017 06 29T14:54:31Z|INSDC status:public|Submitter Id:39df7590 41ed 11e7 b6fe 3c4a9275d6c8|common name:zebrafish|sample name:39df7590 41ed 11e7 b6fe 3c4a9275d6c8|subject id:4765STDY6934984,,,,,,,,,Illumina HiSeq 2500 paired end sequencing,SC EXP 22829 8#39,DN488439N:G5,Illumina sequencing of library DN488439N:G5  constructed from sample accession ERS1806700 for study accession ERP023267.  This is part of an Illumina multiplexed sequencing run 22829 8.  This submission includes reads tagged with the sequence TCAGGAGG.,RNA seq dUTP eukaryotic,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,ERP023267,Illumina HiSeq 2500 paired end sequencing,ENA FIRST PUBLIC:2019 07 22|ENA LAST UPDATE:2019 07 22,22829_8#39.cram,cram,1013740350.0,6758269.0,SC RUN 22829 8#39,0:75 1:75,A:272175825;C:231609775;G:230992859;T:277093551;N:1868340,75,75,,,272175825,231609775,230992859,277093551,1868340,ERX3468768,ERS1806700,ERA2044656,European Nucleotide Archive,Wellcome Sanger Institute,2,0.95017,0.95405,0.17783,0.17326,0.69374,0.69792,0.52105,0.52106,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,United Kingdom,2017-05-25,Larval,Larval,Whole Organism,All anatomical structures
7908,ERR3446768,ERX3468767,ERS1806699,ERP023267,PRJEB21045,RNASeq of zebrafish metabolic mutants,RNASeq_of_zebrafish_metabolic_mutants-sc-4765,Transcriptome Analysis,RNAseq data was generated from one or more alleles of zebrafish metabolic mutants for transcriptome analysis.,ENA FIRST PUBLIC:2019 07 22|ENA LAST UPDATE:2017 05 25|ArrayExpress:E ERAD 683,,,zmp ph279 A8,SAMEA104147681,Wellcome Sanger Institute,ArrayExpress DEVELOPMENTAL STAGE:Larval:Protruding mouth   ZFS:0000035|ArrayExpress ORGANISM PART:Whole organism|ArrayExpress SPECIES:Danio rerio|ArrayExpress STRAIN OR LINE:mixed|ENA first public:2019 06 29|ENA last update:2017 06 29|External Id:SAMEA104147681|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2019 06 29T04:02:25Z|INSDC last update:2017 06 29T14:54:31Z|INSDC status:public|Submitter Id:39d4a020 41ed 11e7 b6fe 3c4a9275d6c8|common name:zebrafish|sample name:39d4a020 41ed 11e7 b6fe 3c4a9275d6c8|subject id:4765STDY6934983,,,,,,,,,Illumina HiSeq 2500 paired end sequencing,SC EXP 22829 8#38,DN488439N:F5,Illumina sequencing of library DN488439N:F5  constructed from sample accession ERS1806699 for study accession ERP023267.  This is part of an Illumina multiplexed sequencing run 22829 8.  This submission includes reads tagged with the sequence TCTCACGG.,RNA seq dUTP eukaryotic,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,ERP023267,Illumina HiSeq 2500 paired end sequencing,ENA FIRST PUBLIC:2019 07 22|ENA LAST UPDATE:2019 07 22,22829_8#38.cram,cram,795064350.0,5300429.0,SC RUN 22829 8#38,0:75 1:75,A:213296717;C:181969652;G:181448689;T:216888172;N:1461120,75,75,,,213296717,181969652,181448689,216888172,1461120,ERX3468767,ERS1806699,ERA2044656,European Nucleotide Archive,Wellcome Sanger Institute,2,0.95132,0.955,0.15976,0.15558,0.68483,0.68828,0.50493,0.50817,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,United Kingdom,2017-05-25,Larval,Larval,Whole Organism,All anatomical structures
7909,ERR3446767,ERX3468766,ERS1806698,ERP023267,PRJEB21045,RNASeq of zebrafish metabolic mutants,RNASeq_of_zebrafish_metabolic_mutants-sc-4765,Transcriptome Analysis,RNAseq data was generated from one or more alleles of zebrafish metabolic mutants for transcriptome analysis.,ENA FIRST PUBLIC:2019 07 22|ENA LAST UPDATE:2017 05 25|ArrayExpress:E ERAD 683,,,zmp ph279 D8,SAMEA104147680,Wellcome Sanger Institute,ArrayExpress DEVELOPMENTAL STAGE:Larval:Protruding mouth   ZFS:0000035|ArrayExpress ORGANISM PART:Whole organism|ArrayExpress SPECIES:Danio rerio|ArrayExpress STRAIN OR LINE:mixed|ENA first public:2019 06 29|ENA last update:2017 06 29|External Id:SAMEA104147680|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2019 06 29T04:02:25Z|INSDC last update:2017 06 29T14:54:31Z|INSDC status:public|Submitter Id:39c9cab0 41ed 11e7 b6fe 3c4a9275d6c8|common name:zebrafish|sample name:39c9cab0 41ed 11e7 b6fe 3c4a9275d6c8|subject id:4765STDY6934982,,,,,,,,,Illumina HiSeq 2500 paired end sequencing,SC EXP 22829 8#37,DN488439N:E5,Illumina sequencing of library DN488439N:E5  constructed from sample accession ERS1806698 for study accession ERP023267.  This is part of an Illumina multiplexed sequencing run 22829 8.  This submission includes reads tagged with the sequence TACTTCGG.,RNA seq dUTP eukaryotic,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,ERP023267,Illumina HiSeq 2500 paired end sequencing,ENA FIRST PUBLIC:2019 07 22|ENA LAST UPDATE:2019 07 22,22829_8#37.cram,cram,977579400.0,6517196.0,SC RUN 22829 8#37,0:75 1:75,A:259910020;C:226288538;G:225374569;T:264216059;N:1790214,75,75,,,259910020,226288538,225374569,264216059,1790214,ERX3468766,ERS1806698,ERA2044656,European Nucleotide Archive,Wellcome Sanger Institute,2,0.95353,0.95725,0.15221,0.14901,0.68442,0.6873,0.48878,0.49948,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,United Kingdom,2017-05-25,Larval,Larval,Whole Organism,All anatomical structures
7910,ERR3446766,ERX3468765,ERS1806697,ERP023267,PRJEB21045,RNASeq of zebrafish metabolic mutants,RNASeq_of_zebrafish_metabolic_mutants-sc-4765,Transcriptome Analysis,RNAseq data was generated from one or more alleles of zebrafish metabolic mutants for transcriptome analysis.,ENA FIRST PUBLIC:2019 07 22|ENA LAST UPDATE:2017 05 25|ArrayExpress:E ERAD 683,,,zmp ph279 D9,SAMEA104147679,Wellcome Sanger Institute,ArrayExpress DEVELOPMENTAL STAGE:Larval:Protruding mouth   ZFS:0000035|ArrayExpress ORGANISM PART:Whole organism|ArrayExpress SPECIES:Danio rerio|ArrayExpress STRAIN OR LINE:mixed|ENA first public:2019 06 29|ENA last update:2017 06 29|External Id:SAMEA104147679|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2019 06 29T04:02:25Z|INSDC last update:2017 06 29T14:54:31Z|INSDC status:public|Submitter Id:39bece30 41ed 11e7 b6fe 3c4a9275d6c8|common name:zebrafish|sample name:39bece30 41ed 11e7 b6fe 3c4a9275d6c8|subject id:4765STDY6934981,,,,,,,,,Illumina HiSeq 2500 paired end sequencing,SC EXP 22829 8#36,DN488439N:D5,Illumina sequencing of library DN488439N:D5  constructed from sample accession ERS1806697 for study accession ERP023267.  This is part of an Illumina multiplexed sequencing run 22829 8.  This submission includes reads tagged with the sequence TGAACTGG.,RNA seq dUTP eukaryotic,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,ERP023267,Illumina HiSeq 2500 paired end sequencing,ENA FIRST PUBLIC:2019 07 22|ENA LAST UPDATE:2019 07 22,22829_8#36.cram,cram,936668850.0,6244459.0,SC RUN 22829 8#36,0:75 1:75,A:249181628;C:216639604;G:216150821;T:252967247;N:1729550,75,75,,,249181628,216639604,216150821,252967247,1729550,ERX3468765,ERS1806697,ERA2044656,European Nucleotide Archive,Wellcome Sanger Institute,2,0.95513,0.95852,0.15768,0.15381,0.68438,0.68799,0.51177,0.50632,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,United Kingdom,2017-05-25,Larval,Larval,Whole Organism,All anatomical structures
7911,ERR3446765,ERX3468764,ERS1806696,ERP023267,PRJEB21045,RNASeq of zebrafish metabolic mutants,RNASeq_of_zebrafish_metabolic_mutants-sc-4765,Transcriptome Analysis,RNAseq data was generated from one or more alleles of zebrafish metabolic mutants for transcriptome analysis.,ENA FIRST PUBLIC:2019 07 22|ENA LAST UPDATE:2017 05 25|ArrayExpress:E ERAD 683,,,zmp ph279 C1,SAMEA104147678,Wellcome Sanger Institute,ArrayExpress DEVELOPMENTAL STAGE:Larval:Protruding mouth   ZFS:0000035|ArrayExpress ORGANISM PART:Whole organism|ArrayExpress SPECIES:Danio rerio|ArrayExpress STRAIN OR LINE:mixed|ENA first public:2019 06 29|ENA last update:2017 06 29|External Id:SAMEA104147678|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2019 06 29T04:02:25Z|INSDC last update:2017 06 29T14:54:31Z|INSDC status:public|Submitter Id:39b3f8c0 41ed 11e7 b6fe 3c4a9275d6c8|common name:zebrafish|sample name:39b3f8c0 41ed 11e7 b6fe 3c4a9275d6c8|subject id:4765STDY6934980,,,,,,,,,Illumina HiSeq 2500 paired end sequencing,SC EXP 22829 8#35,DN488439N:C5,Illumina sequencing of library DN488439N:C5  constructed from sample accession ERS1806696 for study accession ERP023267.  This is part of an Illumina multiplexed sequencing run 22829 8.  This submission includes reads tagged with the sequence TTGGTATG.,RNA seq dUTP eukaryotic,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,ERP023267,Illumina HiSeq 2500 paired end sequencing,ENA FIRST PUBLIC:2019 07 22|ENA LAST UPDATE:2019 07 22,22829_8#35.cram,cram,975853650.0,6505691.0,SC RUN 22829 8#35,0:75 1:75,A:258866840;C:226232975;G:225877015;T:263074733;N:1802087,75,75,,,258866840,226232975,225877015,263074733,1802087,ERX3468764,ERS1806696,ERA2044656,European Nucleotide Archive,Wellcome Sanger Institute,2,0.95586,0.9586,0.14753,0.14367,0.68964,0.69345,0.50825,0.50489,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,United Kingdom,2017-05-25,Larval,Larval,Whole Organism,All anatomical structures
7912,ERR3446764,ERX3468763,ERS1806694,ERP023267,PRJEB21045,RNASeq of zebrafish metabolic mutants,RNASeq_of_zebrafish_metabolic_mutants-sc-4765,Transcriptome Analysis,RNAseq data was generated from one or more alleles of zebrafish metabolic mutants for transcriptome analysis.,ENA FIRST PUBLIC:2019 07 22|ENA LAST UPDATE:2017 05 25|ArrayExpress:E ERAD 683,,,zmp ph279 E5,SAMEA104147676,Wellcome Sanger Institute,ArrayExpress DEVELOPMENTAL STAGE:Larval:Protruding mouth   ZFS:0000035|ArrayExpress ORGANISM PART:Whole organism|ArrayExpress SPECIES:Danio rerio|ArrayExpress STRAIN OR LINE:mixed|ENA first public:2019 06 29|ENA last update:2017 06 29|External Id:SAMEA104147676|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2019 06 29T04:02:25Z|INSDC last update:2017 06 29T14:54:30Z|INSDC status:public|Submitter Id:39a74e90 41ed 11e7 b6fe 3c4a9275d6c8|common name:zebrafish|sample name:39a74e90 41ed 11e7 b6fe 3c4a9275d6c8|subject id:4765STDY6934979,,,,,,,,,Illumina HiSeq 2500 paired end sequencing,SC EXP 22829 8#34,DN488439N:B5,Illumina sequencing of library DN488439N:B5  constructed from sample accession ERS1806694 for study accession ERP023267.  This is part of an Illumina multiplexed sequencing run 22829 8.  This submission includes reads tagged with the sequence TAACGCTG.,RNA seq dUTP eukaryotic,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,ERP023267,Illumina HiSeq 2500 paired end sequencing,ENA FIRST PUBLIC:2019 07 22|ENA LAST UPDATE:2019 07 22,22829_8#34.cram,cram,960618450.0,6404123.0,SC RUN 22829 8#34,0:75 1:75,A:252530928;C:225220073;G:224701067;T:256397819;N:1768563,75,75,,,252530928,225220073,224701067,256397819,1768563,ERX3468763,ERS1806694,ERA2044656,European Nucleotide Archive,Wellcome Sanger Institute,2,0.95621,0.95933,0.15326,0.15001,0.68278,0.68574,0.50498,0.50559,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,United Kingdom,2017-05-25,Larval,Larval,Whole Organism,All anatomical structures
7913,ERR3446763,ERX3468762,ERS1806693,ERP023267,PRJEB21045,RNASeq of zebrafish metabolic mutants,RNASeq_of_zebrafish_metabolic_mutants-sc-4765,Transcriptome Analysis,RNAseq data was generated from one or more alleles of zebrafish metabolic mutants for transcriptome analysis.,ENA FIRST PUBLIC:2019 07 22|ENA LAST UPDATE:2017 05 25|ArrayExpress:E ERAD 683,,,zmp ph279 D11,SAMEA104147675,Wellcome Sanger Institute,ArrayExpress DEVELOPMENTAL STAGE:Larval:Protruding mouth   ZFS:0000035|ArrayExpress ORGANISM PART:Whole organism|ArrayExpress SPECIES:Danio rerio|ArrayExpress STRAIN OR LINE:mixed|ENA first public:2019 06 29|ENA last update:2017 06 29|External Id:SAMEA104147675|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2019 06 29T04:02:25Z|INSDC last update:2017 06 29T14:54:30Z|INSDC status:public|Submitter Id:399c7920 41ed 11e7 b6fe 3c4a9275d6c8|common name:zebrafish|sample name:399c7920 41ed 11e7 b6fe 3c4a9275d6c8|subject id:4765STDY6934978,,,,,,,,,Illumina HiSeq 2500 paired end sequencing,SC EXP 22829 8#33,DN488439N:A5,Illumina sequencing of library DN488439N:A5  constructed from sample accession ERS1806693 for study accession ERP023267.  This is part of an Illumina multiplexed sequencing run 22829 8.  This submission includes reads tagged with the sequence TCGAAGTG.,RNA seq dUTP eukaryotic,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,ERP023267,Illumina HiSeq 2500 paired end sequencing,ENA FIRST PUBLIC:2019 07 22|ENA LAST UPDATE:2019 07 22,22829_8#33.cram,cram,1038077400.0,6920516.0,SC RUN 22829 8#33,0:75 1:75,A:270310565;C:245873612;G:245834117;T:274135301;N:1923805,75,75,,,270310565,245873612,245834117,274135301,1923805,ERX3468762,ERS1806693,ERA2044656,European Nucleotide Archive,Wellcome Sanger Institute,2,0.9563,0.96046,0.13363,0.13125,0.67858,0.68095,0.49926,0.4941,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,United Kingdom,2017-05-25,Larval,Larval,Whole Organism,All anatomical structures
7914,ERR3446762,ERX3468761,ERS1806695,ERP023267,PRJEB21045,RNASeq of zebrafish metabolic mutants,RNASeq_of_zebrafish_metabolic_mutants-sc-4765,Transcriptome Analysis,RNAseq data was generated from one or more alleles of zebrafish metabolic mutants for transcriptome analysis.,ENA FIRST PUBLIC:2019 07 22|ENA LAST UPDATE:2017 05 25|ArrayExpress:E ERAD 683,,,zmp ph279 A1,SAMEA104147677,Wellcome Sanger Institute,ArrayExpress DEVELOPMENTAL STAGE:Larval:Protruding mouth   ZFS:0000035|ArrayExpress ORGANISM PART:Whole organism|ArrayExpress SPECIES:Danio rerio|ArrayExpress STRAIN OR LINE:mixed|ENA first public:2019 06 29|ENA last update:2017 06 29|External Id:SAMEA104147677|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2019 06 29T04:02:25Z|INSDC last update:2017 06 29T14:54:30Z|INSDC status:public|Submitter Id:39901d10 41ed 11e7 b6fe 3c4a9275d6c8|common name:zebrafish|sample name:39901d10 41ed 11e7 b6fe 3c4a9275d6c8|subject id:4765STDY6934977,,,,,,,,,Illumina HiSeq 2500 paired end sequencing,SC EXP 22829 8#32,DN488439N:H4,Illumina sequencing of library DN488439N:H4  constructed from sample accession ERS1806695 for study accession ERP023267.  This is part of an Illumina multiplexed sequencing run 22829 8.  This submission includes reads tagged with the sequence TTCCATTG.,RNA seq dUTP eukaryotic,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,ERP023267,Illumina HiSeq 2500 paired end sequencing,ENA FIRST PUBLIC:2019 07 22|ENA LAST UPDATE:2019 07 22,22829_8#32.cram,cram,986612850.0,6577419.0,SC RUN 22829 8#32,0:75 1:75,A:259827485;C:230648413;G:231077889;T:263216608;N:1842455,75,75,,,259827485,230648413,231077889,263216608,1842455,ERX3468761,ERS1806695,ERA2044656,European Nucleotide Archive,Wellcome Sanger Institute,2,0.95392,0.95801,0.15749,0.15741,0.68633,0.68941,0.51453,0.5162,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,United Kingdom,2017-05-25,Larval,Larval,Whole Organism,All anatomical structures
7915,ERR3446761,ERX3468760,ERS1806691,ERP023267,PRJEB21045,RNASeq of zebrafish metabolic mutants,RNASeq_of_zebrafish_metabolic_mutants-sc-4765,Transcriptome Analysis,RNAseq data was generated from one or more alleles of zebrafish metabolic mutants for transcriptome analysis.,ENA FIRST PUBLIC:2019 07 22|ENA LAST UPDATE:2017 05 25|ArrayExpress:E ERAD 683,,,zmp ph279 B1,SAMEA104147673,Wellcome Sanger Institute,ArrayExpress DEVELOPMENTAL STAGE:Larval:Protruding mouth   ZFS:0000035|ArrayExpress ORGANISM PART:Whole organism|ArrayExpress SPECIES:Danio rerio|ArrayExpress STRAIN OR LINE:mixed|ENA first public:2019 06 29|ENA last update:2017 06 29|External Id:SAMEA104147673|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2019 06 29T04:02:25Z|INSDC last update:2017 06 29T14:54:30Z|INSDC status:public|Submitter Id:398547a0 41ed 11e7 b6fe 3c4a9275d6c8|common name:zebrafish|sample name:398547a0 41ed 11e7 b6fe 3c4a9275d6c8|subject id:4765STDY6934976,,,,,,,,,Illumina HiSeq 2500 paired end sequencing,SC EXP 22829 8#31,DN488439N:G4,Illumina sequencing of library DN488439N:G4  constructed from sample accession ERS1806691 for study accession ERP023267.  This is part of an Illumina multiplexed sequencing run 22829 8.  This submission includes reads tagged with the sequence TAGTCTTG.,RNA seq dUTP eukaryotic,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,ERP023267,Illumina HiSeq 2500 paired end sequencing,ENA FIRST PUBLIC:2019 07 22|ENA LAST UPDATE:2019 07 22,22829_8#31.cram,cram,1031442450.0,6876283.0,SC RUN 22829 8#31,0:75 1:75,A:274203878;C:238375461;G:238376358;T:278589476;N:1897277,75,75,,,274203878,238375461,238376358,278589476,1897277,ERX3468760,ERS1806691,ERA2044656,European Nucleotide Archive,Wellcome Sanger Institute,2,0.95118,0.95551,0.16324,0.16064,0.68615,0.68925,0.51221,0.50738,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,United Kingdom,2017-05-25,Larval,Larval,Whole Organism,All anatomical structures
7916,ERR3446760,ERX3468759,ERS1806692,ERP023267,PRJEB21045,RNASeq of zebrafish metabolic mutants,RNASeq_of_zebrafish_metabolic_mutants-sc-4765,Transcriptome Analysis,RNAseq data was generated from one or more alleles of zebrafish metabolic mutants for transcriptome analysis.,ENA FIRST PUBLIC:2019 07 22|ENA LAST UPDATE:2017 05 25|ArrayExpress:E ERAD 683,,,zmp ph279 B8,SAMEA104147674,Wellcome Sanger Institute,ArrayExpress DEVELOPMENTAL STAGE:Larval:Protruding mouth   ZFS:0000035|ArrayExpress ORGANISM PART:Whole organism|ArrayExpress SPECIES:Danio rerio|ArrayExpress STRAIN OR LINE:mixed|ENA first public:2019 06 29|ENA last update:2017 06 29|External Id:SAMEA104147674|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2019 06 29T04:02:25Z|INSDC last update:2017 06 29T14:54:30Z|INSDC status:public|Submitter Id:397a9940 41ed 11e7 b6fe 3c4a9275d6c8|common name:zebrafish|sample name:397a9940 41ed 11e7 b6fe 3c4a9275d6c8|subject id:4765STDY6934975,,,,,,,,,Illumina HiSeq 2500 paired end sequencing,SC EXP 22829 8#30,DN488439N:F4,Illumina sequencing of library DN488439N:F4  constructed from sample accession ERS1806692 for study accession ERP023267.  This is part of an Illumina multiplexed sequencing run 22829 8.  This submission includes reads tagged with the sequence TGTGGTTG.,RNA seq dUTP eukaryotic,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,ERP023267,Illumina HiSeq 2500 paired end sequencing,ENA FIRST PUBLIC:2019 07 22|ENA LAST UPDATE:2019 07 22,22829_8#30.cram,cram,841629750.0,5610865.0,SC RUN 22829 8#30,0:75 1:75,A:224237300;C:194199747;G:193893668;T:227725985;N:1573050,75,75,,,224237300,194199747,193893668,227725985,1573050,ERX3468759,ERS1806692,ERA2044656,European Nucleotide Archive,Wellcome Sanger Institute,2,0.95236,0.95666,0.15496,0.1528,0.68049,0.68406,0.50292,0.50201,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,United Kingdom,2017-05-25,Larval,Larval,Whole Organism,All anatomical structures
7917,ERR3446759,ERX3468758,ERS1806690,ERP023267,PRJEB21045,RNASeq of zebrafish metabolic mutants,RNASeq_of_zebrafish_metabolic_mutants-sc-4765,Transcriptome Analysis,RNAseq data was generated from one or more alleles of zebrafish metabolic mutants for transcriptome analysis.,ENA FIRST PUBLIC:2019 07 22|ENA LAST UPDATE:2017 05 25|ArrayExpress:E ERAD 683,,,zmp ph279 C3,SAMEA104147672,Wellcome Sanger Institute,ArrayExpress DEVELOPMENTAL STAGE:Larval:Protruding mouth   ZFS:0000035|ArrayExpress ORGANISM PART:Whole organism|ArrayExpress SPECIES:Danio rerio|ArrayExpress STRAIN OR LINE:mixed|ENA first public:2019 06 29|ENA last update:2017 06 29|External Id:SAMEA104147672|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2019 06 29T04:02:25Z|INSDC last update:2017 06 29T14:54:30Z|INSDC status:public|Submitter Id:396fc3d0 41ed 11e7 b6fe 3c4a9275d6c8|common name:zebrafish|sample name:396fc3d0 41ed 11e7 b6fe 3c4a9275d6c8|subject id:4765STDY6934974,,,,,,,,,Illumina HiSeq 2500 paired end sequencing,SC EXP 22829 8#29,DN488439N:E4,Illumina sequencing of library DN488439N:E4  constructed from sample accession ERS1806690 for study accession ERP023267.  This is part of an Illumina multiplexed sequencing run 22829 8.  This submission includes reads tagged with the sequence TCCTCAAT.,RNA seq dUTP eukaryotic,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,ERP023267,Illumina HiSeq 2500 paired end sequencing,ENA FIRST PUBLIC:2019 07 22|ENA LAST UPDATE:2019 07 22,22829_8#29.cram,cram,1003675800.0,6691172.0,SC RUN 22829 8#29,0:75 1:75,A:267034518;C:232079842;G:231287862;T:271430075;N:1843503,75,75,,,267034518,232079842,231287862,271430075,1843503,ERX3468758,ERS1806690,ERA2044656,European Nucleotide Archive,Wellcome Sanger Institute,2,0.95315,0.9573,0.15329,0.151,0.6869,0.68911,0.49176,0.49755,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,United Kingdom,2017-05-25,Larval,Larval,Whole Organism,All anatomical structures
7918,ERR3446758,ERX3468757,ERS1806689,ERP023267,PRJEB21045,RNASeq of zebrafish metabolic mutants,RNASeq_of_zebrafish_metabolic_mutants-sc-4765,Transcriptome Analysis,RNAseq data was generated from one or more alleles of zebrafish metabolic mutants for transcriptome analysis.,ENA FIRST PUBLIC:2019 07 22|ENA LAST UPDATE:2017 05 25|ArrayExpress:E ERAD 683,,,zmp ph279 A2,SAMEA104147671,Wellcome Sanger Institute,ArrayExpress DEVELOPMENTAL STAGE:Larval:Protruding mouth   ZFS:0000035|ArrayExpress ORGANISM PART:Whole organism|ArrayExpress SPECIES:Danio rerio|ArrayExpress STRAIN OR LINE:mixed|ENA first public:2019 06 29|ENA last update:2017 06 29|External Id:SAMEA104147671|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2019 06 29T04:02:25Z|INSDC last update:2017 06 29T14:54:30Z|INSDC status:public|Submitter Id:3962a470 41ed 11e7 b6fe 3c4a9275d6c8|common name:zebrafish|sample name:3962a470 41ed 11e7 b6fe 3c4a9275d6c8|subject id:4765STDY6934973,,,,,,,,,Illumina HiSeq 2500 paired end sequencing,SC EXP 22829 8#28,DN488439N:D4,Illumina sequencing of library DN488439N:D4  constructed from sample accession ERS1806689 for study accession ERP023267.  This is part of an Illumina multiplexed sequencing run 22829 8.  This submission includes reads tagged with the sequence TACAGGAT.,RNA seq dUTP eukaryotic,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,ERP023267,Illumina HiSeq 2500 paired end sequencing,ENA FIRST PUBLIC:2019 07 22|ENA LAST UPDATE:2019 07 22,22829_8#28.cram,cram,877026750.0,5846845.0,SC RUN 22829 8#28,0:75 1:75,A:234056953;C:201909571;G:201550258;T:237878368;N:1631600,75,75,,,234056953,201909571,201550258,237878368,1631600,ERX3468757,ERS1806689,ERA2044656,European Nucleotide Archive,Wellcome Sanger Institute,2,0.95174,0.95506,0.16448,0.1594,0.68696,0.68956,0.51105,0.51529,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,United Kingdom,2017-05-25,Larval,Larval,Whole Organism,All anatomical structures
7919,ERR3446757,ERX3468756,ERS1806688,ERP023267,PRJEB21045,RNASeq of zebrafish metabolic mutants,RNASeq_of_zebrafish_metabolic_mutants-sc-4765,Transcriptome Analysis,RNAseq data was generated from one or more alleles of zebrafish metabolic mutants for transcriptome analysis.,ENA FIRST PUBLIC:2019 07 22|ENA LAST UPDATE:2017 05 25|ArrayExpress:E ERAD 683,,,zmp ph279 B7,SAMEA104147670,Wellcome Sanger Institute,ArrayExpress DEVELOPMENTAL STAGE:Larval:Protruding mouth   ZFS:0000035|ArrayExpress ORGANISM PART:Whole organism|ArrayExpress SPECIES:Danio rerio|ArrayExpress STRAIN OR LINE:mixed|ENA first public:2019 06 29|ENA last update:2017 06 29|External Id:SAMEA104147670|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2019 06 29T04:02:25Z|INSDC last update:2017 06 29T14:54:30Z|INSDC status:public|Submitter Id:3957cf00 41ed 11e7 b6fe 3c4a9275d6c8|common name:zebrafish|sample name:3957cf00 41ed 11e7 b6fe 3c4a9275d6c8|subject id:4765STDY6934972,,,,,,,,,Illumina HiSeq 2500 paired end sequencing,SC EXP 22829 8#27,DN488439N:C4,Illumina sequencing of library DN488439N:C4  constructed from sample accession ERS1806688 for study accession ERP023267.  This is part of an Illumina multiplexed sequencing run 22829 8.  This submission includes reads tagged with the sequence TAGTGACT.,RNA seq dUTP eukaryotic,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,ERP023267,Illumina HiSeq 2500 paired end sequencing,ENA FIRST PUBLIC:2019 07 22|ENA LAST UPDATE:2019 07 22,22829_8#27.cram,cram,976188150.0,6507921.0,SC RUN 22829 8#27,0:75 1:75,A:258533450;C:226872670;G:226382560;T:262604964;N:1794506,75,75,,,258533450,226872670,226382560,262604964,1794506,ERX3468756,ERS1806688,ERA2044656,European Nucleotide Archive,Wellcome Sanger Institute,2,0.95189,0.95679,0.13942,0.13618,0.68274,0.68505,0.50235,0.50513,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,United Kingdom,2017-05-25,Larval,Larval,Whole Organism,All anatomical structures
7920,ERR3446756,ERX3468755,ERS1806687,ERP023267,PRJEB21045,RNASeq of zebrafish metabolic mutants,RNASeq_of_zebrafish_metabolic_mutants-sc-4765,Transcriptome Analysis,RNAseq data was generated from one or more alleles of zebrafish metabolic mutants for transcriptome analysis.,ENA FIRST PUBLIC:2019 07 22|ENA LAST UPDATE:2017 05 25|ArrayExpress:E ERAD 683,,,zmp ph279 B2,SAMEA104147669,Wellcome Sanger Institute,ArrayExpress DEVELOPMENTAL STAGE:Larval:Protruding mouth   ZFS:0000035|ArrayExpress ORGANISM PART:Whole organism|ArrayExpress SPECIES:Danio rerio|ArrayExpress STRAIN OR LINE:mixed|ENA first public:2019 06 29|ENA last update:2017 06 29|External Id:SAMEA104147669|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2019 06 29T04:02:25Z|INSDC last update:2017 06 29T14:54:30Z|INSDC status:public|Submitter Id:394a8890 41ed 11e7 b6fe 3c4a9275d6c8|common name:zebrafish|sample name:394a8890 41ed 11e7 b6fe 3c4a9275d6c8|subject id:4765STDY6934971,,,,,,,,,Illumina HiSeq 2500 paired end sequencing,SC EXP 22829 8#26,DN488439N:B4,Illumina sequencing of library DN488439N:B4  constructed from sample accession ERS1806687 for study accession ERP023267.  This is part of an Illumina multiplexed sequencing run 22829 8.  This submission includes reads tagged with the sequence TTCCTGCT.,RNA seq dUTP eukaryotic,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,ERP023267,Illumina HiSeq 2500 paired end sequencing,ENA FIRST PUBLIC:2019 07 22|ENA LAST UPDATE:2019 07 22,22829_8#26.cram,cram,893242800.0,5954952.0,SC RUN 22829 8#26,0:75 1:75,A:233780534;C:210342200;G:210386139;T:237085352;N:1648575,75,75,,,233780534,210342200,210386139,237085352,1648575,ERX3468755,ERS1806687,ERA2044656,European Nucleotide Archive,Wellcome Sanger Institute,2,0.9547,0.95931,0.14551,0.14251,0.68605,0.6871,0.51109,0.51231,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,United Kingdom,2017-05-25,Larval,Larval,Whole Organism,All anatomical structures
7921,ERR3446755,ERX3468754,ERS1806686,ERP023267,PRJEB21045,RNASeq of zebrafish metabolic mutants,RNASeq_of_zebrafish_metabolic_mutants-sc-4765,Transcriptome Analysis,RNAseq data was generated from one or more alleles of zebrafish metabolic mutants for transcriptome analysis.,ENA FIRST PUBLIC:2019 07 22|ENA LAST UPDATE:2017 05 25|ArrayExpress:E ERAD 683,,,zmp ph279 D6,SAMEA104147668,Wellcome Sanger Institute,ArrayExpress DEVELOPMENTAL STAGE:Larval:Protruding mouth   ZFS:0000035|ArrayExpress ORGANISM PART:Whole organism|ArrayExpress SPECIES:Danio rerio|ArrayExpress STRAIN OR LINE:mixed|ENA first public:2019 06 29|ENA last update:2017 06 29|External Id:SAMEA104147668|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2019 06 29T04:02:25Z|INSDC last update:2017 06 29T14:54:29Z|INSDC status:public|Submitter Id:393fb320 41ed 11e7 b6fe 3c4a9275d6c8|common name:zebrafish|sample name:393fb320 41ed 11e7 b6fe 3c4a9275d6c8|subject id:4765STDY6934970,,,,,,,,,Illumina HiSeq 2500 paired end sequencing,SC EXP 22829 8#25,DN488439N:A4,Illumina sequencing of library DN488439N:A4  constructed from sample accession ERS1806686 for study accession ERP023267.  This is part of an Illumina multiplexed sequencing run 22829 8.  This submission includes reads tagged with the sequence TGCGATCT.,RNA seq dUTP eukaryotic,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,ERP023267,Illumina HiSeq 2500 paired end sequencing,ENA FIRST PUBLIC:2019 07 22|ENA LAST UPDATE:2019 07 22,22829_8#25.cram,cram,990960750.0,6606405.0,SC RUN 22829 8#25,0:75 1:75,A:256751586;C:236231048;G:236105966;T:260051730;N:1820420,75,75,,,256751586,236231048,236105966,260051730,1820420,ERX3468754,ERS1806686,ERA2044656,European Nucleotide Archive,Wellcome Sanger Institute,2,0.95946,0.96347,0.13307,0.13209,0.68217,0.68505,0.4931,0.50013,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,United Kingdom,2017-05-25,Larval,Larval,Whole Organism,All anatomical structures
7922,ERR3446754,ERX3468753,ERS1806685,ERP023267,PRJEB21045,RNASeq of zebrafish metabolic mutants,RNASeq_of_zebrafish_metabolic_mutants-sc-4765,Transcriptome Analysis,RNAseq data was generated from one or more alleles of zebrafish metabolic mutants for transcriptome analysis.,ENA FIRST PUBLIC:2019 07 22|ENA LAST UPDATE:2017 05 25|ArrayExpress:E ERAD 683,,,zmp ph279 E12,SAMEA104147667,Wellcome Sanger Institute,ArrayExpress DEVELOPMENTAL STAGE:Larval:Protruding mouth   ZFS:0000035|ArrayExpress ORGANISM PART:Whole organism|ArrayExpress SPECIES:Danio rerio|ArrayExpress STRAIN OR LINE:mixed|ENA first public:2019 06 29|ENA last update:2017 06 29|External Id:SAMEA104147667|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2019 06 29T04:02:25Z|INSDC last update:2017 06 29T14:54:29Z|INSDC status:public|Submitter Id:3931f780 41ed 11e7 b6fe 3c4a9275d6c8|common name:zebrafish|sample name:3931f780 41ed 11e7 b6fe 3c4a9275d6c8|subject id:4765STDY6934969,,,,,,,,,Illumina HiSeq 2500 paired end sequencing,SC EXP 22829 8#24,DN488439N:H3,Illumina sequencing of library DN488439N:H3  constructed from sample accession ERS1806685 for study accession ERP023267.  This is part of an Illumina multiplexed sequencing run 22829 8.  This submission includes reads tagged with the sequence TTGACTCT.,RNA seq dUTP eukaryotic,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,ERP023267,Illumina HiSeq 2500 paired end sequencing,ENA FIRST PUBLIC:2019 07 22|ENA LAST UPDATE:2019 07 22,22829_8#24.cram,cram,964485000.0,6429900.0,SC RUN 22829 8#24,0:75 1:75,A:251451665;C:228331952;G:228439906;T:254469084;N:1792393,75,75,,,251451665,228331952,228439906,254469084,1792393,ERX3468753,ERS1806685,ERA2044656,European Nucleotide Archive,Wellcome Sanger Institute,2,0.9564,0.96106,0.12973,0.12899,0.67876,0.68254,0.49322,0.4891,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,United Kingdom,2017-05-25,Larval,Larval,Whole Organism,All anatomical structures
7923,ERR3446753,ERX3468752,ERS1806684,ERP023267,PRJEB21045,RNASeq of zebrafish metabolic mutants,RNASeq_of_zebrafish_metabolic_mutants-sc-4765,Transcriptome Analysis,RNAseq data was generated from one or more alleles of zebrafish metabolic mutants for transcriptome analysis.,ENA FIRST PUBLIC:2019 07 22|ENA LAST UPDATE:2017 05 25|ArrayExpress:E ERAD 683,,,zmp ph279 D4,SAMEA104147666,Wellcome Sanger Institute,ArrayExpress DEVELOPMENTAL STAGE:Larval:Protruding mouth   ZFS:0000035|ArrayExpress ORGANISM PART:Whole organism|ArrayExpress SPECIES:Danio rerio|ArrayExpress STRAIN OR LINE:mixed|ENA first public:2019 06 29|ENA last update:2017 06 29|External Id:SAMEA104147666|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2019 06 29T04:02:25Z|INSDC last update:2017 06 29T14:54:29Z|INSDC status:public|Submitter Id:39272210 41ed 11e7 b6fe 3c4a9275d6c8|common name:zebrafish|sample name:39272210 41ed 11e7 b6fe 3c4a9275d6c8|subject id:4765STDY6934968,,,,,,,,,Illumina HiSeq 2500 paired end sequencing,SC EXP 22829 8#23,DN488439N:G3,Illumina sequencing of library DN488439N:G3  constructed from sample accession ERS1806684 for study accession ERP023267.  This is part of an Illumina multiplexed sequencing run 22829 8.  This submission includes reads tagged with the sequence TGCATAGT.,RNA seq dUTP eukaryotic,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,ERP023267,Illumina HiSeq 2500 paired end sequencing,ENA FIRST PUBLIC:2019 07 22|ENA LAST UPDATE:2019 07 22,22829_8#23.cram,cram,964272000.0,6428480.0,SC RUN 22829 8#23,0:75 1:75,A:251105580;C:228453524;G:228253397;T:254687699;N:1771800,75,75,,,251105580,228453524,228253397,254687699,1771800,ERX3468752,ERS1806684,ERA2044656,European Nucleotide Archive,Wellcome Sanger Institute,2,0.95716,0.96163,0.14819,0.14629,0.69016,0.69378,0.50746,0.51427,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,United Kingdom,2017-05-25,Larval,Larval,Whole Organism,All anatomical structures
7924,ERR3446752,ERX3468751,ERS1806683,ERP023267,PRJEB21045,RNASeq of zebrafish metabolic mutants,RNASeq_of_zebrafish_metabolic_mutants-sc-4765,Transcriptome Analysis,RNAseq data was generated from one or more alleles of zebrafish metabolic mutants for transcriptome analysis.,ENA FIRST PUBLIC:2019 07 22|ENA LAST UPDATE:2017 05 25|ArrayExpress:E ERAD 683,,,zmp ph279 A3,SAMEA104147665,Wellcome Sanger Institute,ArrayExpress DEVELOPMENTAL STAGE:Larval:Protruding mouth   ZFS:0000035|ArrayExpress ORGANISM PART:Whole organism|ArrayExpress SPECIES:Danio rerio|ArrayExpress STRAIN OR LINE:mixed|ENA first public:2019 06 29|ENA last update:2017 06 29|External Id:SAMEA104147665|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2019 06 29T04:02:25Z|INSDC last update:2017 06 29T14:54:29Z|INSDC status:public|Submitter Id:391c4ca0 41ed 11e7 b6fe 3c4a9275d6c8|common name:zebrafish|sample name:391c4ca0 41ed 11e7 b6fe 3c4a9275d6c8|subject id:4765STDY6934967,,,,,,,,,Illumina HiSeq 2500 paired end sequencing,SC EXP 22829 8#22,DN488439N:F3,Illumina sequencing of library DN488439N:F3  constructed from sample accession ERS1806683 for study accession ERP023267.  This is part of an Illumina multiplexed sequencing run 22829 8.  This submission includes reads tagged with the sequence TGATACGT.,RNA seq dUTP eukaryotic,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,ERP023267,Illumina HiSeq 2500 paired end sequencing,ENA FIRST PUBLIC:2019 07 22|ENA LAST UPDATE:2019 07 22,22829_8#22.cram,cram,799230000.0,5328200.0,SC RUN 22829 8#22,0:75 1:75,A:212348969;C:184890796;G:184847246;T:215676416;N:1466573,75,75,,,212348969,184890796,184847246,215676416,1466573,ERX3468751,ERS1806683,ERA2044656,European Nucleotide Archive,Wellcome Sanger Institute,2,0.95436,0.95813,0.16036,0.1592,0.68759,0.69027,0.51144,0.50841,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,United Kingdom,2017-05-25,Larval,Larval,Whole Organism,All anatomical structures
7925,ERR3446751,ERX3468750,ERS1806681,ERP023267,PRJEB21045,RNASeq of zebrafish metabolic mutants,RNASeq_of_zebrafish_metabolic_mutants-sc-4765,Transcriptome Analysis,RNAseq data was generated from one or more alleles of zebrafish metabolic mutants for transcriptome analysis.,ENA FIRST PUBLIC:2019 07 22|ENA LAST UPDATE:2017 05 25|ArrayExpress:E ERAD 683,,,zmp ph279 B6,SAMEA104147663,Wellcome Sanger Institute,ArrayExpress DEVELOPMENTAL STAGE:Larval:Protruding mouth   ZFS:0000035|ArrayExpress ORGANISM PART:Whole organism|ArrayExpress SPECIES:Danio rerio|ArrayExpress STRAIN OR LINE:mixed|ENA first public:2019 06 29|ENA last update:2017 06 29|External Id:SAMEA104147663|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2019 06 29T04:02:25Z|INSDC last update:2017 06 29T14:54:29Z|INSDC status:public|Submitter Id:3910b3e0 41ed 11e7 b6fe 3c4a9275d6c8|common name:zebrafish|sample name:3910b3e0 41ed 11e7 b6fe 3c4a9275d6c8|subject id:4765STDY6934966,,,,,,,,,Illumina HiSeq 2500 paired end sequencing,SC EXP 22829 8#21,DN488439N:E3,Illumina sequencing of library DN488439N:E3  constructed from sample accession ERS1806681 for study accession ERP023267.  This is part of an Illumina multiplexed sequencing run 22829 8.  This submission includes reads tagged with the sequence TCGAGCGT.,RNA seq dUTP eukaryotic,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,ERP023267,Illumina HiSeq 2500 paired end sequencing,ENA FIRST PUBLIC:2019 07 22|ENA LAST UPDATE:2019 07 22,22829_8#21.cram,cram,923983200.0,6159888.0,SC RUN 22829 8#21,0:75 1:75,A:243217021;C:216142090;G:216007590;T:246916174;N:1700325,75,75,,,243217021,216142090,216007590,246916174,1700325,ERX3468750,ERS1806681,ERA2044656,European Nucleotide Archive,Wellcome Sanger Institute,2,0.95874,0.96248,0.14485,0.14306,0.69633,0.69877,0.5064,0.50544,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,United Kingdom,2017-05-25,Larval,Larval,Whole Organism,All anatomical structures
7926,ERR3446750,ERX3468749,ERS1806682,ERP023267,PRJEB21045,RNASeq of zebrafish metabolic mutants,RNASeq_of_zebrafish_metabolic_mutants-sc-4765,Transcriptome Analysis,RNAseq data was generated from one or more alleles of zebrafish metabolic mutants for transcriptome analysis.,ENA FIRST PUBLIC:2019 07 22|ENA LAST UPDATE:2017 05 25|ArrayExpress:E ERAD 683,,,zmp ph279 B10,SAMEA104147664,Wellcome Sanger Institute,ArrayExpress DEVELOPMENTAL STAGE:Larval:Protruding mouth   ZFS:0000035|ArrayExpress ORGANISM PART:Whole organism|ArrayExpress SPECIES:Danio rerio|ArrayExpress STRAIN OR LINE:mixed|ENA first public:2019 06 29|ENA last update:2017 06 29|External Id:SAMEA104147664|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2019 06 29T04:02:25Z|INSDC last update:2017 06 29T14:54:29Z|INSDC status:public|Submitter Id:3905b760 41ed 11e7 b6fe 3c4a9275d6c8|common name:zebrafish|sample name:3905b760 41ed 11e7 b6fe 3c4a9275d6c8|subject id:4765STDY6934965,,,,,,,,,Illumina HiSeq 2500 paired end sequencing,SC EXP 22829 8#20,DN488439N:D3,Illumina sequencing of library DN488439N:D3  constructed from sample accession ERS1806682 for study accession ERP023267.  This is part of an Illumina multiplexed sequencing run 22829 8.  This submission includes reads tagged with the sequence TTGGAGGT.,RNA seq dUTP eukaryotic,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,ERP023267,Illumina HiSeq 2500 paired end sequencing,ENA FIRST PUBLIC:2019 07 22|ENA LAST UPDATE:2019 07 22,22829_8#20.cram,cram,896749650.0,5978331.0,SC RUN 22829 8#20,0:75 1:75,A:236504641;C:209373052;G:209286381;T:239943497;N:1642079,75,75,,,236504641,209373052,209286381,239943497,1642079,ERX3468749,ERS1806682,ERA2044656,European Nucleotide Archive,Wellcome Sanger Institute,2,0.95456,0.9591,0.14445,0.14205,0.68544,0.68809,0.50085,0.50894,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,United Kingdom,2017-05-25,Larval,Larval,Whole Organism,All anatomical structures
7927,ERR3446749,ERX3468748,ERS1806680,ERP023267,PRJEB21045,RNASeq of zebrafish metabolic mutants,RNASeq_of_zebrafish_metabolic_mutants-sc-4765,Transcriptome Analysis,RNAseq data was generated from one or more alleles of zebrafish metabolic mutants for transcriptome analysis.,ENA FIRST PUBLIC:2019 07 22|ENA LAST UPDATE:2017 05 25|ArrayExpress:E ERAD 683,,,zmp ph279 C7,SAMEA104147662,Wellcome Sanger Institute,ArrayExpress DEVELOPMENTAL STAGE:Larval:Protruding mouth   ZFS:0000035|ArrayExpress ORGANISM PART:Whole organism|ArrayExpress SPECIES:Danio rerio|ArrayExpress STRAIN OR LINE:mixed|ENA first public:2019 06 29|ENA last update:2017 06 29|External Id:SAMEA104147662|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2019 06 29T04:02:25Z|INSDC last update:2017 06 29T14:54:29Z|INSDC status:public|Submitter Id:38fae1f0 41ed 11e7 b6fe 3c4a9275d6c8|common name:zebrafish|sample name:38fae1f0 41ed 11e7 b6fe 3c4a9275d6c8|subject id:4765STDY6934964,,,,,,,,,Illumina HiSeq 2500 paired end sequencing,SC EXP 22829 8#19,DN488439N:C3,Illumina sequencing of library DN488439N:C3  constructed from sample accession ERS1806680 for study accession ERP023267.  This is part of an Illumina multiplexed sequencing run 22829 8.  This submission includes reads tagged with the sequence TCTGCTGT.,RNA seq dUTP eukaryotic,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,ERP023267,Illumina HiSeq 2500 paired end sequencing,ENA FIRST PUBLIC:2019 07 22|ENA LAST UPDATE:2019 07 22,22829_8#19.cram,cram,933815700.0,6225438.0,SC RUN 22829 8#19,0:75 1:75,A:244718120;C:219569356;G:219612527;T:248215417;N:1700280,75,75,,,244718120,219569356,219612527,248215417,1700280,ERX3468748,ERS1806680,ERA2044656,European Nucleotide Archive,Wellcome Sanger Institute,2,0.95407,0.95781,0.14211,0.14014,0.68142,0.6845,0.5066,0.5032,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,United Kingdom,2017-05-25,Larval,Larval,Whole Organism,All anatomical structures
7928,ERR3446748,ERX3468747,ERS1806678,ERP023267,PRJEB21045,RNASeq of zebrafish metabolic mutants,RNASeq_of_zebrafish_metabolic_mutants-sc-4765,Transcriptome Analysis,RNAseq data was generated from one or more alleles of zebrafish metabolic mutants for transcriptome analysis.,ENA FIRST PUBLIC:2019 07 22|ENA LAST UPDATE:2017 05 25|ArrayExpress:E ERAD 683,,,zmp ph279 A11,SAMEA104147660,Wellcome Sanger Institute,ArrayExpress DEVELOPMENTAL STAGE:Larval:Protruding mouth   ZFS:0000035|ArrayExpress ORGANISM PART:Whole organism|ArrayExpress SPECIES:Danio rerio|ArrayExpress STRAIN OR LINE:mixed|ENA first public:2019 06 29|ENA last update:2017 06 29|External Id:SAMEA104147660|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2019 06 29T04:02:25Z|INSDC last update:2017 06 29T14:54:28Z|INSDC status:public|Submitter Id:38f00c80 41ed 11e7 b6fe 3c4a9275d6c8|common name:zebrafish|sample name:38f00c80 41ed 11e7 b6fe 3c4a9275d6c8|subject id:4765STDY6934963,,,,,,,,,Illumina HiSeq 2500 paired end sequencing,SC EXP 22829 8#18,DN488439N:B3,Illumina sequencing of library DN488439N:B3  constructed from sample accession ERS1806678 for study accession ERP023267.  This is part of an Illumina multiplexed sequencing run 22829 8.  This submission includes reads tagged with the sequence TTCTGTGT.,RNA seq dUTP eukaryotic,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,ERP023267,Illumina HiSeq 2500 paired end sequencing,ENA FIRST PUBLIC:2019 07 22|ENA LAST UPDATE:2019 07 22,22829_8#18.cram,cram,905329500.0,6035530.0,SC RUN 22829 8#18,0:75 1:75,A:240021393;C:210015428;G:210218903;T:243401797;N:1671979,75,75,,,240021393,210015428,210218903,243401797,1671979,ERX3468747,ERS1806678,ERA2044656,European Nucleotide Archive,Wellcome Sanger Institute,2,0.95212,0.95525,0.15692,0.15381,0.68254,0.68525,0.52037,0.5208,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,United Kingdom,2017-05-25,Larval,Larval,Whole Organism,All anatomical structures
7929,ERR3446747,ERX3468746,ERS1806679,ERP023267,PRJEB21045,RNASeq of zebrafish metabolic mutants,RNASeq_of_zebrafish_metabolic_mutants-sc-4765,Transcriptome Analysis,RNAseq data was generated from one or more alleles of zebrafish metabolic mutants for transcriptome analysis.,ENA FIRST PUBLIC:2019 07 22|ENA LAST UPDATE:2017 05 25|ArrayExpress:E ERAD 683,,,zmp ph279 E3,SAMEA104147661,Wellcome Sanger Institute,ArrayExpress DEVELOPMENTAL STAGE:Larval:Protruding mouth   ZFS:0000035|ArrayExpress ORGANISM PART:Whole organism|ArrayExpress SPECIES:Danio rerio|ArrayExpress STRAIN OR LINE:mixed|ENA first public:2019 06 29|ENA last update:2017 06 29|External Id:SAMEA104147661|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2019 06 29T04:02:25Z|INSDC last update:2017 06 29T14:54:28Z|INSDC status:public|Submitter Id:38e51000 41ed 11e7 b6fe 3c4a9275d6c8|common name:zebrafish|sample name:38e51000 41ed 11e7 b6fe 3c4a9275d6c8|subject id:4765STDY6934962,,,,,,,,,Illumina HiSeq 2500 paired end sequencing,SC EXP 22829 8#17,DN488439N:A3,Illumina sequencing of library DN488439N:A3  constructed from sample accession ERS1806679 for study accession ERP023267.  This is part of an Illumina multiplexed sequencing run 22829 8.  This submission includes reads tagged with the sequence TGTACCTT.,RNA seq dUTP eukaryotic,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,ERP023267,Illumina HiSeq 2500 paired end sequencing,ENA FIRST PUBLIC:2019 07 22|ENA LAST UPDATE:2019 07 22,22829_8#17.cram,cram,947665500.0,6317770.0,SC RUN 22829 8#17,0:75 1:75,A:246559305;C:224934978;G:224812411;T:249601963;N:1756843,75,75,,,246559305,224934978,224812411,249601963,1756843,ERX3468746,ERS1806679,ERA2044656,European Nucleotide Archive,Wellcome Sanger Institute,2,0.95666,0.96095,0.14463,0.14314,0.68757,0.68885,0.51144,0.51225,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,United Kingdom,2017-05-25,Larval,Larval,Whole Organism,All anatomical structures
7930,ERR3446746,ERX3468745,ERS1806677,ERP023267,PRJEB21045,RNASeq of zebrafish metabolic mutants,RNASeq_of_zebrafish_metabolic_mutants-sc-4765,Transcriptome Analysis,RNAseq data was generated from one or more alleles of zebrafish metabolic mutants for transcriptome analysis.,ENA FIRST PUBLIC:2019 07 22|ENA LAST UPDATE:2017 05 25|ArrayExpress:E ERAD 683,,,zmp ph279 B4,SAMEA104147659,Wellcome Sanger Institute,ArrayExpress DEVELOPMENTAL STAGE:Larval:Protruding mouth   ZFS:0000035|ArrayExpress ORGANISM PART:Whole organism|ArrayExpress SPECIES:Danio rerio|ArrayExpress STRAIN OR LINE:mixed|ENA first public:2019 06 29|ENA last update:2017 06 29|External Id:SAMEA104147659|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2019 06 29T04:02:25Z|INSDC last update:2017 06 29T14:54:28Z|INSDC status:public|Submitter Id:38da3a90 41ed 11e7 b6fe 3c4a9275d6c8|common name:zebrafish|sample name:38da3a90 41ed 11e7 b6fe 3c4a9275d6c8|subject id:4765STDY6934961,,,,,,,,,Illumina HiSeq 2500 paired end sequencing,SC EXP 22829 8#16,DN488439N:H2,Illumina sequencing of library DN488439N:H2  constructed from sample accession ERS1806677 for study accession ERP023267.  This is part of an Illumina multiplexed sequencing run 22829 8.  This submission includes reads tagged with the sequence TCCGTCTT.,RNA seq dUTP eukaryotic,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,ERP023267,Illumina HiSeq 2500 paired end sequencing,ENA FIRST PUBLIC:2019 07 22|ENA LAST UPDATE:2019 07 22,22829_8#16.cram,cram,1017363750.0,6782425.0,SC RUN 22829 8#16,0:75 1:75,A:265624052;C:240509411;G:240546256;T:268829904;N:1854127,75,75,,,265624052,240509411,240546256,268829904,1854127,ERX3468745,ERS1806677,ERA2044656,European Nucleotide Archive,Wellcome Sanger Institute,2,0.95466,0.95911,0.14109,0.13929,0.68199,0.68262,0.49544,0.4999,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,United Kingdom,2017-05-25,Larval,Larval,Whole Organism,All anatomical structures
7931,ERR3446745,ERX3468744,ERS1806676,ERP023267,PRJEB21045,RNASeq of zebrafish metabolic mutants,RNASeq_of_zebrafish_metabolic_mutants-sc-4765,Transcriptome Analysis,RNAseq data was generated from one or more alleles of zebrafish metabolic mutants for transcriptome analysis.,ENA FIRST PUBLIC:2019 07 22|ENA LAST UPDATE:2017 05 25|ArrayExpress:E ERAD 683,,,zmp ph279 D3,SAMEA104147658,Wellcome Sanger Institute,ArrayExpress DEVELOPMENTAL STAGE:Larval:Protruding mouth   ZFS:0000035|ArrayExpress ORGANISM PART:Whole organism|ArrayExpress SPECIES:Danio rerio|ArrayExpress STRAIN OR LINE:mixed|ENA first public:2019 06 29|ENA last update:2017 06 29|External Id:SAMEA104147658|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2019 06 29T04:02:25Z|INSDC last update:2017 06 29T14:54:28Z|INSDC status:public|Submitter Id:38c8d570 41ed 11e7 b6fe 3c4a9275d6c8|common name:zebrafish|sample name:38c8d570 41ed 11e7 b6fe 3c4a9275d6c8|subject id:4765STDY6934960,,,,,,,,,Illumina HiSeq 2500 paired end sequencing,SC EXP 22829 8#15,DN488439N:G2,Illumina sequencing of library DN488439N:G2  constructed from sample accession ERS1806676 for study accession ERP023267.  This is part of an Illumina multiplexed sequencing run 22829 8.  This submission includes reads tagged with the sequence TAAGCGTT.,RNA seq dUTP eukaryotic,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,ERP023267,Illumina HiSeq 2500 paired end sequencing,ENA FIRST PUBLIC:2019 07 22|ENA LAST UPDATE:2019 07 22,22829_8#15.cram,cram,1000345500.0,6668970.0,SC RUN 22829 8#15,0:75 1:75,A:258884239;C:238639192;G:238825356;T:262142988;N:1853725,75,75,,,258884239,238639192,238825356,262142988,1853725,ERX3468744,ERS1806676,ERA2044656,European Nucleotide Archive,Wellcome Sanger Institute,2,0.95861,0.96266,0.13649,0.13563,0.68755,0.69098,0.49977,0.50834,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,United Kingdom,2017-05-25,Larval,Larval,Whole Organism,All anatomical structures
7932,ERR3446744,ERX3468743,ERS1806675,ERP023267,PRJEB21045,RNASeq of zebrafish metabolic mutants,RNASeq_of_zebrafish_metabolic_mutants-sc-4765,Transcriptome Analysis,RNAseq data was generated from one or more alleles of zebrafish metabolic mutants for transcriptome analysis.,ENA FIRST PUBLIC:2019 07 22|ENA LAST UPDATE:2017 05 25|ArrayExpress:E ERAD 683,,,zmp ph279 D7,SAMEA104147657,Wellcome Sanger Institute,ArrayExpress DEVELOPMENTAL STAGE:Larval:Protruding mouth   ZFS:0000035|ArrayExpress ORGANISM PART:Whole organism|ArrayExpress SPECIES:Danio rerio|ArrayExpress STRAIN OR LINE:mixed|ENA first public:2019 06 29|ENA last update:2017 06 29|External Id:SAMEA104147657|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2019 06 29T04:02:25Z|INSDC last update:2017 06 29T14:54:28Z|INSDC status:public|Submitter Id:38be0000 41ed 11e7 b6fe 3c4a9275d6c8|common name:zebrafish|sample name:38be0000 41ed 11e7 b6fe 3c4a9275d6c8|subject id:4765STDY6934959,,,,,,,,,Illumina HiSeq 2500 paired end sequencing,SC EXP 22829 8#14,DN488439N:F2,Illumina sequencing of library DN488439N:F2  constructed from sample accession ERS1806675 for study accession ERP023267.  This is part of an Illumina multiplexed sequencing run 22829 8.  This submission includes reads tagged with the sequence TCTCGGTT.,RNA seq dUTP eukaryotic,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,ERP023267,Illumina HiSeq 2500 paired end sequencing,ENA FIRST PUBLIC:2019 07 22|ENA LAST UPDATE:2019 07 22,22829_8#14.cram,cram,831508200.0,5543388.0,SC RUN 22829 8#14,0:75 1:75,A:216944404;C:196565581;G:196615479;T:219853985;N:1528751,75,75,,,216944404,196565581,196615479,219853985,1528751,ERX3468743,ERS1806675,ERA2044656,European Nucleotide Archive,Wellcome Sanger Institute,2,0.95565,0.95932,0.13261,0.13138,0.67724,0.67971,0.49732,0.50908,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,United Kingdom,2017-05-25,Larval,Larval,Whole Organism,All anatomical structures
7933,ERR3446743,ERX3468742,ERS1806674,ERP023267,PRJEB21045,RNASeq of zebrafish metabolic mutants,RNASeq_of_zebrafish_metabolic_mutants-sc-4765,Transcriptome Analysis,RNAseq data was generated from one or more alleles of zebrafish metabolic mutants for transcriptome analysis.,ENA FIRST PUBLIC:2019 07 22|ENA LAST UPDATE:2017 05 25|ArrayExpress:E ERAD 683,,,zmp ph279 C6,SAMEA104147656,Wellcome Sanger Institute,ArrayExpress DEVELOPMENTAL STAGE:Larval:Protruding mouth   ZFS:0000035|ArrayExpress ORGANISM PART:Whole organism|ArrayExpress SPECIES:Danio rerio|ArrayExpress STRAIN OR LINE:mixed|ENA first public:2019 06 29|ENA last update:2017 06 29|External Id:SAMEA104147656|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2019 06 29T04:02:25Z|INSDC last update:2017 06 29T14:54:28Z|INSDC status:public|Submitter Id:38b39fc0 41ed 11e7 b6fe 3c4a9275d6c8|common name:zebrafish|sample name:38b39fc0 41ed 11e7 b6fe 3c4a9275d6c8|subject id:4765STDY6934958,,,,,,,,,Illumina HiSeq 2500 paired end sequencing,SC EXP 22829 8#13,DN488439N:E2,Illumina sequencing of library DN488439N:E2  constructed from sample accession ERS1806674 for study accession ERP023267.  This is part of an Illumina multiplexed sequencing run 22829 8.  This submission includes reads tagged with the sequence TGGTTGTT.,RNA seq dUTP eukaryotic,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,ERP023267,Illumina HiSeq 2500 paired end sequencing,ENA FIRST PUBLIC:2019 07 22|ENA LAST UPDATE:2019 07 22,22829_8#13.cram,cram,880251450.0,5868343.0,SC RUN 22829 8#13,0:75 1:75,A:230018306;C:207962954;G:207702793;T:232909633;N:1657764,75,75,,,230018306,207962954,207702793,232909633,1657764,ERX3468742,ERS1806674,ERA2044656,European Nucleotide Archive,Wellcome Sanger Institute,2,0.95442,0.95837,0.12979,0.12922,0.6762,0.68081,0.49384,0.49413,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,United Kingdom,2017-05-25,Larval,Larval,Whole Organism,All anatomical structures
7934,ERR3446742,ERX3468741,ERS1806673,ERP023267,PRJEB21045,RNASeq of zebrafish metabolic mutants,RNASeq_of_zebrafish_metabolic_mutants-sc-4765,Transcriptome Analysis,RNAseq data was generated from one or more alleles of zebrafish metabolic mutants for transcriptome analysis.,ENA FIRST PUBLIC:2019 07 22|ENA LAST UPDATE:2017 05 25|ArrayExpress:E ERAD 683,,,zmp ph279 C9,SAMEA104147655,Wellcome Sanger Institute,ArrayExpress DEVELOPMENTAL STAGE:Larval:Protruding mouth   ZFS:0000035|ArrayExpress ORGANISM PART:Whole organism|ArrayExpress SPECIES:Danio rerio|ArrayExpress STRAIN OR LINE:mixed|ENA first public:2019 06 29|ENA last update:2017 06 29|External Id:SAMEA104147655|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2019 06 29T04:02:25Z|INSDC last update:2017 06 29T14:54:28Z|INSDC status:public|Submitter Id:38aa29e0 41ed 11e7 b6fe 3c4a9275d6c8|common name:zebrafish|sample name:38aa29e0 41ed 11e7 b6fe 3c4a9275d6c8|subject id:4765STDY6934957,,,,,,,,,Illumina HiSeq 2500 paired end sequencing,SC EXP 22829 8#12,DN488439N:D2,Illumina sequencing of library DN488439N:D2  constructed from sample accession ERS1806673 for study accession ERP023267.  This is part of an Illumina multiplexed sequencing run 22829 8.  This submission includes reads tagged with the sequence CTTGTACT.,RNA seq dUTP eukaryotic,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,ERP023267,Illumina HiSeq 2500 paired end sequencing,ENA FIRST PUBLIC:2019 07 22|ENA LAST UPDATE:2019 07 22,22829_8#12.cram,cram,885733500.0,5904890.0,SC RUN 22829 8#12,0:75 1:75,A:231281663;C:209310630;G:209302780;T:234229805;N:1608622,75,75,,,231281663,209310630,209302780,234229805,1608622,ERX3468741,ERS1806673,ERA2044656,European Nucleotide Archive,Wellcome Sanger Institute,2,0.95605,0.96017,0.13822,0.13754,0.68069,0.68385,0.50267,0.5053,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,United Kingdom,2017-05-25,Larval,Larval,Whole Organism,All anatomical structures
7935,ERR3446741,ERX3468740,ERS1806672,ERP023267,PRJEB21045,RNASeq of zebrafish metabolic mutants,RNASeq_of_zebrafish_metabolic_mutants-sc-4765,Transcriptome Analysis,RNAseq data was generated from one or more alleles of zebrafish metabolic mutants for transcriptome analysis.,ENA FIRST PUBLIC:2019 07 22|ENA LAST UPDATE:2017 05 25|ArrayExpress:E ERAD 683,,,zmp ph279 B12,SAMEA104147654,Wellcome Sanger Institute,ArrayExpress DEVELOPMENTAL STAGE:Larval:Protruding mouth   ZFS:0000035|ArrayExpress ORGANISM PART:Whole organism|ArrayExpress SPECIES:Danio rerio|ArrayExpress STRAIN OR LINE:mixed|ENA first public:2019 06 29|ENA last update:2017 06 29|External Id:SAMEA104147654|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2019 06 29T04:02:25Z|INSDC last update:2017 06 29T14:54:28Z|INSDC status:public|Submitter Id:38a03ed0 41ed 11e7 b6fe 3c4a9275d6c8|common name:zebrafish|sample name:38a03ed0 41ed 11e7 b6fe 3c4a9275d6c8|subject id:4765STDY6934956,,,,,,,,,Illumina HiSeq 2500 paired end sequencing,SC EXP 22829 8#11,DN488439N:C2,Illumina sequencing of library DN488439N:C2  constructed from sample accession ERS1806672 for study accession ERP023267.  This is part of an Illumina multiplexed sequencing run 22829 8.  This submission includes reads tagged with the sequence GGCTACAG.,RNA seq dUTP eukaryotic,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,ERP023267,Illumina HiSeq 2500 paired end sequencing,ENA FIRST PUBLIC:2019 07 22|ENA LAST UPDATE:2019 07 22,22829_8#11.cram,cram,836620350.0,5577469.0,SC RUN 22829 8#11,0:75 1:75,A:219115747;C:196807550;G:197091855;T:222058678;N:1546520,75,75,,,219115747,196807550,197091855,222058678,1546520,ERX3468740,ERS1806672,ERA2044656,European Nucleotide Archive,Wellcome Sanger Institute,2,0.95466,0.95919,0.15021,0.14856,0.69043,0.69244,0.50929,0.51567,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,United Kingdom,2017-05-25,Larval,Larval,Whole Organism,All anatomical structures
7936,ERR3446740,ERX3468739,ERS1806670,ERP023267,PRJEB21045,RNASeq of zebrafish metabolic mutants,RNASeq_of_zebrafish_metabolic_mutants-sc-4765,Transcriptome Analysis,RNAseq data was generated from one or more alleles of zebrafish metabolic mutants for transcriptome analysis.,ENA FIRST PUBLIC:2019 07 22|ENA LAST UPDATE:2017 05 25|ArrayExpress:E ERAD 683,,,zmp ph279 E2,SAMEA104147652,Wellcome Sanger Institute,ArrayExpress DEVELOPMENTAL STAGE:Larval:Protruding mouth   ZFS:0000035|ArrayExpress ORGANISM PART:Whole organism|ArrayExpress SPECIES:Danio rerio|ArrayExpress STRAIN OR LINE:mixed|ENA first public:2019 06 29|ENA last update:2017 06 29|External Id:SAMEA104147652|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2019 06 29T04:02:25Z|INSDC last update:2017 06 29T14:54:27Z|INSDC status:public|Submitter Id:38908760 41ed 11e7 b6fe 3c4a9275d6c8|common name:zebrafish|sample name:38908760 41ed 11e7 b6fe 3c4a9275d6c8|subject id:4765STDY6934955,,,,,,,,,Illumina HiSeq 2500 paired end sequencing,SC EXP 22829 8#10,DN488439N:B2,Illumina sequencing of library DN488439N:B2  constructed from sample accession ERS1806670 for study accession ERP023267.  This is part of an Illumina multiplexed sequencing run 22829 8.  This submission includes reads tagged with the sequence TAGCTTGT.,RNA seq dUTP eukaryotic,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,ERP023267,Illumina HiSeq 2500 paired end sequencing,ENA FIRST PUBLIC:2019 07 22|ENA LAST UPDATE:2019 07 22,22829_8#10.cram,cram,911744850.0,6078299.0,SC RUN 22829 8#10,0:75 1:75,A:237470738;C:216053868;G:216099189;T:240450404;N:1670651,75,75,,,237470738,216053868,216099189,240450404,1670651,ERX3468739,ERS1806670,ERA2044656,European Nucleotide Archive,Wellcome Sanger Institute,2,0.95716,0.96092,0.14455,0.14187,0.68686,0.68954,0.50635,0.50911,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,United Kingdom,2017-05-25,Larval,Larval,Whole Organism,All anatomical structures
7937,ERR3446739,ERX3468738,ERS1806671,ERP023267,PRJEB21045,RNASeq of zebrafish metabolic mutants,RNASeq_of_zebrafish_metabolic_mutants-sc-4765,Transcriptome Analysis,RNAseq data was generated from one or more alleles of zebrafish metabolic mutants for transcriptome analysis.,ENA FIRST PUBLIC:2019 07 22|ENA LAST UPDATE:2017 05 25|ArrayExpress:E ERAD 683,,,zmp ph279 C12,SAMEA104147653,Wellcome Sanger Institute,ArrayExpress DEVELOPMENTAL STAGE:Larval:Protruding mouth   ZFS:0000035|ArrayExpress ORGANISM PART:Whole organism|ArrayExpress SPECIES:Danio rerio|ArrayExpress STRAIN OR LINE:mixed|ENA first public:2019 06 29|ENA last update:2017 06 29|External Id:SAMEA104147653|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2019 06 29T04:02:25Z|INSDC last update:2017 06 29T14:54:27Z|INSDC status:public|Submitter Id:3886c360 41ed 11e7 b6fe 3c4a9275d6c8|common name:zebrafish|sample name:3886c360 41ed 11e7 b6fe 3c4a9275d6c8|subject id:4765STDY6934954,,,,,,,,,Illumina HiSeq 2500 paired end sequencing,SC EXP 22829 8#9,DN488439N:A2,Illumina sequencing of library DN488439N:A2  constructed from sample accession ERS1806671 for study accession ERP023267.  This is part of an Illumina multiplexed sequencing run 22829 8.  This submission includes reads tagged with the sequence GATCAGCG.,RNA seq dUTP eukaryotic,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,ERP023267,Illumina HiSeq 2500 paired end sequencing,ENA FIRST PUBLIC:2019 07 22|ENA LAST UPDATE:2019 07 22,22829_8#9.cram,cram,928894050.0,6192627.0,SC RUN 22829 8#9,0:75 1:75,A:243727946;C:218420567;G:218359552;T:246701233;N:1684752,75,75,,,243727946,218420567,218359552,246701233,1684752,ERX3468738,ERS1806671,ERA2044656,European Nucleotide Archive,Wellcome Sanger Institute,2,0.9532,0.95745,0.14809,0.14652,0.68627,0.68911,0.5112,0.51053,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,United Kingdom,2017-05-25,Larval,Larval,Whole Organism,All anatomical structures
7938,ERR3446738,ERX3468737,ERS1806669,ERP023267,PRJEB21045,RNASeq of zebrafish metabolic mutants,RNASeq_of_zebrafish_metabolic_mutants-sc-4765,Transcriptome Analysis,RNAseq data was generated from one or more alleles of zebrafish metabolic mutants for transcriptome analysis.,ENA FIRST PUBLIC:2019 07 22|ENA LAST UPDATE:2017 05 25|ArrayExpress:E ERAD 683,,,zmp ph279 B5,SAMEA104147651,Wellcome Sanger Institute,ArrayExpress DEVELOPMENTAL STAGE:Larval:Protruding mouth   ZFS:0000035|ArrayExpress ORGANISM PART:Whole organism|ArrayExpress SPECIES:Danio rerio|ArrayExpress STRAIN OR LINE:mixed|ENA first public:2019 06 29|ENA last update:2017 06 29|External Id:SAMEA104147651|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2019 06 29T04:02:25Z|INSDC last update:2017 06 29T14:54:27Z|INSDC status:public|Submitter Id:387c1500 41ed 11e7 b6fe 3c4a9275d6c8|common name:zebrafish|sample name:387c1500 41ed 11e7 b6fe 3c4a9275d6c8|subject id:4765STDY6934953,,,,,,,,,Illumina HiSeq 2500 paired end sequencing,SC EXP 22829 8#8,DN488439N:H1,Illumina sequencing of library DN488439N:H1  constructed from sample accession ERS1806669 for study accession ERP023267.  This is part of an Illumina multiplexed sequencing run 22829 8.  This submission includes reads tagged with the sequence ACTTGATG.,RNA seq dUTP eukaryotic,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,ERP023267,Illumina HiSeq 2500 paired end sequencing,ENA FIRST PUBLIC:2019 07 22|ENA LAST UPDATE:2019 07 22,22829_8#8.cram,cram,930119400.0,6200796.0,SC RUN 22829 8#8,0:75 1:75,A:242979598;C:220045143;G:219448143;T:245941628;N:1704888,75,75,,,242979598,220045143,219448143,245941628,1704888,ERX3468737,ERS1806669,ERA2044656,European Nucleotide Archive,Wellcome Sanger Institute,2,0.95653,0.95946,0.14247,0.14149,0.6842,0.68738,0.4957,0.49737,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,United Kingdom,2017-05-25,Larval,Larval,Whole Organism,All anatomical structures
7939,ERR3446737,ERX3468736,ERS1806667,ERP023267,PRJEB21045,RNASeq of zebrafish metabolic mutants,RNASeq_of_zebrafish_metabolic_mutants-sc-4765,Transcriptome Analysis,RNAseq data was generated from one or more alleles of zebrafish metabolic mutants for transcriptome analysis.,ENA FIRST PUBLIC:2019 07 22|ENA LAST UPDATE:2017 05 25|ArrayExpress:E ERAD 683,,,zmp ph279 D2,SAMEA104147649,Wellcome Sanger Institute,ArrayExpress DEVELOPMENTAL STAGE:Larval:Protruding mouth   ZFS:0000035|ArrayExpress ORGANISM PART:Whole organism|ArrayExpress SPECIES:Danio rerio|ArrayExpress STRAIN OR LINE:mixed|ENA first public:2019 06 29|ENA last update:2017 06 29|External Id:SAMEA104147649|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2019 06 29T04:02:25Z|INSDC last update:2017 06 29T14:54:27Z|INSDC status:public|Submitter Id:38729f20 41ed 11e7 b6fe 3c4a9275d6c8|common name:zebrafish|sample name:38729f20 41ed 11e7 b6fe 3c4a9275d6c8|subject id:4765STDY6934952,,,,,,,,,Illumina HiSeq 2500 paired end sequencing,SC EXP 22829 8#7,DN488439N:G1,Illumina sequencing of library DN488439N:G1  constructed from sample accession ERS1806667 for study accession ERP023267.  This is part of an Illumina multiplexed sequencing run 22829 8.  This submission includes reads tagged with the sequence CAGATCTG.,RNA seq dUTP eukaryotic,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,ERP023267,Illumina HiSeq 2500 paired end sequencing,ENA FIRST PUBLIC:2019 07 22|ENA LAST UPDATE:2019 07 22,22829_8#7.cram,cram,992301900.0,6615346.0,SC RUN 22829 8#7,0:75 1:75,A:259898582;C:233807624;G:233974368;T:262804375;N:1816951,75,75,,,259898582,233807624,233974368,262804375,1816951,ERX3468736,ERS1806667,ERA2044656,European Nucleotide Archive,Wellcome Sanger Institute,2,0.95492,0.95925,0.14,0.13935,0.68112,0.68312,0.50181,0.49932,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,United Kingdom,2017-05-25,Larval,Larval,Whole Organism,All anatomical structures
7940,ERR3446736,ERX3468735,ERS1806668,ERP023267,PRJEB21045,RNASeq of zebrafish metabolic mutants,RNASeq_of_zebrafish_metabolic_mutants-sc-4765,Transcriptome Analysis,RNAseq data was generated from one or more alleles of zebrafish metabolic mutants for transcriptome analysis.,ENA FIRST PUBLIC:2019 07 22|ENA LAST UPDATE:2017 05 25|ArrayExpress:E ERAD 683,,,zmp ph279 F2,SAMEA104147650,Wellcome Sanger Institute,ArrayExpress DEVELOPMENTAL STAGE:Larval:Protruding mouth   ZFS:0000035|ArrayExpress ORGANISM PART:Whole organism|ArrayExpress SPECIES:Danio rerio|ArrayExpress STRAIN OR LINE:mixed|ENA first public:2019 06 29|ENA last update:2017 06 29|External Id:SAMEA104147650|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2019 06 29T04:02:25Z|INSDC last update:2017 06 29T14:54:27Z|INSDC status:public|Submitter Id:385e05b0 41ed 11e7 b6fe 3c4a9275d6c8|common name:zebrafish|sample name:385e05b0 41ed 11e7 b6fe 3c4a9275d6c8|subject id:4765STDY6934951,,,,,,,,,Illumina HiSeq 2500 paired end sequencing,SC EXP 22829 8#6,DN488439N:F1,Illumina sequencing of library DN488439N:F1  constructed from sample accession ERS1806668 for study accession ERP023267.  This is part of an Illumina multiplexed sequencing run 22829 8.  This submission includes reads tagged with the sequence GCCAATGT.,RNA seq dUTP eukaryotic,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,ERP023267,Illumina HiSeq 2500 paired end sequencing,ENA FIRST PUBLIC:2019 07 22|ENA LAST UPDATE:2019 07 22,22829_8#6.cram,cram,875586600.0,5837244.0,SC RUN 22829 8#6,0:75 1:75,A:231423685;C:204253857;G:204201395;T:234093029;N:1614634,75,75,,,231423685,204253857,204201395,234093029,1614634,ERX3468735,ERS1806668,ERA2044656,European Nucleotide Archive,Wellcome Sanger Institute,2,0.95428,0.95811,0.15334,0.15296,0.67905,0.68256,0.50447,0.50735,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,United Kingdom,2017-05-25,Larval,Larval,Whole Organism,All anatomical structures
7941,ERR3446735,ERX3468734,ERS1806666,ERP023267,PRJEB21045,RNASeq of zebrafish metabolic mutants,RNASeq_of_zebrafish_metabolic_mutants-sc-4765,Transcriptome Analysis,RNAseq data was generated from one or more alleles of zebrafish metabolic mutants for transcriptome analysis.,ENA FIRST PUBLIC:2019 07 22|ENA LAST UPDATE:2017 05 25|ArrayExpress:E ERAD 683,,,zmp ph279 A4,SAMEA104147648,Wellcome Sanger Institute,ArrayExpress DEVELOPMENTAL STAGE:Larval:Protruding mouth   ZFS:0000035|ArrayExpress ORGANISM PART:Whole organism|ArrayExpress SPECIES:Danio rerio|ArrayExpress STRAIN OR LINE:mixed|ENA first public:2019 06 29|ENA last update:2017 06 29|External Id:SAMEA104147648|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2019 06 29T04:02:25Z|INSDC last update:2017 06 29T14:54:27Z|INSDC status:public|Submitter Id:384833c0 41ed 11e7 b6fe 3c4a9275d6c8|common name:zebrafish|sample name:384833c0 41ed 11e7 b6fe 3c4a9275d6c8|subject id:4765STDY6934950,,,,,,,,,Illumina HiSeq 2500 paired end sequencing,SC EXP 22829 8#5,DN488439N:E1,Illumina sequencing of library DN488439N:E1  constructed from sample accession ERS1806666 for study accession ERP023267.  This is part of an Illumina multiplexed sequencing run 22829 8.  This submission includes reads tagged with the sequence ACAGTGGT.,RNA seq dUTP eukaryotic,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,ERP023267,Illumina HiSeq 2500 paired end sequencing,ENA FIRST PUBLIC:2019 07 22|ENA LAST UPDATE:2019 07 22,22829_8#5.cram,cram,835599450.0,5570663.0,SC RUN 22829 8#5,0:75 1:75,A:221022844;C:194609457;G:194728372;T:223667754;N:1571023,75,75,,,221022844,194609457,194728372,223667754,1571023,ERX3468734,ERS1806666,ERA2044656,European Nucleotide Archive,Wellcome Sanger Institute,2,0.95389,0.95704,0.16434,0.16289,0.68363,0.68669,0.50299,0.51388,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,United Kingdom,2017-05-25,Larval,Larval,Whole Organism,All anatomical structures
7942,ERR3446734,ERX3468733,ERS1806664,ERP023267,PRJEB21045,RNASeq of zebrafish metabolic mutants,RNASeq_of_zebrafish_metabolic_mutants-sc-4765,Transcriptome Analysis,RNAseq data was generated from one or more alleles of zebrafish metabolic mutants for transcriptome analysis.,ENA FIRST PUBLIC:2019 07 22|ENA LAST UPDATE:2017 05 25|ArrayExpress:E ERAD 683,,,zmp ph279 F1,SAMEA104147646,Wellcome Sanger Institute,ArrayExpress DEVELOPMENTAL STAGE:Larval:Protruding mouth   ZFS:0000035|ArrayExpress ORGANISM PART:Whole organism|ArrayExpress SPECIES:Danio rerio|ArrayExpress STRAIN OR LINE:mixed|ENA first public:2019 06 29|ENA last update:2017 06 29|External Id:SAMEA104147646|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2019 06 29T04:02:25Z|INSDC last update:2017 06 29T14:54:26Z|INSDC status:public|Submitter Id:3832aff0 41ed 11e7 b6fe 3c4a9275d6c8|common name:zebrafish|sample name:3832aff0 41ed 11e7 b6fe 3c4a9275d6c8|subject id:4765STDY6934949,,,,,,,,,Illumina HiSeq 2500 paired end sequencing,SC EXP 22829 8#4,DN488439N:D1,Illumina sequencing of library DN488439N:D1  constructed from sample accession ERS1806664 for study accession ERP023267.  This is part of an Illumina multiplexed sequencing run 22829 8.  This submission includes reads tagged with the sequence TGACCACT.,RNA seq dUTP eukaryotic,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,ERP023267,Illumina HiSeq 2500 paired end sequencing,ENA FIRST PUBLIC:2019 07 22|ENA LAST UPDATE:2019 07 22,22829_8#4.cram,cram,891655350.0,5944369.0,SC RUN 22829 8#4,0:75 1:75,A:236505554;C:207018655;G:207193827;T:239299452;N:1637862,75,75,,,236505554,207018655,207193827,239299452,1637862,ERX3468733,ERS1806664,ERA2044656,European Nucleotide Archive,Wellcome Sanger Institute,2,0.95251,0.95547,0.16653,0.16502,0.68822,0.68984,0.51935,0.51421,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,United Kingdom,2017-05-25,Larval,Larval,Whole Organism,All anatomical structures
7943,ERR3446733,ERX3468732,ERS1806665,ERP023267,PRJEB21045,RNASeq of zebrafish metabolic mutants,RNASeq_of_zebrafish_metabolic_mutants-sc-4765,Transcriptome Analysis,RNAseq data was generated from one or more alleles of zebrafish metabolic mutants for transcriptome analysis.,ENA FIRST PUBLIC:2019 07 22|ENA LAST UPDATE:2017 05 25|ArrayExpress:E ERAD 683,,,zmp ph279 C2,SAMEA104147647,Wellcome Sanger Institute,ArrayExpress DEVELOPMENTAL STAGE:Larval:Protruding mouth   ZFS:0000035|ArrayExpress ORGANISM PART:Whole organism|ArrayExpress SPECIES:Danio rerio|ArrayExpress STRAIN OR LINE:mixed|ENA first public:2019 06 29|ENA last update:2017 06 29|External Id:SAMEA104147647|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2019 06 29T04:02:25Z|INSDC last update:2017 06 29T14:54:26Z|INSDC status:public|Submitter Id:38138f30 41ed 11e7 b6fe 3c4a9275d6c8|common name:zebrafish|sample name:38138f30 41ed 11e7 b6fe 3c4a9275d6c8|subject id:4765STDY6934948,,,,,,,,,Illumina HiSeq 2500 paired end sequencing,SC EXP 22829 8#3,DN488439N:C1,Illumina sequencing of library DN488439N:C1  constructed from sample accession ERS1806665 for study accession ERP023267.  This is part of an Illumina multiplexed sequencing run 22829 8.  This submission includes reads tagged with the sequence TTAGGCAT.,RNA seq dUTP eukaryotic,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,ERP023267,Illumina HiSeq 2500 paired end sequencing,ENA FIRST PUBLIC:2019 07 22|ENA LAST UPDATE:2019 07 22,22829_8#3.cram,cram,888434250.0,5922895.0,SC RUN 22829 8#3,0:75 1:75,A:233268153;C:208683895;G:208766742;T:236094656;N:1620804,75,75,,,233268153,208683895,208766742,236094656,1620804,ERX3468732,ERS1806665,ERA2044656,European Nucleotide Archive,Wellcome Sanger Institute,2,0.95631,0.96066,0.14611,0.14537,0.68422,0.6854,0.50209,0.50377,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,United Kingdom,2017-05-25,Larval,Larval,Whole Organism,All anatomical structures
7944,ERR3446732,ERX3468731,ERS1806663,ERP023267,PRJEB21045,RNASeq of zebrafish metabolic mutants,RNASeq_of_zebrafish_metabolic_mutants-sc-4765,Transcriptome Analysis,RNAseq data was generated from one or more alleles of zebrafish metabolic mutants for transcriptome analysis.,ENA FIRST PUBLIC:2019 07 22|ENA LAST UPDATE:2017 05 25|ArrayExpress:E ERAD 683,,,zmp ph279 B3,SAMEA104147645,Wellcome Sanger Institute,ArrayExpress DEVELOPMENTAL STAGE:Larval:Protruding mouth   ZFS:0000035|ArrayExpress ORGANISM PART:Whole organism|ArrayExpress SPECIES:Danio rerio|ArrayExpress STRAIN OR LINE:mixed|ENA first public:2019 06 29|ENA last update:2017 06 29|External Id:SAMEA104147645|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2019 06 29T04:02:25Z|INSDC last update:2017 06 29T14:54:26Z|INSDC status:public|Submitter Id:37fdbd40 41ed 11e7 b6fe 3c4a9275d6c8|common name:zebrafish|sample name:37fdbd40 41ed 11e7 b6fe 3c4a9275d6c8|subject id:4765STDY6934947,,,,,,,,,Illumina HiSeq 2500 paired end sequencing,SC EXP 22829 8#2,DN488439N:B1,Illumina sequencing of library DN488439N:B1  constructed from sample accession ERS1806663 for study accession ERP023267.  This is part of an Illumina multiplexed sequencing run 22829 8.  This submission includes reads tagged with the sequence CGATGTTT.,RNA seq dUTP eukaryotic,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,ERP023267,Illumina HiSeq 2500 paired end sequencing,ENA FIRST PUBLIC:2019 07 22|ENA LAST UPDATE:2019 07 22,22829_8#2.cram,cram,883215600.0,5888104.0,SC RUN 22829 8#2,0:75 1:75,A:231296783;C:208055844;G:208135446;T:234080007;N:1647520,75,75,,,231296783,208055844,208135446,234080007,1647520,ERX3468731,ERS1806663,ERA2044656,European Nucleotide Archive,Wellcome Sanger Institute,2,0.95417,0.95779,0.14224,0.14158,0.67945,0.68178,0.49376,0.49496,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,United Kingdom,2017-05-25,Larval,Larval,Whole Organism,All anatomical structures
7945,ERR3446731,ERX3468730,ERS1806662,ERP023267,PRJEB21045,RNASeq of zebrafish metabolic mutants,RNASeq_of_zebrafish_metabolic_mutants-sc-4765,Transcriptome Analysis,RNAseq data was generated from one or more alleles of zebrafish metabolic mutants for transcriptome analysis.,ENA FIRST PUBLIC:2019 07 22|ENA LAST UPDATE:2017 05 25|ArrayExpress:E ERAD 683,,,zmp ph279 E4,SAMEA104147644,Wellcome Sanger Institute,ArrayExpress DEVELOPMENTAL STAGE:Larval:Protruding mouth   ZFS:0000035|ArrayExpress ORGANISM PART:Whole organism|ArrayExpress SPECIES:Danio rerio|ArrayExpress STRAIN OR LINE:mixed|ENA first public:2019 06 29|ENA last update:2017 06 29|External Id:SAMEA104147644|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2019 06 29T04:02:25Z|INSDC last update:2017 06 29T14:54:26Z|INSDC status:public|Submitter Id:37e37e80 41ed 11e7 b6fe 3c4a9275d6c8|common name:zebrafish|sample name:37e37e80 41ed 11e7 b6fe 3c4a9275d6c8|subject id:4765STDY6934946,,,,,,,,,Illumina HiSeq 2500 paired end sequencing,SC EXP 22829 8#1,DN488439N:A1,Illumina sequencing of library DN488439N:A1  constructed from sample accession ERS1806662 for study accession ERP023267.  This is part of an Illumina multiplexed sequencing run 22829 8.  This submission includes reads tagged with the sequence ATCACGTT.,RNA seq dUTP eukaryotic,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,ERP023267,Illumina HiSeq 2500 paired end sequencing,ENA FIRST PUBLIC:2019 07 22|ENA LAST UPDATE:2019 07 22,22829_8#1.cram,cram,832221450.0,5548143.0,SC RUN 22829 8#1,0:75 1:75,A:218233303;C:195802305;G:195652594;T:221003769;N:1529479,75,75,,,218233303,195802305,195652594,221003769,1529479,ERX3468730,ERS1806662,ERA2044656,European Nucleotide Archive,Wellcome Sanger Institute,2,0.95539,0.95958,0.13422,0.13299,0.68631,0.68828,0.49563,0.49505,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,United Kingdom,2017-05-25,Larval,Larval,Whole Organism,All anatomical structures
9816,ERR3957806,ERX3965610,ERS4355893,ERP120207,PRJEB36940,RNA seq of whole tissue of 3 dpf atp6v1e1b deficient zebrafish larvae and wild type controls,E-MTAB-8824,Transcriptome Analysis,Cutis laxa CL syndromes are a heterogenous group of connective tissue disorders that share a loose  redundant skin as a common clinical feature. The systemic features vary among the different subtypes. CL is caused by mutations in genes encoding for components of the extracellular matrix FBLN4  FBLN5  LTBP4 and ELN  encoding for elastin modifying enzymes ATP7A or encoding for components that influence cellular trafficking and metabolism ATP6V1E1  ATP6V1A  ATP6V0A2  ALDH18A1  RIN2  GORAB  PYCR1 and SLC2A10. ATP6V1E1–related CL cause loose redundant skin folds  variable mental disability  typical facial characteristics  lipodystrophy  hypotonia  and cardiopulmonary involvement including pneumothorax  hypertrophic cardiomyopathy and aortic root dilatation. The intent of this study is to investigate which genes are up  or downregulated in atp6v1e1b deficient zebrafish larvae compared to wild type controls. Via transcriptome analysis  we want to study the pathogenic mechanism of ATP6V1E1 induced CL syndrome. We use a zebrafish line with viral insertion in the five primeUTR of atp6v1e1b  disrupting transcription atp6v1e1bhi577aTg/+  from the Zebrafish International Research Center ZIRC and we use a line harboring a two base pair insertion followed by a three base pair deletion in exon 5 of atp6v1e1b  c.334insGG; c.337 340delCGG  predicted to result in p.R111WfsX2 atp6v1e1bcmg78/+ which we created ourselves by CRISPR Cas9 mutagenesis.   Overview of the experimental work flow:   Sample collection: pool of 10 zebrafish larvae of 3 dpf/genotype in RNA later   RNA extraction: TRIzol® Reagent RNeasy mini kit Qiagen according to manufacturer's instructions   RNA integrity: 2100 Bioanalyzer Agilent   Sequencing library: TruSeq® Stranded mRNA Library Prep Illumina  San Diego  California  United States supplemented with TruSeq® RNA Single Indexes Set A Illumina   Sequencing: HiSeq 3000 sequencer Illumina   paired end 150 bp   sequencing facility of the Center of Medical Genetics Ghent   alignement to zebrafish GRCz10 reference genome to generate bam files    RNA seq pipeline was used that was published by the nf core community. This pipeline was executed using the Nextflow engine for computational workflows and comprises several processing steps. QC analysis of the RNA seq data was performed with FastQC and MultiQC. TrimGalore was used to remove adapter contamination and to trim low quality regions. Duplicate reads were identified with MarkDuplicates. Subsequently  all cleaned and trimmed reads that passed QC were aligned to GRCz10 using STAR aligner. Gene counts were computed using the featureCounts package. Differential expression analysis subsequently was performed on these gene counts using DESeq2. Differentially expressed genes were identified using a fold change cut off >1 and FDR=0.05. Finally  GO enrichment & pathway analysis were performed on differentially expressed gene sets using the Generally Applicable Gene set Enrichment for Pathway Analysis GAGE algorithm.,ENA FIRST PUBLIC:2021 01 29|ENA LAST UPDATE:2020 02 26,,Protocols: Whole zebrafish larvae at 3 dpf were genotyped before collection in RNA later. Total RNA was isolated from whole zebrafish larvae at 3 dpf from atp6v1e1bcmg78zebrafish and atp6v1e1bhi577aTg zebrafish together with their respective controls using TRIzol® Reagent followed by a purification with the RNeasy mini kit Qiagen according to manufacturer's instructions. RNA integrity was checked by 2100 Bioanalyzer Agilent. 10 zebrafish larvae of each genotype were pooled in 1 sample to obtain sufficient heterogeneity amongst samples Sequencing library was prepared according to the manufacturer's instructions of the TruSeq® Stranded mRNA Library Prep Illumina  San Diego  California  United States supplemented with TruSeq® RNA Single Indexes Set A Illumina.,atp6v1e1b hi577aTg/hi577aTg 3,SAMEA6591599,"Center for Medical Genetics Ghent, Ghent University Hospital, Ghent, Belgium Department of biomolecular medicine, Ghent University",ENA FIRST PUBLIC:2020 08 03T04:04:15Z|ENA LAST UPDATE:2020 02 26T13:29:54Z|External Id:SAMEA6591599|INSDC center name:Center for Medical Genetics Ghent  Ghent University Hospital  Ghent  Belgium Department of biomolecular medicine  Ghent University|INSDC first public:2020 08 03T04:04:15Z|INSDC last update:2020 02 26T13:29:54Z|INSDC status:public|Submitter Id:E MTAB 8824:atp6v1e1b hi577aTg/hi577aTg 3|age:3|broker name:ArrayExpress|common name:zebrafish|developmental stage:larval stage|disease:Autosomal recessive cutis laxa type 2A|disease staging:before the gross morphological phenotype becomes apparent|genetic modification:insertion|genotype:atp6v1e1b hi577aTg/hi577aTg|individual:pool of 10 larvae|organism part:whole organism|phenotype:atp6v1e1b deletion|replicate:biological replicate|sample name:E MTAB 8824:atp6v1e1b hi577aTg/hi577aTg 3|scientific name:Danio rerio|sex:male|strain:AB,,,,,,,,,Illumina HiSeq 3000 paired end sequencing; RNA seq of whole tissue of 3 dpf atp6v1e1b deficient zebrafish larvae and wild type controls,E MTAB 8824:atp6v1e1b hi577aTg/hi577aTg 3 p,atp6v1e1b hi577aTg/hi577aTg 3 p,RNA seq of whole tissue of 3 dpf atp6v1e1b deficient zebrafish larvae and wild type controls,Whole zebrafish larvae at 3 dpf were genotyped before collection in RNA later. Total RNA was isolated from whole zebrafish larvae at 3 dpf from atp6v1e1bcmg78zebrafish and atp6v1e1bhi577aTg zebrafish together with their respective controls using TRIzol® Reagent followed by a purification with the RNeasy mini kit Qiagen according to manufacturer's instructions. RNA integrity was checked by 2100 Bioanalyzer Agilent. 10 zebrafish larvae of each genotype were pooled in 1 sample to obtain sufficient heterogeneity amongst samples Sequencing library was prepared according to the manufacturer's instructions of the TruSeq® Stranded mRNA Library Prep Illumina  San Diego  California  United States supplemented with TruSeq® RNA Single Indexes Set A Illumina.,Experimental Factor: genotype:atp6v1e1b hi577aTg/hi577aTg|Experimental Factor: disease:Autosomal recessive cutis laxa type 2A,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina HiSeq 3000,,ERP120207,Illumina HiSeq 3000 paired end sequencing; RNA seq of whole tissue of 3 dpf atp6v1e1b deficient zebrafish larvae and wild type controls,ENA FIRST PUBLIC:2021 01 29|ENA LAST UPDATE:2020 02 26,atp6v1e1b_hi577aTghi577aTg_3_R1.fastq.gz atp6v1e1b_hi577aTghi577aTg_3_R2.fastq.gz,fastq fastq,9237478586.0,31595868.0,E MTAB 8824:atp6v1e1b hi577aTghi577aTg 3 R,0:146.21 1:146.15,A:2400784505;C:2208559586;G:2203025457;T:2422549514;N:2559524,146,146,,,2400784505,2208559586,2203025457,2422549514,2559524,ERX3965610,ERS4355893,ERA2393549,"Center for Medical Genetics Ghent, Ghent University Hospital, Ghent, Belgium Department of biomolecular medicine, Ghent University|European Nucleotide Archive","Center for Medical Genetics Ghent, Ghent University Hospital, Ghent, Belgium Department of biomolecular medicine, Ghent University|European Nucleotide Archive",2,0.95009,0.95029,0.06098,0.05862,0.66736,0.67614,0.46036,0.46726,140,140,B,B,biological fallback assumption,illumina,hiseq_era,unknown,poly_a,trueseq,bulk,unknown,unknown,,Belgium,2020-02-26,Larval,Larval,Whole Organism,All anatomical structures
9817,ERR3957805,ERX3965609,ERS4355892,ERP120207,PRJEB36940,RNA seq of whole tissue of 3 dpf atp6v1e1b deficient zebrafish larvae and wild type controls,E-MTAB-8824,Transcriptome Analysis,Cutis laxa CL syndromes are a heterogenous group of connective tissue disorders that share a loose  redundant skin as a common clinical feature. The systemic features vary among the different subtypes. CL is caused by mutations in genes encoding for components of the extracellular matrix FBLN4  FBLN5  LTBP4 and ELN  encoding for elastin modifying enzymes ATP7A or encoding for components that influence cellular trafficking and metabolism ATP6V1E1  ATP6V1A  ATP6V0A2  ALDH18A1  RIN2  GORAB  PYCR1 and SLC2A10. ATP6V1E1–related CL cause loose redundant skin folds  variable mental disability  typical facial characteristics  lipodystrophy  hypotonia  and cardiopulmonary involvement including pneumothorax  hypertrophic cardiomyopathy and aortic root dilatation. The intent of this study is to investigate which genes are up  or downregulated in atp6v1e1b deficient zebrafish larvae compared to wild type controls. Via transcriptome analysis  we want to study the pathogenic mechanism of ATP6V1E1 induced CL syndrome. We use a zebrafish line with viral insertion in the five primeUTR of atp6v1e1b  disrupting transcription atp6v1e1bhi577aTg/+  from the Zebrafish International Research Center ZIRC and we use a line harboring a two base pair insertion followed by a three base pair deletion in exon 5 of atp6v1e1b  c.334insGG; c.337 340delCGG  predicted to result in p.R111WfsX2 atp6v1e1bcmg78/+ which we created ourselves by CRISPR Cas9 mutagenesis.   Overview of the experimental work flow:   Sample collection: pool of 10 zebrafish larvae of 3 dpf/genotype in RNA later   RNA extraction: TRIzol® Reagent RNeasy mini kit Qiagen according to manufacturer's instructions   RNA integrity: 2100 Bioanalyzer Agilent   Sequencing library: TruSeq® Stranded mRNA Library Prep Illumina  San Diego  California  United States supplemented with TruSeq® RNA Single Indexes Set A Illumina   Sequencing: HiSeq 3000 sequencer Illumina   paired end 150 bp   sequencing facility of the Center of Medical Genetics Ghent   alignement to zebrafish GRCz10 reference genome to generate bam files    RNA seq pipeline was used that was published by the nf core community. This pipeline was executed using the Nextflow engine for computational workflows and comprises several processing steps. QC analysis of the RNA seq data was performed with FastQC and MultiQC. TrimGalore was used to remove adapter contamination and to trim low quality regions. Duplicate reads were identified with MarkDuplicates. Subsequently  all cleaned and trimmed reads that passed QC were aligned to GRCz10 using STAR aligner. Gene counts were computed using the featureCounts package. Differential expression analysis subsequently was performed on these gene counts using DESeq2. Differentially expressed genes were identified using a fold change cut off >1 and FDR=0.05. Finally  GO enrichment & pathway analysis were performed on differentially expressed gene sets using the Generally Applicable Gene set Enrichment for Pathway Analysis GAGE algorithm.,ENA FIRST PUBLIC:2021 01 29|ENA LAST UPDATE:2020 02 26,,Protocols: Whole zebrafish larvae at 3 dpf were genotyped before collection in RNA later. Total RNA was isolated from whole zebrafish larvae at 3 dpf from atp6v1e1bcmg78zebrafish and atp6v1e1bhi577aTg zebrafish together with their respective controls using TRIzol® Reagent followed by a purification with the RNeasy mini kit Qiagen according to manufacturer's instructions. RNA integrity was checked by 2100 Bioanalyzer Agilent. 10 zebrafish larvae of each genotype were pooled in 1 sample to obtain sufficient heterogeneity amongst samples Sequencing library was prepared according to the manufacturer's instructions of the TruSeq® Stranded mRNA Library Prep Illumina  San Diego  California  United States supplemented with TruSeq® RNA Single Indexes Set A Illumina.,atp6v1e1b hi577aTg/hi577aTg 2,SAMEA6591598,"Center for Medical Genetics Ghent, Ghent University Hospital, Ghent, Belgium Department of biomolecular medicine, Ghent University",ENA FIRST PUBLIC:2020 08 03T04:04:15Z|ENA LAST UPDATE:2020 02 26T13:29:54Z|External Id:SAMEA6591598|INSDC center name:Center for Medical Genetics Ghent  Ghent University Hospital  Ghent  Belgium Department of biomolecular medicine  Ghent University|INSDC first public:2020 08 03T04:04:15Z|INSDC last update:2020 02 26T13:29:54Z|INSDC status:public|Submitter Id:E MTAB 8824:atp6v1e1b hi577aTg/hi577aTg 2|age:3|broker name:ArrayExpress|common name:zebrafish|developmental stage:larval stage|disease:Autosomal recessive cutis laxa type 2A|disease staging:before the gross morphological phenotype becomes apparent|genetic modification:insertion|genotype:atp6v1e1b hi577aTg/hi577aTg|individual:pool of 10 larvae|organism part:whole organism|phenotype:atp6v1e1b deletion|replicate:biological replicate|sample name:E MTAB 8824:atp6v1e1b hi577aTg/hi577aTg 2|scientific name:Danio rerio|sex:male|strain:AB,,,,,,,,,Illumina HiSeq 3000 paired end sequencing; RNA seq of whole tissue of 3 dpf atp6v1e1b deficient zebrafish larvae and wild type controls,E MTAB 8824:atp6v1e1b hi577aTg/hi577aTg 2 p,atp6v1e1b hi577aTg/hi577aTg 2 p,RNA seq of whole tissue of 3 dpf atp6v1e1b deficient zebrafish larvae and wild type controls,Whole zebrafish larvae at 3 dpf were genotyped before collection in RNA later. Total RNA was isolated from whole zebrafish larvae at 3 dpf from atp6v1e1bcmg78zebrafish and atp6v1e1bhi577aTg zebrafish together with their respective controls using TRIzol® Reagent followed by a purification with the RNeasy mini kit Qiagen according to manufacturer's instructions. RNA integrity was checked by 2100 Bioanalyzer Agilent. 10 zebrafish larvae of each genotype were pooled in 1 sample to obtain sufficient heterogeneity amongst samples Sequencing library was prepared according to the manufacturer's instructions of the TruSeq® Stranded mRNA Library Prep Illumina  San Diego  California  United States supplemented with TruSeq® RNA Single Indexes Set A Illumina.,Experimental Factor: genotype:atp6v1e1b hi577aTg/hi577aTg|Experimental Factor: disease:Autosomal recessive cutis laxa type 2A,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina HiSeq 3000,,ERP120207,Illumina HiSeq 3000 paired end sequencing; RNA seq of whole tissue of 3 dpf atp6v1e1b deficient zebrafish larvae and wild type controls,ENA FIRST PUBLIC:2021 01 29|ENA LAST UPDATE:2020 02 26,atp6v1e1b_hi577aTghi577aTg_2_R1.fastq.gz atp6v1e1b_hi577aTghi577aTg_2_R2.fastq.gz,fastq fastq,12062097051.0,41147017.0,E MTAB 8824:atp6v1e1b hi577aTghi577aTg 2 R,0:146.61 1:146.54,A:3154735338;C:2867420665;G:2850251799;T:3187999165;N:1690084,146,146,,,3154735338,2867420665,2850251799,3187999165,1690084,ERX3965609,ERS4355892,ERA2393549,"Center for Medical Genetics Ghent, Ghent University Hospital, Ghent, Belgium Department of biomolecular medicine, Ghent University|European Nucleotide Archive","Center for Medical Genetics Ghent, Ghent University Hospital, Ghent, Belgium Department of biomolecular medicine, Ghent University|European Nucleotide Archive",2,0.94863,0.94866,0.0678,0.06563,0.66421,0.67188,0.46715,0.45279,150,150,B,B,biological fallback assumption,illumina,hiseq_era,unknown,poly_a,trueseq,bulk,unknown,unknown,,Belgium,2020-02-26,Larval,Larval,Whole Organism,All anatomical structures
9818,ERR3957804,ERX3965608,ERS4355891,ERP120207,PRJEB36940,RNA seq of whole tissue of 3 dpf atp6v1e1b deficient zebrafish larvae and wild type controls,E-MTAB-8824,Transcriptome Analysis,Cutis laxa CL syndromes are a heterogenous group of connective tissue disorders that share a loose  redundant skin as a common clinical feature. The systemic features vary among the different subtypes. CL is caused by mutations in genes encoding for components of the extracellular matrix FBLN4  FBLN5  LTBP4 and ELN  encoding for elastin modifying enzymes ATP7A or encoding for components that influence cellular trafficking and metabolism ATP6V1E1  ATP6V1A  ATP6V0A2  ALDH18A1  RIN2  GORAB  PYCR1 and SLC2A10. ATP6V1E1–related CL cause loose redundant skin folds  variable mental disability  typical facial characteristics  lipodystrophy  hypotonia  and cardiopulmonary involvement including pneumothorax  hypertrophic cardiomyopathy and aortic root dilatation. The intent of this study is to investigate which genes are up  or downregulated in atp6v1e1b deficient zebrafish larvae compared to wild type controls. Via transcriptome analysis  we want to study the pathogenic mechanism of ATP6V1E1 induced CL syndrome. We use a zebrafish line with viral insertion in the five primeUTR of atp6v1e1b  disrupting transcription atp6v1e1bhi577aTg/+  from the Zebrafish International Research Center ZIRC and we use a line harboring a two base pair insertion followed by a three base pair deletion in exon 5 of atp6v1e1b  c.334insGG; c.337 340delCGG  predicted to result in p.R111WfsX2 atp6v1e1bcmg78/+ which we created ourselves by CRISPR Cas9 mutagenesis.   Overview of the experimental work flow:   Sample collection: pool of 10 zebrafish larvae of 3 dpf/genotype in RNA later   RNA extraction: TRIzol® Reagent RNeasy mini kit Qiagen according to manufacturer's instructions   RNA integrity: 2100 Bioanalyzer Agilent   Sequencing library: TruSeq® Stranded mRNA Library Prep Illumina  San Diego  California  United States supplemented with TruSeq® RNA Single Indexes Set A Illumina   Sequencing: HiSeq 3000 sequencer Illumina   paired end 150 bp   sequencing facility of the Center of Medical Genetics Ghent   alignement to zebrafish GRCz10 reference genome to generate bam files    RNA seq pipeline was used that was published by the nf core community. This pipeline was executed using the Nextflow engine for computational workflows and comprises several processing steps. QC analysis of the RNA seq data was performed with FastQC and MultiQC. TrimGalore was used to remove adapter contamination and to trim low quality regions. Duplicate reads were identified with MarkDuplicates. Subsequently  all cleaned and trimmed reads that passed QC were aligned to GRCz10 using STAR aligner. Gene counts were computed using the featureCounts package. Differential expression analysis subsequently was performed on these gene counts using DESeq2. Differentially expressed genes were identified using a fold change cut off >1 and FDR=0.05. Finally  GO enrichment & pathway analysis were performed on differentially expressed gene sets using the Generally Applicable Gene set Enrichment for Pathway Analysis GAGE algorithm.,ENA FIRST PUBLIC:2021 01 29|ENA LAST UPDATE:2020 02 26,,Protocols: Whole zebrafish larvae at 3 dpf were genotyped before collection in RNA later. Total RNA was isolated from whole zebrafish larvae at 3 dpf from atp6v1e1bcmg78zebrafish and atp6v1e1bhi577aTg zebrafish together with their respective controls using TRIzol® Reagent followed by a purification with the RNeasy mini kit Qiagen according to manufacturer's instructions. RNA integrity was checked by 2100 Bioanalyzer Agilent. 10 zebrafish larvae of each genotype were pooled in 1 sample to obtain sufficient heterogeneity amongst samples Sequencing library was prepared according to the manufacturer's instructions of the TruSeq® Stranded mRNA Library Prep Illumina  San Diego  California  United States supplemented with TruSeq® RNA Single Indexes Set A Illumina.,atp6v1e1b hi577aTg/hi577aTg 1,SAMEA6591597,"Center for Medical Genetics Ghent, Ghent University Hospital, Ghent, Belgium Department of biomolecular medicine, Ghent University",ENA FIRST PUBLIC:2020 08 03T04:04:15Z|ENA LAST UPDATE:2020 02 26T13:29:54Z|External Id:SAMEA6591597|INSDC center name:Center for Medical Genetics Ghent  Ghent University Hospital  Ghent  Belgium Department of biomolecular medicine  Ghent University|INSDC first public:2020 08 03T04:04:15Z|INSDC last update:2020 02 26T13:29:54Z|INSDC status:public|Submitter Id:E MTAB 8824:atp6v1e1b hi577aTg/hi577aTg 1|age:3|broker name:ArrayExpress|common name:zebrafish|developmental stage:larval stage|disease:Autosomal recessive cutis laxa type 2A|disease staging:before the gross morphological phenotype becomes apparent|genetic modification:insertion|genotype:atp6v1e1b hi577aTg/hi577aTg|individual:pool of 10 larvae|organism part:whole organism|phenotype:atp6v1e1b deletion|replicate:biological replicate|sample name:E MTAB 8824:atp6v1e1b hi577aTg/hi577aTg 1|scientific name:Danio rerio|sex:male|strain:AB,,,,,,,,,Illumina HiSeq 3000 paired end sequencing; RNA seq of whole tissue of 3 dpf atp6v1e1b deficient zebrafish larvae and wild type controls,E MTAB 8824:atp6v1e1b hi577aTg/hi577aTg 1 p,atp6v1e1b hi577aTg/hi577aTg 1 p,RNA seq of whole tissue of 3 dpf atp6v1e1b deficient zebrafish larvae and wild type controls,Whole zebrafish larvae at 3 dpf were genotyped before collection in RNA later. Total RNA was isolated from whole zebrafish larvae at 3 dpf from atp6v1e1bcmg78zebrafish and atp6v1e1bhi577aTg zebrafish together with their respective controls using TRIzol® Reagent followed by a purification with the RNeasy mini kit Qiagen according to manufacturer's instructions. RNA integrity was checked by 2100 Bioanalyzer Agilent. 10 zebrafish larvae of each genotype were pooled in 1 sample to obtain sufficient heterogeneity amongst samples Sequencing library was prepared according to the manufacturer's instructions of the TruSeq® Stranded mRNA Library Prep Illumina  San Diego  California  United States supplemented with TruSeq® RNA Single Indexes Set A Illumina.,Experimental Factor: genotype:atp6v1e1b hi577aTg/hi577aTg|Experimental Factor: disease:Autosomal recessive cutis laxa type 2A,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina HiSeq 3000,,ERP120207,Illumina HiSeq 3000 paired end sequencing; RNA seq of whole tissue of 3 dpf atp6v1e1b deficient zebrafish larvae and wild type controls,ENA FIRST PUBLIC:2021 01 29|ENA LAST UPDATE:2020 02 26,atp6v1e1b_hi577aTghi577aTg_1_R1.fastq.gz atp6v1e1b_hi577aTghi577aTg_1_R2.fastq.gz,fastq fastq,11019227010.0,37395805.0,E MTAB 8824:atp6v1e1b hi577aTghi577aTg 1 R,0:147.37 1:147.30,A:2899320822;C:2600085014;G:2589161285;T:2928994069;N:1665820,147,147,,,2899320822,2600085014,2589161285,2928994069,1665820,ERX3965608,ERS4355891,ERA2393549,"Center for Medical Genetics Ghent, Ghent University Hospital, Ghent, Belgium Department of biomolecular medicine, Ghent University|European Nucleotide Archive","Center for Medical Genetics Ghent, Ghent University Hospital, Ghent, Belgium Department of biomolecular medicine, Ghent University|European Nucleotide Archive",2,0.94632,0.94707,0.07358,0.07016,0.66543,0.67357,0.46855,0.47148,151,151,B,B,biological fallback assumption,illumina,hiseq_era,unknown,poly_a,trueseq,bulk,unknown,unknown,,Belgium,2020-02-26,Larval,Larval,Whole Organism,All anatomical structures
9819,ERR3957803,ERX3965607,ERS4355890,ERP120207,PRJEB36940,RNA seq of whole tissue of 3 dpf atp6v1e1b deficient zebrafish larvae and wild type controls,E-MTAB-8824,Transcriptome Analysis,Cutis laxa CL syndromes are a heterogenous group of connective tissue disorders that share a loose  redundant skin as a common clinical feature. The systemic features vary among the different subtypes. CL is caused by mutations in genes encoding for components of the extracellular matrix FBLN4  FBLN5  LTBP4 and ELN  encoding for elastin modifying enzymes ATP7A or encoding for components that influence cellular trafficking and metabolism ATP6V1E1  ATP6V1A  ATP6V0A2  ALDH18A1  RIN2  GORAB  PYCR1 and SLC2A10. ATP6V1E1–related CL cause loose redundant skin folds  variable mental disability  typical facial characteristics  lipodystrophy  hypotonia  and cardiopulmonary involvement including pneumothorax  hypertrophic cardiomyopathy and aortic root dilatation. The intent of this study is to investigate which genes are up  or downregulated in atp6v1e1b deficient zebrafish larvae compared to wild type controls. Via transcriptome analysis  we want to study the pathogenic mechanism of ATP6V1E1 induced CL syndrome. We use a zebrafish line with viral insertion in the five primeUTR of atp6v1e1b  disrupting transcription atp6v1e1bhi577aTg/+  from the Zebrafish International Research Center ZIRC and we use a line harboring a two base pair insertion followed by a three base pair deletion in exon 5 of atp6v1e1b  c.334insGG; c.337 340delCGG  predicted to result in p.R111WfsX2 atp6v1e1bcmg78/+ which we created ourselves by CRISPR Cas9 mutagenesis.   Overview of the experimental work flow:   Sample collection: pool of 10 zebrafish larvae of 3 dpf/genotype in RNA later   RNA extraction: TRIzol® Reagent RNeasy mini kit Qiagen according to manufacturer's instructions   RNA integrity: 2100 Bioanalyzer Agilent   Sequencing library: TruSeq® Stranded mRNA Library Prep Illumina  San Diego  California  United States supplemented with TruSeq® RNA Single Indexes Set A Illumina   Sequencing: HiSeq 3000 sequencer Illumina   paired end 150 bp   sequencing facility of the Center of Medical Genetics Ghent   alignement to zebrafish GRCz10 reference genome to generate bam files    RNA seq pipeline was used that was published by the nf core community. This pipeline was executed using the Nextflow engine for computational workflows and comprises several processing steps. QC analysis of the RNA seq data was performed with FastQC and MultiQC. TrimGalore was used to remove adapter contamination and to trim low quality regions. Duplicate reads were identified with MarkDuplicates. Subsequently  all cleaned and trimmed reads that passed QC were aligned to GRCz10 using STAR aligner. Gene counts were computed using the featureCounts package. Differential expression analysis subsequently was performed on these gene counts using DESeq2. Differentially expressed genes were identified using a fold change cut off >1 and FDR=0.05. Finally  GO enrichment & pathway analysis were performed on differentially expressed gene sets using the Generally Applicable Gene set Enrichment for Pathway Analysis GAGE algorithm.,ENA FIRST PUBLIC:2021 01 29|ENA LAST UPDATE:2020 02 26,,Protocols: Whole zebrafish larvae at 3 dpf were genotyped before collection in RNA later. Total RNA was isolated from whole zebrafish larvae at 3 dpf from atp6v1e1bcmg78zebrafish and atp6v1e1bhi577aTg zebrafish together with their respective controls using TRIzol® Reagent followed by a purification with the RNeasy mini kit Qiagen according to manufacturer's instructions. RNA integrity was checked by 2100 Bioanalyzer Agilent. 10 zebrafish larvae of each genotype were pooled in 1 sample to obtain sufficient heterogeneity amongst samples Sequencing library was prepared according to the manufacturer's instructions of the TruSeq® Stranded mRNA Library Prep Illumina  San Diego  California  United States supplemented with TruSeq® RNA Single Indexes Set A Illumina.,atp6v1e1b cmg78/cmg78 3,SAMEA6591596,"Center for Medical Genetics Ghent, Ghent University Hospital, Ghent, Belgium Department of biomolecular medicine, Ghent University",ENA FIRST PUBLIC:2020 08 03T04:04:15Z|ENA LAST UPDATE:2020 02 26T13:29:54Z|External Id:SAMEA6591596|INSDC center name:Center for Medical Genetics Ghent  Ghent University Hospital  Ghent  Belgium Department of biomolecular medicine  Ghent University|INSDC first public:2020 08 03T04:04:15Z|INSDC last update:2020 02 26T13:29:54Z|INSDC status:public|Submitter Id:E MTAB 8824:atp6v1e1b cmg78/cmg78 3|age:3|broker name:ArrayExpress|common name:zebrafish|developmental stage:larval stage|disease:Autosomal recessive cutis laxa type 2A|disease staging:before the gross morphological phenotype becomes apparent|genetic modification:gene knock out|genotype:atp6v1e1b cmg78/cmg78|individual:pool of 10 larvae|organism part:whole organism|phenotype:atp6v1e1b deletion|replicate:biological replicate|sample name:E MTAB 8824:atp6v1e1b cmg78/cmg78 3|scientific name:Danio rerio|sex:male|strain:AB,,,,,,,,,Illumina HiSeq 3000 paired end sequencing; RNA seq of whole tissue of 3 dpf atp6v1e1b deficient zebrafish larvae and wild type controls,E MTAB 8824:atp6v1e1b cmg78/cmg78 3 p,atp6v1e1b cmg78/cmg78 3 p,RNA seq of whole tissue of 3 dpf atp6v1e1b deficient zebrafish larvae and wild type controls,Whole zebrafish larvae at 3 dpf were genotyped before collection in RNA later. Total RNA was isolated from whole zebrafish larvae at 3 dpf from atp6v1e1bcmg78zebrafish and atp6v1e1bhi577aTg zebrafish together with their respective controls using TRIzol® Reagent followed by a purification with the RNeasy mini kit Qiagen according to manufacturer's instructions. RNA integrity was checked by 2100 Bioanalyzer Agilent. 10 zebrafish larvae of each genotype were pooled in 1 sample to obtain sufficient heterogeneity amongst samples Sequencing library was prepared according to the manufacturer's instructions of the TruSeq® Stranded mRNA Library Prep Illumina  San Diego  California  United States supplemented with TruSeq® RNA Single Indexes Set A Illumina.,Experimental Factor: genotype:atp6v1e1b cmg78/cmg78|Experimental Factor: disease:Autosomal recessive cutis laxa type 2A,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina HiSeq 3000,,ERP120207,Illumina HiSeq 3000 paired end sequencing; RNA seq of whole tissue of 3 dpf atp6v1e1b deficient zebrafish larvae and wild type controls,ENA FIRST PUBLIC:2021 01 29|ENA LAST UPDATE:2020 02 26,atp6v1e1b_cmg78cmg78_3_R1.fastq.gz atp6v1e1b_cmg78cmg78_3_R2.fastq.gz,fastq fastq,11394931126.0,38868508.0,E MTAB 8824:atp6v1e1b cmg78cmg78 3 R,0:146.62 1:146.54,A:2997347418;C:2691952662;G:2671891078;T:3032072506;N:1667462,146,146,,,2997347418,2691952662,2671891078,3032072506,1667462,ERX3965607,ERS4355890,ERA2393549,"Center for Medical Genetics Ghent, Ghent University Hospital, Ghent, Belgium Department of biomolecular medicine, Ghent University|European Nucleotide Archive","Center for Medical Genetics Ghent, Ghent University Hospital, Ghent, Belgium Department of biomolecular medicine, Ghent University|European Nucleotide Archive",2,0.94663,0.94787,0.07048,0.0672,0.66444,0.67105,0.46855,0.46335,151,150,B,B,biological fallback assumption,illumina,hiseq_era,unknown,poly_a,trueseq,bulk,unknown,unknown,,Belgium,2020-02-26,Larval,Larval,Whole Organism,All anatomical structures
9820,ERR3957802,ERX3965606,ERS4355889,ERP120207,PRJEB36940,RNA seq of whole tissue of 3 dpf atp6v1e1b deficient zebrafish larvae and wild type controls,E-MTAB-8824,Transcriptome Analysis,Cutis laxa CL syndromes are a heterogenous group of connective tissue disorders that share a loose  redundant skin as a common clinical feature. The systemic features vary among the different subtypes. CL is caused by mutations in genes encoding for components of the extracellular matrix FBLN4  FBLN5  LTBP4 and ELN  encoding for elastin modifying enzymes ATP7A or encoding for components that influence cellular trafficking and metabolism ATP6V1E1  ATP6V1A  ATP6V0A2  ALDH18A1  RIN2  GORAB  PYCR1 and SLC2A10. ATP6V1E1–related CL cause loose redundant skin folds  variable mental disability  typical facial characteristics  lipodystrophy  hypotonia  and cardiopulmonary involvement including pneumothorax  hypertrophic cardiomyopathy and aortic root dilatation. The intent of this study is to investigate which genes are up  or downregulated in atp6v1e1b deficient zebrafish larvae compared to wild type controls. Via transcriptome analysis  we want to study the pathogenic mechanism of ATP6V1E1 induced CL syndrome. We use a zebrafish line with viral insertion in the five primeUTR of atp6v1e1b  disrupting transcription atp6v1e1bhi577aTg/+  from the Zebrafish International Research Center ZIRC and we use a line harboring a two base pair insertion followed by a three base pair deletion in exon 5 of atp6v1e1b  c.334insGG; c.337 340delCGG  predicted to result in p.R111WfsX2 atp6v1e1bcmg78/+ which we created ourselves by CRISPR Cas9 mutagenesis.   Overview of the experimental work flow:   Sample collection: pool of 10 zebrafish larvae of 3 dpf/genotype in RNA later   RNA extraction: TRIzol® Reagent RNeasy mini kit Qiagen according to manufacturer's instructions   RNA integrity: 2100 Bioanalyzer Agilent   Sequencing library: TruSeq® Stranded mRNA Library Prep Illumina  San Diego  California  United States supplemented with TruSeq® RNA Single Indexes Set A Illumina   Sequencing: HiSeq 3000 sequencer Illumina   paired end 150 bp   sequencing facility of the Center of Medical Genetics Ghent   alignement to zebrafish GRCz10 reference genome to generate bam files    RNA seq pipeline was used that was published by the nf core community. This pipeline was executed using the Nextflow engine for computational workflows and comprises several processing steps. QC analysis of the RNA seq data was performed with FastQC and MultiQC. TrimGalore was used to remove adapter contamination and to trim low quality regions. Duplicate reads were identified with MarkDuplicates. Subsequently  all cleaned and trimmed reads that passed QC were aligned to GRCz10 using STAR aligner. Gene counts were computed using the featureCounts package. Differential expression analysis subsequently was performed on these gene counts using DESeq2. Differentially expressed genes were identified using a fold change cut off >1 and FDR=0.05. Finally  GO enrichment & pathway analysis were performed on differentially expressed gene sets using the Generally Applicable Gene set Enrichment for Pathway Analysis GAGE algorithm.,ENA FIRST PUBLIC:2021 01 29|ENA LAST UPDATE:2020 02 26,,Protocols: Whole zebrafish larvae at 3 dpf were genotyped before collection in RNA later. Total RNA was isolated from whole zebrafish larvae at 3 dpf from atp6v1e1bcmg78zebrafish and atp6v1e1bhi577aTg zebrafish together with their respective controls using TRIzol® Reagent followed by a purification with the RNeasy mini kit Qiagen according to manufacturer's instructions. RNA integrity was checked by 2100 Bioanalyzer Agilent. 10 zebrafish larvae of each genotype were pooled in 1 sample to obtain sufficient heterogeneity amongst samples Sequencing library was prepared according to the manufacturer's instructions of the TruSeq® Stranded mRNA Library Prep Illumina  San Diego  California  United States supplemented with TruSeq® RNA Single Indexes Set A Illumina.,atp6v1e1b cmg78/cmg78 2,SAMEA6591595,"Center for Medical Genetics Ghent, Ghent University Hospital, Ghent, Belgium Department of biomolecular medicine, Ghent University",ENA FIRST PUBLIC:2020 08 03T04:04:15Z|ENA LAST UPDATE:2020 02 26T13:29:54Z|External Id:SAMEA6591595|INSDC center name:Center for Medical Genetics Ghent  Ghent University Hospital  Ghent  Belgium Department of biomolecular medicine  Ghent University|INSDC first public:2020 08 03T04:04:15Z|INSDC last update:2020 02 26T13:29:54Z|INSDC status:public|Submitter Id:E MTAB 8824:atp6v1e1b cmg78/cmg78 2|age:3|broker name:ArrayExpress|common name:zebrafish|developmental stage:larval stage|disease:Autosomal recessive cutis laxa type 2A|disease staging:before the gross morphological phenotype becomes apparent|genetic modification:gene knock out|genotype:atp6v1e1b cmg78/cmg78|individual:pool of 10 larvae|organism part:whole organism|phenotype:atp6v1e1b deletion|replicate:biological replicate|sample name:E MTAB 8824:atp6v1e1b cmg78/cmg78 2|scientific name:Danio rerio|sex:male|strain:AB,,,,,,,,,Illumina HiSeq 3000 paired end sequencing; RNA seq of whole tissue of 3 dpf atp6v1e1b deficient zebrafish larvae and wild type controls,E MTAB 8824:atp6v1e1b cmg78/cmg78 2 p,atp6v1e1b cmg78/cmg78 2 p,RNA seq of whole tissue of 3 dpf atp6v1e1b deficient zebrafish larvae and wild type controls,Whole zebrafish larvae at 3 dpf were genotyped before collection in RNA later. Total RNA was isolated from whole zebrafish larvae at 3 dpf from atp6v1e1bcmg78zebrafish and atp6v1e1bhi577aTg zebrafish together with their respective controls using TRIzol® Reagent followed by a purification with the RNeasy mini kit Qiagen according to manufacturer's instructions. RNA integrity was checked by 2100 Bioanalyzer Agilent. 10 zebrafish larvae of each genotype were pooled in 1 sample to obtain sufficient heterogeneity amongst samples Sequencing library was prepared according to the manufacturer's instructions of the TruSeq® Stranded mRNA Library Prep Illumina  San Diego  California  United States supplemented with TruSeq® RNA Single Indexes Set A Illumina.,Experimental Factor: genotype:atp6v1e1b cmg78/cmg78|Experimental Factor: disease:Autosomal recessive cutis laxa type 2A,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina HiSeq 3000,,ERP120207,Illumina HiSeq 3000 paired end sequencing; RNA seq of whole tissue of 3 dpf atp6v1e1b deficient zebrafish larvae and wild type controls,ENA FIRST PUBLIC:2021 01 29|ENA LAST UPDATE:2020 02 26,atp6v1e1b_cmg78cmg78_2_R1.fastq.gz atp6v1e1b_cmg78cmg78_2_R2.fastq.gz,fastq fastq,9970017982.0,33968628.0,E MTAB 8824:atp6v1e1b cmg78cmg78 2 R,0:146.79 1:146.72,A:2605084972;C:2371579416;G:2361363755;T:2629380392;N:2609447,146,146,,,2605084972,2371579416,2361363755,2629380392,2609447,ERX3965606,ERS4355889,ERA2393549,"Center for Medical Genetics Ghent, Ghent University Hospital, Ghent, Belgium Department of biomolecular medicine, Ghent University|European Nucleotide Archive","Center for Medical Genetics Ghent, Ghent University Hospital, Ghent, Belgium Department of biomolecular medicine, Ghent University|European Nucleotide Archive",2,0.9492,0.94939,0.06589,0.06313,0.66576,0.67373,0.46451,0.45372,151,151,B,B,biological fallback assumption,illumina,hiseq_era,unknown,poly_a,trueseq,bulk,unknown,unknown,,Belgium,2020-02-26,Larval,Larval,Whole Organism,All anatomical structures
9821,ERR3957801,ERX3965605,ERS4355888,ERP120207,PRJEB36940,RNA seq of whole tissue of 3 dpf atp6v1e1b deficient zebrafish larvae and wild type controls,E-MTAB-8824,Transcriptome Analysis,Cutis laxa CL syndromes are a heterogenous group of connective tissue disorders that share a loose  redundant skin as a common clinical feature. The systemic features vary among the different subtypes. CL is caused by mutations in genes encoding for components of the extracellular matrix FBLN4  FBLN5  LTBP4 and ELN  encoding for elastin modifying enzymes ATP7A or encoding for components that influence cellular trafficking and metabolism ATP6V1E1  ATP6V1A  ATP6V0A2  ALDH18A1  RIN2  GORAB  PYCR1 and SLC2A10. ATP6V1E1–related CL cause loose redundant skin folds  variable mental disability  typical facial characteristics  lipodystrophy  hypotonia  and cardiopulmonary involvement including pneumothorax  hypertrophic cardiomyopathy and aortic root dilatation. The intent of this study is to investigate which genes are up  or downregulated in atp6v1e1b deficient zebrafish larvae compared to wild type controls. Via transcriptome analysis  we want to study the pathogenic mechanism of ATP6V1E1 induced CL syndrome. We use a zebrafish line with viral insertion in the five primeUTR of atp6v1e1b  disrupting transcription atp6v1e1bhi577aTg/+  from the Zebrafish International Research Center ZIRC and we use a line harboring a two base pair insertion followed by a three base pair deletion in exon 5 of atp6v1e1b  c.334insGG; c.337 340delCGG  predicted to result in p.R111WfsX2 atp6v1e1bcmg78/+ which we created ourselves by CRISPR Cas9 mutagenesis.   Overview of the experimental work flow:   Sample collection: pool of 10 zebrafish larvae of 3 dpf/genotype in RNA later   RNA extraction: TRIzol® Reagent RNeasy mini kit Qiagen according to manufacturer's instructions   RNA integrity: 2100 Bioanalyzer Agilent   Sequencing library: TruSeq® Stranded mRNA Library Prep Illumina  San Diego  California  United States supplemented with TruSeq® RNA Single Indexes Set A Illumina   Sequencing: HiSeq 3000 sequencer Illumina   paired end 150 bp   sequencing facility of the Center of Medical Genetics Ghent   alignement to zebrafish GRCz10 reference genome to generate bam files    RNA seq pipeline was used that was published by the nf core community. This pipeline was executed using the Nextflow engine for computational workflows and comprises several processing steps. QC analysis of the RNA seq data was performed with FastQC and MultiQC. TrimGalore was used to remove adapter contamination and to trim low quality regions. Duplicate reads were identified with MarkDuplicates. Subsequently  all cleaned and trimmed reads that passed QC were aligned to GRCz10 using STAR aligner. Gene counts were computed using the featureCounts package. Differential expression analysis subsequently was performed on these gene counts using DESeq2. Differentially expressed genes were identified using a fold change cut off >1 and FDR=0.05. Finally  GO enrichment & pathway analysis were performed on differentially expressed gene sets using the Generally Applicable Gene set Enrichment for Pathway Analysis GAGE algorithm.,ENA FIRST PUBLIC:2021 01 29|ENA LAST UPDATE:2020 02 26,,Protocols: Whole zebrafish larvae at 3 dpf were genotyped before collection in RNA later. Total RNA was isolated from whole zebrafish larvae at 3 dpf from atp6v1e1bcmg78zebrafish and atp6v1e1bhi577aTg zebrafish together with their respective controls using TRIzol® Reagent followed by a purification with the RNeasy mini kit Qiagen according to manufacturer's instructions. RNA integrity was checked by 2100 Bioanalyzer Agilent. 10 zebrafish larvae of each genotype were pooled in 1 sample to obtain sufficient heterogeneity amongst samples Sequencing library was prepared according to the manufacturer's instructions of the TruSeq® Stranded mRNA Library Prep Illumina  San Diego  California  United States supplemented with TruSeq® RNA Single Indexes Set A Illumina.,atp6v1e1b cmg78/cmg78 1,SAMEA6591594,"Center for Medical Genetics Ghent, Ghent University Hospital, Ghent, Belgium Department of biomolecular medicine, Ghent University",ENA FIRST PUBLIC:2020 08 03T04:04:15Z|ENA LAST UPDATE:2020 02 26T13:29:54Z|External Id:SAMEA6591594|INSDC center name:Center for Medical Genetics Ghent  Ghent University Hospital  Ghent  Belgium Department of biomolecular medicine  Ghent University|INSDC first public:2020 08 03T04:04:15Z|INSDC last update:2020 02 26T13:29:54Z|INSDC status:public|Submitter Id:E MTAB 8824:atp6v1e1b cmg78/cmg78 1|age:3|broker name:ArrayExpress|common name:zebrafish|developmental stage:larval stage|disease:Autosomal recessive cutis laxa type 2A|disease staging:before the gross morphological phenotype becomes apparent|genetic modification:gene knock out|genotype:atp6v1e1b cmg78/cmg78|individual:pool of 10 larvae|organism part:whole organism|phenotype:atp6v1e1b deletion|replicate:biological replicate|sample name:E MTAB 8824:atp6v1e1b cmg78/cmg78 1|scientific name:Danio rerio|sex:male|strain:AB,,,,,,,,,Illumina HiSeq 3000 paired end sequencing; RNA seq of whole tissue of 3 dpf atp6v1e1b deficient zebrafish larvae and wild type controls,E MTAB 8824:atp6v1e1b cmg78/cmg78 1 p,atp6v1e1b cmg78/cmg78 1 p,RNA seq of whole tissue of 3 dpf atp6v1e1b deficient zebrafish larvae and wild type controls,Whole zebrafish larvae at 3 dpf were genotyped before collection in RNA later. Total RNA was isolated from whole zebrafish larvae at 3 dpf from atp6v1e1bcmg78zebrafish and atp6v1e1bhi577aTg zebrafish together with their respective controls using TRIzol® Reagent followed by a purification with the RNeasy mini kit Qiagen according to manufacturer's instructions. RNA integrity was checked by 2100 Bioanalyzer Agilent. 10 zebrafish larvae of each genotype were pooled in 1 sample to obtain sufficient heterogeneity amongst samples Sequencing library was prepared according to the manufacturer's instructions of the TruSeq® Stranded mRNA Library Prep Illumina  San Diego  California  United States supplemented with TruSeq® RNA Single Indexes Set A Illumina.,Experimental Factor: genotype:atp6v1e1b cmg78/cmg78|Experimental Factor: disease:Autosomal recessive cutis laxa type 2A,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina HiSeq 3000,,ERP120207,Illumina HiSeq 3000 paired end sequencing; RNA seq of whole tissue of 3 dpf atp6v1e1b deficient zebrafish larvae and wild type controls,ENA FIRST PUBLIC:2021 01 29|ENA LAST UPDATE:2020 02 26,atp6v1e1b_cmg78cmg78_1_R1.fastq.gz atp6v1e1b_cmg78cmg78_1_R2.fastq.gz,fastq fastq,12414679741.0,42312611.0,E MTAB 8824:atp6v1e1b cmg78cmg78 1 R,0:146.73 1:146.67,A:3241482438;C:2955264087;G:2942821679;T:3271073016;N:4038521,146,146,,,3241482438,2955264087,2942821679,3271073016,4038521,ERX3965605,ERS4355888,ERA2393549,"Center for Medical Genetics Ghent, Ghent University Hospital, Ghent, Belgium Department of biomolecular medicine, Ghent University|European Nucleotide Archive","Center for Medical Genetics Ghent, Ghent University Hospital, Ghent, Belgium Department of biomolecular medicine, Ghent University|European Nucleotide Archive",2,0.94874,0.94968,0.05959,0.05739,0.66965,0.67706,0.46769,0.45932,67,67,B,B,biological fallback assumption,illumina,hiseq_era,unknown,poly_a,trueseq,bulk,unknown,unknown,,Belgium,2020-02-26,Larval,Larval,Whole Organism,All anatomical structures
9822,ERR3957800,ERX3965604,ERS4355887,ERP120207,PRJEB36940,RNA seq of whole tissue of 3 dpf atp6v1e1b deficient zebrafish larvae and wild type controls,E-MTAB-8824,Transcriptome Analysis,Cutis laxa CL syndromes are a heterogenous group of connective tissue disorders that share a loose  redundant skin as a common clinical feature. The systemic features vary among the different subtypes. CL is caused by mutations in genes encoding for components of the extracellular matrix FBLN4  FBLN5  LTBP4 and ELN  encoding for elastin modifying enzymes ATP7A or encoding for components that influence cellular trafficking and metabolism ATP6V1E1  ATP6V1A  ATP6V0A2  ALDH18A1  RIN2  GORAB  PYCR1 and SLC2A10. ATP6V1E1–related CL cause loose redundant skin folds  variable mental disability  typical facial characteristics  lipodystrophy  hypotonia  and cardiopulmonary involvement including pneumothorax  hypertrophic cardiomyopathy and aortic root dilatation. The intent of this study is to investigate which genes are up  or downregulated in atp6v1e1b deficient zebrafish larvae compared to wild type controls. Via transcriptome analysis  we want to study the pathogenic mechanism of ATP6V1E1 induced CL syndrome. We use a zebrafish line with viral insertion in the five primeUTR of atp6v1e1b  disrupting transcription atp6v1e1bhi577aTg/+  from the Zebrafish International Research Center ZIRC and we use a line harboring a two base pair insertion followed by a three base pair deletion in exon 5 of atp6v1e1b  c.334insGG; c.337 340delCGG  predicted to result in p.R111WfsX2 atp6v1e1bcmg78/+ which we created ourselves by CRISPR Cas9 mutagenesis.   Overview of the experimental work flow:   Sample collection: pool of 10 zebrafish larvae of 3 dpf/genotype in RNA later   RNA extraction: TRIzol® Reagent RNeasy mini kit Qiagen according to manufacturer's instructions   RNA integrity: 2100 Bioanalyzer Agilent   Sequencing library: TruSeq® Stranded mRNA Library Prep Illumina  San Diego  California  United States supplemented with TruSeq® RNA Single Indexes Set A Illumina   Sequencing: HiSeq 3000 sequencer Illumina   paired end 150 bp   sequencing facility of the Center of Medical Genetics Ghent   alignement to zebrafish GRCz10 reference genome to generate bam files    RNA seq pipeline was used that was published by the nf core community. This pipeline was executed using the Nextflow engine for computational workflows and comprises several processing steps. QC analysis of the RNA seq data was performed with FastQC and MultiQC. TrimGalore was used to remove adapter contamination and to trim low quality regions. Duplicate reads were identified with MarkDuplicates. Subsequently  all cleaned and trimmed reads that passed QC were aligned to GRCz10 using STAR aligner. Gene counts were computed using the featureCounts package. Differential expression analysis subsequently was performed on these gene counts using DESeq2. Differentially expressed genes were identified using a fold change cut off >1 and FDR=0.05. Finally  GO enrichment & pathway analysis were performed on differentially expressed gene sets using the Generally Applicable Gene set Enrichment for Pathway Analysis GAGE algorithm.,ENA FIRST PUBLIC:2021 01 29|ENA LAST UPDATE:2020 02 26,,Protocols: Whole zebrafish larvae at 3 dpf were genotyped before collection in RNA later. Total RNA was isolated from whole zebrafish larvae at 3 dpf from atp6v1e1bcmg78zebrafish and atp6v1e1bhi577aTg zebrafish together with their respective controls using TRIzol® Reagent followed by a purification with the RNeasy mini kit Qiagen according to manufacturer's instructions. RNA integrity was checked by 2100 Bioanalyzer Agilent. 10 zebrafish larvae of each genotype were pooled in 1 sample to obtain sufficient heterogeneity amongst samples Sequencing library was prepared according to the manufacturer's instructions of the TruSeq® Stranded mRNA Library Prep Illumina  San Diego  California  United States supplemented with TruSeq® RNA Single Indexes Set A Illumina.,atp6v1e1b +/+ 3,SAMEA6591593,"Center for Medical Genetics Ghent, Ghent University Hospital, Ghent, Belgium Department of biomolecular medicine, Ghent University",ENA FIRST PUBLIC:2020 08 03T04:04:15Z|ENA LAST UPDATE:2020 02 26T13:29:53Z|External Id:SAMEA6591593|INSDC center name:Center for Medical Genetics Ghent  Ghent University Hospital  Ghent  Belgium Department of biomolecular medicine  Ghent University|INSDC first public:2020 08 03T04:04:15Z|INSDC last update:2020 02 26T13:29:53Z|INSDC status:public|Submitter Id:E MTAB 8824:atp6v1e1b +/+ 3|age:3|broker name:ArrayExpress|common name:zebrafish|developmental stage:larval stage|disease:normal|genotype:atp6v1e1b +/+|individual:pool of 10 larvae|organism part:whole organism|phenotype:wild type|replicate:biological replicate|sample name:E MTAB 8824:atp6v1e1b +/+ 3|scientific name:Danio rerio|sex:male|strain:AB,,,,,,,,,Illumina HiSeq 3000 paired end sequencing; RNA seq of whole tissue of 3 dpf atp6v1e1b deficient zebrafish larvae and wild type controls,E MTAB 8824:atp6v1e1b +/+ 3 p,atp6v1e1b +/+ 3 p,RNA seq of whole tissue of 3 dpf atp6v1e1b deficient zebrafish larvae and wild type controls,Whole zebrafish larvae at 3 dpf were genotyped before collection in RNA later. Total RNA was isolated from whole zebrafish larvae at 3 dpf from atp6v1e1bcmg78zebrafish and atp6v1e1bhi577aTg zebrafish together with their respective controls using TRIzol® Reagent followed by a purification with the RNeasy mini kit Qiagen according to manufacturer's instructions. RNA integrity was checked by 2100 Bioanalyzer Agilent. 10 zebrafish larvae of each genotype were pooled in 1 sample to obtain sufficient heterogeneity amongst samples Sequencing library was prepared according to the manufacturer's instructions of the TruSeq® Stranded mRNA Library Prep Illumina  San Diego  California  United States supplemented with TruSeq® RNA Single Indexes Set A Illumina.,Experimental Factor: genotype:atp6v1e1b +/+|Experimental Factor: disease:normal,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina HiSeq 3000,,ERP120207,Illumina HiSeq 3000 paired end sequencing; RNA seq of whole tissue of 3 dpf atp6v1e1b deficient zebrafish larvae and wild type controls,ENA FIRST PUBLIC:2021 01 29|ENA LAST UPDATE:2020 02 26,atp6v1e1b_wt_3_R1.fastq.gz atp6v1e1b_wt_3_R2.fastq.gz,fastq fastq,10732686810.0,36678487.0,E MTAB 8824:atp6v1e1b wt 3 R,0:146.35 1:146.27,A:2811732736;C:2549901549;G:2519402587;T:2850106740;N:1543198,146,146,,,2811732736,2549901549,2519402587,2850106740,1543198,ERX3965604,ERS4355887,ERA2393549,"Center for Medical Genetics Ghent, Ghent University Hospital, Ghent, Belgium Department of biomolecular medicine, Ghent University|European Nucleotide Archive","Center for Medical Genetics Ghent, Ghent University Hospital, Ghent, Belgium Department of biomolecular medicine, Ghent University|European Nucleotide Archive",2,0.94597,0.94583,0.06262,0.05884,0.66811,0.67623,0.46245,0.46395,151,150,B,B,biological fallback assumption,illumina,hiseq_era,unknown,poly_a,trueseq,bulk,unknown,unknown,,Belgium,2020-02-26,Larval,Larval,Whole Organism,All anatomical structures
9823,ERR3957799,ERX3965603,ERS4355886,ERP120207,PRJEB36940,RNA seq of whole tissue of 3 dpf atp6v1e1b deficient zebrafish larvae and wild type controls,E-MTAB-8824,Transcriptome Analysis,Cutis laxa CL syndromes are a heterogenous group of connective tissue disorders that share a loose  redundant skin as a common clinical feature. The systemic features vary among the different subtypes. CL is caused by mutations in genes encoding for components of the extracellular matrix FBLN4  FBLN5  LTBP4 and ELN  encoding for elastin modifying enzymes ATP7A or encoding for components that influence cellular trafficking and metabolism ATP6V1E1  ATP6V1A  ATP6V0A2  ALDH18A1  RIN2  GORAB  PYCR1 and SLC2A10. ATP6V1E1–related CL cause loose redundant skin folds  variable mental disability  typical facial characteristics  lipodystrophy  hypotonia  and cardiopulmonary involvement including pneumothorax  hypertrophic cardiomyopathy and aortic root dilatation. The intent of this study is to investigate which genes are up  or downregulated in atp6v1e1b deficient zebrafish larvae compared to wild type controls. Via transcriptome analysis  we want to study the pathogenic mechanism of ATP6V1E1 induced CL syndrome. We use a zebrafish line with viral insertion in the five primeUTR of atp6v1e1b  disrupting transcription atp6v1e1bhi577aTg/+  from the Zebrafish International Research Center ZIRC and we use a line harboring a two base pair insertion followed by a three base pair deletion in exon 5 of atp6v1e1b  c.334insGG; c.337 340delCGG  predicted to result in p.R111WfsX2 atp6v1e1bcmg78/+ which we created ourselves by CRISPR Cas9 mutagenesis.   Overview of the experimental work flow:   Sample collection: pool of 10 zebrafish larvae of 3 dpf/genotype in RNA later   RNA extraction: TRIzol® Reagent RNeasy mini kit Qiagen according to manufacturer's instructions   RNA integrity: 2100 Bioanalyzer Agilent   Sequencing library: TruSeq® Stranded mRNA Library Prep Illumina  San Diego  California  United States supplemented with TruSeq® RNA Single Indexes Set A Illumina   Sequencing: HiSeq 3000 sequencer Illumina   paired end 150 bp   sequencing facility of the Center of Medical Genetics Ghent   alignement to zebrafish GRCz10 reference genome to generate bam files    RNA seq pipeline was used that was published by the nf core community. This pipeline was executed using the Nextflow engine for computational workflows and comprises several processing steps. QC analysis of the RNA seq data was performed with FastQC and MultiQC. TrimGalore was used to remove adapter contamination and to trim low quality regions. Duplicate reads were identified with MarkDuplicates. Subsequently  all cleaned and trimmed reads that passed QC were aligned to GRCz10 using STAR aligner. Gene counts were computed using the featureCounts package. Differential expression analysis subsequently was performed on these gene counts using DESeq2. Differentially expressed genes were identified using a fold change cut off >1 and FDR=0.05. Finally  GO enrichment & pathway analysis were performed on differentially expressed gene sets using the Generally Applicable Gene set Enrichment for Pathway Analysis GAGE algorithm.,ENA FIRST PUBLIC:2021 01 29|ENA LAST UPDATE:2020 02 26,,Protocols: Whole zebrafish larvae at 3 dpf were genotyped before collection in RNA later. Total RNA was isolated from whole zebrafish larvae at 3 dpf from atp6v1e1bcmg78zebrafish and atp6v1e1bhi577aTg zebrafish together with their respective controls using TRIzol® Reagent followed by a purification with the RNeasy mini kit Qiagen according to manufacturer's instructions. RNA integrity was checked by 2100 Bioanalyzer Agilent. 10 zebrafish larvae of each genotype were pooled in 1 sample to obtain sufficient heterogeneity amongst samples Sequencing library was prepared according to the manufacturer's instructions of the TruSeq® Stranded mRNA Library Prep Illumina  San Diego  California  United States supplemented with TruSeq® RNA Single Indexes Set A Illumina.,atp6v1e1b +/+ 2,SAMEA6591592,"Center for Medical Genetics Ghent, Ghent University Hospital, Ghent, Belgium Department of biomolecular medicine, Ghent University",ENA FIRST PUBLIC:2020 08 03T04:04:15Z|ENA LAST UPDATE:2020 02 26T13:29:53Z|External Id:SAMEA6591592|INSDC center name:Center for Medical Genetics Ghent  Ghent University Hospital  Ghent  Belgium Department of biomolecular medicine  Ghent University|INSDC first public:2020 08 03T04:04:15Z|INSDC last update:2020 02 26T13:29:53Z|INSDC status:public|Submitter Id:E MTAB 8824:atp6v1e1b +/+ 2|age:3|broker name:ArrayExpress|common name:zebrafish|developmental stage:larval stage|disease:normal|genotype:atp6v1e1b +/+|individual:pool of 10 larvae|organism part:whole organism|phenotype:wild type|replicate:biological replicate|sample name:E MTAB 8824:atp6v1e1b +/+ 2|scientific name:Danio rerio|sex:male|strain:AB,,,,,,,,,Illumina HiSeq 3000 paired end sequencing; RNA seq of whole tissue of 3 dpf atp6v1e1b deficient zebrafish larvae and wild type controls,E MTAB 8824:atp6v1e1b +/+ 2 p,atp6v1e1b +/+ 2 p,RNA seq of whole tissue of 3 dpf atp6v1e1b deficient zebrafish larvae and wild type controls,Whole zebrafish larvae at 3 dpf were genotyped before collection in RNA later. Total RNA was isolated from whole zebrafish larvae at 3 dpf from atp6v1e1bcmg78zebrafish and atp6v1e1bhi577aTg zebrafish together with their respective controls using TRIzol® Reagent followed by a purification with the RNeasy mini kit Qiagen according to manufacturer's instructions. RNA integrity was checked by 2100 Bioanalyzer Agilent. 10 zebrafish larvae of each genotype were pooled in 1 sample to obtain sufficient heterogeneity amongst samples Sequencing library was prepared according to the manufacturer's instructions of the TruSeq® Stranded mRNA Library Prep Illumina  San Diego  California  United States supplemented with TruSeq® RNA Single Indexes Set A Illumina.,Experimental Factor: genotype:atp6v1e1b +/+|Experimental Factor: disease:normal,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina HiSeq 3000,,ERP120207,Illumina HiSeq 3000 paired end sequencing; RNA seq of whole tissue of 3 dpf atp6v1e1b deficient zebrafish larvae and wild type controls,ENA FIRST PUBLIC:2021 01 29|ENA LAST UPDATE:2020 02 26,atp6v1e1b_wt_2_R1.fastq.gz atp6v1e1b_wt_2_R2.fastq.gz,fastq fastq,12727487811.0,43201570.0,E MTAB 8824:atp6v1e1b wt 2 R,0:147.34 1:147.26,A:3340874575;C:3010888750;G:2998295317;T:3376023714;N:1405455,147,147,,,3340874575,3010888750,2998295317,3376023714,1405455,ERX3965603,ERS4355886,ERA2393549,"Center for Medical Genetics Ghent, Ghent University Hospital, Ghent, Belgium Department of biomolecular medicine, Ghent University|European Nucleotide Archive","Center for Medical Genetics Ghent, Ghent University Hospital, Ghent, Belgium Department of biomolecular medicine, Ghent University|European Nucleotide Archive",2,0.95099,0.95093,0.06372,0.06035,0.66983,0.6773,0.46418,0.47128,150,151,B,B,biological fallback assumption,illumina,hiseq_era,unknown,poly_a,trueseq,bulk,unknown,unknown,,Belgium,2020-02-26,Larval,Larval,Whole Organism,All anatomical structures
9824,ERR3957798,ERX3965602,ERS4355885,ERP120207,PRJEB36940,RNA seq of whole tissue of 3 dpf atp6v1e1b deficient zebrafish larvae and wild type controls,E-MTAB-8824,Transcriptome Analysis,Cutis laxa CL syndromes are a heterogenous group of connective tissue disorders that share a loose  redundant skin as a common clinical feature. The systemic features vary among the different subtypes. CL is caused by mutations in genes encoding for components of the extracellular matrix FBLN4  FBLN5  LTBP4 and ELN  encoding for elastin modifying enzymes ATP7A or encoding for components that influence cellular trafficking and metabolism ATP6V1E1  ATP6V1A  ATP6V0A2  ALDH18A1  RIN2  GORAB  PYCR1 and SLC2A10. ATP6V1E1–related CL cause loose redundant skin folds  variable mental disability  typical facial characteristics  lipodystrophy  hypotonia  and cardiopulmonary involvement including pneumothorax  hypertrophic cardiomyopathy and aortic root dilatation. The intent of this study is to investigate which genes are up  or downregulated in atp6v1e1b deficient zebrafish larvae compared to wild type controls. Via transcriptome analysis  we want to study the pathogenic mechanism of ATP6V1E1 induced CL syndrome. We use a zebrafish line with viral insertion in the five primeUTR of atp6v1e1b  disrupting transcription atp6v1e1bhi577aTg/+  from the Zebrafish International Research Center ZIRC and we use a line harboring a two base pair insertion followed by a three base pair deletion in exon 5 of atp6v1e1b  c.334insGG; c.337 340delCGG  predicted to result in p.R111WfsX2 atp6v1e1bcmg78/+ which we created ourselves by CRISPR Cas9 mutagenesis.   Overview of the experimental work flow:   Sample collection: pool of 10 zebrafish larvae of 3 dpf/genotype in RNA later   RNA extraction: TRIzol® Reagent RNeasy mini kit Qiagen according to manufacturer's instructions   RNA integrity: 2100 Bioanalyzer Agilent   Sequencing library: TruSeq® Stranded mRNA Library Prep Illumina  San Diego  California  United States supplemented with TruSeq® RNA Single Indexes Set A Illumina   Sequencing: HiSeq 3000 sequencer Illumina   paired end 150 bp   sequencing facility of the Center of Medical Genetics Ghent   alignement to zebrafish GRCz10 reference genome to generate bam files    RNA seq pipeline was used that was published by the nf core community. This pipeline was executed using the Nextflow engine for computational workflows and comprises several processing steps. QC analysis of the RNA seq data was performed with FastQC and MultiQC. TrimGalore was used to remove adapter contamination and to trim low quality regions. Duplicate reads were identified with MarkDuplicates. Subsequently  all cleaned and trimmed reads that passed QC were aligned to GRCz10 using STAR aligner. Gene counts were computed using the featureCounts package. Differential expression analysis subsequently was performed on these gene counts using DESeq2. Differentially expressed genes were identified using a fold change cut off >1 and FDR=0.05. Finally  GO enrichment & pathway analysis were performed on differentially expressed gene sets using the Generally Applicable Gene set Enrichment for Pathway Analysis GAGE algorithm.,ENA FIRST PUBLIC:2021 01 29|ENA LAST UPDATE:2020 02 26,,Protocols: Whole zebrafish larvae at 3 dpf were genotyped before collection in RNA later. Total RNA was isolated from whole zebrafish larvae at 3 dpf from atp6v1e1bcmg78zebrafish and atp6v1e1bhi577aTg zebrafish together with their respective controls using TRIzol® Reagent followed by a purification with the RNeasy mini kit Qiagen according to manufacturer's instructions. RNA integrity was checked by 2100 Bioanalyzer Agilent. 10 zebrafish larvae of each genotype were pooled in 1 sample to obtain sufficient heterogeneity amongst samples Sequencing library was prepared according to the manufacturer's instructions of the TruSeq® Stranded mRNA Library Prep Illumina  San Diego  California  United States supplemented with TruSeq® RNA Single Indexes Set A Illumina.,atp6v1e1b +/+ 1,SAMEA6591591,"Center for Medical Genetics Ghent, Ghent University Hospital, Ghent, Belgium Department of biomolecular medicine, Ghent University",ENA FIRST PUBLIC:2020 08 03T04:04:15Z|ENA LAST UPDATE:2020 02 26T13:29:53Z|External Id:SAMEA6591591|INSDC center name:Center for Medical Genetics Ghent  Ghent University Hospital  Ghent  Belgium Department of biomolecular medicine  Ghent University|INSDC first public:2020 08 03T04:04:15Z|INSDC last update:2020 02 26T13:29:53Z|INSDC status:public|Submitter Id:E MTAB 8824:atp6v1e1b +/+ 1|age:3|broker name:ArrayExpress|common name:zebrafish|developmental stage:larval stage|disease:normal|genotype:atp6v1e1b +/+|individual:pool of 10 larvae|organism part:whole organism|phenotype:wild type|replicate:biological replicate|sample name:E MTAB 8824:atp6v1e1b +/+ 1|scientific name:Danio rerio|sex:male|strain:AB,,,,,,,,,Illumina HiSeq 3000 paired end sequencing; RNA seq of whole tissue of 3 dpf atp6v1e1b deficient zebrafish larvae and wild type controls,E MTAB 8824:atp6v1e1b +/+ 1 p,atp6v1e1b +/+ 1 p,RNA seq of whole tissue of 3 dpf atp6v1e1b deficient zebrafish larvae and wild type controls,Whole zebrafish larvae at 3 dpf were genotyped before collection in RNA later. Total RNA was isolated from whole zebrafish larvae at 3 dpf from atp6v1e1bcmg78zebrafish and atp6v1e1bhi577aTg zebrafish together with their respective controls using TRIzol® Reagent followed by a purification with the RNeasy mini kit Qiagen according to manufacturer's instructions. RNA integrity was checked by 2100 Bioanalyzer Agilent. 10 zebrafish larvae of each genotype were pooled in 1 sample to obtain sufficient heterogeneity amongst samples Sequencing library was prepared according to the manufacturer's instructions of the TruSeq® Stranded mRNA Library Prep Illumina  San Diego  California  United States supplemented with TruSeq® RNA Single Indexes Set A Illumina.,Experimental Factor: genotype:atp6v1e1b +/+|Experimental Factor: disease:normal,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina HiSeq 3000,,ERP120207,Illumina HiSeq 3000 paired end sequencing; RNA seq of whole tissue of 3 dpf atp6v1e1b deficient zebrafish larvae and wild type controls,ENA FIRST PUBLIC:2021 01 29|ENA LAST UPDATE:2020 02 26,atp6v1e1b_wt_1_R1.fastq.gz atp6v1e1b_wt_1_R2.fastq.gz,fastq fastq,12570351660.0,42959340.0,E MTAB 8824:atp6v1e1b wt 1 R,0:146.34 1:146.27,A:3284633072;C:2995010895;G:2959080366;T:3328876226;N:2751101,146,146,,,3284633072,2995010895,2959080366,3328876226,2751101,ERX3965602,ERS4355885,ERA2393549,"Center for Medical Genetics Ghent, Ghent University Hospital, Ghent, Belgium Department of biomolecular medicine, Ghent University|European Nucleotide Archive","Center for Medical Genetics Ghent, Ghent University Hospital, Ghent, Belgium Department of biomolecular medicine, Ghent University|European Nucleotide Archive",2,0.95027,0.95086,0.06766,0.06493,0.66667,0.6747,0.46208,0.46879,150,151,B,B,biological fallback assumption,illumina,hiseq_era,unknown,poly_a,trueseq,bulk,unknown,unknown,,Belgium,2020-02-26,Larval,Larval,Whole Organism,All anatomical structures
9862,ERR4091982,ERX4087483,ERS4539485,ERP121491,PRJEB38108,RNA Seq of wilt type and somatostatin 3 CrispR/Cas9 zebrafish mutants treated with dextran sodium sulfate DSS,E-MTAB-9018,Transcriptome Analysis,Wilt type and somatostatin 3 Sst3 gene CrispR/Cas9 mutants of the AB zebrafish strain were treated with dextran sodium sulfate DSS to determine the role of sst3 in the innate immune response.,ENA FIRST PUBLIC:2020 07 31|ENA LAST UPDATE:2020 05 01,,Protocols: Each sample consisted of a pool of 10 individuals each of 6 dpf wild type WT and homozygous mutant M sst3 /   untreated or treated with dextran sodium sulfate DSS which were were frozen at  80C and stored in liquid nitrogen for RNA extraction and sequencing. Zebrafish embryos were obtained from natural spawning and raised until 1 dpf in an incubator Panasonic  MIR 254 PC at 28.5°C in recirculating water 60 μg/mL instant ocean sea salts and supplemented with methylene blue up to 1 dpf. Larvae were grown at 28.5℃ for 5 days and from 6 dpf 15 dpf were fed with Paramecium. RNA from larvae was isolated using TRIzol Invitrogen  according to the manufacturer's instructions. The purity of the RNA was assessed using the NanoPhotometer spectrophotometer IMPLEN  CA USA and the RNA concentration was measured using the Qubit RNA Assay Kit in Qubit 2.0 Flurometer Life Technologies  CA  USA. RNA integrity was further assessed using the RNA Nano 6000 Assay Kit of the Bioanalyzer 2100 system Agilent Technologies  CA  USA. Done by Novogene: A total amount of 3 μg RNA per sample was used as input material for the RNA sample preparations. Sequencing libraries were generated using NEBNext Ultra RNA Library Prep Kit for Illumina NEB  USA following manufacturer's recommendations and index codes were added to attribute sequences to each sample. Briefly  mRNA was purified from total RNA using poly T oligo attached magnetic beads. Fragmentation was carried out using divalent cations under elevated temperature in NEBNext First Strand Synthesis Reaction Buffer 5X. First strand cDNA was synthesized using random hexamer primer and M MuLV Reverse Transcriptase RNase H . Second strand cDNA synthesis was subsequently performed using DNA Polymerase I and RNase H. Remaining overhangs were converted into blunt ends via exonuclease/polymerase activities. post adenylation of three prime ends of DNA fragments  NEBNext Adaptor with hairpin loop structure were ligated to prepare for hybridization. In order to select cDNA fragments of preferentially 250300 bp in length  the library fragments were purified with AMPure XP system Beckman Coulter  Beverly  USA. Then 3 μl USER Enzyme NEB  USA was used with size selected  adaptor ligated cDNA at 37°C for 15 min followed by 5 min at 95 °C before PCR. ThenPCR was performed with Phusion High Fidelity DNA polymerase  Universal PCR primers and Index X Primer. At last  PCR products were purified AMPure XP system and library quality was assessed on the Agilent Bioanalyzer 2100 system.,Sample 9,SAMEA6811839,Centre of Marine Sciences,ENA FIRST PUBLIC:2020 07 31T04:03:56Z|ENA LAST UPDATE:2020 05 01T13:37:30Z|External Id:SAMEA6811839|INSDC center name:Centre of Marine Sciences|INSDC first public:2020 07 31T04:03:56Z|INSDC last update:2020 05 01T13:37:30Z|INSDC status:public|Submitter Id:E MTAB 9018:Sample 9|age:8|broker name:ArrayExpress|common name:zebrafish|developmental stage:larval stage|genotype:wild type genotype|individual:pool of 10 individuals 9|sample name:E MTAB 9018:Sample 9|scientific name:Danio rerio|strain:AB,,,,,,,,,HiSeq X Ten paired end sequencing; RNA Seq of wilt type and somatostatin 3 CrispR/Cas9 zebrafish mutants treated with dextran sodium sulfate DSS,E MTAB 9018:Sample 9 p,Sample 9 p,RNA Seq of wilt type and somatostatin 3 CrispR/Cas9 zebrafish mutants treated with dextran sodium sulfate DSS,Each sample consisted of a pool of 10 individuals each of 6 dpf wild type WT and homozygous mutant M sst3 /   untreated or treated with dextran sodium sulfate DSS which were  were frozen at  80C and stored in liquid nitrogen for RNA extraction and sequencing. Zebrafish embryos were obtained from natural spawning and raised until 1 dpf in an incubator Panasonic  MIR 254 PC at 28.5°C in recirculating water 60 μg/mL instant ocean sea salts and supplemented with methylene blue up to 1 dpf. Larvae were grown at 28.5℃ for 5 days and from 6 dpf 15 dpf were fed with Paramecium.  RNA from larvae was isolated using TRIzol Invitrogen  according to the manufacturer's instructions. The purity of the RNA was assessed using the NanoPhotometer spectrophotometer IMPLEN  CA USA and the RNA concentration was measured using the Qubit RNA Assay Kit in Qubit 2.0 Flurometer Life Technologies  CA  USA. RNA integrity was further assessed using the RNA Nano 6000 Assay Kit of the Bioanalyzer 2100 system Agilent Technologies  CA  USA.   Done by Novogene: A total amount of 3 μg RNA per sample was used as input material for the RNA sample preparations. Sequencing libraries were generated using NEBNext Ultra RNA Library Prep Kit for Illumina NEB  USA following manufacturer's recommendations and index codes were added to attribute sequences to each sample. Briefly  mRNA was purified from total RNA using poly T oligo attached magnetic beads. Fragmentation was carried out using divalent cations under elevated temperature in NEBNext First Strand Synthesis Reaction Buffer 5X. First strand cDNA was synthesized using random hexamer primer and M MuLV Reverse Transcriptase RNase H . Second strand cDNA synthesis was subsequently performed using DNA Polymerase I and RNase H. Remaining overhangs were converted into blunt ends via exonuclease/polymerase activities. post adenylation of three prime ends of DNA fragments  NEBNext Adaptor with hairpin loop structure were ligated to prepare for hybridization. In order to select cDNA fragments of preferentially 250300 bp in length  the library fragments were purified with AMPure XP system Beckman Coulter  Beverly  USA. Then 3 μl USER Enzyme NEB  USA was used with size selected  adaptor ligated cDNA at 37°C for 15 min followed by 5 min at 95 °C before PCR. ThenPCR was performed with Phusion High Fidelity DNA polymerase  Universal PCR primers and Index X Primer. At last  PCR products were purified AMPure XP system and library quality was assessed on the Agilent Bioanalyzer 2100 system.,Experimental Factor: genotype:wild type genotype|Experimental Factor: stimulus:n1,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,HiSeq X Ten,,ERP121491,HiSeq X Ten paired end sequencing; RNA Seq of wilt type and somatostatin 3 CrispR/Cas9 zebrafish mutants treated with dextran sodium sulfate DSS,ENA FIRST PUBLIC:2020 07 31|ENA LAST UPDATE:2020 05 01,W_Con_C_1.fq.gz W_Con_C_2.fq.gz,fastq fastq,7774714800.0,25915716.0,E MTAB 9018:W Con C ,0:150 1:150,A:2077915893;C:1835776410;G:1813929552;T:2046850194;N:242751,150,150,,,2077915893,1835776410,1813929552,2046850194,242751,ERX4087483,ERS4539485,ERA2539869,European Nucleotide Archive,European Nucleotide Archive,2,0.95247,0.95115,0.09117,0.09111,0.67048,0.67188,0.46883,0.46977,150,150,B,B,biological fallback assumption,illumina,hiseq_era,3prime,poly_a,nebnext,bulk,unknown,unknown,,Unknown,2020-05-01,Larval,Larval,Whole Organism,All anatomical structures
9863,ERR4091981,ERX4087482,ERS4539484,ERP121491,PRJEB38108,RNA Seq of wilt type and somatostatin 3 CrispR/Cas9 zebrafish mutants treated with dextran sodium sulfate DSS,E-MTAB-9018,Transcriptome Analysis,Wilt type and somatostatin 3 Sst3 gene CrispR/Cas9 mutants of the AB zebrafish strain were treated with dextran sodium sulfate DSS to determine the role of sst3 in the innate immune response.,ENA FIRST PUBLIC:2020 07 31|ENA LAST UPDATE:2020 05 01,,Protocols: Each sample consisted of a pool of 10 individuals each of 6 dpf wild type WT and homozygous mutant M sst3 /   untreated or treated with dextran sodium sulfate DSS which were were frozen at  80C and stored in liquid nitrogen for RNA extraction and sequencing. Zebrafish embryos were obtained from natural spawning and raised until 1 dpf in an incubator Panasonic  MIR 254 PC at 28.5°C in recirculating water 60 μg/mL instant ocean sea salts and supplemented with methylene blue up to 1 dpf. Larvae were grown at 28.5℃ for 5 days and from 6 dpf 15 dpf were fed with Paramecium. RNA from larvae was isolated using TRIzol Invitrogen  according to the manufacturer's instructions. The purity of the RNA was assessed using the NanoPhotometer spectrophotometer IMPLEN  CA USA and the RNA concentration was measured using the Qubit RNA Assay Kit in Qubit 2.0 Flurometer Life Technologies  CA  USA. RNA integrity was further assessed using the RNA Nano 6000 Assay Kit of the Bioanalyzer 2100 system Agilent Technologies  CA  USA. Done by Novogene: A total amount of 3 μg RNA per sample was used as input material for the RNA sample preparations. Sequencing libraries were generated using NEBNext Ultra RNA Library Prep Kit for Illumina NEB  USA following manufacturer's recommendations and index codes were added to attribute sequences to each sample. Briefly  mRNA was purified from total RNA using poly T oligo attached magnetic beads. Fragmentation was carried out using divalent cations under elevated temperature in NEBNext First Strand Synthesis Reaction Buffer 5X. First strand cDNA was synthesized using random hexamer primer and M MuLV Reverse Transcriptase RNase H . Second strand cDNA synthesis was subsequently performed using DNA Polymerase I and RNase H. Remaining overhangs were converted into blunt ends via exonuclease/polymerase activities. post adenylation of three prime ends of DNA fragments  NEBNext Adaptor with hairpin loop structure were ligated to prepare for hybridization. In order to select cDNA fragments of preferentially 250300 bp in length  the library fragments were purified with AMPure XP system Beckman Coulter  Beverly  USA. Then 3 μl USER Enzyme NEB  USA was used with size selected  adaptor ligated cDNA at 37°C for 15 min followed by 5 min at 95 °C before PCR. ThenPCR was performed with Phusion High Fidelity DNA polymerase  Universal PCR primers and Index X Primer. At last  PCR products were purified AMPure XP system and library quality was assessed on the Agilent Bioanalyzer 2100 system.,Sample 8,SAMEA6811838,Centre of Marine Sciences,ENA FIRST PUBLIC:2020 07 31T04:03:56Z|ENA LAST UPDATE:2020 05 01T13:37:30Z|External Id:SAMEA6811838|INSDC center name:Centre of Marine Sciences|INSDC first public:2020 07 31T04:03:56Z|INSDC last update:2020 05 01T13:37:30Z|INSDC status:public|Submitter Id:E MTAB 9018:Sample 8|age:8|broker name:ArrayExpress|common name:zebrafish|developmental stage:larval stage|genotype:wild type genotype|individual:pool of 10 individuals 8|sample name:E MTAB 9018:Sample 8|scientific name:Danio rerio|strain:AB,,,,,,,,,HiSeq X Ten paired end sequencing; RNA Seq of wilt type and somatostatin 3 CrispR/Cas9 zebrafish mutants treated with dextran sodium sulfate DSS,E MTAB 9018:Sample 8 p,Sample 8 p,RNA Seq of wilt type and somatostatin 3 CrispR/Cas9 zebrafish mutants treated with dextran sodium sulfate DSS,Each sample consisted of a pool of 10 individuals each of 6 dpf wild type WT and homozygous mutant M sst3 /   untreated or treated with dextran sodium sulfate DSS which were  were frozen at  80C and stored in liquid nitrogen for RNA extraction and sequencing. Zebrafish embryos were obtained from natural spawning and raised until 1 dpf in an incubator Panasonic  MIR 254 PC at 28.5°C in recirculating water 60 μg/mL instant ocean sea salts and supplemented with methylene blue up to 1 dpf. Larvae were grown at 28.5℃ for 5 days and from 6 dpf 15 dpf were fed with Paramecium.  RNA from larvae was isolated using TRIzol Invitrogen  according to the manufacturer's instructions. The purity of the RNA was assessed using the NanoPhotometer spectrophotometer IMPLEN  CA USA and the RNA concentration was measured using the Qubit RNA Assay Kit in Qubit 2.0 Flurometer Life Technologies  CA  USA. RNA integrity was further assessed using the RNA Nano 6000 Assay Kit of the Bioanalyzer 2100 system Agilent Technologies  CA  USA.   Done by Novogene: A total amount of 3 μg RNA per sample was used as input material for the RNA sample preparations. Sequencing libraries were generated using NEBNext Ultra RNA Library Prep Kit for Illumina NEB  USA following manufacturer's recommendations and index codes were added to attribute sequences to each sample. Briefly  mRNA was purified from total RNA using poly T oligo attached magnetic beads. Fragmentation was carried out using divalent cations under elevated temperature in NEBNext First Strand Synthesis Reaction Buffer 5X. First strand cDNA was synthesized using random hexamer primer and M MuLV Reverse Transcriptase RNase H . Second strand cDNA synthesis was subsequently performed using DNA Polymerase I and RNase H. Remaining overhangs were converted into blunt ends via exonuclease/polymerase activities. post adenylation of three prime ends of DNA fragments  NEBNext Adaptor with hairpin loop structure were ligated to prepare for hybridization. In order to select cDNA fragments of preferentially 250300 bp in length  the library fragments were purified with AMPure XP system Beckman Coulter  Beverly  USA. Then 3 μl USER Enzyme NEB  USA was used with size selected  adaptor ligated cDNA at 37°C for 15 min followed by 5 min at 95 °C before PCR. ThenPCR was performed with Phusion High Fidelity DNA polymerase  Universal PCR primers and Index X Primer. At last  PCR products were purified AMPure XP system and library quality was assessed on the Agilent Bioanalyzer 2100 system.,Experimental Factor: genotype:wild type genotype|Experimental Factor: stimulus:n1,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,HiSeq X Ten,,ERP121491,HiSeq X Ten paired end sequencing; RNA Seq of wilt type and somatostatin 3 CrispR/Cas9 zebrafish mutants treated with dextran sodium sulfate DSS,ENA FIRST PUBLIC:2020 07 31|ENA LAST UPDATE:2020 05 01,W_Con_B_1.fq.gz W_Con_B_2.fq.gz,fastq fastq,7020462600.0,23401542.0,E MTAB 9018:W Con B ,0:150 1:150,A:1871589307;C:1660051922;G:1642143183;T:1846464462;N:213726,150,150,,,1871589307,1660051922,1642143183,1846464462,213726,ERX4087482,ERS4539484,ERA2539869,European Nucleotide Archive,European Nucleotide Archive,2,0.95469,0.95135,0.08748,0.08735,0.67251,0.6744,0.47258,0.47123,150,150,B,B,biological fallback assumption,illumina,hiseq_era,3prime,poly_a,nebnext,bulk,unknown,unknown,,Unknown,2020-05-01,Larval,Larval,Whole Organism,All anatomical structures
9864,ERR4091980,ERX4087481,ERS4539483,ERP121491,PRJEB38108,RNA Seq of wilt type and somatostatin 3 CrispR/Cas9 zebrafish mutants treated with dextran sodium sulfate DSS,E-MTAB-9018,Transcriptome Analysis,Wilt type and somatostatin 3 Sst3 gene CrispR/Cas9 mutants of the AB zebrafish strain were treated with dextran sodium sulfate DSS to determine the role of sst3 in the innate immune response.,ENA FIRST PUBLIC:2020 07 31|ENA LAST UPDATE:2020 05 01,,Protocols: Each sample consisted of a pool of 10 individuals each of 6 dpf wild type WT and homozygous mutant M sst3 /   untreated or treated with dextran sodium sulfate DSS which were were frozen at  80C and stored in liquid nitrogen for RNA extraction and sequencing. Zebrafish embryos were obtained from natural spawning and raised until 1 dpf in an incubator Panasonic  MIR 254 PC at 28.5°C in recirculating water 60 μg/mL instant ocean sea salts and supplemented with methylene blue up to 1 dpf. Larvae were grown at 28.5℃ for 5 days and from 6 dpf 15 dpf were fed with Paramecium. RNA from larvae was isolated using TRIzol Invitrogen  according to the manufacturer's instructions. The purity of the RNA was assessed using the NanoPhotometer spectrophotometer IMPLEN  CA USA and the RNA concentration was measured using the Qubit RNA Assay Kit in Qubit 2.0 Flurometer Life Technologies  CA  USA. RNA integrity was further assessed using the RNA Nano 6000 Assay Kit of the Bioanalyzer 2100 system Agilent Technologies  CA  USA. Done by Novogene: A total amount of 3 μg RNA per sample was used as input material for the RNA sample preparations. Sequencing libraries were generated using NEBNext Ultra RNA Library Prep Kit for Illumina NEB  USA following manufacturer's recommendations and index codes were added to attribute sequences to each sample. Briefly  mRNA was purified from total RNA using poly T oligo attached magnetic beads. Fragmentation was carried out using divalent cations under elevated temperature in NEBNext First Strand Synthesis Reaction Buffer 5X. First strand cDNA was synthesized using random hexamer primer and M MuLV Reverse Transcriptase RNase H . Second strand cDNA synthesis was subsequently performed using DNA Polymerase I and RNase H. Remaining overhangs were converted into blunt ends via exonuclease/polymerase activities. post adenylation of three prime ends of DNA fragments  NEBNext Adaptor with hairpin loop structure were ligated to prepare for hybridization. In order to select cDNA fragments of preferentially 250300 bp in length  the library fragments were purified with AMPure XP system Beckman Coulter  Beverly  USA. Then 3 μl USER Enzyme NEB  USA was used with size selected  adaptor ligated cDNA at 37°C for 15 min followed by 5 min at 95 °C before PCR. ThenPCR was performed with Phusion High Fidelity DNA polymerase  Universal PCR primers and Index X Primer. At last  PCR products were purified AMPure XP system and library quality was assessed on the Agilent Bioanalyzer 2100 system.,Sample 7,SAMEA6811837,Centre of Marine Sciences,ENA FIRST PUBLIC:2020 07 31T04:03:56Z|ENA LAST UPDATE:2020 05 01T13:37:30Z|External Id:SAMEA6811837|INSDC center name:Centre of Marine Sciences|INSDC first public:2020 07 31T04:03:56Z|INSDC last update:2020 05 01T13:37:30Z|INSDC status:public|Submitter Id:E MTAB 9018:Sample 7|age:8|broker name:ArrayExpress|common name:zebrafish|developmental stage:larval stage|genotype:wild type genotype|individual:pool of 10 individuals 7|sample name:E MTAB 9018:Sample 7|scientific name:Danio rerio|strain:AB,,,,,,,,,HiSeq X Ten paired end sequencing; RNA Seq of wilt type and somatostatin 3 CrispR/Cas9 zebrafish mutants treated with dextran sodium sulfate DSS,E MTAB 9018:Sample 7 p,Sample 7 p,RNA Seq of wilt type and somatostatin 3 CrispR/Cas9 zebrafish mutants treated with dextran sodium sulfate DSS,Each sample consisted of a pool of 10 individuals each of 6 dpf wild type WT and homozygous mutant M sst3 /   untreated or treated with dextran sodium sulfate DSS which were  were frozen at  80C and stored in liquid nitrogen for RNA extraction and sequencing. Zebrafish embryos were obtained from natural spawning and raised until 1 dpf in an incubator Panasonic  MIR 254 PC at 28.5°C in recirculating water 60 μg/mL instant ocean sea salts and supplemented with methylene blue up to 1 dpf. Larvae were grown at 28.5℃ for 5 days and from 6 dpf 15 dpf were fed with Paramecium.  RNA from larvae was isolated using TRIzol Invitrogen  according to the manufacturer's instructions. The purity of the RNA was assessed using the NanoPhotometer spectrophotometer IMPLEN  CA USA and the RNA concentration was measured using the Qubit RNA Assay Kit in Qubit 2.0 Flurometer Life Technologies  CA  USA. RNA integrity was further assessed using the RNA Nano 6000 Assay Kit of the Bioanalyzer 2100 system Agilent Technologies  CA  USA.   Done by Novogene: A total amount of 3 μg RNA per sample was used as input material for the RNA sample preparations. Sequencing libraries were generated using NEBNext Ultra RNA Library Prep Kit for Illumina NEB  USA following manufacturer's recommendations and index codes were added to attribute sequences to each sample. Briefly  mRNA was purified from total RNA using poly T oligo attached magnetic beads. Fragmentation was carried out using divalent cations under elevated temperature in NEBNext First Strand Synthesis Reaction Buffer 5X. First strand cDNA was synthesized using random hexamer primer and M MuLV Reverse Transcriptase RNase H . Second strand cDNA synthesis was subsequently performed using DNA Polymerase I and RNase H. Remaining overhangs were converted into blunt ends via exonuclease/polymerase activities. post adenylation of three prime ends of DNA fragments  NEBNext Adaptor with hairpin loop structure were ligated to prepare for hybridization. In order to select cDNA fragments of preferentially 250300 bp in length  the library fragments were purified with AMPure XP system Beckman Coulter  Beverly  USA. Then 3 μl USER Enzyme NEB  USA was used with size selected  adaptor ligated cDNA at 37°C for 15 min followed by 5 min at 95 °C before PCR. ThenPCR was performed with Phusion High Fidelity DNA polymerase  Universal PCR primers and Index X Primer. At last  PCR products were purified AMPure XP system and library quality was assessed on the Agilent Bioanalyzer 2100 system.,Experimental Factor: genotype:wild type genotype|Experimental Factor: stimulus:n1,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,HiSeq X Ten,,ERP121491,HiSeq X Ten paired end sequencing; RNA Seq of wilt type and somatostatin 3 CrispR/Cas9 zebrafish mutants treated with dextran sodium sulfate DSS,ENA FIRST PUBLIC:2020 07 31|ENA LAST UPDATE:2020 05 01,W_Con_A_1.fq.gz W_Con_A_2.fq.gz,fastq fastq,8519130900.0,28397103.0,E MTAB 9018:W Con A ,0:150 1:150,A:2274905972;C:2012378249;G:1988658778;T:2242930152;N:257749,150,150,,,2274905972,2012378249,1988658778,2242930152,257749,ERX4087481,ERS4539483,ERA2539869,European Nucleotide Archive,European Nucleotide Archive,2,0.95188,0.94559,0.09538,0.09461,0.66354,0.66513,0.47016,0.46912,150,150,B,B,biological fallback assumption,illumina,hiseq_era,3prime,poly_a,nebnext,bulk,unknown,unknown,,Unknown,2020-05-01,Larval,Larval,Whole Organism,All anatomical structures
9865,ERR4091979,ERX4087480,ERS4539482,ERP121491,PRJEB38108,RNA Seq of wilt type and somatostatin 3 CrispR/Cas9 zebrafish mutants treated with dextran sodium sulfate DSS,E-MTAB-9018,Transcriptome Analysis,Wilt type and somatostatin 3 Sst3 gene CrispR/Cas9 mutants of the AB zebrafish strain were treated with dextran sodium sulfate DSS to determine the role of sst3 in the innate immune response.,ENA FIRST PUBLIC:2020 07 31|ENA LAST UPDATE:2020 05 01,,Protocols: Each sample consisted of a pool of 10 individuals each of 6 dpf wild type WT and homozygous mutant M sst3 /   untreated or treated with dextran sodium sulfate DSS which were were frozen at  80C and stored in liquid nitrogen for RNA extraction and sequencing. Zebrafish embryos were obtained from natural spawning and raised until 1 dpf in an incubator Panasonic  MIR 254 PC at 28.5°C in recirculating water 60 μg/mL instant ocean sea salts and supplemented with methylene blue up to 1 dpf. Larvae were grown at 28.5℃ for 5 days and from 6 dpf 15 dpf were fed with Paramecium. RNA from larvae was isolated using TRIzol Invitrogen  according to the manufacturer's instructions. The purity of the RNA was assessed using the NanoPhotometer spectrophotometer IMPLEN  CA USA and the RNA concentration was measured using the Qubit RNA Assay Kit in Qubit 2.0 Flurometer Life Technologies  CA  USA. RNA integrity was further assessed using the RNA Nano 6000 Assay Kit of the Bioanalyzer 2100 system Agilent Technologies  CA  USA. Done by Novogene: A total amount of 3 μg RNA per sample was used as input material for the RNA sample preparations. Sequencing libraries were generated using NEBNext Ultra RNA Library Prep Kit for Illumina NEB  USA following manufacturer's recommendations and index codes were added to attribute sequences to each sample. Briefly  mRNA was purified from total RNA using poly T oligo attached magnetic beads. Fragmentation was carried out using divalent cations under elevated temperature in NEBNext First Strand Synthesis Reaction Buffer 5X. First strand cDNA was synthesized using random hexamer primer and M MuLV Reverse Transcriptase RNase H . Second strand cDNA synthesis was subsequently performed using DNA Polymerase I and RNase H. Remaining overhangs were converted into blunt ends via exonuclease/polymerase activities. post adenylation of three prime ends of DNA fragments  NEBNext Adaptor with hairpin loop structure were ligated to prepare for hybridization. In order to select cDNA fragments of preferentially 250300 bp in length  the library fragments were purified with AMPure XP system Beckman Coulter  Beverly  USA. Then 3 μl USER Enzyme NEB  USA was used with size selected  adaptor ligated cDNA at 37°C for 15 min followed by 5 min at 95 °C before PCR. ThenPCR was performed with Phusion High Fidelity DNA polymerase  Universal PCR primers and Index X Primer. At last  PCR products were purified AMPure XP system and library quality was assessed on the Agilent Bioanalyzer 2100 system.,Sample 6,SAMEA6811836,Centre of Marine Sciences,ENA FIRST PUBLIC:2020 07 31T04:03:56Z|ENA LAST UPDATE:2020 05 01T13:37:30Z|External Id:SAMEA6811836|INSDC center name:Centre of Marine Sciences|INSDC first public:2020 07 31T04:03:56Z|INSDC last update:2020 05 01T13:37:30Z|INSDC status:public|Submitter Id:E MTAB 9018:Sample 6|age:8|broker name:ArrayExpress|common name:zebrafish|developmental stage:larval stage|genotype:CRISPR/Cas9 mediated Sst3 /  knockout|individual:pool of 10 individuals 6|sample name:E MTAB 9018:Sample 6|scientific name:Danio rerio|strain:AB,,,,,,,,,HiSeq X Ten paired end sequencing; RNA Seq of wilt type and somatostatin 3 CrispR/Cas9 zebrafish mutants treated with dextran sodium sulfate DSS,E MTAB 9018:Sample 6 p,Sample 6 p,RNA Seq of wilt type and somatostatin 3 CrispR/Cas9 zebrafish mutants treated with dextran sodium sulfate DSS,Each sample consisted of a pool of 10 individuals each of 6 dpf wild type WT and homozygous mutant M sst3 /   untreated or treated with dextran sodium sulfate DSS which were  were frozen at  80C and stored in liquid nitrogen for RNA extraction and sequencing. Zebrafish embryos were obtained from natural spawning and raised until 1 dpf in an incubator Panasonic  MIR 254 PC at 28.5°C in recirculating water 60 μg/mL instant ocean sea salts and supplemented with methylene blue up to 1 dpf. Larvae were grown at 28.5℃ for 5 days and from 6 dpf 15 dpf were fed with Paramecium.  RNA from larvae was isolated using TRIzol Invitrogen  according to the manufacturer's instructions. The purity of the RNA was assessed using the NanoPhotometer spectrophotometer IMPLEN  CA USA and the RNA concentration was measured using the Qubit RNA Assay Kit in Qubit 2.0 Flurometer Life Technologies  CA  USA. RNA integrity was further assessed using the RNA Nano 6000 Assay Kit of the Bioanalyzer 2100 system Agilent Technologies  CA  USA.   Done by Novogene: A total amount of 3 μg RNA per sample was used as input material for the RNA sample preparations. Sequencing libraries were generated using NEBNext Ultra RNA Library Prep Kit for Illumina NEB  USA following manufacturer's recommendations and index codes were added to attribute sequences to each sample. Briefly  mRNA was purified from total RNA using poly T oligo attached magnetic beads. Fragmentation was carried out using divalent cations under elevated temperature in NEBNext First Strand Synthesis Reaction Buffer 5X. First strand cDNA was synthesized using random hexamer primer and M MuLV Reverse Transcriptase RNase H . Second strand cDNA synthesis was subsequently performed using DNA Polymerase I and RNase H. Remaining overhangs were converted into blunt ends via exonuclease/polymerase activities. post adenylation of three prime ends of DNA fragments  NEBNext Adaptor with hairpin loop structure were ligated to prepare for hybridization. In order to select cDNA fragments of preferentially 250300 bp in length  the library fragments were purified with AMPure XP system Beckman Coulter  Beverly  USA. Then 3 μl USER Enzyme NEB  USA was used with size selected  adaptor ligated cDNA at 37°C for 15 min followed by 5 min at 95 °C before PCR. ThenPCR was performed with Phusion High Fidelity DNA polymerase  Universal PCR primers and Index X Primer. At last  PCR products were purified AMPure XP system and library quality was assessed on the Agilent Bioanalyzer 2100 system.,Experimental Factor: genotype:CRISPR/Cas9 mediated Sst3 /  knockout|Experimental Factor: stimulus:dextran sodium sulfate sodium 0.4%,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,HiSeq X Ten,,ERP121491,HiSeq X Ten paired end sequencing; RNA Seq of wilt type and somatostatin 3 CrispR/Cas9 zebrafish mutants treated with dextran sodium sulfate DSS,ENA FIRST PUBLIC:2020 07 31|ENA LAST UPDATE:2020 05 01,M_DSS_C_1.fq.gz M_DSS_C_2.fq.gz,fastq fastq,8624526600.0,28748422.0,E MTAB 9018:M DSS C ,0:150 1:150,A:2329218271;C:2003670989;G:1988245153;T:2303170674;N:221513,150,150,,,2329218271,2003670989,1988245153,2303170674,221513,ERX4087480,ERS4539482,ERA2539869,European Nucleotide Archive,European Nucleotide Archive,2,0.94319,0.9419,0.11569,0.11535,0.65429,0.65425,0.47566,0.4769,150,150,B,B,biological fallback assumption,illumina,hiseq_era,3prime,poly_a,nebnext,bulk,unknown,unknown,,Unknown,2020-05-01,Larval,Larval,Whole Organism,All anatomical structures
9866,ERR4091978,ERX4087479,ERS4539481,ERP121491,PRJEB38108,RNA Seq of wilt type and somatostatin 3 CrispR/Cas9 zebrafish mutants treated with dextran sodium sulfate DSS,E-MTAB-9018,Transcriptome Analysis,Wilt type and somatostatin 3 Sst3 gene CrispR/Cas9 mutants of the AB zebrafish strain were treated with dextran sodium sulfate DSS to determine the role of sst3 in the innate immune response.,ENA FIRST PUBLIC:2020 07 31|ENA LAST UPDATE:2020 05 01,,Protocols: Each sample consisted of a pool of 10 individuals each of 6 dpf wild type WT and homozygous mutant M sst3 /   untreated or treated with dextran sodium sulfate DSS which were were frozen at  80C and stored in liquid nitrogen for RNA extraction and sequencing. Zebrafish embryos were obtained from natural spawning and raised until 1 dpf in an incubator Panasonic  MIR 254 PC at 28.5°C in recirculating water 60 μg/mL instant ocean sea salts and supplemented with methylene blue up to 1 dpf. Larvae were grown at 28.5℃ for 5 days and from 6 dpf 15 dpf were fed with Paramecium. RNA from larvae was isolated using TRIzol Invitrogen  according to the manufacturer's instructions. The purity of the RNA was assessed using the NanoPhotometer spectrophotometer IMPLEN  CA USA and the RNA concentration was measured using the Qubit RNA Assay Kit in Qubit 2.0 Flurometer Life Technologies  CA  USA. RNA integrity was further assessed using the RNA Nano 6000 Assay Kit of the Bioanalyzer 2100 system Agilent Technologies  CA  USA. Done by Novogene: A total amount of 3 μg RNA per sample was used as input material for the RNA sample preparations. Sequencing libraries were generated using NEBNext Ultra RNA Library Prep Kit for Illumina NEB  USA following manufacturer's recommendations and index codes were added to attribute sequences to each sample. Briefly  mRNA was purified from total RNA using poly T oligo attached magnetic beads. Fragmentation was carried out using divalent cations under elevated temperature in NEBNext First Strand Synthesis Reaction Buffer 5X. First strand cDNA was synthesized using random hexamer primer and M MuLV Reverse Transcriptase RNase H . Second strand cDNA synthesis was subsequently performed using DNA Polymerase I and RNase H. Remaining overhangs were converted into blunt ends via exonuclease/polymerase activities. post adenylation of three prime ends of DNA fragments  NEBNext Adaptor with hairpin loop structure were ligated to prepare for hybridization. In order to select cDNA fragments of preferentially 250300 bp in length  the library fragments were purified with AMPure XP system Beckman Coulter  Beverly  USA. Then 3 μl USER Enzyme NEB  USA was used with size selected  adaptor ligated cDNA at 37°C for 15 min followed by 5 min at 95 °C before PCR. ThenPCR was performed with Phusion High Fidelity DNA polymerase  Universal PCR primers and Index X Primer. At last  PCR products were purified AMPure XP system and library quality was assessed on the Agilent Bioanalyzer 2100 system.,Sample 5,SAMEA6811835,Centre of Marine Sciences,ENA FIRST PUBLIC:2020 07 31T04:03:56Z|ENA LAST UPDATE:2020 05 01T13:37:30Z|External Id:SAMEA6811835|INSDC center name:Centre of Marine Sciences|INSDC first public:2020 07 31T04:03:56Z|INSDC last update:2020 05 01T13:37:30Z|INSDC status:public|Submitter Id:E MTAB 9018:Sample 5|age:8|broker name:ArrayExpress|common name:zebrafish|developmental stage:larval stage|genotype:CRISPR/Cas9 mediated Sst3 /  knockout|individual:pool of 10 individuals 5|sample name:E MTAB 9018:Sample 5|scientific name:Danio rerio|strain:AB,,,,,,,,,HiSeq X Ten paired end sequencing; RNA Seq of wilt type and somatostatin 3 CrispR/Cas9 zebrafish mutants treated with dextran sodium sulfate DSS,E MTAB 9018:Sample 5 p,Sample 5 p,RNA Seq of wilt type and somatostatin 3 CrispR/Cas9 zebrafish mutants treated with dextran sodium sulfate DSS,Each sample consisted of a pool of 10 individuals each of 6 dpf wild type WT and homozygous mutant M sst3 /   untreated or treated with dextran sodium sulfate DSS which were  were frozen at  80C and stored in liquid nitrogen for RNA extraction and sequencing. Zebrafish embryos were obtained from natural spawning and raised until 1 dpf in an incubator Panasonic  MIR 254 PC at 28.5°C in recirculating water 60 μg/mL instant ocean sea salts and supplemented with methylene blue up to 1 dpf. Larvae were grown at 28.5℃ for 5 days and from 6 dpf 15 dpf were fed with Paramecium.  RNA from larvae was isolated using TRIzol Invitrogen  according to the manufacturer's instructions. The purity of the RNA was assessed using the NanoPhotometer spectrophotometer IMPLEN  CA USA and the RNA concentration was measured using the Qubit RNA Assay Kit in Qubit 2.0 Flurometer Life Technologies  CA  USA. RNA integrity was further assessed using the RNA Nano 6000 Assay Kit of the Bioanalyzer 2100 system Agilent Technologies  CA  USA.   Done by Novogene: A total amount of 3 μg RNA per sample was used as input material for the RNA sample preparations. Sequencing libraries were generated using NEBNext Ultra RNA Library Prep Kit for Illumina NEB  USA following manufacturer's recommendations and index codes were added to attribute sequences to each sample. Briefly  mRNA was purified from total RNA using poly T oligo attached magnetic beads. Fragmentation was carried out using divalent cations under elevated temperature in NEBNext First Strand Synthesis Reaction Buffer 5X. First strand cDNA was synthesized using random hexamer primer and M MuLV Reverse Transcriptase RNase H . Second strand cDNA synthesis was subsequently performed using DNA Polymerase I and RNase H. Remaining overhangs were converted into blunt ends via exonuclease/polymerase activities. post adenylation of three prime ends of DNA fragments  NEBNext Adaptor with hairpin loop structure were ligated to prepare for hybridization. In order to select cDNA fragments of preferentially 250300 bp in length  the library fragments were purified with AMPure XP system Beckman Coulter  Beverly  USA. Then 3 μl USER Enzyme NEB  USA was used with size selected  adaptor ligated cDNA at 37°C for 15 min followed by 5 min at 95 °C before PCR. ThenPCR was performed with Phusion High Fidelity DNA polymerase  Universal PCR primers and Index X Primer. At last  PCR products were purified AMPure XP system and library quality was assessed on the Agilent Bioanalyzer 2100 system.,Experimental Factor: genotype:CRISPR/Cas9 mediated Sst3 /  knockout|Experimental Factor: stimulus:dextran sodium sulfate sodium 0.4%,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,HiSeq X Ten,,ERP121491,HiSeq X Ten paired end sequencing; RNA Seq of wilt type and somatostatin 3 CrispR/Cas9 zebrafish mutants treated with dextran sodium sulfate DSS,ENA FIRST PUBLIC:2020 07 31|ENA LAST UPDATE:2020 05 01,M_DSS_B_1.fq.gz M_DSS_B_2.fq.gz,fastq fastq,7724861100.0,25749537.0,E MTAB 9018:M DSS B ,0:150 1:150,A:2075007992;C:1808741476;G:1794964692;T:2045949533;N:197407,150,150,,,2075007992,1808741476,1794964692,2045949533,197407,ERX4087479,ERS4539481,ERA2539869,European Nucleotide Archive,European Nucleotide Archive,2,0.94579,0.94493,0.10589,0.10529,0.65464,0.65628,0.47753,0.4801,150,150,B,B,biological fallback assumption,illumina,hiseq_era,3prime,poly_a,nebnext,bulk,unknown,unknown,,Unknown,2020-05-01,Larval,Larval,Whole Organism,All anatomical structures
9867,ERR4091977,ERX4087478,ERS4539480,ERP121491,PRJEB38108,RNA Seq of wilt type and somatostatin 3 CrispR/Cas9 zebrafish mutants treated with dextran sodium sulfate DSS,E-MTAB-9018,Transcriptome Analysis,Wilt type and somatostatin 3 Sst3 gene CrispR/Cas9 mutants of the AB zebrafish strain were treated with dextran sodium sulfate DSS to determine the role of sst3 in the innate immune response.,ENA FIRST PUBLIC:2020 07 31|ENA LAST UPDATE:2020 05 01,,Protocols: Each sample consisted of a pool of 10 individuals each of 6 dpf wild type WT and homozygous mutant M sst3 /   untreated or treated with dextran sodium sulfate DSS which were were frozen at  80C and stored in liquid nitrogen for RNA extraction and sequencing. Zebrafish embryos were obtained from natural spawning and raised until 1 dpf in an incubator Panasonic  MIR 254 PC at 28.5°C in recirculating water 60 μg/mL instant ocean sea salts and supplemented with methylene blue up to 1 dpf. Larvae were grown at 28.5℃ for 5 days and from 6 dpf 15 dpf were fed with Paramecium. RNA from larvae was isolated using TRIzol Invitrogen  according to the manufacturer's instructions. The purity of the RNA was assessed using the NanoPhotometer spectrophotometer IMPLEN  CA USA and the RNA concentration was measured using the Qubit RNA Assay Kit in Qubit 2.0 Flurometer Life Technologies  CA  USA. RNA integrity was further assessed using the RNA Nano 6000 Assay Kit of the Bioanalyzer 2100 system Agilent Technologies  CA  USA. Done by Novogene: A total amount of 3 μg RNA per sample was used as input material for the RNA sample preparations. Sequencing libraries were generated using NEBNext Ultra RNA Library Prep Kit for Illumina NEB  USA following manufacturer's recommendations and index codes were added to attribute sequences to each sample. Briefly  mRNA was purified from total RNA using poly T oligo attached magnetic beads. Fragmentation was carried out using divalent cations under elevated temperature in NEBNext First Strand Synthesis Reaction Buffer 5X. First strand cDNA was synthesized using random hexamer primer and M MuLV Reverse Transcriptase RNase H . Second strand cDNA synthesis was subsequently performed using DNA Polymerase I and RNase H. Remaining overhangs were converted into blunt ends via exonuclease/polymerase activities. post adenylation of three prime ends of DNA fragments  NEBNext Adaptor with hairpin loop structure were ligated to prepare for hybridization. In order to select cDNA fragments of preferentially 250300 bp in length  the library fragments were purified with AMPure XP system Beckman Coulter  Beverly  USA. Then 3 μl USER Enzyme NEB  USA was used with size selected  adaptor ligated cDNA at 37°C for 15 min followed by 5 min at 95 °C before PCR. ThenPCR was performed with Phusion High Fidelity DNA polymerase  Universal PCR primers and Index X Primer. At last  PCR products were purified AMPure XP system and library quality was assessed on the Agilent Bioanalyzer 2100 system.,Sample 4,SAMEA6811834,Centre of Marine Sciences,ENA FIRST PUBLIC:2020 07 31T04:03:56Z|ENA LAST UPDATE:2020 05 01T13:37:30Z|External Id:SAMEA6811834|INSDC center name:Centre of Marine Sciences|INSDC first public:2020 07 31T04:03:56Z|INSDC last update:2020 05 01T13:37:30Z|INSDC status:public|Submitter Id:E MTAB 9018:Sample 4|age:8|broker name:ArrayExpress|common name:zebrafish|developmental stage:larval stage|genotype:CRISPR/Cas9 mediated Sst3 /  knockout|individual:pool of 10 individuals 4|sample name:E MTAB 9018:Sample 4|scientific name:Danio rerio|strain:AB,,,,,,,,,HiSeq X Ten paired end sequencing; RNA Seq of wilt type and somatostatin 3 CrispR/Cas9 zebrafish mutants treated with dextran sodium sulfate DSS,E MTAB 9018:Sample 4 p,Sample 4 p,RNA Seq of wilt type and somatostatin 3 CrispR/Cas9 zebrafish mutants treated with dextran sodium sulfate DSS,Each sample consisted of a pool of 10 individuals each of 6 dpf wild type WT and homozygous mutant M sst3 /   untreated or treated with dextran sodium sulfate DSS which were  were frozen at  80C and stored in liquid nitrogen for RNA extraction and sequencing. Zebrafish embryos were obtained from natural spawning and raised until 1 dpf in an incubator Panasonic  MIR 254 PC at 28.5°C in recirculating water 60 μg/mL instant ocean sea salts and supplemented with methylene blue up to 1 dpf. Larvae were grown at 28.5℃ for 5 days and from 6 dpf 15 dpf were fed with Paramecium.  RNA from larvae was isolated using TRIzol Invitrogen  according to the manufacturer's instructions. The purity of the RNA was assessed using the NanoPhotometer spectrophotometer IMPLEN  CA USA and the RNA concentration was measured using the Qubit RNA Assay Kit in Qubit 2.0 Flurometer Life Technologies  CA  USA. RNA integrity was further assessed using the RNA Nano 6000 Assay Kit of the Bioanalyzer 2100 system Agilent Technologies  CA  USA.   Done by Novogene: A total amount of 3 μg RNA per sample was used as input material for the RNA sample preparations. Sequencing libraries were generated using NEBNext Ultra RNA Library Prep Kit for Illumina NEB  USA following manufacturer's recommendations and index codes were added to attribute sequences to each sample. Briefly  mRNA was purified from total RNA using poly T oligo attached magnetic beads. Fragmentation was carried out using divalent cations under elevated temperature in NEBNext First Strand Synthesis Reaction Buffer 5X. First strand cDNA was synthesized using random hexamer primer and M MuLV Reverse Transcriptase RNase H . Second strand cDNA synthesis was subsequently performed using DNA Polymerase I and RNase H. Remaining overhangs were converted into blunt ends via exonuclease/polymerase activities. post adenylation of three prime ends of DNA fragments  NEBNext Adaptor with hairpin loop structure were ligated to prepare for hybridization. In order to select cDNA fragments of preferentially 250300 bp in length  the library fragments were purified with AMPure XP system Beckman Coulter  Beverly  USA. Then 3 μl USER Enzyme NEB  USA was used with size selected  adaptor ligated cDNA at 37°C for 15 min followed by 5 min at 95 °C before PCR. ThenPCR was performed with Phusion High Fidelity DNA polymerase  Universal PCR primers and Index X Primer. At last  PCR products were purified AMPure XP system and library quality was assessed on the Agilent Bioanalyzer 2100 system.,Experimental Factor: genotype:CRISPR/Cas9 mediated Sst3 /  knockout|Experimental Factor: stimulus:dextran sodium sulfate sodium 0.4%,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,HiSeq X Ten,,ERP121491,HiSeq X Ten paired end sequencing; RNA Seq of wilt type and somatostatin 3 CrispR/Cas9 zebrafish mutants treated with dextran sodium sulfate DSS,ENA FIRST PUBLIC:2020 07 31|ENA LAST UPDATE:2020 05 01,M_DSS_A_1.fq.gz M_DSS_A_2.fq.gz,fastq fastq,7688293800.0,25627646.0,E MTAB 9018:M DSS A ,0:150 1:150,A:2073022052;C:1791469708;G:1778836919;T:2044769558;N:195563,150,150,,,2073022052,1791469708,1778836919,2044769558,195563,ERX4087478,ERS4539480,ERA2539869,European Nucleotide Archive,European Nucleotide Archive,2,0.9469,0.94648,0.09843,0.09883,0.65646,0.65681,0.4755,0.47342,150,150,B,B,biological fallback assumption,illumina,hiseq_era,3prime,poly_a,nebnext,bulk,unknown,unknown,,Unknown,2020-05-01,Larval,Larval,Whole Organism,All anatomical structures
9868,ERR4091976,ERX4087477,ERS4539479,ERP121491,PRJEB38108,RNA Seq of wilt type and somatostatin 3 CrispR/Cas9 zebrafish mutants treated with dextran sodium sulfate DSS,E-MTAB-9018,Transcriptome Analysis,Wilt type and somatostatin 3 Sst3 gene CrispR/Cas9 mutants of the AB zebrafish strain were treated with dextran sodium sulfate DSS to determine the role of sst3 in the innate immune response.,ENA FIRST PUBLIC:2020 07 31|ENA LAST UPDATE:2020 05 01,,Protocols: Each sample consisted of a pool of 10 individuals each of 6 dpf wild type WT and homozygous mutant M sst3 /   untreated or treated with dextran sodium sulfate DSS which were were frozen at  80C and stored in liquid nitrogen for RNA extraction and sequencing. Zebrafish embryos were obtained from natural spawning and raised until 1 dpf in an incubator Panasonic  MIR 254 PC at 28.5°C in recirculating water 60 μg/mL instant ocean sea salts and supplemented with methylene blue up to 1 dpf. Larvae were grown at 28.5℃ for 5 days and from 6 dpf 15 dpf were fed with Paramecium. RNA from larvae was isolated using TRIzol Invitrogen  according to the manufacturer's instructions. The purity of the RNA was assessed using the NanoPhotometer spectrophotometer IMPLEN  CA USA and the RNA concentration was measured using the Qubit RNA Assay Kit in Qubit 2.0 Flurometer Life Technologies  CA  USA. RNA integrity was further assessed using the RNA Nano 6000 Assay Kit of the Bioanalyzer 2100 system Agilent Technologies  CA  USA. Done by Novogene: A total amount of 3 μg RNA per sample was used as input material for the RNA sample preparations. Sequencing libraries were generated using NEBNext Ultra RNA Library Prep Kit for Illumina NEB  USA following manufacturer's recommendations and index codes were added to attribute sequences to each sample. Briefly  mRNA was purified from total RNA using poly T oligo attached magnetic beads. Fragmentation was carried out using divalent cations under elevated temperature in NEBNext First Strand Synthesis Reaction Buffer 5X. First strand cDNA was synthesized using random hexamer primer and M MuLV Reverse Transcriptase RNase H . Second strand cDNA synthesis was subsequently performed using DNA Polymerase I and RNase H. Remaining overhangs were converted into blunt ends via exonuclease/polymerase activities. post adenylation of three prime ends of DNA fragments  NEBNext Adaptor with hairpin loop structure were ligated to prepare for hybridization. In order to select cDNA fragments of preferentially 250300 bp in length  the library fragments were purified with AMPure XP system Beckman Coulter  Beverly  USA. Then 3 μl USER Enzyme NEB  USA was used with size selected  adaptor ligated cDNA at 37°C for 15 min followed by 5 min at 95 °C before PCR. ThenPCR was performed with Phusion High Fidelity DNA polymerase  Universal PCR primers and Index X Primer. At last  PCR products were purified AMPure XP system and library quality was assessed on the Agilent Bioanalyzer 2100 system.,Sample 3,SAMEA6811833,Centre of Marine Sciences,ENA FIRST PUBLIC:2020 07 31T04:03:56Z|ENA LAST UPDATE:2020 05 01T13:37:30Z|External Id:SAMEA6811833|INSDC center name:Centre of Marine Sciences|INSDC first public:2020 07 31T04:03:56Z|INSDC last update:2020 05 01T13:37:30Z|INSDC status:public|Submitter Id:E MTAB 9018:Sample 3|age:8|broker name:ArrayExpress|common name:zebrafish|developmental stage:larval stage|genotype:CRISPR/Cas9 mediated Sst3 /  knockout|individual:pool of 10 individuals 3|sample name:E MTAB 9018:Sample 3|scientific name:Danio rerio|strain:AB,,,,,,,,,HiSeq X Ten paired end sequencing; RNA Seq of wilt type and somatostatin 3 CrispR/Cas9 zebrafish mutants treated with dextran sodium sulfate DSS,E MTAB 9018:Sample 3 p,Sample 3 p,RNA Seq of wilt type and somatostatin 3 CrispR/Cas9 zebrafish mutants treated with dextran sodium sulfate DSS,Each sample consisted of a pool of 10 individuals each of 6 dpf wild type WT and homozygous mutant M sst3 /   untreated or treated with dextran sodium sulfate DSS which were  were frozen at  80C and stored in liquid nitrogen for RNA extraction and sequencing. Zebrafish embryos were obtained from natural spawning and raised until 1 dpf in an incubator Panasonic  MIR 254 PC at 28.5°C in recirculating water 60 μg/mL instant ocean sea salts and supplemented with methylene blue up to 1 dpf. Larvae were grown at 28.5℃ for 5 days and from 6 dpf 15 dpf were fed with Paramecium.  RNA from larvae was isolated using TRIzol Invitrogen  according to the manufacturer's instructions. The purity of the RNA was assessed using the NanoPhotometer spectrophotometer IMPLEN  CA USA and the RNA concentration was measured using the Qubit RNA Assay Kit in Qubit 2.0 Flurometer Life Technologies  CA  USA. RNA integrity was further assessed using the RNA Nano 6000 Assay Kit of the Bioanalyzer 2100 system Agilent Technologies  CA  USA.   Done by Novogene: A total amount of 3 μg RNA per sample was used as input material for the RNA sample preparations. Sequencing libraries were generated using NEBNext Ultra RNA Library Prep Kit for Illumina NEB  USA following manufacturer's recommendations and index codes were added to attribute sequences to each sample. Briefly  mRNA was purified from total RNA using poly T oligo attached magnetic beads. Fragmentation was carried out using divalent cations under elevated temperature in NEBNext First Strand Synthesis Reaction Buffer 5X. First strand cDNA was synthesized using random hexamer primer and M MuLV Reverse Transcriptase RNase H . Second strand cDNA synthesis was subsequently performed using DNA Polymerase I and RNase H. Remaining overhangs were converted into blunt ends via exonuclease/polymerase activities. post adenylation of three prime ends of DNA fragments  NEBNext Adaptor with hairpin loop structure were ligated to prepare for hybridization. In order to select cDNA fragments of preferentially 250300 bp in length  the library fragments were purified with AMPure XP system Beckman Coulter  Beverly  USA. Then 3 μl USER Enzyme NEB  USA was used with size selected  adaptor ligated cDNA at 37°C for 15 min followed by 5 min at 95 °C before PCR. ThenPCR was performed with Phusion High Fidelity DNA polymerase  Universal PCR primers and Index X Primer. At last  PCR products were purified AMPure XP system and library quality was assessed on the Agilent Bioanalyzer 2100 system.,Experimental Factor: genotype:CRISPR/Cas9 mediated Sst3 /  knockout|Experimental Factor: stimulus:n1,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,HiSeq X Ten,,ERP121491,HiSeq X Ten paired end sequencing; RNA Seq of wilt type and somatostatin 3 CrispR/Cas9 zebrafish mutants treated with dextran sodium sulfate DSS,ENA FIRST PUBLIC:2020 07 31|ENA LAST UPDATE:2020 05 01,M_Con_C_1.fq.gz M_Con_C_2.fq.gz,fastq fastq,7985140200.0,26617134.0,E MTAB 9018:M Con C ,0:150 1:150,A:2144760983;C:1867900138;G:1849556035;T:2122718629;N:204415,150,150,,,2144760983,1867900138,1849556035,2122718629,204415,ERX4087477,ERS4539479,ERA2539869,European Nucleotide Archive,European Nucleotide Archive,2,0.94683,0.94599,0.10169,0.10188,0.66356,0.66306,0.46315,0.46572,150,150,B,B,biological fallback assumption,illumina,hiseq_era,3prime,poly_a,nebnext,bulk,unknown,unknown,,Unknown,2020-05-01,Larval,Larval,Whole Organism,All anatomical structures
9869,ERR4091975,ERX4087476,ERS4539478,ERP121491,PRJEB38108,RNA Seq of wilt type and somatostatin 3 CrispR/Cas9 zebrafish mutants treated with dextran sodium sulfate DSS,E-MTAB-9018,Transcriptome Analysis,Wilt type and somatostatin 3 Sst3 gene CrispR/Cas9 mutants of the AB zebrafish strain were treated with dextran sodium sulfate DSS to determine the role of sst3 in the innate immune response.,ENA FIRST PUBLIC:2020 07 31|ENA LAST UPDATE:2020 05 01,,Protocols: Each sample consisted of a pool of 10 individuals each of 6 dpf wild type WT and homozygous mutant M sst3 /   untreated or treated with dextran sodium sulfate DSS which were were frozen at  80C and stored in liquid nitrogen for RNA extraction and sequencing. Zebrafish embryos were obtained from natural spawning and raised until 1 dpf in an incubator Panasonic  MIR 254 PC at 28.5°C in recirculating water 60 μg/mL instant ocean sea salts and supplemented with methylene blue up to 1 dpf. Larvae were grown at 28.5℃ for 5 days and from 6 dpf 15 dpf were fed with Paramecium. RNA from larvae was isolated using TRIzol Invitrogen  according to the manufacturer's instructions. The purity of the RNA was assessed using the NanoPhotometer spectrophotometer IMPLEN  CA USA and the RNA concentration was measured using the Qubit RNA Assay Kit in Qubit 2.0 Flurometer Life Technologies  CA  USA. RNA integrity was further assessed using the RNA Nano 6000 Assay Kit of the Bioanalyzer 2100 system Agilent Technologies  CA  USA. Done by Novogene: A total amount of 3 μg RNA per sample was used as input material for the RNA sample preparations. Sequencing libraries were generated using NEBNext Ultra RNA Library Prep Kit for Illumina NEB  USA following manufacturer's recommendations and index codes were added to attribute sequences to each sample. Briefly  mRNA was purified from total RNA using poly T oligo attached magnetic beads. Fragmentation was carried out using divalent cations under elevated temperature in NEBNext First Strand Synthesis Reaction Buffer 5X. First strand cDNA was synthesized using random hexamer primer and M MuLV Reverse Transcriptase RNase H . Second strand cDNA synthesis was subsequently performed using DNA Polymerase I and RNase H. Remaining overhangs were converted into blunt ends via exonuclease/polymerase activities. post adenylation of three prime ends of DNA fragments  NEBNext Adaptor with hairpin loop structure were ligated to prepare for hybridization. In order to select cDNA fragments of preferentially 250300 bp in length  the library fragments were purified with AMPure XP system Beckman Coulter  Beverly  USA. Then 3 μl USER Enzyme NEB  USA was used with size selected  adaptor ligated cDNA at 37°C for 15 min followed by 5 min at 95 °C before PCR. ThenPCR was performed with Phusion High Fidelity DNA polymerase  Universal PCR primers and Index X Primer. At last  PCR products were purified AMPure XP system and library quality was assessed on the Agilent Bioanalyzer 2100 system.,Sample 2,SAMEA6811832,Centre of Marine Sciences,ENA FIRST PUBLIC:2020 07 31T04:03:56Z|ENA LAST UPDATE:2020 05 01T13:37:30Z|External Id:SAMEA6811832|INSDC center name:Centre of Marine Sciences|INSDC first public:2020 07 31T04:03:56Z|INSDC last update:2020 05 01T13:37:30Z|INSDC status:public|Submitter Id:E MTAB 9018:Sample 2|age:8|broker name:ArrayExpress|common name:zebrafish|developmental stage:larval stage|genotype:CRISPR/Cas9 mediated Sst3 /  knockout|individual:pool of 10 individuals 2|sample name:E MTAB 9018:Sample 2|scientific name:Danio rerio|strain:AB,,,,,,,,,HiSeq X Ten paired end sequencing; RNA Seq of wilt type and somatostatin 3 CrispR/Cas9 zebrafish mutants treated with dextran sodium sulfate DSS,E MTAB 9018:Sample 2 p,Sample 2 p,RNA Seq of wilt type and somatostatin 3 CrispR/Cas9 zebrafish mutants treated with dextran sodium sulfate DSS,Each sample consisted of a pool of 10 individuals each of 6 dpf wild type WT and homozygous mutant M sst3 /   untreated or treated with dextran sodium sulfate DSS which were  were frozen at  80C and stored in liquid nitrogen for RNA extraction and sequencing. Zebrafish embryos were obtained from natural spawning and raised until 1 dpf in an incubator Panasonic  MIR 254 PC at 28.5°C in recirculating water 60 μg/mL instant ocean sea salts and supplemented with methylene blue up to 1 dpf. Larvae were grown at 28.5℃ for 5 days and from 6 dpf 15 dpf were fed with Paramecium.  RNA from larvae was isolated using TRIzol Invitrogen  according to the manufacturer's instructions. The purity of the RNA was assessed using the NanoPhotometer spectrophotometer IMPLEN  CA USA and the RNA concentration was measured using the Qubit RNA Assay Kit in Qubit 2.0 Flurometer Life Technologies  CA  USA. RNA integrity was further assessed using the RNA Nano 6000 Assay Kit of the Bioanalyzer 2100 system Agilent Technologies  CA  USA.   Done by Novogene: A total amount of 3 μg RNA per sample was used as input material for the RNA sample preparations. Sequencing libraries were generated using NEBNext Ultra RNA Library Prep Kit for Illumina NEB  USA following manufacturer's recommendations and index codes were added to attribute sequences to each sample. Briefly  mRNA was purified from total RNA using poly T oligo attached magnetic beads. Fragmentation was carried out using divalent cations under elevated temperature in NEBNext First Strand Synthesis Reaction Buffer 5X. First strand cDNA was synthesized using random hexamer primer and M MuLV Reverse Transcriptase RNase H . Second strand cDNA synthesis was subsequently performed using DNA Polymerase I and RNase H. Remaining overhangs were converted into blunt ends via exonuclease/polymerase activities. post adenylation of three prime ends of DNA fragments  NEBNext Adaptor with hairpin loop structure were ligated to prepare for hybridization. In order to select cDNA fragments of preferentially 250300 bp in length  the library fragments were purified with AMPure XP system Beckman Coulter  Beverly  USA. Then 3 μl USER Enzyme NEB  USA was used with size selected  adaptor ligated cDNA at 37°C for 15 min followed by 5 min at 95 °C before PCR. ThenPCR was performed with Phusion High Fidelity DNA polymerase  Universal PCR primers and Index X Primer. At last  PCR products were purified AMPure XP system and library quality was assessed on the Agilent Bioanalyzer 2100 system.,Experimental Factor: genotype:CRISPR/Cas9 mediated Sst3 /  knockout|Experimental Factor: stimulus:n1,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,HiSeq X Ten,,ERP121491,HiSeq X Ten paired end sequencing; RNA Seq of wilt type and somatostatin 3 CrispR/Cas9 zebrafish mutants treated with dextran sodium sulfate DSS,ENA FIRST PUBLIC:2020 07 31|ENA LAST UPDATE:2020 05 01,M_Con_B_1.fq.gz M_Con_B_2.fq.gz,fastq fastq,8095952100.0,26986507.0,E MTAB 9018:M Con B ,0:150 1:150,A:2169930042;C:1900258308;G:1882602069;T:2142957387;N:204294,150,150,,,2169930042,1900258308,1882602069,2142957387,204294,ERX4087476,ERS4539478,ERA2539869,European Nucleotide Archive,European Nucleotide Archive,2,0.94617,0.94593,0.10478,0.10447,0.66318,0.66336,0.46803,0.46642,150,150,B,B,biological fallback assumption,illumina,hiseq_era,3prime,poly_a,nebnext,bulk,unknown,unknown,,Unknown,2020-05-01,Larval,Larval,Whole Organism,All anatomical structures
9870,ERR4091974,ERX4087475,ERS4539477,ERP121491,PRJEB38108,RNA Seq of wilt type and somatostatin 3 CrispR/Cas9 zebrafish mutants treated with dextran sodium sulfate DSS,E-MTAB-9018,Transcriptome Analysis,Wilt type and somatostatin 3 Sst3 gene CrispR/Cas9 mutants of the AB zebrafish strain were treated with dextran sodium sulfate DSS to determine the role of sst3 in the innate immune response.,ENA FIRST PUBLIC:2020 07 31|ENA LAST UPDATE:2020 05 01,,Protocols: Each sample consisted of a pool of 10 individuals each of 6 dpf wild type WT and homozygous mutant M sst3 /   untreated or treated with dextran sodium sulfate DSS which were were frozen at  80C and stored in liquid nitrogen for RNA extraction and sequencing. Zebrafish embryos were obtained from natural spawning and raised until 1 dpf in an incubator Panasonic  MIR 254 PC at 28.5°C in recirculating water 60 μg/mL instant ocean sea salts and supplemented with methylene blue up to 1 dpf. Larvae were grown at 28.5℃ for 5 days and from 6 dpf 15 dpf were fed with Paramecium. RNA from larvae was isolated using TRIzol Invitrogen  according to the manufacturer's instructions. The purity of the RNA was assessed using the NanoPhotometer spectrophotometer IMPLEN  CA USA and the RNA concentration was measured using the Qubit RNA Assay Kit in Qubit 2.0 Flurometer Life Technologies  CA  USA. RNA integrity was further assessed using the RNA Nano 6000 Assay Kit of the Bioanalyzer 2100 system Agilent Technologies  CA  USA. Done by Novogene: A total amount of 3 μg RNA per sample was used as input material for the RNA sample preparations. Sequencing libraries were generated using NEBNext Ultra RNA Library Prep Kit for Illumina NEB  USA following manufacturer's recommendations and index codes were added to attribute sequences to each sample. Briefly  mRNA was purified from total RNA using poly T oligo attached magnetic beads. Fragmentation was carried out using divalent cations under elevated temperature in NEBNext First Strand Synthesis Reaction Buffer 5X. First strand cDNA was synthesized using random hexamer primer and M MuLV Reverse Transcriptase RNase H . Second strand cDNA synthesis was subsequently performed using DNA Polymerase I and RNase H. Remaining overhangs were converted into blunt ends via exonuclease/polymerase activities. post adenylation of three prime ends of DNA fragments  NEBNext Adaptor with hairpin loop structure were ligated to prepare for hybridization. In order to select cDNA fragments of preferentially 250300 bp in length  the library fragments were purified with AMPure XP system Beckman Coulter  Beverly  USA. Then 3 μl USER Enzyme NEB  USA was used with size selected  adaptor ligated cDNA at 37°C for 15 min followed by 5 min at 95 °C before PCR. ThenPCR was performed with Phusion High Fidelity DNA polymerase  Universal PCR primers and Index X Primer. At last  PCR products were purified AMPure XP system and library quality was assessed on the Agilent Bioanalyzer 2100 system.,Sample 12,SAMEA6811831,Centre of Marine Sciences,ENA FIRST PUBLIC:2020 07 31T04:03:56Z|ENA LAST UPDATE:2020 05 01T13:37:30Z|External Id:SAMEA6811831|INSDC center name:Centre of Marine Sciences|INSDC first public:2020 07 31T04:03:56Z|INSDC last update:2020 05 01T13:37:30Z|INSDC status:public|Submitter Id:E MTAB 9018:Sample 12|age:8|broker name:ArrayExpress|common name:zebrafish|developmental stage:larval stage|genotype:wild type genotype|individual:pool of 10 individuals 12|sample name:E MTAB 9018:Sample 12|scientific name:Danio rerio|strain:AB,,,,,,,,,HiSeq X Ten paired end sequencing; RNA Seq of wilt type and somatostatin 3 CrispR/Cas9 zebrafish mutants treated with dextran sodium sulfate DSS,E MTAB 9018:Sample 12 p,Sample 12 p,RNA Seq of wilt type and somatostatin 3 CrispR/Cas9 zebrafish mutants treated with dextran sodium sulfate DSS,Each sample consisted of a pool of 10 individuals each of 6 dpf wild type WT and homozygous mutant M sst3 /   untreated or treated with dextran sodium sulfate DSS which were  were frozen at  80C and stored in liquid nitrogen for RNA extraction and sequencing. Zebrafish embryos were obtained from natural spawning and raised until 1 dpf in an incubator Panasonic  MIR 254 PC at 28.5°C in recirculating water 60 μg/mL instant ocean sea salts and supplemented with methylene blue up to 1 dpf. Larvae were grown at 28.5℃ for 5 days and from 6 dpf 15 dpf were fed with Paramecium.  RNA from larvae was isolated using TRIzol Invitrogen  according to the manufacturer's instructions. The purity of the RNA was assessed using the NanoPhotometer spectrophotometer IMPLEN  CA USA and the RNA concentration was measured using the Qubit RNA Assay Kit in Qubit 2.0 Flurometer Life Technologies  CA  USA. RNA integrity was further assessed using the RNA Nano 6000 Assay Kit of the Bioanalyzer 2100 system Agilent Technologies  CA  USA.   Done by Novogene: A total amount of 3 μg RNA per sample was used as input material for the RNA sample preparations. Sequencing libraries were generated using NEBNext Ultra RNA Library Prep Kit for Illumina NEB  USA following manufacturer's recommendations and index codes were added to attribute sequences to each sample. Briefly  mRNA was purified from total RNA using poly T oligo attached magnetic beads. Fragmentation was carried out using divalent cations under elevated temperature in NEBNext First Strand Synthesis Reaction Buffer 5X. First strand cDNA was synthesized using random hexamer primer and M MuLV Reverse Transcriptase RNase H . Second strand cDNA synthesis was subsequently performed using DNA Polymerase I and RNase H. Remaining overhangs were converted into blunt ends via exonuclease/polymerase activities. post adenylation of three prime ends of DNA fragments  NEBNext Adaptor with hairpin loop structure were ligated to prepare for hybridization. In order to select cDNA fragments of preferentially 250300 bp in length  the library fragments were purified with AMPure XP system Beckman Coulter  Beverly  USA. Then 3 μl USER Enzyme NEB  USA was used with size selected  adaptor ligated cDNA at 37°C for 15 min followed by 5 min at 95 °C before PCR. ThenPCR was performed with Phusion High Fidelity DNA polymerase  Universal PCR primers and Index X Primer. At last  PCR products were purified AMPure XP system and library quality was assessed on the Agilent Bioanalyzer 2100 system.,Experimental Factor: genotype:wild type genotype|Experimental Factor: stimulus:dextran sodium sulfate sodium 0.4%,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,HiSeq X Ten,,ERP121491,HiSeq X Ten paired end sequencing; RNA Seq of wilt type and somatostatin 3 CrispR/Cas9 zebrafish mutants treated with dextran sodium sulfate DSS,ENA FIRST PUBLIC:2020 07 31|ENA LAST UPDATE:2020 05 01,W_DSS_C_1.fq.gz W_DSS_C_2.fq.gz,fastq fastq,10705849200.0,35686164.0,E MTAB 9018:W DSS C ,0:150 1:150,A:2887224637;C:2496155337;G:2470575601;T:2851559752;N:333873,150,150,,,2887224637,2496155337,2470575601,2851559752,333873,ERX4087475,ERS4539477,ERA2539869,European Nucleotide Archive,European Nucleotide Archive,2,0.94507,0.94439,0.11279,0.11333,0.6561,0.65632,0.47737,0.4743,150,150,B,B,biological fallback assumption,illumina,hiseq_era,3prime,poly_a,nebnext,bulk,unknown,unknown,,Unknown,2020-05-01,Larval,Larval,Whole Organism,All anatomical structures
9871,ERR4091973,ERX4087474,ERS4539476,ERP121491,PRJEB38108,RNA Seq of wilt type and somatostatin 3 CrispR/Cas9 zebrafish mutants treated with dextran sodium sulfate DSS,E-MTAB-9018,Transcriptome Analysis,Wilt type and somatostatin 3 Sst3 gene CrispR/Cas9 mutants of the AB zebrafish strain were treated with dextran sodium sulfate DSS to determine the role of sst3 in the innate immune response.,ENA FIRST PUBLIC:2020 07 31|ENA LAST UPDATE:2020 05 01,,Protocols: Each sample consisted of a pool of 10 individuals each of 6 dpf wild type WT and homozygous mutant M sst3 /   untreated or treated with dextran sodium sulfate DSS which were were frozen at  80C and stored in liquid nitrogen for RNA extraction and sequencing. Zebrafish embryos were obtained from natural spawning and raised until 1 dpf in an incubator Panasonic  MIR 254 PC at 28.5°C in recirculating water 60 μg/mL instant ocean sea salts and supplemented with methylene blue up to 1 dpf. Larvae were grown at 28.5℃ for 5 days and from 6 dpf 15 dpf were fed with Paramecium. RNA from larvae was isolated using TRIzol Invitrogen  according to the manufacturer's instructions. The purity of the RNA was assessed using the NanoPhotometer spectrophotometer IMPLEN  CA USA and the RNA concentration was measured using the Qubit RNA Assay Kit in Qubit 2.0 Flurometer Life Technologies  CA  USA. RNA integrity was further assessed using the RNA Nano 6000 Assay Kit of the Bioanalyzer 2100 system Agilent Technologies  CA  USA. Done by Novogene: A total amount of 3 μg RNA per sample was used as input material for the RNA sample preparations. Sequencing libraries were generated using NEBNext Ultra RNA Library Prep Kit for Illumina NEB  USA following manufacturer's recommendations and index codes were added to attribute sequences to each sample. Briefly  mRNA was purified from total RNA using poly T oligo attached magnetic beads. Fragmentation was carried out using divalent cations under elevated temperature in NEBNext First Strand Synthesis Reaction Buffer 5X. First strand cDNA was synthesized using random hexamer primer and M MuLV Reverse Transcriptase RNase H . Second strand cDNA synthesis was subsequently performed using DNA Polymerase I and RNase H. Remaining overhangs were converted into blunt ends via exonuclease/polymerase activities. post adenylation of three prime ends of DNA fragments  NEBNext Adaptor with hairpin loop structure were ligated to prepare for hybridization. In order to select cDNA fragments of preferentially 250300 bp in length  the library fragments were purified with AMPure XP system Beckman Coulter  Beverly  USA. Then 3 μl USER Enzyme NEB  USA was used with size selected  adaptor ligated cDNA at 37°C for 15 min followed by 5 min at 95 °C before PCR. ThenPCR was performed with Phusion High Fidelity DNA polymerase  Universal PCR primers and Index X Primer. At last  PCR products were purified AMPure XP system and library quality was assessed on the Agilent Bioanalyzer 2100 system.,Sample 11,SAMEA6811830,Centre of Marine Sciences,ENA FIRST PUBLIC:2020 07 31T04:03:56Z|ENA LAST UPDATE:2020 05 01T13:37:30Z|External Id:SAMEA6811830|INSDC center name:Centre of Marine Sciences|INSDC first public:2020 07 31T04:03:56Z|INSDC last update:2020 05 01T13:37:30Z|INSDC status:public|Submitter Id:E MTAB 9018:Sample 11|age:8|broker name:ArrayExpress|common name:zebrafish|developmental stage:larval stage|genotype:wild type genotype|individual:pool of 10 individuals 11|sample name:E MTAB 9018:Sample 11|scientific name:Danio rerio|strain:AB,,,,,,,,,HiSeq X Ten paired end sequencing; RNA Seq of wilt type and somatostatin 3 CrispR/Cas9 zebrafish mutants treated with dextran sodium sulfate DSS,E MTAB 9018:Sample 11 p,Sample 11 p,RNA Seq of wilt type and somatostatin 3 CrispR/Cas9 zebrafish mutants treated with dextran sodium sulfate DSS,Each sample consisted of a pool of 10 individuals each of 6 dpf wild type WT and homozygous mutant M sst3 /   untreated or treated with dextran sodium sulfate DSS which were  were frozen at  80C and stored in liquid nitrogen for RNA extraction and sequencing. Zebrafish embryos were obtained from natural spawning and raised until 1 dpf in an incubator Panasonic  MIR 254 PC at 28.5°C in recirculating water 60 μg/mL instant ocean sea salts and supplemented with methylene blue up to 1 dpf. Larvae were grown at 28.5℃ for 5 days and from 6 dpf 15 dpf were fed with Paramecium.  RNA from larvae was isolated using TRIzol Invitrogen  according to the manufacturer's instructions. The purity of the RNA was assessed using the NanoPhotometer spectrophotometer IMPLEN  CA USA and the RNA concentration was measured using the Qubit RNA Assay Kit in Qubit 2.0 Flurometer Life Technologies  CA  USA. RNA integrity was further assessed using the RNA Nano 6000 Assay Kit of the Bioanalyzer 2100 system Agilent Technologies  CA  USA.   Done by Novogene: A total amount of 3 μg RNA per sample was used as input material for the RNA sample preparations. Sequencing libraries were generated using NEBNext Ultra RNA Library Prep Kit for Illumina NEB  USA following manufacturer's recommendations and index codes were added to attribute sequences to each sample. Briefly  mRNA was purified from total RNA using poly T oligo attached magnetic beads. Fragmentation was carried out using divalent cations under elevated temperature in NEBNext First Strand Synthesis Reaction Buffer 5X. First strand cDNA was synthesized using random hexamer primer and M MuLV Reverse Transcriptase RNase H . Second strand cDNA synthesis was subsequently performed using DNA Polymerase I and RNase H. Remaining overhangs were converted into blunt ends via exonuclease/polymerase activities. post adenylation of three prime ends of DNA fragments  NEBNext Adaptor with hairpin loop structure were ligated to prepare for hybridization. In order to select cDNA fragments of preferentially 250300 bp in length  the library fragments were purified with AMPure XP system Beckman Coulter  Beverly  USA. Then 3 μl USER Enzyme NEB  USA was used with size selected  adaptor ligated cDNA at 37°C for 15 min followed by 5 min at 95 °C before PCR. ThenPCR was performed with Phusion High Fidelity DNA polymerase  Universal PCR primers and Index X Primer. At last  PCR products were purified AMPure XP system and library quality was assessed on the Agilent Bioanalyzer 2100 system.,Experimental Factor: genotype:wild type genotype|Experimental Factor: stimulus:dextran sodium sulfate sodium 0.4%,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,HiSeq X Ten,,ERP121491,HiSeq X Ten paired end sequencing; RNA Seq of wilt type and somatostatin 3 CrispR/Cas9 zebrafish mutants treated with dextran sodium sulfate DSS,ENA FIRST PUBLIC:2020 07 31|ENA LAST UPDATE:2020 05 01,W_DSS_B_1.fq.gz W_DSS_B_2.fq.gz,fastq fastq,8261533500.0,27538445.0,E MTAB 9018:W DSS B ,0:150 1:150,A:2215705349;C:1941946411;G:1919702407;T:2183928810;N:250523,150,150,,,2215705349,1941946411,1919702407,2183928810,250523,ERX4087474,ERS4539476,ERA2539869,European Nucleotide Archive,European Nucleotide Archive,2,0.95069,0.94994,0.09908,0.09883,0.65543,0.65815,0.46658,0.46319,150,150,B,B,biological fallback assumption,illumina,hiseq_era,3prime,poly_a,nebnext,bulk,unknown,unknown,,Unknown,2020-05-01,Larval,Larval,Whole Organism,All anatomical structures
9872,ERR4091972,ERX4087473,ERS4539475,ERP121491,PRJEB38108,RNA Seq of wilt type and somatostatin 3 CrispR/Cas9 zebrafish mutants treated with dextran sodium sulfate DSS,E-MTAB-9018,Transcriptome Analysis,Wilt type and somatostatin 3 Sst3 gene CrispR/Cas9 mutants of the AB zebrafish strain were treated with dextran sodium sulfate DSS to determine the role of sst3 in the innate immune response.,ENA FIRST PUBLIC:2020 07 31|ENA LAST UPDATE:2020 05 01,,Protocols: Each sample consisted of a pool of 10 individuals each of 6 dpf wild type WT and homozygous mutant M sst3 /   untreated or treated with dextran sodium sulfate DSS which were were frozen at  80C and stored in liquid nitrogen for RNA extraction and sequencing. Zebrafish embryos were obtained from natural spawning and raised until 1 dpf in an incubator Panasonic  MIR 254 PC at 28.5°C in recirculating water 60 μg/mL instant ocean sea salts and supplemented with methylene blue up to 1 dpf. Larvae were grown at 28.5℃ for 5 days and from 6 dpf 15 dpf were fed with Paramecium. RNA from larvae was isolated using TRIzol Invitrogen  according to the manufacturer's instructions. The purity of the RNA was assessed using the NanoPhotometer spectrophotometer IMPLEN  CA USA and the RNA concentration was measured using the Qubit RNA Assay Kit in Qubit 2.0 Flurometer Life Technologies  CA  USA. RNA integrity was further assessed using the RNA Nano 6000 Assay Kit of the Bioanalyzer 2100 system Agilent Technologies  CA  USA. Done by Novogene: A total amount of 3 μg RNA per sample was used as input material for the RNA sample preparations. Sequencing libraries were generated using NEBNext Ultra RNA Library Prep Kit for Illumina NEB  USA following manufacturer's recommendations and index codes were added to attribute sequences to each sample. Briefly  mRNA was purified from total RNA using poly T oligo attached magnetic beads. Fragmentation was carried out using divalent cations under elevated temperature in NEBNext First Strand Synthesis Reaction Buffer 5X. First strand cDNA was synthesized using random hexamer primer and M MuLV Reverse Transcriptase RNase H . Second strand cDNA synthesis was subsequently performed using DNA Polymerase I and RNase H. Remaining overhangs were converted into blunt ends via exonuclease/polymerase activities. post adenylation of three prime ends of DNA fragments  NEBNext Adaptor with hairpin loop structure were ligated to prepare for hybridization. In order to select cDNA fragments of preferentially 250300 bp in length  the library fragments were purified with AMPure XP system Beckman Coulter  Beverly  USA. Then 3 μl USER Enzyme NEB  USA was used with size selected  adaptor ligated cDNA at 37°C for 15 min followed by 5 min at 95 °C before PCR. ThenPCR was performed with Phusion High Fidelity DNA polymerase  Universal PCR primers and Index X Primer. At last  PCR products were purified AMPure XP system and library quality was assessed on the Agilent Bioanalyzer 2100 system.,Sample 10,SAMEA6811829,Centre of Marine Sciences,ENA FIRST PUBLIC:2020 07 31T04:03:56Z|ENA LAST UPDATE:2020 05 01T13:37:30Z|External Id:SAMEA6811829|INSDC center name:Centre of Marine Sciences|INSDC first public:2020 07 31T04:03:56Z|INSDC last update:2020 05 01T13:37:30Z|INSDC status:public|Submitter Id:E MTAB 9018:Sample 10|age:8|broker name:ArrayExpress|common name:zebrafish|developmental stage:larval stage|genotype:wild type genotype|individual:pool of 10 individuals 10|sample name:E MTAB 9018:Sample 10|scientific name:Danio rerio|strain:AB,,,,,,,,,HiSeq X Ten paired end sequencing; RNA Seq of wilt type and somatostatin 3 CrispR/Cas9 zebrafish mutants treated with dextran sodium sulfate DSS,E MTAB 9018:Sample 10 p,Sample 10 p,RNA Seq of wilt type and somatostatin 3 CrispR/Cas9 zebrafish mutants treated with dextran sodium sulfate DSS,Each sample consisted of a pool of 10 individuals each of 6 dpf wild type WT and homozygous mutant M sst3 /   untreated or treated with dextran sodium sulfate DSS which were  were frozen at  80C and stored in liquid nitrogen for RNA extraction and sequencing. Zebrafish embryos were obtained from natural spawning and raised until 1 dpf in an incubator Panasonic  MIR 254 PC at 28.5°C in recirculating water 60 μg/mL instant ocean sea salts and supplemented with methylene blue up to 1 dpf. Larvae were grown at 28.5℃ for 5 days and from 6 dpf 15 dpf were fed with Paramecium.  RNA from larvae was isolated using TRIzol Invitrogen  according to the manufacturer's instructions. The purity of the RNA was assessed using the NanoPhotometer spectrophotometer IMPLEN  CA USA and the RNA concentration was measured using the Qubit RNA Assay Kit in Qubit 2.0 Flurometer Life Technologies  CA  USA. RNA integrity was further assessed using the RNA Nano 6000 Assay Kit of the Bioanalyzer 2100 system Agilent Technologies  CA  USA.   Done by Novogene: A total amount of 3 μg RNA per sample was used as input material for the RNA sample preparations. Sequencing libraries were generated using NEBNext Ultra RNA Library Prep Kit for Illumina NEB  USA following manufacturer's recommendations and index codes were added to attribute sequences to each sample. Briefly  mRNA was purified from total RNA using poly T oligo attached magnetic beads. Fragmentation was carried out using divalent cations under elevated temperature in NEBNext First Strand Synthesis Reaction Buffer 5X. First strand cDNA was synthesized using random hexamer primer and M MuLV Reverse Transcriptase RNase H . Second strand cDNA synthesis was subsequently performed using DNA Polymerase I and RNase H. Remaining overhangs were converted into blunt ends via exonuclease/polymerase activities. post adenylation of three prime ends of DNA fragments  NEBNext Adaptor with hairpin loop structure were ligated to prepare for hybridization. In order to select cDNA fragments of preferentially 250300 bp in length  the library fragments were purified with AMPure XP system Beckman Coulter  Beverly  USA. Then 3 μl USER Enzyme NEB  USA was used with size selected  adaptor ligated cDNA at 37°C for 15 min followed by 5 min at 95 °C before PCR. ThenPCR was performed with Phusion High Fidelity DNA polymerase  Universal PCR primers and Index X Primer. At last  PCR products were purified AMPure XP system and library quality was assessed on the Agilent Bioanalyzer 2100 system.,Experimental Factor: genotype:wild type genotype|Experimental Factor: stimulus:dextran sodium sulfate sodium 0.4%,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,HiSeq X Ten,,ERP121491,HiSeq X Ten paired end sequencing; RNA Seq of wilt type and somatostatin 3 CrispR/Cas9 zebrafish mutants treated with dextran sodium sulfate DSS,ENA FIRST PUBLIC:2020 07 31|ENA LAST UPDATE:2020 05 01,W_DSS_A_1.fq.gz W_DSS_A_2.fq.gz,fastq fastq,10063144500.0,33543815.0,E MTAB 9018:W DSS A ,0:150 1:150,A:2698044368;C:2362461290;G:2339825246;T:2662507903;N:305693,150,150,,,2698044368,2362461290,2339825246,2662507903,305693,ERX4087473,ERS4539475,ERA2539869,European Nucleotide Archive,European Nucleotide Archive,2,0.94925,0.94247,0.10432,0.10375,0.6592,0.66214,0.47686,0.46792,150,150,B,B,biological fallback assumption,illumina,hiseq_era,3prime,poly_a,nebnext,bulk,unknown,unknown,,Unknown,2020-05-01,Larval,Larval,Whole Organism,All anatomical structures
9873,ERR4091971,ERX4087472,ERS4539474,ERP121491,PRJEB38108,RNA Seq of wilt type and somatostatin 3 CrispR/Cas9 zebrafish mutants treated with dextran sodium sulfate DSS,E-MTAB-9018,Transcriptome Analysis,Wilt type and somatostatin 3 Sst3 gene CrispR/Cas9 mutants of the AB zebrafish strain were treated with dextran sodium sulfate DSS to determine the role of sst3 in the innate immune response.,ENA FIRST PUBLIC:2020 07 31|ENA LAST UPDATE:2020 05 01,,Protocols: Each sample consisted of a pool of 10 individuals each of 6 dpf wild type WT and homozygous mutant M sst3 /   untreated or treated with dextran sodium sulfate DSS which were were frozen at  80C and stored in liquid nitrogen for RNA extraction and sequencing. Zebrafish embryos were obtained from natural spawning and raised until 1 dpf in an incubator Panasonic  MIR 254 PC at 28.5°C in recirculating water 60 μg/mL instant ocean sea salts and supplemented with methylene blue up to 1 dpf. Larvae were grown at 28.5℃ for 5 days and from 6 dpf 15 dpf were fed with Paramecium. RNA from larvae was isolated using TRIzol Invitrogen  according to the manufacturer's instructions. The purity of the RNA was assessed using the NanoPhotometer spectrophotometer IMPLEN  CA USA and the RNA concentration was measured using the Qubit RNA Assay Kit in Qubit 2.0 Flurometer Life Technologies  CA  USA. RNA integrity was further assessed using the RNA Nano 6000 Assay Kit of the Bioanalyzer 2100 system Agilent Technologies  CA  USA. Done by Novogene: A total amount of 3 μg RNA per sample was used as input material for the RNA sample preparations. Sequencing libraries were generated using NEBNext Ultra RNA Library Prep Kit for Illumina NEB  USA following manufacturer's recommendations and index codes were added to attribute sequences to each sample. Briefly  mRNA was purified from total RNA using poly T oligo attached magnetic beads. Fragmentation was carried out using divalent cations under elevated temperature in NEBNext First Strand Synthesis Reaction Buffer 5X. First strand cDNA was synthesized using random hexamer primer and M MuLV Reverse Transcriptase RNase H . Second strand cDNA synthesis was subsequently performed using DNA Polymerase I and RNase H. Remaining overhangs were converted into blunt ends via exonuclease/polymerase activities. post adenylation of three prime ends of DNA fragments  NEBNext Adaptor with hairpin loop structure were ligated to prepare for hybridization. In order to select cDNA fragments of preferentially 250300 bp in length  the library fragments were purified with AMPure XP system Beckman Coulter  Beverly  USA. Then 3 μl USER Enzyme NEB  USA was used with size selected  adaptor ligated cDNA at 37°C for 15 min followed by 5 min at 95 °C before PCR. ThenPCR was performed with Phusion High Fidelity DNA polymerase  Universal PCR primers and Index X Primer. At last  PCR products were purified AMPure XP system and library quality was assessed on the Agilent Bioanalyzer 2100 system.,Sample 1,SAMEA6811828,Centre of Marine Sciences,ENA FIRST PUBLIC:2020 07 31T04:03:56Z|ENA LAST UPDATE:2020 05 01T13:37:30Z|External Id:SAMEA6811828|INSDC center name:Centre of Marine Sciences|INSDC first public:2020 07 31T04:03:56Z|INSDC last update:2020 05 01T13:37:30Z|INSDC status:public|Submitter Id:E MTAB 9018:Sample 1|age:8|broker name:ArrayExpress|common name:zebrafish|developmental stage:larval stage|genotype:CRISPR/Cas9 mediated Sst3 /  knockout|individual:pool of 10 individuals 1|sample name:E MTAB 9018:Sample 1|scientific name:Danio rerio|strain:AB,,,,,,,,,HiSeq X Ten paired end sequencing; RNA Seq of wilt type and somatostatin 3 CrispR/Cas9 zebrafish mutants treated with dextran sodium sulfate DSS,E MTAB 9018:Sample 1 p,Sample 1 p,RNA Seq of wilt type and somatostatin 3 CrispR/Cas9 zebrafish mutants treated with dextran sodium sulfate DSS,Each sample consisted of a pool of 10 individuals each of 6 dpf wild type WT and homozygous mutant M sst3 /   untreated or treated with dextran sodium sulfate DSS which were  were frozen at  80C and stored in liquid nitrogen for RNA extraction and sequencing. Zebrafish embryos were obtained from natural spawning and raised until 1 dpf in an incubator Panasonic  MIR 254 PC at 28.5°C in recirculating water 60 μg/mL instant ocean sea salts and supplemented with methylene blue up to 1 dpf. Larvae were grown at 28.5℃ for 5 days and from 6 dpf 15 dpf were fed with Paramecium.  RNA from larvae was isolated using TRIzol Invitrogen  according to the manufacturer's instructions. The purity of the RNA was assessed using the NanoPhotometer spectrophotometer IMPLEN  CA USA and the RNA concentration was measured using the Qubit RNA Assay Kit in Qubit 2.0 Flurometer Life Technologies  CA  USA. RNA integrity was further assessed using the RNA Nano 6000 Assay Kit of the Bioanalyzer 2100 system Agilent Technologies  CA  USA.   Done by Novogene: A total amount of 3 μg RNA per sample was used as input material for the RNA sample preparations. Sequencing libraries were generated using NEBNext Ultra RNA Library Prep Kit for Illumina NEB  USA following manufacturer's recommendations and index codes were added to attribute sequences to each sample. Briefly  mRNA was purified from total RNA using poly T oligo attached magnetic beads. Fragmentation was carried out using divalent cations under elevated temperature in NEBNext First Strand Synthesis Reaction Buffer 5X. First strand cDNA was synthesized using random hexamer primer and M MuLV Reverse Transcriptase RNase H . Second strand cDNA synthesis was subsequently performed using DNA Polymerase I and RNase H. Remaining overhangs were converted into blunt ends via exonuclease/polymerase activities. post adenylation of three prime ends of DNA fragments  NEBNext Adaptor with hairpin loop structure were ligated to prepare for hybridization. In order to select cDNA fragments of preferentially 250300 bp in length  the library fragments were purified with AMPure XP system Beckman Coulter  Beverly  USA. Then 3 μl USER Enzyme NEB  USA was used with size selected  adaptor ligated cDNA at 37°C for 15 min followed by 5 min at 95 °C before PCR. ThenPCR was performed with Phusion High Fidelity DNA polymerase  Universal PCR primers and Index X Primer. At last  PCR products were purified AMPure XP system and library quality was assessed on the Agilent Bioanalyzer 2100 system.,Experimental Factor: genotype:CRISPR/Cas9 mediated Sst3 /  knockout|Experimental Factor: stimulus:n1,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,HiSeq X Ten,,ERP121491,HiSeq X Ten paired end sequencing; RNA Seq of wilt type and somatostatin 3 CrispR/Cas9 zebrafish mutants treated with dextran sodium sulfate DSS,ENA FIRST PUBLIC:2020 07 31|ENA LAST UPDATE:2020 05 01,M_Con_A_1.fq.gz M_Con_A_2.fq.gz,fastq fastq,9107946000.0,30359820.0,E MTAB 9018:M Con A ,0:150 1:150,A:2399820088;C:2178279512;G:2158247560;T:2371366017;N:232823,150,150,,,2399820088,2178279512,2158247560,2371366017,232823,ERX4087472,ERS4539474,ERA2539869,European Nucleotide Archive,European Nucleotide Archive,2,0.9529,0.95223,0.09148,0.09202,0.66464,0.66569,0.46843,0.46725,150,150,B,B,biological fallback assumption,illumina,hiseq_era,3prime,poly_a,nebnext,bulk,unknown,unknown,,Unknown,2020-05-01,Larval,Larval,Whole Organism,All anatomical structures
9892,ERR4172795,ERX4136409,ERS4580819,ERP121885,PRJEB38455,RNA seq of sfpq /  zebrafish embryos and siblings at 24 hpf,E-MTAB-9113,Transcriptome Analysis,RNA was extracted from whole zebrafish embryos at 24 hpf to examine changes in gene expression and splicing in sfpq null mutants,ENA FIRST PUBLIC:2021 01 27|ENA LAST UPDATE:2020 05 22,,Protocols: Embryos were collected from in crosses of sfpq+/  adult zebrafish RNA was extracted using the RNEasy Mini Kit Qiagen Library constructed with ribodepletion,sibling 3,SAMEA6853229,Centre for Developmental Neurobiology King's College London,ENA FIRST PUBLIC:2020 12 01T04:08:08Z|ENA LAST UPDATE:2020 05 22T17:13:15Z|External Id:SAMEA6853229|INSDC center name:Centre for Developmental Neurobiology King's College London|INSDC first public:2020 12 01T04:08:08Z|INSDC last update:2020 05 22T17:13:15Z|INSDC status:public|Submitter Id:E MTAB 9113:sibling 3|age:24|broker name:ArrayExpress|common name:zebrafish|developmental stage:embryo|genotype:wild type genotype|sample name:E MTAB 9113:sibling 3|scientific name:Danio rerio,,,,,,,,,Illumina HiSeq 2500 paired end sequencing; RNA seq of sfpq /  zebrafish embryos and siblings at 24 hpf,E MTAB 9113:sibling 3 p,sibling 3 p,RNA seq of sfpq /  zebrafish embryos and siblings at 24 hpf,Embryos were collected from in crosses of sfpq+/  adult zebrafish RNA was extracted using the RNEasy Mini Kit Qiagen Library constructed with ribodepletion,Experimental Factor: genotype:wild type genotype,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,ERP121885,Illumina HiSeq 2500 paired end sequencing; RNA seq of sfpq /  zebrafish embryos and siblings at 24 hpf,ENA FIRST PUBLIC:2021 01 27|ENA LAST UPDATE:2020 06 19,UCLGNS1141-gfp-sibs-3_S6_R1.fastq.gz UCLGNS1141-gfp-sibs-3_S6_R2.fastq.gz,fastq fastq,,,E MTAB 9113:UCLGNS1141 gfp sibs 3 S6 R,0:81 1:81,A:1144578958;C:1113109875;G:1138809559;T:1117038434;N:213932,81,81,,,1144578958,1113109875,1138809559,1117038434,213932,ERX4136409,ERS4580819,ERA2625401,Centre for Developmental Neurobiology King,Centre for Developmental Neurobiology King,2,0.96684,0.96492,0.03244,0.0317,0.71236,0.71514,0.45871,0.46189,81,81,B,B,biological fallback assumption,illumina,hiseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,United Kingdom,2020-05-22,Multi-stage,Multi-stage,Embryo Imprecise,All anatomical structures