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734 rows where experiment.library_selection = "cDNA", technology = "unknown" and tissue_curation_coarse = "Multi-system"

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devstage_curation 7

experiment.platform 4

devstage_curation_coarse 4

tissue_curation 3

experiment.library_strategy 2

experiment.library_layout 2

tissue_curation_coarse 1

  • Multi-system · 734 ✖

technology 1

  • unknown · 734 ✖

experiment.library_source 1

experiment.library_selection 1

  • cDNA · 734 ✖
Link 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
51 51 DRR029943 DRX026961 DRS086501 DRP004756 PRJDB3475 Identification of ovulation inducing genes selected by the method for in vivo induction of oocyte maturation and ovulation in zebrafish DRP004756 Other To identify ovulation inducing genes RNAseq analysis was carried out using samples prepared by in vivo assay system in zebrafish.     oocyte maturation duirng natural paring zebrafish ovary isolated from adult fish at oocyte maturation duirng natural paring. [RNAseq] SAMD00025433   sample name:5 OM|strain:roy|tissue type:ovary|dev stage:adult                 Illumina HiSeq 2500 sequencing of SAMD00025433 DRX026961 5 OM 1 1   RNA-Seq TRANSCRIPTOMIC cDNA SINGLE ILLUMINA Illumina HiSeq 2500 <SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>36</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></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR> DRP004756 Illumina HiSeq 2500 sequencing of SAMD00025433       573617016.0 15933806.0 DRR029943 0:36 A:130606804;C:141376330;G:145891720;T:155734276;N:7886 36       130606804 141376330 145891720 155734276 7886 DRX026961 DRS086501 DRA003031 SHIZUOKA|Shizuoka University Shizuoka University 1 0.91108   0.0173   0.76205   0.46319   36   B   usable mapping rate illumina hiseq_era unknown cdna_unspecified unknown bulk unknown unknown   Japan 2019-01-23 Adult Adult Multi-tissue Multi-system
168 168 DRR075402 DRX069316 DRS075497 DRP004473 PRJDB5226 Effects of local gut tumor on whole organismal gene expressions in zebrafish DRP004473 Other How tumors affects whole organismal physiology remains largely unknown. To address this we established the novel gut tumor model in zebrafish Danio rerio. This model develops tumor at an early stage of juvenile development when zebrafish larvae are small <4mm enabling us to perform whole organismal RNA seq experiments. Control or tumor bearing zebrafish were dissected into the three parts under microscope: the liver the gut/gut tumor and others. Tissues from >10 individuals were pooled and RNA extracted. Analyses on these RNA seq samples identified a set of host genes affected by the gut tumor contributing to discovering novel tumor organ interactions and their mediators in zebrafish.     The liver of tumor fish 7dpf Tumor liver SAMD00065416   sample name:6 Tumor liver 150701 Hiseq3A l3 022|tissue type:Liver                 Illumina HiSeq 2500 sequencing of SAMD00065416 DRX069316 Tumor liver 1 Agilent SureSelect Strand Specific RNA Prep Kit   RNA-Seq TRANSCRIPTOMIC cDNA SINGLE ILLUMINA Illumina HiSeq 2500 <SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>36</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></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR> DRP004473 Illumina HiSeq 2500 sequencing of SAMD00065416       1091167236.0 30310201.0 DRR075402 0:36 A:272216839;C:257523620;G:259746158;T:301642763;N:37856 36       272216839 257523620 259746158 301642763 37856 DRX069316 DRS075497 DRA005199 ATR|The Thomas N. Sato BioMEC-X Laboratories, Advanced Telecommunications Research Institute International The Thomas N. Sato BioMEC-X Laboratories, Advanced Telecommunications Research Institute International 1 0.90443   0.08935   0.71863   0.51145   36   B   usable mapping rate illumina hiseq_era unknown cdna_unspecified unknown bulk unknown unknown   Japan 2018-09-19 Larval Larval Multi-tissue Multi-system
169 169 DRR075401 DRX069315 DRS075496 DRP004473 PRJDB5226 Effects of local gut tumor on whole organismal gene expressions in zebrafish DRP004473 Other How tumors affects whole organismal physiology remains largely unknown. To address this we established the novel gut tumor model in zebrafish Danio rerio. This model develops tumor at an early stage of juvenile development when zebrafish larvae are small <4mm enabling us to perform whole organismal RNA seq experiments. Control or tumor bearing zebrafish were dissected into the three parts under microscope: the liver the gut/gut tumor and others. Tissues from >10 individuals were pooled and RNA extracted. Analyses on these RNA seq samples identified a set of host genes affected by the gut tumor contributing to discovering novel tumor organ interactions and their mediators in zebrafish.     The gut of tumor fish 7dpf Tumor gut SAMD00065415   sample name:5 Tumor gut 150701 Hiseq3A l3 021|tissue type:Gut                 Illumina HiSeq 2500 sequencing of SAMD00065415 DRX069315 Tumor gut 1 Agilent SureSelect Strand Specific RNA Prep Kit   RNA-Seq TRANSCRIPTOMIC cDNA SINGLE ILLUMINA Illumina HiSeq 2500 <SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>36</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></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR> DRP004473 Illumina HiSeq 2500 sequencing of SAMD00065415       1423792872.0 39549802.0 DRR075401 0:36 A:342328685;C:346616167;G:341519547;T:393278536;N:49937 36       342328685 346616167 341519547 393278536 49937 DRX069315 DRS075496 DRA005199 ATR|The Thomas N. Sato BioMEC-X Laboratories, Advanced Telecommunications Research Institute International The Thomas N. Sato BioMEC-X Laboratories, Advanced Telecommunications Research Institute International 1 0.91303   0.0869   0.70494   0.44332   36   B   usable mapping rate illumina hiseq_era unknown cdna_unspecified unknown bulk unknown unknown   Japan 2018-09-19 Larval Larval Multi-tissue Multi-system
170 170 DRR075400 DRX069314 DRS075495 DRP004473 PRJDB5226 Effects of local gut tumor on whole organismal gene expressions in zebrafish DRP004473 Other How tumors affects whole organismal physiology remains largely unknown. To address this we established the novel gut tumor model in zebrafish Danio rerio. This model develops tumor at an early stage of juvenile development when zebrafish larvae are small <4mm enabling us to perform whole organismal RNA seq experiments. Control or tumor bearing zebrafish were dissected into the three parts under microscope: the liver the gut/gut tumor and others. Tissues from >10 individuals were pooled and RNA extracted. Analyses on these RNA seq samples identified a set of host genes affected by the gut tumor contributing to discovering novel tumor organ interactions and their mediators in zebrafish.     The remaining part of body of tumor fish 7dpf Tumor body SAMD00065414   sample name:4 Tumor body 150701 Hiseq3A l3 020|tissue type:Body                 Illumina HiSeq 2500 sequencing of SAMD00065414 DRX069314 Tumor body 1 Agilent SureSelect Strand Specific RNA Prep Kit   RNA-Seq TRANSCRIPTOMIC cDNA SINGLE ILLUMINA Illumina HiSeq 2500 <SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>36</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></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR> DRP004473 Illumina HiSeq 2500 sequencing of SAMD00065414       1168514964.0 32458749.0 DRR075400 0:36 A:286579925;C:275496498;G:278133055;T:328265078;N:40408 36       286579925 275496498 278133055 328265078 40408 DRX069314 DRS075495 DRA005199 ATR|The Thomas N. Sato BioMEC-X Laboratories, Advanced Telecommunications Research Institute International The Thomas N. Sato BioMEC-X Laboratories, Advanced Telecommunications Research Institute International 1 0.89927   0.15051   0.66714   0.47579   36   B   usable mapping rate illumina hiseq_era unknown cdna_unspecified unknown bulk unknown unknown   Japan 2018-09-19 Larval Larval Multi-tissue Multi-system
3703 3703 ERR1397087 ERX1468346 ERS1023493 ERP013838 PRJEB12367 Transcriptome profiling of zebrafish muscle from wild type and tert knockout adults Transcriptome_profiling_of_zebrafish_muscle_from_wild_type_and_tert_knockout_adults-sc-4036 Transcriptome Analysis Paired end sequence data from the IlluminaHiSeq was prepared from RNA of dissected muscle from wildtype and tert homozygous adult zebrafish for transcriptional profiling ArrayExpress:E ERAD 456     ZMP phentoype 186 1 8 SAMEA3716344 Wellcome Sanger Institute ArrayExpress DevelopmentalStage:Adult ZFS:0000044 9 month|ArrayExpress OrganismPart:Adult muscle|ArrayExpress Species:Danio rerio|ENA first public:2016 05 03|ENA last update:2015 12 17|External Id:SAMEA3716344|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 05 03T14:23:28Z|INSDC last update:2015 12 17T16:32:44Z|INSDC status:public|Submitter Id:2362a210 a400 11e5 8adb 68b59976a382|common name:zebrafish|sample description:3 prime end enriched mRNA from a 9 mpf tert wild type sibling adult zebrafish muscle tissue dissected from the region between the anal fin and the caudal fin plus ERCC spike mix 2 Ambion. The wild type adults were obtained by crossing parents heterozygous for tert sa6541 and growing the quarter wild type fish from the clutch. A 8 base indexing sequence TCTCTTCA is bases 13 to 20 of read 1 followed by CG and polyT. More information describing the mutant phenotype can be found at the Wellcome Trust Sanger Institute Zebrafish Mutation Project website http://www.sanger.ac.uk/cgi bin/Projects/D rerio/zmp/search.pl?q=zmp ph186|sample name:2362a210 a400 11e5 8adb 68b59976a382|strain:mixed                 Illumina HiSeq 2000 paired end sequencing SC EXP 18715 8#56 15566396 Illumina sequencing of library 15566396 constructed from sample accession ERS1023493 for study accession ERP013838. This is part of an Illumina multiplexed sequencing run 18715 8. This submission includes reads tagged with the sequence TCTCTTCA. Transcriptome counting qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2000   ERP013838 Illumina HiSeq 2000 paired end sequencing ENA FIRST PUBLIC:2016 05 03|ENA LAST UPDATE:2018 11 16 18715_8#56.cram cram 707144490.0 5439573.0 SC RUN 18715 8#56 0:55 1:75 A:188121373;C:125159654;G:138365161;T:255495006;N:3296 55 75     188121373 125159654 138365161 255495006 3296 ERX1468346 ERS1023493 ERA612387 European Nucleotide Archive Wellcome Sanger Institute 2 0.25954 0.84737 0.1072 0.10684 0.96889 0.90337 0.7843 0.68587 55 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2015-12-17 Adult Adult Multi-tissue Multi-system
3704 3704 ERR1397086 ERX1468345 ERS1023492 ERP013838 PRJEB12367 Transcriptome profiling of zebrafish muscle from wild type and tert knockout adults Transcriptome_profiling_of_zebrafish_muscle_from_wild_type_and_tert_knockout_adults-sc-4036 Transcriptome Analysis Paired end sequence data from the IlluminaHiSeq was prepared from RNA of dissected muscle from wildtype and tert homozygous adult zebrafish for transcriptional profiling ArrayExpress:E ERAD 456     ZMP phentoype 186 1 7 SAMEA3716343 Wellcome Sanger Institute ArrayExpress DevelopmentalStage:Adult ZFS:0000044 9 month|ArrayExpress OrganismPart:Adult muscle|ArrayExpress Species:Danio rerio|ENA first public:2016 05 03|ENA last update:2015 12 17|External Id:SAMEA3716343|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 05 03T14:23:28Z|INSDC last update:2015 12 17T16:32:43Z|INSDC status:public|Submitter Id:2359a160 a400 11e5 8adb 68b59976a382|common name:zebrafish|sample description:3 prime end enriched mRNA from a 9 mpf tert wild type sibling adult zebrafish muscle tissue dissected from the region between the anal fin and the caudal fin plus ERCC spike mix 2 Ambion. The wild type adults were obtained by crossing parents heterozygous for tert sa6541 and growing the quarter wild type fish from the clutch. A 8 base indexing sequence TGTGAAGA is bases 13 to 20 of read 1 followed by CG and polyT. More information describing the mutant phenotype can be found at the Wellcome Trust Sanger Institute Zebrafish Mutation Project website http://www.sanger.ac.uk/cgi bin/Projects/D rerio/zmp/search.pl?q=zmp ph186|sample name:2359a160 a400 11e5 8adb 68b59976a382|strain:mixed                 Illumina HiSeq 2000 paired end sequencing SC EXP 18715 8#55 15566395 Illumina sequencing of library 15566395 constructed from sample accession ERS1023492 for study accession ERP013838. This is part of an Illumina multiplexed sequencing run 18715 8. This submission includes reads tagged with the sequence TGTGAAGA. Transcriptome counting qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2000   ERP013838 Illumina HiSeq 2000 paired end sequencing ENA FIRST PUBLIC:2016 05 03|ENA LAST UPDATE:2018 11 16 18715_8#55.cram cram 618409870.0 4756999.0 SC RUN 18715 8#55 0:55 1:75 A:169528505;C:106711234;G:111143607;T:231024694;N:1830 55 75     169528505 106711234 111143607 231024694 1830 ERX1468345 ERS1023492 ERA612387 European Nucleotide Archive Wellcome Sanger Institute 2 0.31798 0.81356 0.1471 0.11489 0.9707 0.89708 0.48844 0.54567 55 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2015-12-17 Adult Adult Multi-tissue Multi-system
3705 3705 ERR1397085 ERX1468344 ERS1023491 ERP013838 PRJEB12367 Transcriptome profiling of zebrafish muscle from wild type and tert knockout adults Transcriptome_profiling_of_zebrafish_muscle_from_wild_type_and_tert_knockout_adults-sc-4036 Transcriptome Analysis Paired end sequence data from the IlluminaHiSeq was prepared from RNA of dissected muscle from wildtype and tert homozygous adult zebrafish for transcriptional profiling ArrayExpress:E ERAD 456     ZMP phentoype 186 1 6 SAMEA3716342 Wellcome Sanger Institute ArrayExpress DevelopmentalStage:Adult ZFS:0000044 9 month|ArrayExpress OrganismPart:Adult muscle|ArrayExpress Species:Danio rerio|ENA first public:2016 05 03|ENA last update:2015 12 17|External Id:SAMEA3716342|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 05 03T14:23:28Z|INSDC last update:2015 12 17T16:32:43Z|INSDC status:public|Submitter Id:2350a0b0 a400 11e5 8adb 68b59976a382|common name:zebrafish|sample description:3 prime end enriched mRNA from a 9 mpf tert wild type sibling adult zebrafish muscle tissue dissected from the region between the anal fin and the caudal fin plus ERCC spike mix 2 Ambion. The wild type adults were obtained by crossing parents heterozygous for tert sa6541 and growing the quarter wild type fish from the clutch. A 8 base indexing sequence TAGACGGA is bases 13 to 20 of read 1 followed by CG and polyT. More information describing the mutant phenotype can be found at the Wellcome Trust Sanger Institute Zebrafish Mutation Project website http://www.sanger.ac.uk/cgi bin/Projects/D rerio/zmp/search.pl?q=zmp ph186|sample name:2350a0b0 a400 11e5 8adb 68b59976a382|strain:mixed                 Illumina HiSeq 2000 paired end sequencing SC EXP 18715 8#54 15566394 Illumina sequencing of library 15566394 constructed from sample accession ERS1023491 for study accession ERP013838. This is part of an Illumina multiplexed sequencing run 18715 8. This submission includes reads tagged with the sequence TAGACGGA. Transcriptome counting qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2000   ERP013838 Illumina HiSeq 2000 paired end sequencing ENA FIRST PUBLIC:2016 05 03|ENA LAST UPDATE:2018 11 16 18715_8#54.cram cram 714746240.0 5498048.0 SC RUN 18715 8#54 0:55 1:75 A:192003042;C:125908202;G:130551705;T:266281416;N:1875 55 75     192003042 125908202 130551705 266281416 1875 ERX1468344 ERS1023491 ERA612387 European Nucleotide Archive Wellcome Sanger Institute 2 0.28492 0.84395 0.14733 0.11571 0.9727 0.90149 0.81768 0.65432 55 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2015-12-17 Adult Adult Multi-tissue Multi-system
3706 3706 ERR1397084 ERX1468343 ERS1023490 ERP013838 PRJEB12367 Transcriptome profiling of zebrafish muscle from wild type and tert knockout adults Transcriptome_profiling_of_zebrafish_muscle_from_wild_type_and_tert_knockout_adults-sc-4036 Transcriptome Analysis Paired end sequence data from the IlluminaHiSeq was prepared from RNA of dissected muscle from wildtype and tert homozygous adult zebrafish for transcriptional profiling ArrayExpress:E ERAD 456     ZMP phentoype 186 1 5 SAMEA3716341 Wellcome Sanger Institute ArrayExpress DevelopmentalStage:Adult ZFS:0000044 9 month|ArrayExpress OrganismPart:Adult muscle|ArrayExpress Species:Danio rerio|ENA first public:2016 05 03|ENA last update:2015 12 17|External Id:SAMEA3716341|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 05 03T14:23:28Z|INSDC last update:2015 12 17T16:32:43Z|INSDC status:public|Submitter Id:234778f0 a400 11e5 8adb 68b59976a382|common name:zebrafish|sample description:3 prime end enriched mRNA from a 9 mpf tert wild type sibling adult zebrafish muscle tissue dissected from the region between the anal fin and the caudal fin plus ERCC spike mix 2 Ambion. The wild type adults were obtained by crossing parents heterozygous for tert sa6541 and growing the quarter wild type fish from the clutch. A 8 base indexing sequence TGCTGATA is bases 13 to 20 of read 1 followed by CG and polyT. More information describing the mutant phenotype can be found at the Wellcome Trust Sanger Institute Zebrafish Mutation Project website http://www.sanger.ac.uk/cgi bin/Projects/D rerio/zmp/search.pl?q=zmp ph186|sample name:234778f0 a400 11e5 8adb 68b59976a382|strain:mixed                 Illumina HiSeq 2000 paired end sequencing SC EXP 18715 8#53 15566393 Illumina sequencing of library 15566393 constructed from sample accession ERS1023490 for study accession ERP013838. This is part of an Illumina multiplexed sequencing run 18715 8. This submission includes reads tagged with the sequence TGCTGATA. Transcriptome counting qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2000   ERP013838 Illumina HiSeq 2000 paired end sequencing ENA FIRST PUBLIC:2016 05 03|ENA LAST UPDATE:2018 11 16 18715_8#53.cram cram 746119400.0 5739380.0 SC RUN 18715 8#53 0:55 1:75 A:202741777;C:128874768;G:133432494;T:281067099;N:3262 55 75     202741777 128874768 133432494 281067099 3262 ERX1468343 ERS1023490 ERA612387 European Nucleotide Archive Wellcome Sanger Institute 2 0.28545 0.827 0.17591 0.11992 0.97165 0.89483 0.77417 0.62382 55 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2015-12-17 Adult Adult Multi-tissue Multi-system
3707 3707 ERR1397083 ERX1468342 ERS1023489 ERP013838 PRJEB12367 Transcriptome profiling of zebrafish muscle from wild type and tert knockout adults Transcriptome_profiling_of_zebrafish_muscle_from_wild_type_and_tert_knockout_adults-sc-4036 Transcriptome Analysis Paired end sequence data from the IlluminaHiSeq was prepared from RNA of dissected muscle from wildtype and tert homozygous adult zebrafish for transcriptional profiling ArrayExpress:E ERAD 456     ZMP phentoype 186 1 4 SAMEA3716340 Wellcome Sanger Institute ArrayExpress DevelopmentalStage:Adult ZFS:0000044 9 month|ArrayExpress OrganismPart:Adult muscle|ArrayExpress Species:Danio rerio|ENA first public:2016 05 03|ENA last update:2015 12 17|External Id:SAMEA3716340|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 05 03T14:23:28Z|INSDC last update:2015 12 17T16:32:42Z|INSDC status:public|Submitter Id:233e7840 a400 11e5 8adb 68b59976a382|common name:zebrafish|sample description:3 prime end enriched mRNA from a 9 mpf homozygous tert adult zebrafish muscle tissue dissected from the region between the anal fin and the caudal fin plus ERCC spike mix 2 Ambion. The homozygous adults were obtained by crossing parents heterozygous for tert sa6541 and growing the quarter homozygous fish from the clutch. A 8 base indexing sequence TCGTTAGC is bases 13 to 20 of read 1 followed by CG and polyT. More information describing the mutant phenotype can be found at the Wellcome Trust Sanger Institute Zebrafish Mutation Project website http://www.sanger.ac.uk/cgi bin/Projects/D rerio/zmp/search.pl?q=zmp ph186|sample name:233e7840 a400 11e5 8adb 68b59976a382|strain:mixed                 Illumina HiSeq 2000 paired end sequencing SC EXP 18715 8#52 15566392 Illumina sequencing of library 15566392 constructed from sample accession ERS1023489 for study accession ERP013838. This is part of an Illumina multiplexed sequencing run 18715 8. This submission includes reads tagged with the sequence TCGTTAGC. Transcriptome counting qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2000   ERP013838 Illumina HiSeq 2000 paired end sequencing ENA FIRST PUBLIC:2016 05 03|ENA LAST UPDATE:2018 11 16 18715_8#52.cram cram 776598680.0 5973836.0 SC RUN 18715 8#52 0:55 1:75 A:207406716;C:137168865;G:146112068;T:285908651;N:2380 55 75     207406716 137168865 146112068 285908651 2380 ERX1468342 ERS1023489 ERA612387 European Nucleotide Archive Wellcome Sanger Institute 2 0.27793 0.8492 0.1319 0.11351 0.97145 0.90366 0.80649 0.66871 55 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2015-12-17 Adult Adult Multi-tissue Multi-system
3708 3708 ERR1397082 ERX1468341 ERS1023488 ERP013838 PRJEB12367 Transcriptome profiling of zebrafish muscle from wild type and tert knockout adults Transcriptome_profiling_of_zebrafish_muscle_from_wild_type_and_tert_knockout_adults-sc-4036 Transcriptome Analysis Paired end sequence data from the IlluminaHiSeq was prepared from RNA of dissected muscle from wildtype and tert homozygous adult zebrafish for transcriptional profiling ArrayExpress:E ERAD 456     ZMP phentoype 186 1 3 SAMEA3716339 Wellcome Sanger Institute ArrayExpress DevelopmentalStage:Adult ZFS:0000044 9 month|ArrayExpress OrganismPart:Adult muscle|ArrayExpress Species:Danio rerio|ENA first public:2016 05 03|ENA last update:2015 12 17|External Id:SAMEA3716339|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 05 03T14:23:28Z|INSDC last update:2015 12 17T16:32:42Z|INSDC status:public|Submitter Id:23355080 a400 11e5 8adb 68b59976a382|common name:zebrafish|sample description:3 prime end enriched mRNA from a 9 mpf homozygous tert adult zebrafish muscle tissue dissected from the region between the anal fin and the caudal fin plus ERCC spike mix 2 Ambion. The homozygous adults were obtained by crossing parents heterozygous for tert sa6541 and growing the quarter homozygous fish from the clutch. A 8 base indexing sequence TTACTCGC is bases 13 to 20 of read 1 followed by CG and polyT. More information describing the mutant phenotype can be found at the Wellcome Trust Sanger Institute Zebrafish Mutation Project website http://www.sanger.ac.uk/cgi bin/Projects/D rerio/zmp/search.pl?q=zmp ph186|sample name:23355080 a400 11e5 8adb 68b59976a382|strain:mixed                 Illumina HiSeq 2000 paired end sequencing SC EXP 18715 8#51 15566391 Illumina sequencing of library 15566391 constructed from sample accession ERS1023488 for study accession ERP013838. This is part of an Illumina multiplexed sequencing run 18715 8. This submission includes reads tagged with the sequence TTACTCGC. Transcriptome counting qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2000   ERP013838 Illumina HiSeq 2000 paired end sequencing ENA FIRST PUBLIC:2016 05 03|ENA LAST UPDATE:2018 11 16 18715_8#51.cram cram 636459330.0 4895841.0 SC RUN 18715 8#51 0:55 1:75 A:170841699;C:107415456;G:118061456;T:240137938;N:2781 55 75     170841699 107415456 118061456 240137938 2781 ERX1468341 ERS1023488 ERA612387 European Nucleotide Archive Wellcome Sanger Institute 2 0.33457 0.84812 0.16722 0.11863 0.97165 0.88755 0.82802 0.54829 55 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2015-12-17 Adult Adult Multi-tissue Multi-system
3709 3709 ERR1397081 ERX1468340 ERS1023487 ERP013838 PRJEB12367 Transcriptome profiling of zebrafish muscle from wild type and tert knockout adults Transcriptome_profiling_of_zebrafish_muscle_from_wild_type_and_tert_knockout_adults-sc-4036 Transcriptome Analysis Paired end sequence data from the IlluminaHiSeq was prepared from RNA of dissected muscle from wildtype and tert homozygous adult zebrafish for transcriptional profiling ArrayExpress:E ERAD 456     ZMP phentoype 186 1 2 SAMEA3716338 Wellcome Sanger Institute ArrayExpress DevelopmentalStage:Adult ZFS:0000044 9 month|ArrayExpress OrganismPart:Adult muscle|ArrayExpress Species:Danio rerio|ENA first public:2016 05 03|ENA last update:2015 12 17|External Id:SAMEA3716338|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 05 03T14:23:28Z|INSDC last update:2015 12 17T16:32:41Z|INSDC status:public|Submitter Id:232c01b0 a400 11e5 8adb 68b59976a382|common name:zebrafish|sample description:3 prime end enriched mRNA from a 9 mpf homozygous tert adult zebrafish muscle tissue dissected from the region between the anal fin and the caudal fin plus ERCC spike mix 2 Ambion. The homozygous adults were obtained by crossing parents heterozygous for tert sa6541 and growing the quarter homozygous fish from the clutch. A 8 base indexing sequence TATGTGGC is bases 13 to 20 of read 1 followed by CG and polyT. More information describing the mutant phenotype can be found at the Wellcome Trust Sanger Institute Zebrafish Mutation Project website http://www.sanger.ac.uk/cgi bin/Projects/D rerio/zmp/search.pl?q=zmp ph186|sample name:232c01b0 a400 11e5 8adb 68b59976a382|strain:mixed                 Illumina HiSeq 2000 paired end sequencing SC EXP 18715 8#50 15566390 Illumina sequencing of library 15566390 constructed from sample accession ERS1023487 for study accession ERP013838. This is part of an Illumina multiplexed sequencing run 18715 8. This submission includes reads tagged with the sequence TATGTGGC. Transcriptome counting qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2000   ERP013838 Illumina HiSeq 2000 paired end sequencing ENA FIRST PUBLIC:2016 05 03|ENA LAST UPDATE:2018 11 16 18715_8#50.cram cram 762887060.0 5868362.0 SC RUN 18715 8#50 0:55 1:75 A:205092929;C:134351479;G:140981680;T:282458912;N:2060 55 75     205092929 134351479 140981680 282458912 2060 ERX1468340 ERS1023487 ERA612387 European Nucleotide Archive Wellcome Sanger Institute 2 0.29975 0.85617 0.14999 0.11598 0.97023 0.8981 0.81631 0.69434 55 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2015-12-17 Adult Adult Multi-tissue Multi-system
3710 3710 ERR1397080 ERX1468339 ERS1023486 ERP013838 PRJEB12367 Transcriptome profiling of zebrafish muscle from wild type and tert knockout adults Transcriptome_profiling_of_zebrafish_muscle_from_wild_type_and_tert_knockout_adults-sc-4036 Transcriptome Analysis Paired end sequence data from the IlluminaHiSeq was prepared from RNA of dissected muscle from wildtype and tert homozygous adult zebrafish for transcriptional profiling ArrayExpress:E ERAD 456     ZMP phentoype 186 1 1 SAMEA3716337 Wellcome Sanger Institute ArrayExpress DevelopmentalStage:Adult ZFS:0000044 9 month|ArrayExpress OrganismPart:Adult muscle|ArrayExpress Species:Danio rerio|ENA first public:2016 05 03|ENA last update:2015 12 17|External Id:SAMEA3716337|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 05 03T14:23:28Z|INSDC last update:2015 12 17T16:32:41Z|INSDC status:public|Submitter Id:2322d9f0 a400 11e5 8adb 68b59976a382|common name:zebrafish|sample description:3 prime end enriched mRNA from a 9 mpf homozygous tert adult zebrafish muscle tissue dissected from the region between the anal fin and the caudal fin plus ERCC spike mix 2 Ambion. The homozygous adults were obtained by crossing parents heterozygous for tert sa6541 and growing the quarter homozygous fish from the clutch. A 8 base indexing sequence TGTCTATC is bases 13 to 20 of read 1 followed by CG and polyT. More information describing the mutant phenotype can be found at the Wellcome Trust Sanger Institute Zebrafish Mutation Project website http://www.sanger.ac.uk/cgi bin/Projects/D rerio/zmp/search.pl?q=zmp ph186|sample name:2322d9f0 a400 11e5 8adb 68b59976a382|strain:mixed                 Illumina HiSeq 2000 paired end sequencing SC EXP 18715 8#49 15566389 Illumina sequencing of library 15566389 constructed from sample accession ERS1023486 for study accession ERP013838. This is part of an Illumina multiplexed sequencing run 18715 8. This submission includes reads tagged with the sequence TGTCTATC. Transcriptome counting qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2000   ERP013838 Illumina HiSeq 2000 paired end sequencing ENA FIRST PUBLIC:2016 05 03|ENA LAST UPDATE:2018 11 16 18715_8#49.cram cram 654882020.0 5037554.0 SC RUN 18715 8#49 0:55 1:75 A:176142868;C:110275594;G:118303230;T:250156724;N:3604 55 75     176142868 110275594 118303230 250156724 3604 ERX1468339 ERS1023486 ERA612387 European Nucleotide Archive Wellcome Sanger Institute 2 0.33949 0.8483 0.176 0.09714 0.97542 0.90749 0.84111 0.67388 55 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2015-12-17 Adult Adult Multi-tissue Multi-system
3711 3711 ERR1397079 ERX1468338 ERS1023485 ERP013838 PRJEB12367 Transcriptome profiling of zebrafish muscle from wild type and tert knockout adults Transcriptome_profiling_of_zebrafish_muscle_from_wild_type_and_tert_knockout_adults-sc-4036 Transcriptome Analysis Paired end sequence data from the IlluminaHiSeq was prepared from RNA of dissected muscle from wildtype and tert homozygous adult zebrafish for transcriptional profiling ArrayExpress:E ERAD 456     ZMP phentoype 110 1 24 SAMEA3716336 Wellcome Sanger Institute ArrayExpress DevelopmentalStage:Adult ZFS:0000044 3 month|ArrayExpress OrganismPart:Adult muscle|ArrayExpress Species:Danio rerio|ENA first public:2016 05 03|ENA last update:2015 12 17|External Id:SAMEA3716336|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 05 03T14:23:28Z|INSDC last update:2015 12 17T16:32:40Z|INSDC status:public|Submitter Id:2319d940 a400 11e5 8adb 68b59976a382|common name:zebrafish|sample description:3 prime end enriched mRNA from a 3 month and 1 wpf tert wild type sibling adult zebrafish muscle tissue dissected from the region between the anal fin and the caudal fin plus ERCC spike mix 2 Ambion. The wild type adults were obtained by crossing parents heterozygous for tert sa6541 and growing the quarter wild type fish from the clutch. A 8 base indexing sequence TTCAGCTC is bases 13 to 20 of read 1 followed by CG and polyT. More information describing the mutant phenotype can be found at the Wellcome Trust Sanger Institute Zebrafish Mutation Project website http://www.sanger.ac.uk/cgi bin/Projects/D rerio/zmp/search.pl?q=zmp ph110|sample name:2319d940 a400 11e5 8adb 68b59976a382|strain:mixed                 Illumina HiSeq 2000 paired end sequencing SC EXP 18715 8#48 15566388 Illumina sequencing of library 15566388 constructed from sample accession ERS1023485 for study accession ERP013838. This is part of an Illumina multiplexed sequencing run 18715 8. This submission includes reads tagged with the sequence TTCAGCTC. Transcriptome counting qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2000   ERP013838 Illumina HiSeq 2000 paired end sequencing ENA FIRST PUBLIC:2016 05 03|ENA LAST UPDATE:2018 11 16 18715_8#48.cram cram 677343030.0 5210331.0 SC RUN 18715 8#48 0:55 1:75 A:177744951;C:121003073;G:129268553;T:249323382;N:3071 55 75     177744951 121003073 129268553 249323382 3071 ERX1468338 ERS1023485 ERA612387 European Nucleotide Archive Wellcome Sanger Institute 2 0.27162 0.86035 0.10137 0.08341 0.97573 0.91376 0.82856 0.62728 55 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2015-12-17 Adult Adult Multi-tissue Multi-system
3712 3712 ERR1397078 ERX1468337 ERS1023484 ERP013838 PRJEB12367 Transcriptome profiling of zebrafish muscle from wild type and tert knockout adults Transcriptome_profiling_of_zebrafish_muscle_from_wild_type_and_tert_knockout_adults-sc-4036 Transcriptome Analysis Paired end sequence data from the IlluminaHiSeq was prepared from RNA of dissected muscle from wildtype and tert homozygous adult zebrafish for transcriptional profiling ArrayExpress:E ERAD 456     ZMP phentoype 110 1 23 SAMEA3716335 Wellcome Sanger Institute ArrayExpress DevelopmentalStage:Adult ZFS:0000044 3 month|ArrayExpress OrganismPart:Adult muscle|ArrayExpress Species:Danio rerio|ENA first public:2016 05 03|ENA last update:2015 12 17|External Id:SAMEA3716335|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 05 03T14:23:28Z|INSDC last update:2015 12 17T16:32:40Z|INSDC status:public|Submitter Id:2310b180 a400 11e5 8adb 68b59976a382|common name:zebrafish|sample description:3 prime end enriched mRNA from a 3 month and 1 wpf tert wild type sibling adult zebrafish muscle tissue dissected from the region between the anal fin and the caudal fin plus ERCC spike mix 2 Ambion. The wild type adults were obtained by crossing parents heterozygous for tert sa6541 and growing the quarter wild type fish from the clutch. A 8 base indexing sequence TACTAGTC is bases 13 to 20 of read 1 followed by CG and polyT. More information describing the mutant phenotype can be found at the Wellcome Trust Sanger Institute Zebrafish Mutation Project website http://www.sanger.ac.uk/cgi bin/Projects/D rerio/zmp/search.pl?q=zmp ph110|sample name:2310b180 a400 11e5 8adb 68b59976a382|strain:mixed                 Illumina HiSeq 2000 paired end sequencing SC EXP 18715 8#47 15566387 Illumina sequencing of library 15566387 constructed from sample accession ERS1023484 for study accession ERP013838. This is part of an Illumina multiplexed sequencing run 18715 8. This submission includes reads tagged with the sequence TACTAGTC. Transcriptome counting qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2000   ERP013838 Illumina HiSeq 2000 paired end sequencing ENA FIRST PUBLIC:2016 05 03|ENA LAST UPDATE:2018 11 16 18715_8#47.cram cram 756384720.0 5818344.0 SC RUN 18715 8#47 0:55 1:75 A:204421756;C:131322874;G:139056982;T:281579686;N:3422 55 75     204421756 131322874 139056982 281579686 3422 ERX1468337 ERS1023484 ERA612387 European Nucleotide Archive Wellcome Sanger Institute 2 0.31847 0.85466 0.13579 0.08314 0.97559 0.91484 0.85907 0.69484 55 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2015-12-17 Adult Adult Multi-tissue Multi-system
3713 3713 ERR1397077 ERX1468336 ERS1023483 ERP013838 PRJEB12367 Transcriptome profiling of zebrafish muscle from wild type and tert knockout adults Transcriptome_profiling_of_zebrafish_muscle_from_wild_type_and_tert_knockout_adults-sc-4036 Transcriptome Analysis Paired end sequence data from the IlluminaHiSeq was prepared from RNA of dissected muscle from wildtype and tert homozygous adult zebrafish for transcriptional profiling ArrayExpress:E ERAD 456     ZMP phentoype 110 1 22 SAMEA3716334 Wellcome Sanger Institute ArrayExpress DevelopmentalStage:Adult ZFS:0000044 3 month|ArrayExpress OrganismPart:Adult muscle|ArrayExpress Species:Danio rerio|ENA first public:2016 05 03|ENA last update:2015 12 17|External Id:SAMEA3716334|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 05 03T14:23:28Z|INSDC last update:2015 12 17T16:32:39Z|INSDC status:public|Submitter Id:2307b0d0 a400 11e5 8adb 68b59976a382|common name:zebrafish|sample description:3 prime end enriched mRNA from a 3 month and 1 wpf tert wild type sibling adult zebrafish muscle tissue dissected from the region between the anal fin and the caudal fin plus ERCC spike mix 2 Ambion. The wild type adults were obtained by crossing parents heterozygous for tert sa6541 and growing the quarter wild type fish from the clutch. A 8 base indexing sequence TCAGATTC is bases 13 to 20 of read 1 followed by CG and polyT. More information describing the mutant phenotype can be found at the Wellcome Trust Sanger Institute Zebrafish Mutation Project website http://www.sanger.ac.uk/cgi bin/Projects/D rerio/zmp/search.pl?q=zmp ph110|sample name:2307b0d0 a400 11e5 8adb 68b59976a382|strain:mixed                 Illumina HiSeq 2000 paired end sequencing SC EXP 18715 8#46 15566386 Illumina sequencing of library 15566386 constructed from sample accession ERS1023483 for study accession ERP013838. This is part of an Illumina multiplexed sequencing run 18715 8. This submission includes reads tagged with the sequence TCAGATTC. Transcriptome counting qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2000   ERP013838 Illumina HiSeq 2000 paired end sequencing ENA FIRST PUBLIC:2016 05 03|ENA LAST UPDATE:2018 11 16 18715_8#46.cram cram 736276970.0 5663669.0 SC RUN 18715 8#46 0:55 1:75 A:195907677;C:131386929;G:137210683;T:271768338;N:3343 55 75     195907677 131386929 137210683 271768338 3343 ERX1468336 ERS1023483 ERA612387 European Nucleotide Archive Wellcome Sanger Institute 2 0.25731 0.83896 0.10708 0.0752 0.97725 0.91829 0.82893 0.68981 55 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2015-12-17 Adult Adult Multi-tissue Multi-system
3714 3714 ERR1397076 ERX1468335 ERS1023482 ERP013838 PRJEB12367 Transcriptome profiling of zebrafish muscle from wild type and tert knockout adults Transcriptome_profiling_of_zebrafish_muscle_from_wild_type_and_tert_knockout_adults-sc-4036 Transcriptome Analysis Paired end sequence data from the IlluminaHiSeq was prepared from RNA of dissected muscle from wildtype and tert homozygous adult zebrafish for transcriptional profiling ArrayExpress:E ERAD 456     ZMP phentoype 110 1 21 SAMEA3716333 Wellcome Sanger Institute ArrayExpress DevelopmentalStage:Adult ZFS:0000044 3 month|ArrayExpress OrganismPart:Adult muscle|ArrayExpress Species:Danio rerio|ENA first public:2016 05 03|ENA last update:2015 12 17|External Id:SAMEA3716333|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 05 03T14:23:28Z|INSDC last update:2015 12 17T16:32:39Z|INSDC status:public|Submitter Id:22feb020 a400 11e5 8adb 68b59976a382|common name:zebrafish|sample description:3 prime end enriched mRNA from a 3 month and 1 wpf tert wild type sibling adult zebrafish muscle tissue dissected from the region between the anal fin and the caudal fin plus ERCC spike mix 2 Ambion. The wild type adults were obtained by crossing parents heterozygous for tert sa6541 and growing the quarter wild type fish from the clutch. A 8 base indexing sequence TATGCCAG is bases 13 to 20 of read 1 followed by CG and polyT. More information describing the mutant phenotype can be found at the Wellcome Trust Sanger Institute Zebrafish Mutation Project website http://www.sanger.ac.uk/cgi bin/Projects/D rerio/zmp/search.pl?q=zmp ph110|sample name:22feb020 a400 11e5 8adb 68b59976a382|strain:mixed                 Illumina HiSeq 2000 paired end sequencing SC EXP 18715 8#45 15566385 Illumina sequencing of library 15566385 constructed from sample accession ERS1023482 for study accession ERP013838. This is part of an Illumina multiplexed sequencing run 18715 8. This submission includes reads tagged with the sequence TATGCCAG. Transcriptome counting qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2000   ERP013838 Illumina HiSeq 2000 paired end sequencing ENA FIRST PUBLIC:2016 05 03|ENA LAST UPDATE:2018 11 16 18715_8#45.cram cram 666434860.0 5126422.0 SC RUN 18715 8#45 0:55 1:75 A:175545494;C:119084096;G:124317188;T:247486133;N:1949 55 75     175545494 119084096 124317188 247486133 1949 ERX1468335 ERS1023482 ERA612387 European Nucleotide Archive Wellcome Sanger Institute 2 0.28297 0.85288 0.13833 0.10107 0.97534 0.90991 0.80466 0.52355 55 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2015-12-17 Adult Adult Multi-tissue Multi-system
3715 3715 ERR1397075 ERX1468334 ERS1023481 ERP013838 PRJEB12367 Transcriptome profiling of zebrafish muscle from wild type and tert knockout adults Transcriptome_profiling_of_zebrafish_muscle_from_wild_type_and_tert_knockout_adults-sc-4036 Transcriptome Analysis Paired end sequence data from the IlluminaHiSeq was prepared from RNA of dissected muscle from wildtype and tert homozygous adult zebrafish for transcriptional profiling ArrayExpress:E ERAD 456     ZMP phentoype 110 1 20 SAMEA3716332 Wellcome Sanger Institute ArrayExpress DevelopmentalStage:Adult ZFS:0000044 3 month|ArrayExpress OrganismPart:Adult muscle|ArrayExpress Species:Danio rerio|ENA first public:2016 05 03|ENA last update:2015 12 17|External Id:SAMEA3716332|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 05 03T14:23:28Z|INSDC last update:2015 12 17T16:32:38Z|INSDC status:public|Submitter Id:22f5af70 a400 11e5 8adb 68b59976a382|common name:zebrafish|sample description:3 prime end enriched mRNA from a 3 month and 1 wpf tert wild type sibling adult zebrafish muscle tissue dissected from the region between the anal fin and the caudal fin plus ERCC spike mix 2 Ambion. The wild type adults were obtained by crossing parents heterozygous for tert sa6541 and growing the quarter wild type fish from the clutch. A 8 base indexing sequence TGGCTCAG is bases 13 to 20 of read 1 followed by CG and polyT. More information describing the mutant phenotype can be found at the Wellcome Trust Sanger Institute Zebrafish Mutation Project website http://www.sanger.ac.uk/cgi bin/Projects/D rerio/zmp/search.pl?q=zmp ph110|sample name:22f5af70 a400 11e5 8adb 68b59976a382|strain:mixed                 Illumina HiSeq 2000 paired end sequencing SC EXP 18715 8#44 15566384 Illumina sequencing of library 15566384 constructed from sample accession ERS1023481 for study accession ERP013838. This is part of an Illumina multiplexed sequencing run 18715 8. This submission includes reads tagged with the sequence TGGCTCAG. Transcriptome counting qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2000   ERP013838 Illumina HiSeq 2000 paired end sequencing ENA FIRST PUBLIC:2016 05 03|ENA LAST UPDATE:2018 11 16 18715_8#44.cram cram 695152510.0 5347327.0 SC RUN 18715 8#44 0:55 1:75 A:184288447;C:123186272;G:129742627;T:257932830;N:2334 55 75     184288447 123186272 129742627 257932830 2334 ERX1468334 ERS1023481 ERA612387 European Nucleotide Archive Wellcome Sanger Institute 2 0.31006 0.8513 0.12966 0.09655 0.97461 0.91423 0.8429 0.69582 55 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2015-12-17 Adult Adult Multi-tissue Multi-system
3716 3716 ERR1397074 ERX1468333 ERS1023480 ERP013838 PRJEB12367 Transcriptome profiling of zebrafish muscle from wild type and tert knockout adults Transcriptome_profiling_of_zebrafish_muscle_from_wild_type_and_tert_knockout_adults-sc-4036 Transcriptome Analysis Paired end sequence data from the IlluminaHiSeq was prepared from RNA of dissected muscle from wildtype and tert homozygous adult zebrafish for transcriptional profiling ArrayExpress:E ERAD 456     ZMP phentoype 110 1 19 SAMEA3716331 Wellcome Sanger Institute ArrayExpress DevelopmentalStage:Adult ZFS:0000044 3 month|ArrayExpress OrganismPart:Adult muscle|ArrayExpress Species:Danio rerio|ENA first public:2016 05 03|ENA last update:2015 12 17|External Id:SAMEA3716331|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 05 03T14:23:28Z|INSDC last update:2015 12 17T16:32:38Z|INSDC status:public|Submitter Id:22ecaec0 a400 11e5 8adb 68b59976a382|common name:zebrafish|sample description:3 prime end enriched mRNA from a 3 month and 1 wpf tert wild type sibling adult zebrafish muscle tissue dissected from the region between the anal fin and the caudal fin plus ERCC spike mix 2 Ambion. The wild type adults were obtained by crossing parents heterozygous for tert sa6541 and growing the quarter wild type fish from the clutch. A 8 base indexing sequence TCATTGAG is bases 13 to 20 of read 1 followed by CG and polyT. More information describing the mutant phenotype can be found at the Wellcome Trust Sanger Institute Zebrafish Mutation Project website http://www.sanger.ac.uk/cgi bin/Projects/D rerio/zmp/search.pl?q=zmp ph110|sample name:22ecaec0 a400 11e5 8adb 68b59976a382|strain:mixed                 Illumina HiSeq 2000 paired end sequencing SC EXP 18715 8#43 15566383 Illumina sequencing of library 15566383 constructed from sample accession ERS1023480 for study accession ERP013838. This is part of an Illumina multiplexed sequencing run 18715 8. This submission includes reads tagged with the sequence TCATTGAG. Transcriptome counting qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2000   ERP013838 Illumina HiSeq 2000 paired end sequencing ENA FIRST PUBLIC:2016 05 03|ENA LAST UPDATE:2018 11 16 18715_8#43.cram cram 533568230.0 4104371.0 SC RUN 18715 8#43 0:55 1:75 A:143539058;C:96004871;G:98641156;T:195381631;N:1514 55 75     143539058 96004871 98641156 195381631 1514 ERX1468333 ERS1023480 ERA612387 European Nucleotide Archive Wellcome Sanger Institute 2 0.2816 0.83134 0.10829 0.09548 0.97463 0.91463 0.82774 0.63791 55 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2015-12-17 Adult Adult Multi-tissue Multi-system
3717 3717 ERR1397073 ERX1468332 ERS1023479 ERP013838 PRJEB12367 Transcriptome profiling of zebrafish muscle from wild type and tert knockout adults Transcriptome_profiling_of_zebrafish_muscle_from_wild_type_and_tert_knockout_adults-sc-4036 Transcriptome Analysis Paired end sequence data from the IlluminaHiSeq was prepared from RNA of dissected muscle from wildtype and tert homozygous adult zebrafish for transcriptional profiling ArrayExpress:E ERAD 456     ZMP phentoype 110 1 18 SAMEA3716330 Wellcome Sanger Institute ArrayExpress DevelopmentalStage:Adult ZFS:0000044 3 month|ArrayExpress OrganismPart:Adult muscle|ArrayExpress Species:Danio rerio|ENA first public:2016 05 03|ENA last update:2015 12 17|External Id:SAMEA3716330|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 05 03T14:23:28Z|INSDC last update:2015 12 17T16:32:37Z|INSDC status:public|Submitter Id:22e3ae10 a400 11e5 8adb 68b59976a382|common name:zebrafish|sample description:3 prime end enriched mRNA from a 3 month and 1 wpf tert wild type sibling adult zebrafish muscle tissue dissected from the region between the anal fin and the caudal fin plus ERCC spike mix 2 Ambion. The wild type adults were obtained by crossing parents heterozygous for tert sa6541 and growing the quarter wild type fish from the clutch. A 8 base indexing sequence TGTATGCG is bases 13 to 20 of read 1 followed by CG and polyT. More information describing the mutant phenotype can be found at the Wellcome Trust Sanger Institute Zebrafish Mutation Project website http://www.sanger.ac.uk/cgi bin/Projects/D rerio/zmp/search.pl?q=zmp ph110|sample name:22e3ae10 a400 11e5 8adb 68b59976a382|strain:mixed                 Illumina HiSeq 2000 paired end sequencing SC EXP 18715 8#42 15566382 Illumina sequencing of library 15566382 constructed from sample accession ERS1023479 for study accession ERP013838. This is part of an Illumina multiplexed sequencing run 18715 8. This submission includes reads tagged with the sequence TGTATGCG. Transcriptome counting qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2000   ERP013838 Illumina HiSeq 2000 paired end sequencing ENA FIRST PUBLIC:2016 05 03|ENA LAST UPDATE:2018 11 16 18715_8#42.cram cram 661945700.0 5091890.0 SC RUN 18715 8#42 0:55 1:75 A:179311956;C:118843676;G:120891014;T:242897159;N:1895 55 75     179311956 118843676 120891014 242897159 1895 ERX1468332 ERS1023479 ERA612387 European Nucleotide Archive Wellcome Sanger Institute 2 0.29346 0.84765 0.13347 0.11035 0.97303 0.91295 0.80889 0.64077 55 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2015-12-17 Adult Adult Multi-tissue Multi-system
3718 3718 ERR1397072 ERX1468331 ERS1023478 ERP013838 PRJEB12367 Transcriptome profiling of zebrafish muscle from wild type and tert knockout adults Transcriptome_profiling_of_zebrafish_muscle_from_wild_type_and_tert_knockout_adults-sc-4036 Transcriptome Analysis Paired end sequence data from the IlluminaHiSeq was prepared from RNA of dissected muscle from wildtype and tert homozygous adult zebrafish for transcriptional profiling ArrayExpress:E ERAD 456     ZMP phentoype 110 1 17 SAMEA3716329 Wellcome Sanger Institute ArrayExpress DevelopmentalStage:Adult ZFS:0000044 3 month|ArrayExpress OrganismPart:Adult muscle|ArrayExpress Species:Danio rerio|ENA first public:2016 05 03|ENA last update:2015 12 17|External Id:SAMEA3716329|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 05 03T14:23:28Z|INSDC last update:2015 12 17T16:32:37Z|INSDC status:public|Submitter Id:22daad60 a400 11e5 8adb 68b59976a382|common name:zebrafish|sample description:3 prime end enriched mRNA from a 3 month and 1 wpf tert wild type sibling adult zebrafish muscle tissue dissected from the region between the anal fin and the caudal fin plus ERCC spike mix 2 Ambion. The wild type adults were obtained by crossing parents heterozygous for tert sa6541 and growing the quarter wild type fish from the clutch. A 8 base indexing sequence TCCAGTCG is bases 13 to 20 of read 1 followed by CG and polyT. More information describing the mutant phenotype can be found at the Wellcome Trust Sanger Institute Zebrafish Mutation Project website http://www.sanger.ac.uk/cgi bin/Projects/D rerio/zmp/search.pl?q=zmp ph110|sample name:22daad60 a400 11e5 8adb 68b59976a382|strain:mixed                 Illumina HiSeq 2000 paired end sequencing SC EXP 18715 8#41 15566381 Illumina sequencing of library 15566381 constructed from sample accession ERS1023478 for study accession ERP013838. This is part of an Illumina multiplexed sequencing run 18715 8. This submission includes reads tagged with the sequence TCCAGTCG. Transcriptome counting qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2000   ERP013838 Illumina HiSeq 2000 paired end sequencing ENA FIRST PUBLIC:2016 05 03|ENA LAST UPDATE:2018 11 16 18715_8#41.cram cram 665846740.0 5121898.0 SC RUN 18715 8#41 0:55 1:75 A:176220973;C:118768091;G:124615863;T:246239820;N:1993 55 75     176220973 118768091 124615863 246239820 1993 ERX1468331 ERS1023478 ERA612387 European Nucleotide Archive Wellcome Sanger Institute 2 0.28802 0.86238 0.12173 0.09559 0.97262 0.90765 0.80726 0.66136 55 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2015-12-17 Adult Adult Multi-tissue Multi-system
3719 3719 ERR1397071 ERX1468330 ERS1023477 ERP013838 PRJEB12367 Transcriptome profiling of zebrafish muscle from wild type and tert knockout adults Transcriptome_profiling_of_zebrafish_muscle_from_wild_type_and_tert_knockout_adults-sc-4036 Transcriptome Analysis Paired end sequence data from the IlluminaHiSeq was prepared from RNA of dissected muscle from wildtype and tert homozygous adult zebrafish for transcriptional profiling ArrayExpress:E ERAD 456     ZMP phentoype 110 1 16 SAMEA3716328 Wellcome Sanger Institute ArrayExpress DevelopmentalStage:Adult ZFS:0000044 3 month|ArrayExpress OrganismPart:Adult muscle|ArrayExpress Species:Danio rerio|ENA first public:2016 05 03|ENA last update:2015 12 17|External Id:SAMEA3716328|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 05 03T14:23:28Z|INSDC last update:2015 12 17T16:32:36Z|INSDC status:public|Submitter Id:22d1acb0 a400 11e5 8adb 68b59976a382|common name:zebrafish|sample description:3 prime end enriched mRNA from a 3 month and 1 wpf tert wild type sibling adult zebrafish muscle tissue dissected from the region between the anal fin and the caudal fin plus ERCC spike mix 2 Ambion. The wild type adults were obtained by crossing parents heterozygous for tert sa6541 and growing the quarter wild type fish from the clutch. A 8 base indexing sequence TAAGTTCG is bases 13 to 20 of read 1 followed by CG and polyT. More information describing the mutant phenotype can be found at the Wellcome Trust Sanger Institute Zebrafish Mutation Project website http://www.sanger.ac.uk/cgi bin/Projects/D rerio/zmp/search.pl?q=zmp ph110|sample name:22d1acb0 a400 11e5 8adb 68b59976a382|strain:mixed                 Illumina HiSeq 2000 paired end sequencing SC EXP 18715 8#40 15566380 Illumina sequencing of library 15566380 constructed from sample accession ERS1023477 for study accession ERP013838. This is part of an Illumina multiplexed sequencing run 18715 8. This submission includes reads tagged with the sequence TAAGTTCG. Transcriptome counting qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2000   ERP013838 Illumina HiSeq 2000 paired end sequencing ENA FIRST PUBLIC:2016 05 03|ENA LAST UPDATE:2018 11 16 18715_8#40.cram cram 619781760.0 4767552.0 SC RUN 18715 8#40 0:55 1:75 A:166468116;C:111775459;G:114959803;T:226576853;N:1529 55 75     166468116 111775459 114959803 226576853 1529 ERX1468330 ERS1023477 ERA612387 European Nucleotide Archive Wellcome Sanger Institute 2 0.27098 0.83733 0.10627 0.08837 0.97457 0.90989 0.82134 0.55638 55 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2015-12-17 Adult Adult Multi-tissue Multi-system
3720 3720 ERR1397070 ERX1468329 ERS1023476 ERP013838 PRJEB12367 Transcriptome profiling of zebrafish muscle from wild type and tert knockout adults Transcriptome_profiling_of_zebrafish_muscle_from_wild_type_and_tert_knockout_adults-sc-4036 Transcriptome Analysis Paired end sequence data from the IlluminaHiSeq was prepared from RNA of dissected muscle from wildtype and tert homozygous adult zebrafish for transcriptional profiling ArrayExpress:E ERAD 456     ZMP phentoype 110 1 15 SAMEA3716327 Wellcome Sanger Institute ArrayExpress DevelopmentalStage:Adult ZFS:0000044 3 month|ArrayExpress OrganismPart:Adult muscle|ArrayExpress Species:Danio rerio|ENA first public:2016 05 03|ENA last update:2015 12 17|External Id:SAMEA3716327|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 05 03T14:23:28Z|INSDC last update:2015 12 17T16:32:36Z|INSDC status:public|Submitter Id:22c884f0 a400 11e5 8adb 68b59976a382|common name:zebrafish|sample description:3 prime end enriched mRNA from a 3 month and 1 wpf tert wild type sibling adult zebrafish muscle tissue dissected from the region between the anal fin and the caudal fin plus ERCC spike mix 2 Ambion. The wild type adults were obtained by crossing parents heterozygous for tert sa6541 and growing the quarter wild type fish from the clutch. A 8 base indexing sequence TCAGGAGG is bases 13 to 20 of read 1 followed by CG and polyT. More information describing the mutant phenotype can be found at the Wellcome Trust Sanger Institute Zebrafish Mutation Project website http://www.sanger.ac.uk/cgi bin/Projects/D rerio/zmp/search.pl?q=zmp ph110|sample name:22c884f0 a400 11e5 8adb 68b59976a382|strain:mixed                 Illumina HiSeq 2000 paired end sequencing SC EXP 18715 8#39 15566379 Illumina sequencing of library 15566379 constructed from sample accession ERS1023476 for study accession ERP013838. This is part of an Illumina multiplexed sequencing run 18715 8. This submission includes reads tagged with the sequence TCAGGAGG. Transcriptome counting qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2000   ERP013838 Illumina HiSeq 2000 paired end sequencing ENA FIRST PUBLIC:2016 05 03|ENA LAST UPDATE:2018 11 16 18715_8#39.cram cram 651681420.0 5012934.0 SC RUN 18715 8#39 0:55 1:75 A:177714223;C:117422574;G:117918287;T:238624462;N:1874 55 75     177714223 117422574 117918287 238624462 1874 ERX1468329 ERS1023476 ERA612387 European Nucleotide Archive Wellcome Sanger Institute 2 0.30203 0.82354 0.13321 0.08477 0.97595 0.91587 0.83389 0.66905 55 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2015-12-17 Adult Adult Multi-tissue Multi-system
3721 3721 ERR1397069 ERX1468328 ERS1023475 ERP013838 PRJEB12367 Transcriptome profiling of zebrafish muscle from wild type and tert knockout adults Transcriptome_profiling_of_zebrafish_muscle_from_wild_type_and_tert_knockout_adults-sc-4036 Transcriptome Analysis Paired end sequence data from the IlluminaHiSeq was prepared from RNA of dissected muscle from wildtype and tert homozygous adult zebrafish for transcriptional profiling ArrayExpress:E ERAD 456     ZMP phentoype 110 1 14 SAMEA3716326 Wellcome Sanger Institute ArrayExpress DevelopmentalStage:Adult ZFS:0000044 3 month|ArrayExpress OrganismPart:Adult muscle|ArrayExpress Species:Danio rerio|ENA first public:2016 05 03|ENA last update:2015 12 17|External Id:SAMEA3716326|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 05 03T14:23:28Z|INSDC last update:2015 12 17T16:32:36Z|INSDC status:public|Submitter Id:22bf8440 a400 11e5 8adb 68b59976a382|common name:zebrafish|sample description:3 prime end enriched mRNA from a 3 month and 1 wpf tert wild type sibling adult zebrafish muscle tissue dissected from the region between the anal fin and the caudal fin plus ERCC spike mix 2 Ambion. The wild type adults were obtained by crossing parents heterozygous for tert sa6541 and growing the quarter wild type fish from the clutch. A 8 base indexing sequence TCTCACGG is bases 13 to 20 of read 1 followed by CG and polyT. More information describing the mutant phenotype can be found at the Wellcome Trust Sanger Institute Zebrafish Mutation Project website http://www.sanger.ac.uk/cgi bin/Projects/D rerio/zmp/search.pl?q=zmp ph110|sample name:22bf8440 a400 11e5 8adb 68b59976a382|strain:mixed                 Illumina HiSeq 2000 paired end sequencing SC EXP 18715 8#38 15566378 Illumina sequencing of library 15566378 constructed from sample accession ERS1023475 for study accession ERP013838. This is part of an Illumina multiplexed sequencing run 18715 8. This submission includes reads tagged with the sequence TCTCACGG. Transcriptome counting qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2000   ERP013838 Illumina HiSeq 2000 paired end sequencing ENA FIRST PUBLIC:2016 05 03|ENA LAST UPDATE:2018 11 16 18715_8#38.cram cram 662342720.0 5094944.0 SC RUN 18715 8#38 0:55 1:75 A:178580497;C:115417983;G:120453380;T:247888799;N:2061 55 75     178580497 115417983 120453380 247888799 2061 ERX1468328 ERS1023475 ERA612387 European Nucleotide Archive Wellcome Sanger Institute 2 0.30376 0.86314 0.16369 0.09566 0.97739 0.91557 0.82256 0.68053 55 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2015-12-17 Adult Adult Multi-tissue Multi-system
3722 3722 ERR1397068 ERX1468327 ERS1023474 ERP013838 PRJEB12367 Transcriptome profiling of zebrafish muscle from wild type and tert knockout adults Transcriptome_profiling_of_zebrafish_muscle_from_wild_type_and_tert_knockout_adults-sc-4036 Transcriptome Analysis Paired end sequence data from the IlluminaHiSeq was prepared from RNA of dissected muscle from wildtype and tert homozygous adult zebrafish for transcriptional profiling ArrayExpress:E ERAD 456     ZMP phentoype 110 1 13 SAMEA3716325 Wellcome Sanger Institute ArrayExpress DevelopmentalStage:Adult ZFS:0000044 3 month|ArrayExpress OrganismPart:Adult muscle|ArrayExpress Species:Danio rerio|ENA first public:2016 05 03|ENA last update:2015 12 17|External Id:SAMEA3716325|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 05 03T14:23:28Z|INSDC last update:2015 12 17T16:32:35Z|INSDC status:public|Submitter Id:22b68390 a400 11e5 8adb 68b59976a382|common name:zebrafish|sample description:3 prime end enriched mRNA from a 3 month and 1 wpf tert wild type sibling adult zebrafish muscle tissue dissected from the region between the anal fin and the caudal fin plus ERCC spike mix 2 Ambion. The wild type adults were obtained by crossing parents heterozygous for tert sa6541 and growing the quarter wild type fish from the clutch. A 8 base indexing sequence TACTTCGG is bases 13 to 20 of read 1 followed by CG and polyT. More information describing the mutant phenotype can be found at the Wellcome Trust Sanger Institute Zebrafish Mutation Project website http://www.sanger.ac.uk/cgi bin/Projects/D rerio/zmp/search.pl?q=zmp ph110|sample name:22b68390 a400 11e5 8adb 68b59976a382|strain:mixed                 Illumina HiSeq 2000 paired end sequencing SC EXP 18715 8#37 15566377 Illumina sequencing of library 15566377 constructed from sample accession ERS1023474 for study accession ERP013838. This is part of an Illumina multiplexed sequencing run 18715 8. This submission includes reads tagged with the sequence TACTTCGG. Transcriptome counting qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2000   ERP013838 Illumina HiSeq 2000 paired end sequencing ENA FIRST PUBLIC:2016 05 03|ENA LAST UPDATE:2018 11 16 18715_8#37.cram cram 696072520.0 5354404.0 SC RUN 18715 8#37 0:55 1:75 A:186700497;C:125763963;G:128699401;T:254906770;N:1889 55 75     186700497 125763963 128699401 254906770 1889 ERX1468327 ERS1023474 ERA612387 European Nucleotide Archive Wellcome Sanger Institute 2 0.27617 0.85667 0.1301 0.08773 0.97684 0.91514 0.79798 0.64081 55 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2015-12-17 Adult Adult Multi-tissue Multi-system
3723 3723 ERR1397067 ERX1468326 ERS1023473 ERP013838 PRJEB12367 Transcriptome profiling of zebrafish muscle from wild type and tert knockout adults Transcriptome_profiling_of_zebrafish_muscle_from_wild_type_and_tert_knockout_adults-sc-4036 Transcriptome Analysis Paired end sequence data from the IlluminaHiSeq was prepared from RNA of dissected muscle from wildtype and tert homozygous adult zebrafish for transcriptional profiling ArrayExpress:E ERAD 456     ZMP phentoype 110 1 12 SAMEA3716324 Wellcome Sanger Institute ArrayExpress DevelopmentalStage:Adult ZFS:0000044 3 month|ArrayExpress OrganismPart:Adult muscle|ArrayExpress Species:Danio rerio|ENA first public:2016 05 03|ENA last update:2015 12 17|External Id:SAMEA3716324|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 05 03T14:23:28Z|INSDC last update:2015 12 17T16:32:35Z|INSDC status:public|Submitter Id:22ad82e0 a400 11e5 8adb 68b59976a382|common name:zebrafish|sample description:3 prime end enriched mRNA from a 3 month and 1 wpf homozygous tert adult zebrafish muscle tissue dissected from the region between the anal fin and the caudal fin plus ERCC spike mix 2 Ambion. The homozygous adults were obtained by crossing parents heterozygous for tert sa6541 and growing the quarter homozygous fish from the clutch. A 8 base indexing sequence TGAACTGG is bases 13 to 20 of read 1 followed by CG and polyT. More information describing the mutant phenotype can be found at the Wellcome Trust Sanger Institute Zebrafish Mutation Project website http://www.sanger.ac.uk/cgi bin/Projects/D rerio/zmp/search.pl?q=zmp ph110|sample name:22ad82e0 a400 11e5 8adb 68b59976a382|strain:mixed                 Illumina HiSeq 2000 paired end sequencing SC EXP 18715 8#36 15566376 Illumina sequencing of library 15566376 constructed from sample accession ERS1023473 for study accession ERP013838. This is part of an Illumina multiplexed sequencing run 18715 8. This submission includes reads tagged with the sequence TGAACTGG. Transcriptome counting qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2000   ERP013838 Illumina HiSeq 2000 paired end sequencing ENA FIRST PUBLIC:2016 05 03|ENA LAST UPDATE:2018 11 16 18715_8#36.cram cram 731306420.0 5625434.0 SC RUN 18715 8#36 0:55 1:75 A:193958125;C:134273924;G:136394750;T:266677546;N:2075 55 75     193958125 134273924 136394750 266677546 2075 ERX1468326 ERS1023473 ERA612387 European Nucleotide Archive Wellcome Sanger Institute 2 0.24621 0.84195 0.08689 0.07535 0.97638 0.91851 0.80524 0.61404 55 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2015-12-17 Adult Adult Multi-tissue Multi-system
3724 3724 ERR1397066 ERX1468325 ERS1023472 ERP013838 PRJEB12367 Transcriptome profiling of zebrafish muscle from wild type and tert knockout adults Transcriptome_profiling_of_zebrafish_muscle_from_wild_type_and_tert_knockout_adults-sc-4036 Transcriptome Analysis Paired end sequence data from the IlluminaHiSeq was prepared from RNA of dissected muscle from wildtype and tert homozygous adult zebrafish for transcriptional profiling ArrayExpress:E ERAD 456     ZMP phentoype 110 1 11 SAMEA3716323 Wellcome Sanger Institute ArrayExpress DevelopmentalStage:Adult ZFS:0000044 3 month|ArrayExpress OrganismPart:Adult muscle|ArrayExpress Species:Danio rerio|ENA first public:2016 05 03|ENA last update:2015 12 17|External Id:SAMEA3716323|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 05 03T14:23:28Z|INSDC last update:2015 12 17T16:32:34Z|INSDC status:public|Submitter Id:22a45b20 a400 11e5 8adb 68b59976a382|common name:zebrafish|sample description:3 prime end enriched mRNA from a 3 month and 1 wpf homozygous tert adult zebrafish muscle tissue dissected from the region between the anal fin and the caudal fin plus ERCC spike mix 2 Ambion. The homozygous adults were obtained by crossing parents heterozygous for tert sa6541 and growing the quarter homozygous fish from the clutch. A 8 base indexing sequence TTGGTATG is bases 13 to 20 of read 1 followed by CG and polyT. More information describing the mutant phenotype can be found at the Wellcome Trust Sanger Institute Zebrafish Mutation Project website http://www.sanger.ac.uk/cgi bin/Projects/D rerio/zmp/search.pl?q=zmp ph110|sample name:22a45b20 a400 11e5 8adb 68b59976a382|strain:mixed                 Illumina HiSeq 2000 paired end sequencing SC EXP 18715 8#35 15566375 Illumina sequencing of library 15566375 constructed from sample accession ERS1023472 for study accession ERP013838. This is part of an Illumina multiplexed sequencing run 18715 8. This submission includes reads tagged with the sequence TTGGTATG. Transcriptome counting qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2000   ERP013838 Illumina HiSeq 2000 paired end sequencing ENA FIRST PUBLIC:2016 05 03|ENA LAST UPDATE:2018 11 16 18715_8#35.cram cram 665997670.0 5123059.0 SC RUN 18715 8#35 0:55 1:75 A:181566480;C:120809592;G:121644240;T:241975360;N:1998 55 75     181566480 120809592 121644240 241975360 1998 ERX1468325 ERS1023472 ERA612387 European Nucleotide Archive Wellcome Sanger Institute 2 0.26496 0.82274 0.10057 0.07626 0.97441 0.91595 0.81657 0.64747 55 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2015-12-17 Adult Adult Multi-tissue Multi-system
3725 3725 ERR1397065 ERX1468324 ERS1023471 ERP013838 PRJEB12367 Transcriptome profiling of zebrafish muscle from wild type and tert knockout adults Transcriptome_profiling_of_zebrafish_muscle_from_wild_type_and_tert_knockout_adults-sc-4036 Transcriptome Analysis Paired end sequence data from the IlluminaHiSeq was prepared from RNA of dissected muscle from wildtype and tert homozygous adult zebrafish for transcriptional profiling ArrayExpress:E ERAD 456     ZMP phentoype 110 1 10 SAMEA3716322 Wellcome Sanger Institute ArrayExpress DevelopmentalStage:Adult ZFS:0000044 3 month|ArrayExpress OrganismPart:Adult muscle|ArrayExpress Species:Danio rerio|ENA first public:2016 05 03|ENA last update:2015 12 17|External Id:SAMEA3716322|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 05 03T14:23:28Z|INSDC last update:2015 12 17T16:32:34Z|INSDC status:public|Submitter Id:229b8180 a400 11e5 8adb 68b59976a382|common name:zebrafish|sample description:3 prime end enriched mRNA from a 3 month and 1 wpf homozygous tert adult zebrafish muscle tissue dissected from the region between the anal fin and the caudal fin plus ERCC spike mix 2 Ambion. The homozygous adults were obtained by crossing parents heterozygous for tert sa6541 and growing the quarter homozygous fish from the clutch. A 8 base indexing sequence TAACGCTG is bases 13 to 20 of read 1 followed by CG and polyT. More information describing the mutant phenotype can be found at the Wellcome Trust Sanger Institute Zebrafish Mutation Project website http://www.sanger.ac.uk/cgi bin/Projects/D rerio/zmp/search.pl?q=zmp ph110|sample name:229b8180 a400 11e5 8adb 68b59976a382|strain:mixed                 Illumina HiSeq 2000 paired end sequencing SC EXP 18715 8#34 15566374 Illumina sequencing of library 15566374 constructed from sample accession ERS1023471 for study accession ERP013838. This is part of an Illumina multiplexed sequencing run 18715 8. This submission includes reads tagged with the sequence TAACGCTG. Transcriptome counting qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2000   ERP013838 Illumina HiSeq 2000 paired end sequencing ENA FIRST PUBLIC:2016 05 03|ENA LAST UPDATE:2018 11 16 18715_8#34.cram cram 694634590.0 5343343.0 SC RUN 18715 8#34 0:55 1:75 A:186244179;C:125715272;G:128699352;T:253973213;N:2574 55 75     186244179 125715272 128699352 253973213 2574 ERX1468324 ERS1023471 ERA612387 European Nucleotide Archive Wellcome Sanger Institute 2 0.26311 0.82812 0.10775 0.09376 0.97313 0.90983 0.80442 0.5326 55 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2015-12-17 Adult Adult Multi-tissue Multi-system
3726 3726 ERR1397064 ERX1468323 ERS1023470 ERP013838 PRJEB12367 Transcriptome profiling of zebrafish muscle from wild type and tert knockout adults Transcriptome_profiling_of_zebrafish_muscle_from_wild_type_and_tert_knockout_adults-sc-4036 Transcriptome Analysis Paired end sequence data from the IlluminaHiSeq was prepared from RNA of dissected muscle from wildtype and tert homozygous adult zebrafish for transcriptional profiling ArrayExpress:E ERAD 456     ZMP phentoype 110 1 9 SAMEA3716321 Wellcome Sanger Institute ArrayExpress DevelopmentalStage:Adult ZFS:0000044 3 month|ArrayExpress OrganismPart:Adult muscle|ArrayExpress Species:Danio rerio|ENA first public:2016 05 03|ENA last update:2015 12 17|External Id:SAMEA3716321|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 05 03T14:23:28Z|INSDC last update:2015 12 17T16:32:33Z|INSDC status:public|Submitter Id:228fe8c0 a400 11e5 8adb 68b59976a382|common name:zebrafish|sample description:3 prime end enriched mRNA from a 3 month and 1 wpf homozygous tert adult zebrafish muscle tissue dissected from the region between the anal fin and the caudal fin plus ERCC spike mix 2 Ambion. The homozygous adults were obtained by crossing parents heterozygous for tert sa6541 and growing the quarter homozygous fish from the clutch. A 8 base indexing sequence TCGAAGTG is bases 13 to 20 of read 1 followed by CG and polyT. More information describing the mutant phenotype can be found at the Wellcome Trust Sanger Institute Zebrafish Mutation Project website http://www.sanger.ac.uk/cgi bin/Projects/D rerio/zmp/search.pl?q=zmp ph110|sample name:228fe8c0 a400 11e5 8adb 68b59976a382|strain:mixed                 Illumina HiSeq 2000 paired end sequencing SC EXP 18715 8#33 15566373 Illumina sequencing of library 15566373 constructed from sample accession ERS1023470 for study accession ERP013838. This is part of an Illumina multiplexed sequencing run 18715 8. This submission includes reads tagged with the sequence TCGAAGTG. Transcriptome counting qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2000   ERP013838 Illumina HiSeq 2000 paired end sequencing ENA FIRST PUBLIC:2016 05 03|ENA LAST UPDATE:2018 11 16 18715_8#33.cram cram 694711290.0 5343933.0 SC RUN 18715 8#33 0:55 1:75 A:188079963;C:126858196;G:128818574;T:250952301;N:2256 55 75     188079963 126858196 128818574 250952301 2256 ERX1468323 ERS1023470 ERA612387 European Nucleotide Archive Wellcome Sanger Institute 2 0.25746 0.83173 0.07713 0.08005 0.97437 0.91431 0.83094 0.63526 55 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2015-12-17 Adult Adult Multi-tissue Multi-system
3727 3727 ERR1397063 ERX1468322 ERS1023469 ERP013838 PRJEB12367 Transcriptome profiling of zebrafish muscle from wild type and tert knockout adults Transcriptome_profiling_of_zebrafish_muscle_from_wild_type_and_tert_knockout_adults-sc-4036 Transcriptome Analysis Paired end sequence data from the IlluminaHiSeq was prepared from RNA of dissected muscle from wildtype and tert homozygous adult zebrafish for transcriptional profiling ArrayExpress:E ERAD 456     ZMP phentoype 110 1 8 SAMEA3716320 Wellcome Sanger Institute ArrayExpress DevelopmentalStage:Adult ZFS:0000044 3 month|ArrayExpress OrganismPart:Adult muscle|ArrayExpress Species:Danio rerio|ENA first public:2016 05 03|ENA last update:2015 12 17|External Id:SAMEA3716320|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 05 03T14:23:28Z|INSDC last update:2015 12 17T16:32:33Z|INSDC status:public|Submitter Id:2286e810 a400 11e5 8adb 68b59976a382|common name:zebrafish|sample description:3 prime end enriched mRNA from a 3 month and 1 wpf homozygous tert adult zebrafish muscle tissue dissected from the region between the anal fin and the caudal fin plus ERCC spike mix 2 Ambion. The homozygous adults were obtained by crossing parents heterozygous for tert sa6541 and growing the quarter homozygous fish from the clutch. A 8 base indexing sequence TTCCATTG is bases 13 to 20 of read 1 followed by CG and polyT. More information describing the mutant phenotype can be found at the Wellcome Trust Sanger Institute Zebrafish Mutation Project website http://www.sanger.ac.uk/cgi bin/Projects/D rerio/zmp/search.pl?q=zmp ph110|sample name:2286e810 a400 11e5 8adb 68b59976a382|strain:mixed                 Illumina HiSeq 2000 paired end sequencing SC EXP 18715 8#32 15566372 Illumina sequencing of library 15566372 constructed from sample accession ERS1023469 for study accession ERP013838. This is part of an Illumina multiplexed sequencing run 18715 8. This submission includes reads tagged with the sequence TTCCATTG. Transcriptome counting qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2000   ERP013838 Illumina HiSeq 2000 paired end sequencing ENA FIRST PUBLIC:2016 05 03|ENA LAST UPDATE:2018 11 16 18715_8#32.cram cram 655146440.0 5039588.0 SC RUN 18715 8#32 0:55 1:75 A:178645019;C:116883757;G:120893841;T:238720622;N:3201 55 75     178645019 116883757 120893841 238720622 3201 ERX1468322 ERS1023469 ERA612387 European Nucleotide Archive Wellcome Sanger Institute 2 0.24055 0.83244 0.1125 0.10225 0.97291 0.90928 0.77504 0.6656 55 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2015-12-17 Adult Adult Multi-tissue Multi-system
3728 3728 ERR1397062 ERX1468321 ERS1023468 ERP013838 PRJEB12367 Transcriptome profiling of zebrafish muscle from wild type and tert knockout adults Transcriptome_profiling_of_zebrafish_muscle_from_wild_type_and_tert_knockout_adults-sc-4036 Transcriptome Analysis Paired end sequence data from the IlluminaHiSeq was prepared from RNA of dissected muscle from wildtype and tert homozygous adult zebrafish for transcriptional profiling ArrayExpress:E ERAD 456     ZMP phentoype 110 1 7 SAMEA3716319 Wellcome Sanger Institute ArrayExpress DevelopmentalStage:Adult ZFS:0000044 3 month|ArrayExpress OrganismPart:Adult muscle|ArrayExpress Species:Danio rerio|ENA first public:2016 05 03|ENA last update:2015 12 17|External Id:SAMEA3716319|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 05 03T14:23:28Z|INSDC last update:2015 12 17T16:32:32Z|INSDC status:public|Submitter Id:227caee0 a400 11e5 8adb 68b59976a382|common name:zebrafish|sample description:3 prime end enriched mRNA from a 3 month and 1 wpf homozygous tert adult zebrafish muscle tissue dissected from the region between the anal fin and the caudal fin plus ERCC spike mix 2 Ambion. The homozygous adults were obtained by crossing parents heterozygous for tert sa6541 and growing the quarter homozygous fish from the clutch. A 8 base indexing sequence TAGTCTTG is bases 13 to 20 of read 1 followed by CG and polyT. More information describing the mutant phenotype can be found at the Wellcome Trust Sanger Institute Zebrafish Mutation Project website http://www.sanger.ac.uk/cgi bin/Projects/D rerio/zmp/search.pl?q=zmp ph110|sample name:227caee0 a400 11e5 8adb 68b59976a382|strain:mixed                 Illumina HiSeq 2000 paired end sequencing SC EXP 18715 8#31 15566371 Illumina sequencing of library 15566371 constructed from sample accession ERS1023468 for study accession ERP013838. This is part of an Illumina multiplexed sequencing run 18715 8. This submission includes reads tagged with the sequence TAGTCTTG. Transcriptome counting qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2000   ERP013838 Illumina HiSeq 2000 paired end sequencing ENA FIRST PUBLIC:2016 05 03|ENA LAST UPDATE:2018 11 16 18715_8#31.cram cram 730891590.0 5622243.0 SC RUN 18715 8#31 0:55 1:75 A:198514053;C:130409691;G:134606848;T:267358664;N:2334 55 75     198514053 130409691 134606848 267358664 2334 ERX1468321 ERS1023468 ERA612387 European Nucleotide Archive Wellcome Sanger Institute 2 0.28597 0.85275 0.12917 0.11083 0.97504 0.9165 0.79987 0.6128 55 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2015-12-17 Adult Adult Multi-tissue Multi-system
3729 3729 ERR1397061 ERX1468320 ERS1023467 ERP013838 PRJEB12367 Transcriptome profiling of zebrafish muscle from wild type and tert knockout adults Transcriptome_profiling_of_zebrafish_muscle_from_wild_type_and_tert_knockout_adults-sc-4036 Transcriptome Analysis Paired end sequence data from the IlluminaHiSeq was prepared from RNA of dissected muscle from wildtype and tert homozygous adult zebrafish for transcriptional profiling ArrayExpress:E ERAD 456     ZMP phentoype 110 1 6 SAMEA3716318 Wellcome Sanger Institute ArrayExpress DevelopmentalStage:Adult ZFS:0000044 3 month|ArrayExpress OrganismPart:Adult muscle|ArrayExpress Species:Danio rerio|ENA first public:2016 05 03|ENA last update:2015 12 17|External Id:SAMEA3716318|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 05 03T14:23:28Z|INSDC last update:2015 12 17T16:32:32Z|INSDC status:public|Submitter Id:2271b260 a400 11e5 8adb 68b59976a382|common name:zebrafish|sample description:3 prime end enriched mRNA from a 3 month and 1 wpf homozygous tert adult zebrafish muscle tissue dissected from the region between the anal fin and the caudal fin plus ERCC spike mix 2 Ambion. The homozygous adults were obtained by crossing parents heterozygous for tert sa6541 and growing the quarter homozygous fish from the clutch. A 8 base indexing sequence TGTGGTTG is bases 13 to 20 of read 1 followed by CG and polyT. More information describing the mutant phenotype can be found at the Wellcome Trust Sanger Institute Zebrafish Mutation Project website http://www.sanger.ac.uk/cgi bin/Projects/D rerio/zmp/search.pl?q=zmp ph110|sample name:2271b260 a400 11e5 8adb 68b59976a382|strain:mixed                 Illumina HiSeq 2000 paired end sequencing SC EXP 18715 8#30 15566370 Illumina sequencing of library 15566370 constructed from sample accession ERS1023467 for study accession ERP013838. This is part of an Illumina multiplexed sequencing run 18715 8. This submission includes reads tagged with the sequence TGTGGTTG. Transcriptome counting qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2000   ERP013838 Illumina HiSeq 2000 paired end sequencing ENA FIRST PUBLIC:2016 05 03|ENA LAST UPDATE:2018 11 16 18715_8#30.cram cram 660668580.0 5082066.0 SC RUN 18715 8#30 0:55 1:75 A:179797750;C:120562968;G:120663983;T:239642031;N:1848 55 75     179797750 120562968 120663983 239642031 1848 ERX1468320 ERS1023467 ERA612387 European Nucleotide Archive Wellcome Sanger Institute 2 0.24637 0.83519 0.11648 0.10047 0.97112 0.90806 0.75586 0.63304 55 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2015-12-17 Adult Adult Multi-tissue Multi-system
3730 3730 ERR1397060 ERX1468319 ERS1023466 ERP013838 PRJEB12367 Transcriptome profiling of zebrafish muscle from wild type and tert knockout adults Transcriptome_profiling_of_zebrafish_muscle_from_wild_type_and_tert_knockout_adults-sc-4036 Transcriptome Analysis Paired end sequence data from the IlluminaHiSeq was prepared from RNA of dissected muscle from wildtype and tert homozygous adult zebrafish for transcriptional profiling ArrayExpress:E ERAD 456     ZMP phentoype 110 1 5 SAMEA3716317 Wellcome Sanger Institute ArrayExpress DevelopmentalStage:Adult ZFS:0000044 3 month|ArrayExpress OrganismPart:Adult muscle|ArrayExpress Species:Danio rerio|ENA first public:2016 05 03|ENA last update:2015 12 17|External Id:SAMEA3716317|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 05 03T14:23:28Z|INSDC last update:2015 12 17T16:32:31Z|INSDC status:public|Submitter Id:2266b5e0 a400 11e5 8adb 68b59976a382|common name:zebrafish|sample description:3 prime end enriched mRNA from a 3 month and 1 wpf homozygous tert adult zebrafish muscle tissue dissected from the region between the anal fin and the caudal fin plus ERCC spike mix 2 Ambion. The homozygous adults were obtained by crossing parents heterozygous for tert sa6541 and growing the quarter homozygous fish from the clutch. A 8 base indexing sequence TCCTCAAT is bases 13 to 20 of read 1 followed by CG and polyT. More information describing the mutant phenotype can be found at the Wellcome Trust Sanger Institute Zebrafish Mutation Project website http://www.sanger.ac.uk/cgi bin/Projects/D rerio/zmp/search.pl?q=zmp ph110|sample name:2266b5e0 a400 11e5 8adb 68b59976a382|strain:mixed                 Illumina HiSeq 2000 paired end sequencing SC EXP 18715 8#29 15566369 Illumina sequencing of library 15566369 constructed from sample accession ERS1023466 for study accession ERP013838. This is part of an Illumina multiplexed sequencing run 18715 8. This submission includes reads tagged with the sequence TCCTCAAT. Transcriptome counting qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2000   ERP013838 Illumina HiSeq 2000 paired end sequencing ENA FIRST PUBLIC:2016 05 03|ENA LAST UPDATE:2018 11 16 18715_8#29.cram cram 641844320.0 4937264.0 SC RUN 18715 8#29 0:55 1:75 A:170784947;C:114236819;G:119506285;T:237313307;N:2962 55 75     170784947 114236819 119506285 237313307 2962 ERX1468319 ERS1023466 ERA612387 European Nucleotide Archive Wellcome Sanger Institute 2 0.24614 0.83823 0.11448 0.08337 0.97356 0.90593 0.76773 0.64034 55 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2015-12-17 Adult Adult Multi-tissue Multi-system
3731 3731 ERR1397059 ERX1468318 ERS1023465 ERP013838 PRJEB12367 Transcriptome profiling of zebrafish muscle from wild type and tert knockout adults Transcriptome_profiling_of_zebrafish_muscle_from_wild_type_and_tert_knockout_adults-sc-4036 Transcriptome Analysis Paired end sequence data from the IlluminaHiSeq was prepared from RNA of dissected muscle from wildtype and tert homozygous adult zebrafish for transcriptional profiling ArrayExpress:E ERAD 456     ZMP phentoype 110 1 4 SAMEA3716316 Wellcome Sanger Institute ArrayExpress DevelopmentalStage:Adult ZFS:0000044 3 month|ArrayExpress OrganismPart:Adult muscle|ArrayExpress Species:Danio rerio|ENA first public:2016 05 03|ENA last update:2015 12 17|External Id:SAMEA3716316|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 05 03T14:23:28Z|INSDC last update:2015 12 17T16:32:31Z|INSDC status:public|Submitter Id:225be070 a400 11e5 8adb 68b59976a382|common name:zebrafish|sample description:3 prime end enriched mRNA from a 3 month and 1 wpf homozygous tert adult zebrafish muscle tissue dissected from the region between the anal fin and the caudal fin plus ERCC spike mix 2 Ambion. The homozygous adults were obtained by crossing parents heterozygous for tert sa6541 and growing the quarter homozygous fish from the clutch. A 8 base indexing sequence TACAGGAT is bases 13 to 20 of read 1 followed by CG and polyT. More information describing the mutant phenotype can be found at the Wellcome Trust Sanger Institute Zebrafish Mutation Project website http://www.sanger.ac.uk/cgi bin/Projects/D rerio/zmp/search.pl?q=zmp ph110|sample name:225be070 a400 11e5 8adb 68b59976a382|strain:mixed                 Illumina HiSeq 2000 paired end sequencing SC EXP 18715 8#28 15566368 Illumina sequencing of library 15566368 constructed from sample accession ERS1023465 for study accession ERP013838. This is part of an Illumina multiplexed sequencing run 18715 8. This submission includes reads tagged with the sequence TACAGGAT. Transcriptome counting qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2000   ERP013838 Illumina HiSeq 2000 paired end sequencing ENA FIRST PUBLIC:2016 05 03|ENA LAST UPDATE:2018 11 16 18715_8#28.cram cram 587079870.0 4515999.0 SC RUN 18715 8#28                       ERX1468318 ERS1023465 ERA612387 European Nucleotide Archive Wellcome Sanger Institute 2 0.14143 0.59868 0.09232 0.09907 0.97648 0.91616 0.55833 0.54275 55 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2015-12-17 Adult Adult Multi-tissue Multi-system
3732 3732 ERR1397058 ERX1468317 ERS1023464 ERP013838 PRJEB12367 Transcriptome profiling of zebrafish muscle from wild type and tert knockout adults Transcriptome_profiling_of_zebrafish_muscle_from_wild_type_and_tert_knockout_adults-sc-4036 Transcriptome Analysis Paired end sequence data from the IlluminaHiSeq was prepared from RNA of dissected muscle from wildtype and tert homozygous adult zebrafish for transcriptional profiling ArrayExpress:E ERAD 456     ZMP phentoype 110 1 3 SAMEA3716315 Wellcome Sanger Institute ArrayExpress DevelopmentalStage:Adult ZFS:0000044 3 month|ArrayExpress OrganismPart:Adult muscle|ArrayExpress Species:Danio rerio|ENA first public:2016 05 03|ENA last update:2015 12 17|External Id:SAMEA3716315|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 05 03T14:23:28Z|INSDC last update:2015 12 17T16:32:30Z|INSDC status:public|Submitter Id:22506ec0 a400 11e5 8adb 68b59976a382|common name:zebrafish|sample description:3 prime end enriched mRNA from a 3 month and 1 wpf homozygous tert adult zebrafish muscle tissue dissected from the region between the anal fin and the caudal fin plus ERCC spike mix 2 Ambion. The homozygous adults were obtained by crossing parents heterozygous for tert sa6541 and growing the quarter homozygous fish from the clutch. A 8 base indexing sequence TAGTGACT is bases 13 to 20 of read 1 followed by CG and polyT. More information describing the mutant phenotype can be found at the Wellcome Trust Sanger Institute Zebrafish Mutation Project website http://www.sanger.ac.uk/cgi bin/Projects/D rerio/zmp/search.pl?q=zmp ph110|sample name:22506ec0 a400 11e5 8adb 68b59976a382|strain:mixed                 Illumina HiSeq 2000 paired end sequencing SC EXP 18715 8#27 15566367 Illumina sequencing of library 15566367 constructed from sample accession ERS1023464 for study accession ERP013838. This is part of an Illumina multiplexed sequencing run 18715 8. This submission includes reads tagged with the sequence TAGTGACT. Transcriptome counting qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2000   ERP013838 Illumina HiSeq 2000 paired end sequencing ENA FIRST PUBLIC:2016 05 03|ENA LAST UPDATE:2018 11 16 18715_8#27.cram cram 656951230.0 5053471.0 SC RUN 18715 8#27 0:55 1:75 A:176154435;C:112733310;G:125269118;T:242792191;N:2176 55 75     176154435 112733310 125269118 242792191 2176 ERX1468317 ERS1023464 ERA612387 European Nucleotide Archive Wellcome Sanger Institute 2 0.30886 0.85046 0.11844 0.0971 0.97658 0.91583 0.89951 0.76866 55 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2015-12-17 Adult Adult Multi-tissue Multi-system
3733 3733 ERR1397057 ERX1468316 ERS1023463 ERP013838 PRJEB12367 Transcriptome profiling of zebrafish muscle from wild type and tert knockout adults Transcriptome_profiling_of_zebrafish_muscle_from_wild_type_and_tert_knockout_adults-sc-4036 Transcriptome Analysis Paired end sequence data from the IlluminaHiSeq was prepared from RNA of dissected muscle from wildtype and tert homozygous adult zebrafish for transcriptional profiling ArrayExpress:E ERAD 456     ZMP phentoype 110 1 2 SAMEA3716314 Wellcome Sanger Institute ArrayExpress DevelopmentalStage:Adult ZFS:0000044 3 month|ArrayExpress OrganismPart:Adult muscle|ArrayExpress Species:Danio rerio|ENA first public:2016 05 03|ENA last update:2015 12 17|External Id:SAMEA3716314|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 05 03T14:23:28Z|INSDC last update:2015 12 17T16:32:30Z|INSDC status:public|Submitter Id:22452420 a400 11e5 8adb 68b59976a382|common name:zebrafish|sample description:3 prime end enriched mRNA from a 3 month and 1 wpf homozygous tert adult zebrafish muscle tissue dissected from the region between the anal fin and the caudal fin plus ERCC spike mix 2 Ambion. The homozygous adults were obtained by crossing parents heterozygous for tert sa6541 and growing the quarter homozygous fish from the clutch. A 8 base indexing sequence TTCCTGCT is bases 13 to 20 of read 1 followed by CG and polyT. More information describing the mutant phenotype can be found at the Wellcome Trust Sanger Institute Zebrafish Mutation Project website http://www.sanger.ac.uk/cgi bin/Projects/D rerio/zmp/search.pl?q=zmp ph110|sample name:22452420 a400 11e5 8adb 68b59976a382|strain:mixed                 Illumina HiSeq 2000 paired end sequencing SC EXP 18715 8#26 15566366 Illumina sequencing of library 15566366 constructed from sample accession ERS1023463 for study accession ERP013838. This is part of an Illumina multiplexed sequencing run 18715 8. This submission includes reads tagged with the sequence TTCCTGCT. Transcriptome counting qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2000   ERP013838 Illumina HiSeq 2000 paired end sequencing ENA FIRST PUBLIC:2016 05 03|ENA LAST UPDATE:2018 11 16 18715_8#26.cram cram 637042380.0 4900326.0 SC RUN 18715 8#26 0:55 1:75 A:169999761;C:113778382;G:122043906;T:231217073;N:3258 55 75     169999761 113778382 122043906 231217073 3258 ERX1468316 ERS1023463 ERA612387 European Nucleotide Archive Wellcome Sanger Institute 2 0.31489 0.85017 0.11073 0.08344 0.97366 0.91528 0.83569 0.68063 55 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2015-12-17 Adult Adult Multi-tissue Multi-system
3734 3734 ERR1397056 ERX1468315 ERS1023462 ERP013838 PRJEB12367 Transcriptome profiling of zebrafish muscle from wild type and tert knockout adults Transcriptome_profiling_of_zebrafish_muscle_from_wild_type_and_tert_knockout_adults-sc-4036 Transcriptome Analysis Paired end sequence data from the IlluminaHiSeq was prepared from RNA of dissected muscle from wildtype and tert homozygous adult zebrafish for transcriptional profiling ArrayExpress:E ERAD 456     ZMP phentoype 110 1 1 SAMEA3716313 Wellcome Sanger Institute ArrayExpress DevelopmentalStage:Adult ZFS:0000044 3 month|ArrayExpress OrganismPart:Adult muscle|ArrayExpress Species:Danio rerio|ENA first public:2016 05 03|ENA last update:2015 12 17|External Id:SAMEA3716313|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 05 03T14:23:28Z|INSDC last update:2015 12 17T16:32:29Z|INSDC status:public|Submitter Id:2239d980 a400 11e5 8adb 68b59976a382|common name:zebrafish|sample description:3 prime end enriched mRNA from a 3 month and 1 wpf homozygous tert adult zebrafish muscle tissue dissected from the region between the anal fin and the caudal fin plus ERCC spike mix 2 Ambion. The homozygous adults were obtained by crossing parents heterozygous for tert sa6541 and growing the quarter homozygous fish from the clutch. A 8 base indexing sequence TGCGATCT is bases 13 to 20 of read 1 followed by CG and polyT. More information describing the mutant phenotype can be found at the Wellcome Trust Sanger Institute Zebrafish Mutation Project website http://www.sanger.ac.uk/cgi bin/Projects/D rerio/zmp/search.pl?q=zmp ph110|sample name:2239d980 a400 11e5 8adb 68b59976a382|strain:mixed                 Illumina HiSeq 2000 paired end sequencing SC EXP 18715 8#25 15566365 Illumina sequencing of library 15566365 constructed from sample accession ERS1023462 for study accession ERP013838. This is part of an Illumina multiplexed sequencing run 18715 8. This submission includes reads tagged with the sequence TGCGATCT. Transcriptome counting qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2000   ERP013838 Illumina HiSeq 2000 paired end sequencing ENA FIRST PUBLIC:2016 05 03|ENA LAST UPDATE:2018 11 16 18715_8#25.cram cram 567513050.0 4365485.0 SC RUN 18715 8#25 0:55 1:75 A:150769806;C:98997671;G:107141083;T:210602580;N:1910 55 75     150769806 98997671 107141083 210602580 1910 ERX1468315 ERS1023462 ERA612387 European Nucleotide Archive Wellcome Sanger Institute 2 0.31513 0.8639 0.11016 0.07449 0.9752 0.90985 0.88328 0.70792 55 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2015-12-17 Adult Adult Multi-tissue Multi-system
3735 3735 ERR1397055 ERX1468314 ERS1023461 ERP013838 PRJEB12367 Transcriptome profiling of zebrafish muscle from wild type and tert knockout adults Transcriptome_profiling_of_zebrafish_muscle_from_wild_type_and_tert_knockout_adults-sc-4036 Transcriptome Analysis Paired end sequence data from the IlluminaHiSeq was prepared from RNA of dissected muscle from wildtype and tert homozygous adult zebrafish for transcriptional profiling ArrayExpress:E ERAD 456     ZMP phentoype 113 1 12 SAMEA3716312 Wellcome Sanger Institute ArrayExpress DevelopmentalStage:Adult ZFS:0000044 26 month|ArrayExpress OrganismPart:Adult muscle|ArrayExpress Species:Danio rerio|ENA first public:2016 05 03|ENA last update:2015 12 17|External Id:SAMEA3716312|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 05 03T14:23:28Z|INSDC last update:2015 12 17T16:32:29Z|INSDC status:public|Submitter Id:22303c90 a400 11e5 8adb 68b59976a382|common name:zebrafish|sample description:3 prime end enriched mRNA from a 26 mpf wild type adult zebrafish muscle tissue dissected from the region between the anal fin and the caudal fin plus ERCC spike mix 2 Ambion. A 8 base indexing sequence TTGACTCT is bases 13 to 20 of read 1 followed by CG and polyT. More information describing the mutant phenotype can be found at the Wellcome Trust Sanger Institute Zebrafish Mutation Project website http://www.sanger.ac.uk/cgi bin/Projects/D rerio/zmp/search.pl?q=zmp ph113|sample name:22303c90 a400 11e5 8adb 68b59976a382|strain:mixed                 Illumina HiSeq 2000 paired end sequencing SC EXP 18715 8#24 15566364 Illumina sequencing of library 15566364 constructed from sample accession ERS1023461 for study accession ERP013838. This is part of an Illumina multiplexed sequencing run 18715 8. This submission includes reads tagged with the sequence TTGACTCT. Transcriptome counting qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2000   ERP013838 Illumina HiSeq 2000 paired end sequencing ENA FIRST PUBLIC:2016 05 03|ENA LAST UPDATE:2018 11 16 18715_8#24.cram cram 541389290.0 4164533.0 SC RUN 18715 8#24 0:55 1:75 A:149630682;C:93128764;G:102059718;T:196567547;N:2579 55 75     149630682 93128764 102059718 196567547 2579 ERX1468314 ERS1023461 ERA612387 European Nucleotide Archive Wellcome Sanger Institute 2 0.31938 0.80432 0.16112 0.16984 0.97183 0.90893 0.82211 0.73255 55 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2015-12-17 Adult Adult Multi-tissue Multi-system
3736 3736 ERR1397054 ERX1468313 ERS1023460 ERP013838 PRJEB12367 Transcriptome profiling of zebrafish muscle from wild type and tert knockout adults Transcriptome_profiling_of_zebrafish_muscle_from_wild_type_and_tert_knockout_adults-sc-4036 Transcriptome Analysis Paired end sequence data from the IlluminaHiSeq was prepared from RNA of dissected muscle from wildtype and tert homozygous adult zebrafish for transcriptional profiling ArrayExpress:E ERAD 456     ZMP phentoype 113 1 11 SAMEA3716311 Wellcome Sanger Institute ArrayExpress DevelopmentalStage:Adult ZFS:0000044 26 month|ArrayExpress OrganismPart:Adult muscle|ArrayExpress Species:Danio rerio|ENA first public:2016 05 03|ENA last update:2015 12 17|External Id:SAMEA3716311|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 05 03T14:23:28Z|INSDC last update:2015 12 17T16:32:28Z|INSDC status:public|Submitter Id:22265180 a400 11e5 8adb 68b59976a382|common name:zebrafish|sample description:3 prime end enriched mRNA from a 26 mpf wild type adult zebrafish muscle tissue dissected from the region between the anal fin and the caudal fin plus ERCC spike mix 2 Ambion. A 8 base indexing sequence TGCATAGT is bases 13 to 20 of read 1 followed by CG and polyT. More information describing the mutant phenotype can be found at the Wellcome Trust Sanger Institute Zebrafish Mutation Project website http://www.sanger.ac.uk/cgi bin/Projects/D rerio/zmp/search.pl?q=zmp ph113|sample name:22265180 a400 11e5 8adb 68b59976a382|strain:mixed                 Illumina HiSeq 2000 paired end sequencing SC EXP 18715 8#23 15566363 Illumina sequencing of library 15566363 constructed from sample accession ERS1023460 for study accession ERP013838. This is part of an Illumina multiplexed sequencing run 18715 8. This submission includes reads tagged with the sequence TGCATAGT. Transcriptome counting qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2000   ERP013838 Illumina HiSeq 2000 paired end sequencing ENA FIRST PUBLIC:2016 05 03|ENA LAST UPDATE:2018 11 16 18715_8#23.cram cram 571818000.0 4398600.0 SC RUN 18715 8#23 0:55 1:75 A:158875843;C:99417127;G:106799809;T:206723059;N:2162 55 75     158875843 99417127 106799809 206723059 2162 ERX1468313 ERS1023460 ERA612387 European Nucleotide Archive Wellcome Sanger Institute 2 0.30236 0.79208 0.15953 0.16714 0.9693 0.90343 0.81603 0.53838 55 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2015-12-17 Adult Adult Multi-tissue Multi-system
3737 3737 ERR1397053 ERX1468312 ERS1023459 ERP013838 PRJEB12367 Transcriptome profiling of zebrafish muscle from wild type and tert knockout adults Transcriptome_profiling_of_zebrafish_muscle_from_wild_type_and_tert_knockout_adults-sc-4036 Transcriptome Analysis Paired end sequence data from the IlluminaHiSeq was prepared from RNA of dissected muscle from wildtype and tert homozygous adult zebrafish for transcriptional profiling ArrayExpress:E ERAD 456     ZMP phentoype 113 1 10 SAMEA3716310 Wellcome Sanger Institute ArrayExpress DevelopmentalStage:Adult ZFS:0000044 26 month|ArrayExpress OrganismPart:Adult muscle|ArrayExpress Species:Danio rerio|ENA first public:2016 05 03|ENA last update:2015 12 17|External Id:SAMEA3716310|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 05 03T14:23:28Z|INSDC last update:2015 12 17T16:32:28Z|INSDC status:public|Submitter Id:221bf140 a400 11e5 8adb 68b59976a382|common name:zebrafish|sample description:3 prime end enriched mRNA from a 26 mpf wild type adult zebrafish muscle tissue dissected from the region between the anal fin and the caudal fin plus ERCC spike mix 2 Ambion. A 8 base indexing sequence TGATACGT is bases 13 to 20 of read 1 followed by CG and polyT. More information describing the mutant phenotype can be found at the Wellcome Trust Sanger Institute Zebrafish Mutation Project website http://www.sanger.ac.uk/cgi bin/Projects/D rerio/zmp/search.pl?q=zmp ph113|sample name:221bf140 a400 11e5 8adb 68b59976a382|strain:mixed                 Illumina HiSeq 2000 paired end sequencing SC EXP 18715 8#22 15566362 Illumina sequencing of library 15566362 constructed from sample accession ERS1023459 for study accession ERP013838. This is part of an Illumina multiplexed sequencing run 18715 8. This submission includes reads tagged with the sequence TGATACGT. Transcriptome counting qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2000   ERP013838 Illumina HiSeq 2000 paired end sequencing ENA FIRST PUBLIC:2016 05 03|ENA LAST UPDATE:2018 11 16 18715_8#22.cram cram 486876910.0 3745207.0 SC RUN 18715 8#22 0:55 1:75 A:129941384;C:87127302;G:90702777;T:179103590;N:1857 55 75     129941384 87127302 90702777 179103590 1857 ERX1468312 ERS1023459 ERA612387 European Nucleotide Archive Wellcome Sanger Institute 2 0.27884 0.83381 0.12097 0.11714 0.97039 0.8983 0.81908 0.64542 55 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2015-12-17 Adult Adult Multi-tissue Multi-system
3738 3738 ERR1397052 ERX1468311 ERS1023458 ERP013838 PRJEB12367 Transcriptome profiling of zebrafish muscle from wild type and tert knockout adults Transcriptome_profiling_of_zebrafish_muscle_from_wild_type_and_tert_knockout_adults-sc-4036 Transcriptome Analysis Paired end sequence data from the IlluminaHiSeq was prepared from RNA of dissected muscle from wildtype and tert homozygous adult zebrafish for transcriptional profiling ArrayExpress:E ERAD 456     ZMP phentoype 113 1 9 SAMEA3716309 Wellcome Sanger Institute ArrayExpress DevelopmentalStage:Adult ZFS:0000044 26 month|ArrayExpress OrganismPart:Adult muscle|ArrayExpress Species:Danio rerio|ENA first public:2016 05 03|ENA last update:2015 12 17|External Id:SAMEA3716309|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 05 03T14:23:28Z|INSDC last update:2015 12 17T16:32:27Z|INSDC status:public|Submitter Id:22119100 a400 11e5 8adb 68b59976a382|common name:zebrafish|sample description:3 prime end enriched mRNA from a 26 mpf wild type adult zebrafish muscle tissue dissected from the region between the anal fin and the caudal fin plus ERCC spike mix 2 Ambion. A 8 base indexing sequence TCGAGCGT is bases 13 to 20 of read 1 followed by CG and polyT. More information describing the mutant phenotype can be found at the Wellcome Trust Sanger Institute Zebrafish Mutation Project website http://www.sanger.ac.uk/cgi bin/Projects/D rerio/zmp/search.pl?q=zmp ph113|sample name:22119100 a400 11e5 8adb 68b59976a382|strain:mixed                 Illumina HiSeq 2000 paired end sequencing SC EXP 18715 8#21 15566361 Illumina sequencing of library 15566361 constructed from sample accession ERS1023458 for study accession ERP013838. This is part of an Illumina multiplexed sequencing run 18715 8. This submission includes reads tagged with the sequence TCGAGCGT. Transcriptome counting qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2000   ERP013838 Illumina HiSeq 2000 paired end sequencing ENA FIRST PUBLIC:2016 05 03|ENA LAST UPDATE:2018 11 16 18715_8#21.cram cram 321968660.0 2476682.0 SC RUN 18715 8#21 0:55 1:75 A:85611967;C:56953379;G:60212796;T:119189501;N:1017 55 75     85611967 56953379 60212796 119189501 1017 ERX1468311 ERS1023458 ERA612387 European Nucleotide Archive Wellcome Sanger Institute 2 0.2616 0.85744 0.09546 0.10386 0.97341 0.89327 0.84115 0.52093 55 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2015-12-17 Adult Adult Multi-tissue Multi-system
3739 3739 ERR1397051 ERX1468310 ERS1023457 ERP013838 PRJEB12367 Transcriptome profiling of zebrafish muscle from wild type and tert knockout adults Transcriptome_profiling_of_zebrafish_muscle_from_wild_type_and_tert_knockout_adults-sc-4036 Transcriptome Analysis Paired end sequence data from the IlluminaHiSeq was prepared from RNA of dissected muscle from wildtype and tert homozygous adult zebrafish for transcriptional profiling ArrayExpress:E ERAD 456     ZMP phentoype 113 1 8 SAMEA3716308 Wellcome Sanger Institute ArrayExpress DevelopmentalStage:Adult ZFS:0000044 26 month|ArrayExpress OrganismPart:Adult muscle|ArrayExpress Species:Danio rerio|ENA first public:2016 05 03|ENA last update:2015 12 17|External Id:SAMEA3716308|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 05 03T14:23:28Z|INSDC last update:2015 12 17T16:32:27Z|INSDC status:public|Submitter Id:220730c0 a400 11e5 8adb 68b59976a382|common name:zebrafish|sample description:3 prime end enriched mRNA from a 26 mpf wild type adult zebrafish muscle tissue dissected from the region between the anal fin and the caudal fin plus ERCC spike mix 2 Ambion. A 8 base indexing sequence TTGGAGGT is bases 13 to 20 of read 1 followed by CG and polyT. More information describing the mutant phenotype can be found at the Wellcome Trust Sanger Institute Zebrafish Mutation Project website http://www.sanger.ac.uk/cgi bin/Projects/D rerio/zmp/search.pl?q=zmp ph113|sample name:220730c0 a400 11e5 8adb 68b59976a382|strain:mixed                 Illumina HiSeq 2000 paired end sequencing SC EXP 18715 8#20 15566360 Illumina sequencing of library 15566360 constructed from sample accession ERS1023457 for study accession ERP013838. This is part of an Illumina multiplexed sequencing run 18715 8. This submission includes reads tagged with the sequence TTGGAGGT. Transcriptome counting qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2000   ERP013838 Illumina HiSeq 2000 paired end sequencing ENA FIRST PUBLIC:2016 05 03|ENA LAST UPDATE:2018 11 16 18715_8#20.cram cram 472624360.0 3635572.0 SC RUN 18715 8#20 0:55 1:75 A:126831392;C:83556709;G:88455943;T:173779093;N:1223 55 75     126831392 83556709 88455943 173779093 1223 ERX1468310 ERS1023457 ERA612387 European Nucleotide Archive Wellcome Sanger Institute 2 0.30388 0.84241 0.11508 0.11573 0.97116 0.90003 0.39774 0.70203 55 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2015-12-17 Adult Adult Multi-tissue Multi-system
3740 3740 ERR1397050 ERX1468309 ERS1023456 ERP013838 PRJEB12367 Transcriptome profiling of zebrafish muscle from wild type and tert knockout adults Transcriptome_profiling_of_zebrafish_muscle_from_wild_type_and_tert_knockout_adults-sc-4036 Transcriptome Analysis Paired end sequence data from the IlluminaHiSeq was prepared from RNA of dissected muscle from wildtype and tert homozygous adult zebrafish for transcriptional profiling ArrayExpress:E ERAD 456     ZMP phentoype 113 1 7 SAMEA3716307 Wellcome Sanger Institute ArrayExpress DevelopmentalStage:Adult ZFS:0000044 26 month|ArrayExpress OrganismPart:Adult muscle|ArrayExpress Species:Danio rerio|ENA first public:2016 05 03|ENA last update:2015 12 17|External Id:SAMEA3716307|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 05 03T14:23:28Z|INSDC last update:2015 12 17T16:32:26Z|INSDC status:public|Submitter Id:21fc5b50 a400 11e5 8adb 68b59976a382|common name:zebrafish|sample description:3 prime end enriched mRNA from a 26 mpf wild type adult zebrafish muscle tissue dissected from the region between the anal fin and the caudal fin plus ERCC spike mix 2 Ambion. A 8 base indexing sequence TCTGCTGT is bases 13 to 20 of read 1 followed by CG and polyT. More information describing the mutant phenotype can be found at the Wellcome Trust Sanger Institute Zebrafish Mutation Project website http://www.sanger.ac.uk/cgi bin/Projects/D rerio/zmp/search.pl?q=zmp ph113|sample name:21fc5b50 a400 11e5 8adb 68b59976a382|strain:mixed                 Illumina HiSeq 2000 paired end sequencing SC EXP 18715 8#19 15566359 Illumina sequencing of library 15566359 constructed from sample accession ERS1023456 for study accession ERP013838. This is part of an Illumina multiplexed sequencing run 18715 8. This submission includes reads tagged with the sequence TCTGCTGT. Transcriptome counting qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2000   ERP013838 Illumina HiSeq 2000 paired end sequencing ENA FIRST PUBLIC:2016 05 03|ENA LAST UPDATE:2018 11 16 18715_8#19.cram cram 602614090.0 4635493.0 SC RUN 18715 8#19 0:55 1:75 A:163499230;C:104602930;G:113213757;T:221296100;N:2073 55 75     163499230 104602930 113213757 221296100 2073 ERX1468309 ERS1023456 ERA612387 European Nucleotide Archive Wellcome Sanger Institute 2 0.35019 0.84609 0.13232 0.13362 0.96822 0.89412 0.8825 0.74339 55 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2015-12-17 Adult Adult Multi-tissue Multi-system
3741 3741 ERR1397049 ERX1468308 ERS1023455 ERP013838 PRJEB12367 Transcriptome profiling of zebrafish muscle from wild type and tert knockout adults Transcriptome_profiling_of_zebrafish_muscle_from_wild_type_and_tert_knockout_adults-sc-4036 Transcriptome Analysis Paired end sequence data from the IlluminaHiSeq was prepared from RNA of dissected muscle from wildtype and tert homozygous adult zebrafish for transcriptional profiling ArrayExpress:E ERAD 456     ZMP phentoype 113 1 6 SAMEA3716306 Wellcome Sanger Institute ArrayExpress DevelopmentalStage:Adult ZFS:0000044 26 month|ArrayExpress OrganismPart:Adult muscle|ArrayExpress Species:Danio rerio|ENA first public:2016 05 03|ENA last update:2015 12 17|External Id:SAMEA3716306|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 05 03T14:23:28Z|INSDC last update:2015 12 17T16:32:26Z|INSDC status:public|Submitter Id:21f22220 a400 11e5 8adb 68b59976a382|common name:zebrafish|sample description:3 prime end enriched mRNA from a 26 mpf wild type adult zebrafish muscle tissue dissected from the region between the anal fin and the caudal fin plus ERCC spike mix 2 Ambion. A 8 base indexing sequence TTCTGTGT is bases 13 to 20 of read 1 followed by CG and polyT. More information describing the mutant phenotype can be found at the Wellcome Trust Sanger Institute Zebrafish Mutation Project website http://www.sanger.ac.uk/cgi bin/Projects/D rerio/zmp/search.pl?q=zmp ph113|sample name:21f22220 a400 11e5 8adb 68b59976a382|strain:mixed                 Illumina HiSeq 2000 paired end sequencing SC EXP 18715 8#18 15566358 Illumina sequencing of library 15566358 constructed from sample accession ERS1023455 for study accession ERP013838. This is part of an Illumina multiplexed sequencing run 18715 8. This submission includes reads tagged with the sequence TTCTGTGT. Transcriptome counting qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2000   ERP013838 Illumina HiSeq 2000 paired end sequencing ENA FIRST PUBLIC:2016 05 03|ENA LAST UPDATE:2018 11 16 18715_8#18.cram cram 620771320.0 4775164.0 SC RUN 18715 8#18 0:55 1:75 A:170120424;C:109984137;G:117603882;T:223060767;N:2110 55 75     170120424 109984137 117603882 223060767 2110 ERX1468308 ERS1023455 ERA612387 European Nucleotide Archive Wellcome Sanger Institute 2 0.29675 0.83916 0.12868 0.14148 0.96613 0.8984 0.79183 0.65344 55 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2015-12-17 Adult Adult Multi-tissue Multi-system
3742 3742 ERR1397048 ERX1468307 ERS1023454 ERP013838 PRJEB12367 Transcriptome profiling of zebrafish muscle from wild type and tert knockout adults Transcriptome_profiling_of_zebrafish_muscle_from_wild_type_and_tert_knockout_adults-sc-4036 Transcriptome Analysis Paired end sequence data from the IlluminaHiSeq was prepared from RNA of dissected muscle from wildtype and tert homozygous adult zebrafish for transcriptional profiling ArrayExpress:E ERAD 456     ZMP phentoype 113 1 5 SAMEA3716305 Wellcome Sanger Institute ArrayExpress DevelopmentalStage:Adult ZFS:0000044 26 month|ArrayExpress OrganismPart:Adult muscle|ArrayExpress Species:Danio rerio|ENA first public:2016 05 03|ENA last update:2015 12 17|External Id:SAMEA3716305|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 05 03T14:23:28Z|INSDC last update:2015 12 17T16:32:25Z|INSDC status:public|Submitter Id:21e81000 a400 11e5 8adb 68b59976a382|common name:zebrafish|sample description:3 prime end enriched mRNA from a 26 mpf wild type adult zebrafish muscle tissue dissected from the region between the anal fin and the caudal fin plus ERCC spike mix 2 Ambion. A 8 base indexing sequence TGTACCTT is bases 13 to 20 of read 1 followed by CG and polyT. More information describing the mutant phenotype can be found at the Wellcome Trust Sanger Institute Zebrafish Mutation Project website http://www.sanger.ac.uk/cgi bin/Projects/D rerio/zmp/search.pl?q=zmp ph113|sample name:21e81000 a400 11e5 8adb 68b59976a382|strain:mixed                 Illumina HiSeq 2000 paired end sequencing SC EXP 18715 8#17 15566357 Illumina sequencing of library 15566357 constructed from sample accession ERS1023454 for study accession ERP013838. This is part of an Illumina multiplexed sequencing run 18715 8. This submission includes reads tagged with the sequence TGTACCTT. Transcriptome counting qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2000   ERP013838 Illumina HiSeq 2000 paired end sequencing ENA FIRST PUBLIC:2016 05 03|ENA LAST UPDATE:2018 11 16 18715_8#17.cram cram 620956960.0 4776592.0 SC RUN 18715 8#17 0:55 1:75 A:167465723;C:108421495;G:117858045;T:227208072;N:3625 55 75     167465723 108421495 117858045 227208072 3625 ERX1468307 ERS1023454 ERA612387 European Nucleotide Archive Wellcome Sanger Institute 2 0.28111 0.84477 0.11758 0.12272 0.97137 0.89832 0.849 0.70528 55 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2015-12-17 Adult Adult Multi-tissue Multi-system
3743 3743 ERR1397047 ERX1468306 ERS1023453 ERP013838 PRJEB12367 Transcriptome profiling of zebrafish muscle from wild type and tert knockout adults Transcriptome_profiling_of_zebrafish_muscle_from_wild_type_and_tert_knockout_adults-sc-4036 Transcriptome Analysis Paired end sequence data from the IlluminaHiSeq was prepared from RNA of dissected muscle from wildtype and tert homozygous adult zebrafish for transcriptional profiling ArrayExpress:E ERAD 456     ZMP phentoype 113 1 4 SAMEA3716304 Wellcome Sanger Institute ArrayExpress DevelopmentalStage:Adult ZFS:0000044 26 month|ArrayExpress OrganismPart:Adult muscle|ArrayExpress Species:Danio rerio|ENA first public:2016 05 03|ENA last update:2015 12 17|External Id:SAMEA3716304|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 05 03T14:23:28Z|INSDC last update:2015 12 17T16:32:25Z|INSDC status:public|Submitter Id:21dc9e50 a400 11e5 8adb 68b59976a382|common name:zebrafish|sample description:3 prime end enriched mRNA from a 26 mpf wild type adult zebrafish muscle tissue dissected from the region between the anal fin and the caudal fin plus ERCC spike mix 2 Ambion. A 8 base indexing sequence TCCGTCTT is bases 13 to 20 of read 1 followed by CG and polyT. More information describing the mutant phenotype can be found at the Wellcome Trust Sanger Institute Zebrafish Mutation Project website http://www.sanger.ac.uk/cgi bin/Projects/D rerio/zmp/search.pl?q=zmp ph113|sample name:21dc9e50 a400 11e5 8adb 68b59976a382|strain:mixed                 Illumina HiSeq 2000 paired end sequencing SC EXP 18715 8#16 15566356 Illumina sequencing of library 15566356 constructed from sample accession ERS1023453 for study accession ERP013838. This is part of an Illumina multiplexed sequencing run 18715 8. This submission includes reads tagged with the sequence TCCGTCTT. Transcriptome counting qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2000   ERP013838 Illumina HiSeq 2000 paired end sequencing ENA FIRST PUBLIC:2016 05 03|ENA LAST UPDATE:2018 11 16 18715_8#16.cram cram 647011300.0 4977010.0 SC RUN 18715 8#16 0:55 1:75 A:170845029;C:117050187;G:126808386;T:232304633;N:3065 55 75     170845029 117050187 126808386 232304633 3065 ERX1468306 ERS1023453 ERA612387 European Nucleotide Archive Wellcome Sanger Institute 2 0.26816 0.85786 0.09644 0.09888 0.9694 0.90751 0.79908 0.6443 55 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2015-12-17 Adult Adult Multi-tissue Multi-system
3744 3744 ERR1397046 ERX1468305 ERS1023452 ERP013838 PRJEB12367 Transcriptome profiling of zebrafish muscle from wild type and tert knockout adults Transcriptome_profiling_of_zebrafish_muscle_from_wild_type_and_tert_knockout_adults-sc-4036 Transcriptome Analysis Paired end sequence data from the IlluminaHiSeq was prepared from RNA of dissected muscle from wildtype and tert homozygous adult zebrafish for transcriptional profiling ArrayExpress:E ERAD 456     ZMP phentoype 113 1 3 SAMEA3716303 Wellcome Sanger Institute ArrayExpress DevelopmentalStage:Adult ZFS:0000044 26 month|ArrayExpress OrganismPart:Adult muscle|ArrayExpress Species:Danio rerio|ENA first public:2016 05 03|ENA last update:2015 12 17|External Id:SAMEA3716303|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 05 03T14:23:28Z|INSDC last update:2015 12 17T16:32:24Z|INSDC status:public|Submitter Id:21d34f80 a400 11e5 8adb 68b59976a382|common name:zebrafish|sample description:3 prime end enriched mRNA from a 26 mpf wild type adult zebrafish muscle tissue dissected from the region between the anal fin and the caudal fin plus ERCC spike mix 2 Ambion. A 8 base indexing sequence TAAGCGTT is bases 13 to 20 of read 1 followed by CG and polyT. More information describing the mutant phenotype can be found at the Wellcome Trust Sanger Institute Zebrafish Mutation Project website http://www.sanger.ac.uk/cgi bin/Projects/D rerio/zmp/search.pl?q=zmp ph113|sample name:21d34f80 a400 11e5 8adb 68b59976a382|strain:mixed                 Illumina HiSeq 2000 paired end sequencing SC EXP 18715 8#15 15566355 Illumina sequencing of library 15566355 constructed from sample accession ERS1023452 for study accession ERP013838. This is part of an Illumina multiplexed sequencing run 18715 8. This submission includes reads tagged with the sequence TAAGCGTT. Transcriptome counting qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2000   ERP013838 Illumina HiSeq 2000 paired end sequencing ENA FIRST PUBLIC:2016 05 03|ENA LAST UPDATE:2018 11 16 18715_8#15.cram cram 457286700.0 3517590.0 SC RUN 18715 8#15 0:55 1:75 A:118667898;C:84631347;G:85673386;T:168312768;N:1301 55 75     118667898 84631347 85673386 168312768 1301 ERX1468305 ERS1023452 ERA612387 European Nucleotide Archive Wellcome Sanger Institute 2 0.23276 0.86209 0.10575 0.09847 0.97358 0.9052 0.78944 0.62306 55 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2015-12-17 Adult Adult Multi-tissue Multi-system
3745 3745 ERR1397045 ERX1468304 ERS1023451 ERP013838 PRJEB12367 Transcriptome profiling of zebrafish muscle from wild type and tert knockout adults Transcriptome_profiling_of_zebrafish_muscle_from_wild_type_and_tert_knockout_adults-sc-4036 Transcriptome Analysis Paired end sequence data from the IlluminaHiSeq was prepared from RNA of dissected muscle from wildtype and tert homozygous adult zebrafish for transcriptional profiling ArrayExpress:E ERAD 456     ZMP phentoype 113 1 2 SAMEA3716302 Wellcome Sanger Institute ArrayExpress DevelopmentalStage:Adult ZFS:0000044 26 month|ArrayExpress OrganismPart:Adult muscle|ArrayExpress Species:Danio rerio|ENA first public:2016 05 03|ENA last update:2015 12 17|External Id:SAMEA3716302|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 05 03T14:23:28Z|INSDC last update:2015 12 17T16:32:24Z|INSDC status:public|Submitter Id:21c8a120 a400 11e5 8adb 68b59976a382|common name:zebrafish|sample description:3 prime end enriched mRNA from a 26 mpf wild type adult zebrafish muscle tissue dissected from the region between the anal fin and the caudal fin plus ERCC spike mix 2 Ambion. A 8 base indexing sequence TCTCGGTT is bases 13 to 20 of read 1 followed by CG and polyT. More information describing the mutant phenotype can be found at the Wellcome Trust Sanger Institute Zebrafish Mutation Project website http://www.sanger.ac.uk/cgi bin/Projects/D rerio/zmp/search.pl?q=zmp ph113|sample name:21c8a120 a400 11e5 8adb 68b59976a382|strain:mixed                 Illumina HiSeq 2000 paired end sequencing SC EXP 18715 8#14 15566354 Illumina sequencing of library 15566354 constructed from sample accession ERS1023451 for study accession ERP013838. This is part of an Illumina multiplexed sequencing run 18715 8. This submission includes reads tagged with the sequence TCTCGGTT. Transcriptome counting qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2000   ERP013838 Illumina HiSeq 2000 paired end sequencing ENA FIRST PUBLIC:2016 05 03|ENA LAST UPDATE:2018 11 16 18715_8#14.cram cram 653102060.0 5023862.0 SC RUN 18715 8#14 0:55 1:75 A:174751774;C:115388239;G:124463430;T:238496439;N:2178 55 75     174751774 115388239 124463430 238496439 2178 ERX1468304 ERS1023451 ERA612387 European Nucleotide Archive Wellcome Sanger Institute 2 0.2967 0.86134 0.12119 0.11716 0.97072 0.9011 0.84585 0.56695 55 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2015-12-17 Adult Adult Multi-tissue Multi-system
3746 3746 ERR1397044 ERX1468303 ERS1023450 ERP013838 PRJEB12367 Transcriptome profiling of zebrafish muscle from wild type and tert knockout adults Transcriptome_profiling_of_zebrafish_muscle_from_wild_type_and_tert_knockout_adults-sc-4036 Transcriptome Analysis Paired end sequence data from the IlluminaHiSeq was prepared from RNA of dissected muscle from wildtype and tert homozygous adult zebrafish for transcriptional profiling ArrayExpress:E ERAD 456     ZMP phentoype 113 1 1 SAMEA3716301 Wellcome Sanger Institute ArrayExpress DevelopmentalStage:Adult ZFS:0000044 26 month|ArrayExpress OrganismPart:Adult muscle|ArrayExpress Species:Danio rerio|ENA first public:2016 05 03|ENA last update:2015 12 17|External Id:SAMEA3716301|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 05 03T14:23:28Z|INSDC last update:2015 12 17T16:32:23Z|INSDC status:public|Submitter Id:21beb610 a400 11e5 8adb 68b59976a382|common name:zebrafish|sample description:3 prime end enriched mRNA from a 26 mpf wild type adult zebrafish muscle tissue dissected from the region between the anal fin and the caudal fin plus ERCC spike mix 2 Ambion. A 8 base indexing sequence TGGTTGTT is bases 13 to 20 of read 1 followed by CG and polyT. More information describing the mutant phenotype can be found at the Wellcome Trust Sanger Institute Zebrafish Mutation Project website http://www.sanger.ac.uk/cgi bin/Projects/D rerio/zmp/search.pl?q=zmp ph113|sample name:21beb610 a400 11e5 8adb 68b59976a382|strain:mixed                 Illumina HiSeq 2000 paired end sequencing SC EXP 18715 8#13 15566353 Illumina sequencing of library 15566353 constructed from sample accession ERS1023450 for study accession ERP013838. This is part of an Illumina multiplexed sequencing run 18715 8. This submission includes reads tagged with the sequence TGGTTGTT. Transcriptome counting qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2000   ERP013838 Illumina HiSeq 2000 paired end sequencing ENA FIRST PUBLIC:2016 05 03|ENA LAST UPDATE:2018 11 16 18715_8#13.cram cram 551198960.0 4239992.0 SC RUN 18715 8#13 0:55 1:75 A:148509015;C:97254852;G:104086449;T:201346621;N:2023 55 75     148509015 97254852 104086449 201346621 2023 ERX1468303 ERS1023450 ERA612387 European Nucleotide Archive Wellcome Sanger Institute 2 0.28017 0.87069 0.11381 0.11448 0.97133 0.90106 0.84612 0.68133 55 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2015-12-17 Adult Adult Multi-tissue Multi-system
3747 3747 ERR1397043 ERX1468302 ERS1023449 ERP013838 PRJEB12367 Transcriptome profiling of zebrafish muscle from wild type and tert knockout adults Transcriptome_profiling_of_zebrafish_muscle_from_wild_type_and_tert_knockout_adults-sc-4036 Transcriptome Analysis Paired end sequence data from the IlluminaHiSeq was prepared from RNA of dissected muscle from wildtype and tert homozygous adult zebrafish for transcriptional profiling ArrayExpress:E ERAD 456     ZMP phentoype 112 1 12 SAMEA3716300 Wellcome Sanger Institute ArrayExpress DevelopmentalStage:Adult ZFS:0000044 3 month|ArrayExpress OrganismPart:Adult muscle|ArrayExpress Species:Danio rerio|ENA first public:2016 05 03|ENA last update:2015 12 17|External Id:SAMEA3716300|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 05 03T14:23:28Z|INSDC last update:2015 12 17T16:32:23Z|INSDC status:public|Submitter Id:21b4cb00 a400 11e5 8adb 68b59976a382|common name:zebrafish|sample description:3 prime end enriched mRNA from a 3 mpf wild type adult zebrafish muscle tissue dissected from the region between the anal fin and the caudal fin plus ERCC spike mix 2 Ambion. A 8 base indexing sequence CTTGTACT is bases 13 to 20 of read 1 followed by CG and polyT. More information describing the mutant phenotype can be found at the Wellcome Trust Sanger Institute Zebrafish Mutation Project website http://www.sanger.ac.uk/cgi bin/Projects/D rerio/zmp/search.pl?q=zmp ph112|sample name:21b4cb00 a400 11e5 8adb 68b59976a382|strain:mixed                 Illumina HiSeq 2000 paired end sequencing SC EXP 18715 8#12 15566352 Illumina sequencing of library 15566352 constructed from sample accession ERS1023449 for study accession ERP013838. This is part of an Illumina multiplexed sequencing run 18715 8. This submission includes reads tagged with the sequence CTTGTACT. Transcriptome counting qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2000   ERP013838 Illumina HiSeq 2000 paired end sequencing ENA FIRST PUBLIC:2016 05 03|ENA LAST UPDATE:2018 11 16 18715_8#12.cram cram 683965360.0 5261272.0 SC RUN 18715 8#12 0:55 1:75 A:181490420;C:124392573;G:129140040;T:248939248;N:3079 55 75     181490420 124392573 129140040 248939248 3079 ERX1468302 ERS1023449 ERA612387 European Nucleotide Archive Wellcome Sanger Institute 2 0.25401 0.85131 0.10056 0.08236 0.97431 0.91419 0.81852 0.53153 55 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2015-12-17 Adult Adult Multi-tissue Multi-system
3748 3748 ERR1397042 ERX1468301 ERS1023448 ERP013838 PRJEB12367 Transcriptome profiling of zebrafish muscle from wild type and tert knockout adults Transcriptome_profiling_of_zebrafish_muscle_from_wild_type_and_tert_knockout_adults-sc-4036 Transcriptome Analysis Paired end sequence data from the IlluminaHiSeq was prepared from RNA of dissected muscle from wildtype and tert homozygous adult zebrafish for transcriptional profiling ArrayExpress:E ERAD 456     ZMP phentoype 112 1 11 SAMEA3716299 Wellcome Sanger Institute ArrayExpress DevelopmentalStage:Adult ZFS:0000044 3 month|ArrayExpress OrganismPart:Adult muscle|ArrayExpress Species:Danio rerio|ENA first public:2016 05 03|ENA last update:2015 12 17|External Id:SAMEA3716299|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 05 03T14:23:28Z|INSDC last update:2015 12 17T16:32:22Z|INSDC status:public|Submitter Id:21a98060 a400 11e5 8adb 68b59976a382|common name:zebrafish|sample description:3 prime end enriched mRNA from a 3 mpf wild type adult zebrafish muscle tissue dissected from the region between the anal fin and the caudal fin plus ERCC spike mix 2 Ambion. A 8 base indexing sequence GGCTACAG is bases 13 to 20 of read 1 followed by CG and polyT. More information describing the mutant phenotype can be found at the Wellcome Trust Sanger Institute Zebrafish Mutation Project website http://www.sanger.ac.uk/cgi bin/Projects/D rerio/zmp/search.pl?q=zmp ph112|sample name:21a98060 a400 11e5 8adb 68b59976a382|strain:mixed                 Illumina HiSeq 2000 paired end sequencing SC EXP 18715 8#11 15566351 Illumina sequencing of library 15566351 constructed from sample accession ERS1023448 for study accession ERP013838. This is part of an Illumina multiplexed sequencing run 18715 8. This submission includes reads tagged with the sequence GGCTACAG. Transcriptome counting qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2000   ERP013838 Illumina HiSeq 2000 paired end sequencing ENA FIRST PUBLIC:2016 05 03|ENA LAST UPDATE:2018 11 16 18715_8#11.cram cram 678711150.0 5220855.0 SC RUN 18715 8#11 0:55 1:75 A:179239904;C:124839850;G:129344689;T:245284425;N:2282 55 75     179239904 124839850 129344689 245284425 2282 ERX1468301 ERS1023448 ERA612387 European Nucleotide Archive Wellcome Sanger Institute 2 0.25995 0.85813 0.08951 0.08509 0.97362 0.91532 0.84938 0.5878 55 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2015-12-17 Adult Adult Multi-tissue Multi-system
3749 3749 ERR1397041 ERX1468300 ERS1023447 ERP013838 PRJEB12367 Transcriptome profiling of zebrafish muscle from wild type and tert knockout adults Transcriptome_profiling_of_zebrafish_muscle_from_wild_type_and_tert_knockout_adults-sc-4036 Transcriptome Analysis Paired end sequence data from the IlluminaHiSeq was prepared from RNA of dissected muscle from wildtype and tert homozygous adult zebrafish for transcriptional profiling ArrayExpress:E ERAD 456     ZMP phentoype 112 1 10 SAMEA3716298 Wellcome Sanger Institute ArrayExpress DevelopmentalStage:Adult ZFS:0000044 3 month|ArrayExpress OrganismPart:Adult muscle|ArrayExpress Species:Danio rerio|ENA first public:2016 05 03|ENA last update:2015 12 17|External Id:SAMEA3716298|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 05 03T14:23:28Z|INSDC last update:2015 12 17T16:32:22Z|INSDC status:public|Submitter Id:219e5cd0 a400 11e5 8adb 68b59976a382|common name:zebrafish|sample description:3 prime end enriched mRNA from a 3 mpf wild type adult zebrafish muscle tissue dissected from the region between the anal fin and the caudal fin plus ERCC spike mix 2 Ambion. A 8 base indexing sequence TAGCTTGT is bases 13 to 20 of read 1 followed by CG and polyT. More information describing the mutant phenotype can be found at the Wellcome Trust Sanger Institute Zebrafish Mutation Project website http://www.sanger.ac.uk/cgi bin/Projects/D rerio/zmp/search.pl?q=zmp ph112|sample name:219e5cd0 a400 11e5 8adb 68b59976a382|strain:mixed                 Illumina HiSeq 2000 paired end sequencing SC EXP 18715 8#10 15566350 Illumina sequencing of library 15566350 constructed from sample accession ERS1023447 for study accession ERP013838. This is part of an Illumina multiplexed sequencing run 18715 8. This submission includes reads tagged with the sequence TAGCTTGT. Transcriptome counting qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2000   ERP013838 Illumina HiSeq 2000 paired end sequencing ENA FIRST PUBLIC:2016 05 03|ENA LAST UPDATE:2018 11 16 18715_8#10.cram cram 512021380.0 3938626.0 SC RUN 18715 8#10 0:55 1:75 A:134633141;C:95267180;G:96292177;T:185827489;N:1393 55 75     134633141 95267180 96292177 185827489 1393 ERX1468300 ERS1023447 ERA612387 European Nucleotide Archive Wellcome Sanger Institute 2 0.27511 0.8473 0.08789 0.07504 0.97484 0.91932 0.83725 0.53104 55 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2015-12-17 Adult Adult Multi-tissue Multi-system
3750 3750 ERR1397040 ERX1468299 ERS1023446 ERP013838 PRJEB12367 Transcriptome profiling of zebrafish muscle from wild type and tert knockout adults Transcriptome_profiling_of_zebrafish_muscle_from_wild_type_and_tert_knockout_adults-sc-4036 Transcriptome Analysis Paired end sequence data from the IlluminaHiSeq was prepared from RNA of dissected muscle from wildtype and tert homozygous adult zebrafish for transcriptional profiling ArrayExpress:E ERAD 456     ZMP phentoype 112 1 9 SAMEA3716297 Wellcome Sanger Institute ArrayExpress DevelopmentalStage:Adult ZFS:0000044 3 month|ArrayExpress OrganismPart:Adult muscle|ArrayExpress Species:Danio rerio|ENA first public:2016 05 03|ENA last update:2015 12 17|External Id:SAMEA3716297|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 05 03T14:23:28Z|INSDC last update:2015 12 17T16:32:21Z|INSDC status:public|Submitter Id:219423a0 a400 11e5 8adb 68b59976a382|common name:zebrafish|sample description:3 prime end enriched mRNA from a 3 mpf wild type adult zebrafish muscle tissue dissected from the region between the anal fin and the caudal fin plus ERCC spike mix 2 Ambion. A 8 base indexing sequence GATCAGCG is bases 13 to 20 of read 1 followed by CG and polyT. More information describing the mutant phenotype can be found at the Wellcome Trust Sanger Institute Zebrafish Mutation Project website http://www.sanger.ac.uk/cgi bin/Projects/D rerio/zmp/search.pl?q=zmp ph112|sample name:219423a0 a400 11e5 8adb 68b59976a382|strain:mixed                 Illumina HiSeq 2000 paired end sequencing SC EXP 18715 8#9 15566349 Illumina sequencing of library 15566349 constructed from sample accession ERS1023446 for study accession ERP013838. This is part of an Illumina multiplexed sequencing run 18715 8. This submission includes reads tagged with the sequence GATCAGCG. Transcriptome counting qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2000   ERP013838 Illumina HiSeq 2000 paired end sequencing ENA FIRST PUBLIC:2016 05 03|ENA LAST UPDATE:2018 11 16 18715_8#9.cram cram 606955700.0 4668890.0 SC RUN 18715 8#9 0:55 1:75 A:161328190;C:111573232;G:113967253;T:220085334;N:1691 55 75     161328190 111573232 113967253 220085334 1691 ERX1468299 ERS1023446 ERA612387 European Nucleotide Archive Wellcome Sanger Institute 2 0.27581 0.81211 0.10852 0.0992 0.97311 0.91023 0.84113 0.65956 55 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2015-12-17 Adult Adult Multi-tissue Multi-system
3751 3751 ERR1397039 ERX1468298 ERS1023445 ERP013838 PRJEB12367 Transcriptome profiling of zebrafish muscle from wild type and tert knockout adults Transcriptome_profiling_of_zebrafish_muscle_from_wild_type_and_tert_knockout_adults-sc-4036 Transcriptome Analysis Paired end sequence data from the IlluminaHiSeq was prepared from RNA of dissected muscle from wildtype and tert homozygous adult zebrafish for transcriptional profiling ArrayExpress:E ERAD 456     ZMP phentoype 112 1 8 SAMEA3716296 Wellcome Sanger Institute ArrayExpress DevelopmentalStage:Adult ZFS:0000044 3 month|ArrayExpress OrganismPart:Adult muscle|ArrayExpress Species:Danio rerio|ENA first public:2016 05 03|ENA last update:2015 12 17|External Id:SAMEA3716296|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 05 03T14:23:28Z|INSDC last update:2015 12 17T16:32:21Z|INSDC status:public|Submitter Id:218a3890 a400 11e5 8adb 68b59976a382|common name:zebrafish|sample description:3 prime end enriched mRNA from a 3 mpf wild type adult zebrafish muscle tissue dissected from the region between the anal fin and the caudal fin plus ERCC spike mix 2 Ambion. A 8 base indexing sequence ACTTGATG is bases 13 to 20 of read 1 followed by CG and polyT. More information describing the mutant phenotype can be found at the Wellcome Trust Sanger Institute Zebrafish Mutation Project website http://www.sanger.ac.uk/cgi bin/Projects/D rerio/zmp/search.pl?q=zmp ph112|sample name:218a3890 a400 11e5 8adb 68b59976a382|strain:mixed                 Illumina HiSeq 2000 paired end sequencing SC EXP 18715 8#8 15566348 Illumina sequencing of library 15566348 constructed from sample accession ERS1023445 for study accession ERP013838. This is part of an Illumina multiplexed sequencing run 18715 8. This submission includes reads tagged with the sequence ACTTGATG. Transcriptome counting qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2000   ERP013838 Illumina HiSeq 2000 paired end sequencing ENA FIRST PUBLIC:2016 05 03|ENA LAST UPDATE:2018 11 16 18715_8#8.cram cram 631737210.0 4859517.0 SC RUN 18715 8#8 0:55 1:75 A:168090778;C:115132937;G:119109490;T:229402219;N:1786 55 75     168090778 115132937 119109490 229402219 1786 ERX1468298 ERS1023445 ERA612387 European Nucleotide Archive Wellcome Sanger Institute 2 0.28735 0.86714 0.09468 0.08742 0.97266 0.91165 0.82804 0.43981 55 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2015-12-17 Adult Adult Multi-tissue Multi-system
3752 3752 ERR1397038 ERX1468297 ERS1023444 ERP013838 PRJEB12367 Transcriptome profiling of zebrafish muscle from wild type and tert knockout adults Transcriptome_profiling_of_zebrafish_muscle_from_wild_type_and_tert_knockout_adults-sc-4036 Transcriptome Analysis Paired end sequence data from the IlluminaHiSeq was prepared from RNA of dissected muscle from wildtype and tert homozygous adult zebrafish for transcriptional profiling ArrayExpress:E ERAD 456     ZMP phentoype 112 1 7 SAMEA3716295 Wellcome Sanger Institute ArrayExpress DevelopmentalStage:Adult ZFS:0000044 3 month|ArrayExpress OrganismPart:Adult muscle|ArrayExpress Species:Danio rerio|ENA first public:2016 05 03|ENA last update:2015 12 17|External Id:SAMEA3716295|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 05 03T14:23:28Z|INSDC last update:2015 12 17T16:32:20Z|INSDC status:public|Submitter Id:217fd850 a400 11e5 8adb 68b59976a382|common name:zebrafish|sample description:3 prime end enriched mRNA from a 3 mpf wild type adult zebrafish muscle tissue dissected from the region between the anal fin and the caudal fin plus ERCC spike mix 2 Ambion. A 8 base indexing sequence CAGATCTG is bases 13 to 20 of read 1 followed by CG and polyT. More information describing the mutant phenotype can be found at the Wellcome Trust Sanger Institute Zebrafish Mutation Project website http://www.sanger.ac.uk/cgi bin/Projects/D rerio/zmp/search.pl?q=zmp ph112|sample name:217fd850 a400 11e5 8adb 68b59976a382|strain:mixed                 Illumina HiSeq 2000 paired end sequencing SC EXP 18715 8#7 15566347 Illumina sequencing of library 15566347 constructed from sample accession ERS1023444 for study accession ERP013838. This is part of an Illumina multiplexed sequencing run 18715 8. This submission includes reads tagged with the sequence CAGATCTG. Transcriptome counting qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2000   ERP013838 Illumina HiSeq 2000 paired end sequencing ENA FIRST PUBLIC:2016 05 03|ENA LAST UPDATE:2018 11 16 18715_8#7.cram cram 629907200.0 4845440.0 SC RUN 18715 8#7 0:55 1:75 A:167238249;C:113933791;G:119656035;T:229077206;N:1919 55 75     167238249 113933791 119656035 229077206 1919 ERX1468297 ERS1023444 ERA612387 European Nucleotide Archive Wellcome Sanger Institute 2 0.28015 0.85121 0.09694 0.0866 0.97579 0.91873 0.49517 0.67663 55 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2015-12-17 Adult Adult Multi-tissue Multi-system
3753 3753 ERR1397037 ERX1468296 ERS1023443 ERP013838 PRJEB12367 Transcriptome profiling of zebrafish muscle from wild type and tert knockout adults Transcriptome_profiling_of_zebrafish_muscle_from_wild_type_and_tert_knockout_adults-sc-4036 Transcriptome Analysis Paired end sequence data from the IlluminaHiSeq was prepared from RNA of dissected muscle from wildtype and tert homozygous adult zebrafish for transcriptional profiling ArrayExpress:E ERAD 456     ZMP phentoype 112 1 6 SAMEA3716294 Wellcome Sanger Institute ArrayExpress DevelopmentalStage:Adult ZFS:0000044 3 month|ArrayExpress OrganismPart:Adult muscle|ArrayExpress Species:Danio rerio|ENA first public:2016 05 03|ENA last update:2015 12 17|External Id:SAMEA3716294|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 05 03T14:23:28Z|INSDC last update:2015 12 17T16:32:20Z|INSDC status:public|Submitter Id:21757810 a400 11e5 8adb 68b59976a382|common name:zebrafish|sample description:3 prime end enriched mRNA from a 3 mpf wild type adult zebrafish muscle tissue dissected from the region between the anal fin and the caudal fin plus ERCC spike mix 2 Ambion. A 8 base indexing sequence GCCAATGT is bases 13 to 20 of read 1 followed by CG and polyT. More information describing the mutant phenotype can be found at the Wellcome Trust Sanger Institute Zebrafish Mutation Project website http://www.sanger.ac.uk/cgi bin/Projects/D rerio/zmp/search.pl?q=zmp ph112|sample name:21757810 a400 11e5 8adb 68b59976a382|strain:mixed                 Illumina HiSeq 2000 paired end sequencing SC EXP 18715 8#6 15566346 Illumina sequencing of library 15566346 constructed from sample accession ERS1023443 for study accession ERP013838. This is part of an Illumina multiplexed sequencing run 18715 8. This submission includes reads tagged with the sequence GCCAATGT. Transcriptome counting qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2000   ERP013838 Illumina HiSeq 2000 paired end sequencing ENA FIRST PUBLIC:2016 05 03|ENA LAST UPDATE:2018 11 16 18715_8#6.cram cram 549775980.0 4229046.0 SC RUN 18715 8#6 0:55 1:75 A:145007963;C:100751331;G:102099529;T:201915350;N:1807 55 75     145007963 100751331 102099529 201915350 1807 ERX1468296 ERS1023443 ERA612387 European Nucleotide Archive Wellcome Sanger Institute 2 0.2874 0.85663 0.08661 0.0687 0.97788 0.91705 0.84995 0.44346 55 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2015-12-17 Adult Adult Multi-tissue Multi-system
3754 3754 ERR1397036 ERX1468295 ERS1023442 ERP013838 PRJEB12367 Transcriptome profiling of zebrafish muscle from wild type and tert knockout adults Transcriptome_profiling_of_zebrafish_muscle_from_wild_type_and_tert_knockout_adults-sc-4036 Transcriptome Analysis Paired end sequence data from the IlluminaHiSeq was prepared from RNA of dissected muscle from wildtype and tert homozygous adult zebrafish for transcriptional profiling ArrayExpress:E ERAD 456     ZMP phentoype 112 1 5 SAMEA3716293 Wellcome Sanger Institute ArrayExpress DevelopmentalStage:Adult ZFS:0000044 3 month|ArrayExpress OrganismPart:Adult muscle|ArrayExpress Species:Danio rerio|ENA first public:2016 05 03|ENA last update:2015 12 17|External Id:SAMEA3716293|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 05 03T14:23:28Z|INSDC last update:2015 12 17T16:32:19Z|INSDC status:public|Submitter Id:216b17d0 a400 11e5 8adb 68b59976a382|common name:zebrafish|sample description:3 prime end enriched mRNA from a 3 mpf wild type adult zebrafish muscle tissue dissected from the region between the anal fin and the caudal fin plus ERCC spike mix 2 Ambion. A 8 base indexing sequence ACAGTGGT is bases 13 to 20 of read 1 followed by CG and polyT. More information describing the mutant phenotype can be found at the Wellcome Trust Sanger Institute Zebrafish Mutation Project website http://www.sanger.ac.uk/cgi bin/Projects/D rerio/zmp/search.pl?q=zmp ph112|sample name:216b17d0 a400 11e5 8adb 68b59976a382|strain:mixed                 Illumina HiSeq 2000 paired end sequencing SC EXP 18715 8#5 15566345 Illumina sequencing of library 15566345 constructed from sample accession ERS1023442 for study accession ERP013838. This is part of an Illumina multiplexed sequencing run 18715 8. This submission includes reads tagged with the sequence ACAGTGGT. Transcriptome counting qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2000   ERP013838 Illumina HiSeq 2000 paired end sequencing ENA FIRST PUBLIC:2016 05 03|ENA LAST UPDATE:2018 11 16 18715_8#5.cram cram 609585470.0 4689119.0 SC RUN 18715 8#5 0:55 1:75 A:160001548;C:112004296;G:114635311;T:222942641;N:1674 55 75     160001548 112004296 114635311 222942641 1674 ERX1468295 ERS1023442 ERA612387 European Nucleotide Archive Wellcome Sanger Institute 2 0.24791 0.87348 0.09277 0.0825 0.97536 0.91543 0.83597 0.65901 55 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2015-12-17 Adult Adult Multi-tissue Multi-system
3755 3755 ERR1397035 ERX1468294 ERS1023441 ERP013838 PRJEB12367 Transcriptome profiling of zebrafish muscle from wild type and tert knockout adults Transcriptome_profiling_of_zebrafish_muscle_from_wild_type_and_tert_knockout_adults-sc-4036 Transcriptome Analysis Paired end sequence data from the IlluminaHiSeq was prepared from RNA of dissected muscle from wildtype and tert homozygous adult zebrafish for transcriptional profiling ArrayExpress:E ERAD 456     ZMP phentoype 112 1 4 SAMEA3716292 Wellcome Sanger Institute ArrayExpress DevelopmentalStage:Adult ZFS:0000044 3 month|ArrayExpress OrganismPart:Adult muscle|ArrayExpress Species:Danio rerio|ENA first public:2016 05 03|ENA last update:2015 12 17|External Id:SAMEA3716292|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 05 03T14:23:28Z|INSDC last update:2015 12 17T16:32:19Z|INSDC status:public|Submitter Id:2160b790 a400 11e5 8adb 68b59976a382|common name:zebrafish|sample description:3 prime end enriched mRNA from a 3 mpf wild type adult zebrafish muscle tissue dissected from the region between the anal fin and the caudal fin plus ERCC spike mix 2 Ambion. A 8 base indexing sequence TGACCACT is bases 13 to 20 of read 1 followed by CG and polyT. More information describing the mutant phenotype can be found at the Wellcome Trust Sanger Institute Zebrafish Mutation Project website http://www.sanger.ac.uk/cgi bin/Projects/D rerio/zmp/search.pl?q=zmp ph112|sample name:2160b790 a400 11e5 8adb 68b59976a382|strain:mixed                 Illumina HiSeq 2000 paired end sequencing SC EXP 18715 8#4 15566344 Illumina sequencing of library 15566344 constructed from sample accession ERS1023441 for study accession ERP013838. This is part of an Illumina multiplexed sequencing run 18715 8. This submission includes reads tagged with the sequence TGACCACT. Transcriptome counting qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2000   ERP013838 Illumina HiSeq 2000 paired end sequencing ENA FIRST PUBLIC:2016 05 03|ENA LAST UPDATE:2018 11 16 18715_8#4.cram cram 678764840.0 5221268.0 SC RUN 18715 8#4 0:55 1:75 A:178838072;C:124911287;G:130189123;T:244823100;N:3258 55 75     178838072 124911287 130189123 244823100 3258 ERX1468294 ERS1023441 ERA612387 European Nucleotide Archive Wellcome Sanger Institute 2 0.25304 0.81978 0.09241 0.08656 0.97676 0.91747 0.84034 0.65122 55 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2015-12-17 Adult Adult Multi-tissue Multi-system
3756 3756 ERR1397034 ERX1468293 ERS1023440 ERP013838 PRJEB12367 Transcriptome profiling of zebrafish muscle from wild type and tert knockout adults Transcriptome_profiling_of_zebrafish_muscle_from_wild_type_and_tert_knockout_adults-sc-4036 Transcriptome Analysis Paired end sequence data from the IlluminaHiSeq was prepared from RNA of dissected muscle from wildtype and tert homozygous adult zebrafish for transcriptional profiling ArrayExpress:E ERAD 456     ZMP phentoype 112 1 3 SAMEA3716291 Wellcome Sanger Institute ArrayExpress DevelopmentalStage:Adult ZFS:0000044 3 month|ArrayExpress OrganismPart:Adult muscle|ArrayExpress Species:Danio rerio|ENA first public:2016 05 03|ENA last update:2015 12 17|External Id:SAMEA3716291|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 05 03T14:23:28Z|INSDC last update:2015 12 17T16:32:18Z|INSDC status:public|Submitter Id:21556cf0 a400 11e5 8adb 68b59976a382|common name:zebrafish|sample description:3 prime end enriched mRNA from a 3 mpf wild type adult zebrafish muscle tissue dissected from the region between the anal fin and the caudal fin plus ERCC spike mix 2 Ambion. A 8 base indexing sequence TTAGGCAT is bases 13 to 20 of read 1 followed by CG and polyT. More information describing the mutant phenotype can be found at the Wellcome Trust Sanger Institute Zebrafish Mutation Project website http://www.sanger.ac.uk/cgi bin/Projects/D rerio/zmp/search.pl?q=zmp ph112|sample name:21556cf0 a400 11e5 8adb 68b59976a382|strain:mixed                 Illumina HiSeq 2000 paired end sequencing SC EXP 18715 8#3 15566343 Illumina sequencing of library 15566343 constructed from sample accession ERS1023440 for study accession ERP013838. This is part of an Illumina multiplexed sequencing run 18715 8. This submission includes reads tagged with the sequence TTAGGCAT. Transcriptome counting qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2000   ERP013838 Illumina HiSeq 2000 paired end sequencing ENA FIRST PUBLIC:2016 05 03|ENA LAST UPDATE:2018 11 16 18715_8#3.cram cram 681501470.0 5242319.0 SC RUN 18715 8#3 0:55 1:75 A:181660061;C:124276603;G:127126649;T:248435294;N:2863 55 75     181660061 124276603 127126649 248435294 2863 ERX1468293 ERS1023440 ERA612387 European Nucleotide Archive Wellcome Sanger Institute 2 0.27754 0.81927 0.08779 0.07376 0.97717 0.92334 0.85395 0.62252 55 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2015-12-17 Adult Adult Multi-tissue Multi-system
3757 3757 ERR1397033 ERX1468292 ERS1023439 ERP013838 PRJEB12367 Transcriptome profiling of zebrafish muscle from wild type and tert knockout adults Transcriptome_profiling_of_zebrafish_muscle_from_wild_type_and_tert_knockout_adults-sc-4036 Transcriptome Analysis Paired end sequence data from the IlluminaHiSeq was prepared from RNA of dissected muscle from wildtype and tert homozygous adult zebrafish for transcriptional profiling ArrayExpress:E ERAD 456     ZMP phentoype 112 1 2 SAMEA3716290 Wellcome Sanger Institute ArrayExpress DevelopmentalStage:Adult ZFS:0000044 3 month|ArrayExpress OrganismPart:Adult muscle|ArrayExpress Species:Danio rerio|ENA first public:2016 05 03|ENA last update:2015 12 17|External Id:SAMEA3716290|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 05 03T14:23:28Z|INSDC last update:2015 12 17T16:32:18Z|INSDC status:public|Submitter Id:21498610 a400 11e5 8adb 68b59976a382|common name:zebrafish|sample description:3 prime end enriched mRNA from a 3 mpf wild type adult zebrafish muscle tissue dissected from the region between the anal fin and the caudal fin plus ERCC spike mix 2 Ambion. A 8 base indexing sequence CGATGTTT is bases 13 to 20 of read 1 followed by CG and polyT. More information describing the mutant phenotype can be found at the Wellcome Trust Sanger Institute Zebrafish Mutation Project website http://www.sanger.ac.uk/cgi bin/Projects/D rerio/zmp/search.pl?q=zmp ph112|sample name:21498610 a400 11e5 8adb 68b59976a382|strain:mixed                 Illumina HiSeq 2000 paired end sequencing SC EXP 18715 8#2 15566342 Illumina sequencing of library 15566342 constructed from sample accession ERS1023439 for study accession ERP013838. This is part of an Illumina multiplexed sequencing run 18715 8. This submission includes reads tagged with the sequence CGATGTTT. Transcriptome counting qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2000   ERP013838 Illumina HiSeq 2000 paired end sequencing ENA FIRST PUBLIC:2016 05 03|ENA LAST UPDATE:2018 11 16 18715_8#2.cram cram 696821970.0 5360169.0 SC RUN 18715 8#2 0:55 1:75 A:186653953;C:128161902;G:131712165;T:250291266;N:2684 55 75     186653953 128161902 131712165 250291266 2684 ERX1468292 ERS1023439 ERA612387 European Nucleotide Archive Wellcome Sanger Institute 2 0.24475 0.81186 0.08713 0.06706 0.97798 0.92281 0.83555 0.55607 55 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2015-12-17 Adult Adult Multi-tissue Multi-system
3758 3758 ERR1397032 ERX1468291 ERS1023438 ERP013838 PRJEB12367 Transcriptome profiling of zebrafish muscle from wild type and tert knockout adults Transcriptome_profiling_of_zebrafish_muscle_from_wild_type_and_tert_knockout_adults-sc-4036 Transcriptome Analysis Paired end sequence data from the IlluminaHiSeq was prepared from RNA of dissected muscle from wildtype and tert homozygous adult zebrafish for transcriptional profiling ArrayExpress:E ERAD 456     ZMP phentoype 112 1 1 SAMEA3716289 Wellcome Sanger Institute ArrayExpress DevelopmentalStage:Adult ZFS:0000044 3 month|ArrayExpress OrganismPart:Adult muscle|ArrayExpress Species:Danio rerio|ENA first public:2016 05 03|ENA last update:2015 12 17|External Id:SAMEA3716289|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 05 03T14:23:28Z|INSDC last update:2015 12 17T16:32:17Z|INSDC status:public|Submitter Id:2134eca0 a400 11e5 8adb 68b59976a382|common name:zebrafish|sample description:3 prime end enriched mRNA from a 3 mpf wild type adult zebrafish muscle tissue dissected from the region between the anal fin and the caudal fin plus ERCC spike mix 2 Ambion. A 8 base indexing sequence ATCACGTT is bases 13 to 20 of read 1 followed by CG and polyT. More information describing the mutant phenotype can be found at the Wellcome Trust Sanger Institute Zebrafish Mutation Project website http://www.sanger.ac.uk/cgi bin/Projects/D rerio/zmp/search.pl?q=zmp ph112|sample name:2134eca0 a400 11e5 8adb 68b59976a382|strain:mixed                 Illumina HiSeq 2000 paired end sequencing SC EXP 18715 8#1 15566341 Illumina sequencing of library 15566341 constructed from sample accession ERS1023438 for study accession ERP013838. This is part of an Illumina multiplexed sequencing run 18715 8. This submission includes reads tagged with the sequence ATCACGTT. Transcriptome counting qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2000   ERP013838 Illumina HiSeq 2000 paired end sequencing ENA FIRST PUBLIC:2016 05 03|ENA LAST UPDATE:2018 11 16 18715_8#1.cram cram 637072930.0 4900561.0 SC RUN 18715 8#1 0:55 1:75 A:169596079;C:116706958;G:122297212;T:228469365;N:3316 55 75     169596079 116706958 122297212 228469365 3316 ERX1468291 ERS1023438 ERA612387 European Nucleotide Archive Wellcome Sanger Institute 2 0.2369 0.84014 0.08404 0.07279 0.9764 0.92289 0.81134 0.63042 55 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2015-12-17 Adult Adult Multi-tissue Multi-system
10188 10188 ERR600685 ERX557514 ERS460539 ERP003932 PRJEB4632 Zebrafish oocyte maturation Zebrafish_oocyte_maturation-sc-2013-09-24T12:03:04Z-2777 Transcriptome Analysis The data within this study has been generated to study zebrafish oocyte maturation.         SAMEA2537630 SC ArrayExpress Genotype:WT|ArrayExpress OrganismPart:ovaries|ArrayExpress Sex:female|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2014 09 16T09:23:11Z|ENA LAST UPDATE:2018 03 08T17:42:28Z|External Id:SAMEA2537630|INSDC center name:SC|INSDC first public:2014 09 16T09:23:11Z|INSDC last update:2018 03 08T17:42:28Z|INSDC status:public|Submitter Id:stI oocytes TC9 WT F sc 1951842|common name:zebrafish|sample description:3 prime end enriched mRNA from oocytes. A 10 base indexing sequence TCGAAGTGAT is bases 13 to 22 of read 1 followed by polyT.|sample name:stI oocytes TC9 WT F sc 1951842|scientific name:Danio rerio|strain:AB                 Illumina HiSeq 2000 paired end sequencing SC EXP 13129 8#9 10325318 Illumina sequencing of library 10325318 constructed from sample accession ERS460539 for study accession ERP003932. This is part of an Illumina multiplexed sequencing run 13129 8. This submission includes reads tagged with the sequence TCGAAGTG. qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2000   ERP003932 Illumina HiSeq 2000 paired end sequencing ENA FIRST PUBLIC:2014 09 16|ENA LAST UPDATE:2018 11 16 13129_8#9.cram cram 2109545984.0 16480828.0 SC RUN 13129 8#9 0:53 1:75 A:539694535;C:346663352;G:388843341;T:829045236;N:5299520 53 75     539694535 346663352 388843341 829045236 5299520 ERX557514 ERS460539 ERA358077 SC Wellcome Sanger Institute 2 0.39712 0.80906 0.2298 0.0288 0.97575 0.82292 0.20258 0.50014 53 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2014-09-16 Zygote Embryo Multi-tissue Multi-system
10189 10189 ERR600684 ERX557513 ERS460538 ERP003932 PRJEB4632 Zebrafish oocyte maturation Zebrafish_oocyte_maturation-sc-2013-09-24T12:03:04Z-2777 Transcriptome Analysis The data within this study has been generated to study zebrafish oocyte maturation.         SAMEA2537629 SC ArrayExpress Genotype:buc|ArrayExpress OrganismPart:ovaries|ArrayExpress Sex:female|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2014 09 16T09:23:11Z|ENA LAST UPDATE:2018 03 08T17:41:18Z|External Id:SAMEA2537629|INSDC center name:SC|INSDC first public:2014 09 16T09:23:11Z|INSDC last update:2018 03 08T17:41:18Z|INSDC status:public|Submitter Id:stI oocytes TC8 buc 4 sc 1951841|common name:zebrafish|sample description:3 prime end enriched mRNA from oocytes. A 10 base indexing sequence TTCCATTGAT is bases 13 to 22 of read 1 followed by polyT.|sample name:stI oocytes TC8 buc 4 sc 1951841|scientific name:Danio rerio|strain:AB                 Illumina HiSeq 2000 paired end sequencing SC EXP 13129 8#8 10325317 Illumina sequencing of library 10325317 constructed from sample accession ERS460538 for study accession ERP003932. This is part of an Illumina multiplexed sequencing run 13129 8. This submission includes reads tagged with the sequence TTCCATTG. qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2000   ERP003932 Illumina HiSeq 2000 paired end sequencing ENA FIRST PUBLIC:2014 09 16|ENA LAST UPDATE:2018 11 16 13129_8#8.cram cram 1995224064.0 15587688.0 SC RUN 13129 8#8 0:53 1:75 A:508909383;C:332355977;G:373835062;T:775089830;N:5033812 53 75     508909383 332355977 373835062 775089830 5033812 ERX557513 ERS460538 ERA358077 SC Wellcome Sanger Institute 2 0.31242 0.8426 0.16835 0.02824 0.96921 0.81606 0.27677 0.49882 53 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2014-09-16 Zygote Embryo Multi-tissue Multi-system
10190 10190 ERR600683 ERX557512 ERS460537 ERP003932 PRJEB4632 Zebrafish oocyte maturation Zebrafish_oocyte_maturation-sc-2013-09-24T12:03:04Z-2777 Transcriptome Analysis The data within this study has been generated to study zebrafish oocyte maturation.         SAMEA2537628 SC ArrayExpress Genotype:buc|ArrayExpress OrganismPart:ovaries|ArrayExpress Sex:female|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2014 09 16T09:23:11Z|ENA LAST UPDATE:2018 03 08T17:57:23Z|External Id:SAMEA2537628|INSDC center name:SC|INSDC first public:2014 09 16T09:23:11Z|INSDC last update:2018 03 08T17:57:23Z|INSDC status:public|Submitter Id:stI oocytes TC7 buc 3 sc 1951840|common name:zebrafish|sample description:3 prime end enriched mRNA from oocytes. A 10 base indexing sequence TAGTCTTGAT is bases 13 to 22 of read 1 followed by polyT.|sample name:stI oocytes TC7 buc 3 sc 1951840|scientific name:Danio rerio|strain:AB                 Illumina HiSeq 2000 paired end sequencing SC EXP 13129 8#7 10325316 Illumina sequencing of library 10325316 constructed from sample accession ERS460537 for study accession ERP003932. This is part of an Illumina multiplexed sequencing run 13129 8. This submission includes reads tagged with the sequence TAGTCTTG. qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2000   ERP003932 Illumina HiSeq 2000 paired end sequencing ENA FIRST PUBLIC:2014 09 16|ENA LAST UPDATE:2018 11 16 13129_8#7.cram cram 1335316864.0 10432163.0 SC RUN 13129 8#7 0:53 1:75 A:318582120;C:238156133;G:258642941;T:516548945;N:3386725 53 75     318582120 238156133 258642941 516548945 3386725 ERX557512 ERS460537 ERA358077 SC Wellcome Sanger Institute 2 0.32517 0.89235 0.16229 0.04485 0.97634 0.90057 0.32073 0.47925 53 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2014-09-16 Zygote Embryo Multi-tissue Multi-system
10191 10191 ERR600682 ERX557511 ERS460536 ERP003932 PRJEB4632 Zebrafish oocyte maturation Zebrafish_oocyte_maturation-sc-2013-09-24T12:03:04Z-2777 Transcriptome Analysis The data within this study has been generated to study zebrafish oocyte maturation.         SAMEA2537627 SC ArrayExpress Genotype:buc|ArrayExpress OrganismPart:ovaries|ArrayExpress Sex:female|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2014 09 16T09:23:11Z|ENA LAST UPDATE:2018 03 08T17:42:28Z|External Id:SAMEA2537627|INSDC center name:SC|INSDC first public:2014 09 16T09:23:11Z|INSDC last update:2018 03 08T17:42:28Z|INSDC status:public|Submitter Id:stI oocytes TC6 buc 2 sc 1951839|common name:zebrafish|sample description:3 prime end enriched mRNA from oocytes. A 10 base indexing sequence TGTGGTTGAT is bases 13 to 22 of read 1 followed by polyT.|sample name:stI oocytes TC6 buc 2 sc 1951839|scientific name:Danio rerio|strain:AB                 Illumina HiSeq 2000 paired end sequencing SC EXP 13129 8#6 10325315 Illumina sequencing of library 10325315 constructed from sample accession ERS460536 for study accession ERP003932. This is part of an Illumina multiplexed sequencing run 13129 8. This submission includes reads tagged with the sequence TGTGGTTG. qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2000   ERP003932 Illumina HiSeq 2000 paired end sequencing ENA FIRST PUBLIC:2014 09 16|ENA LAST UPDATE:2018 11 16 13129_8#6.cram cram 2044001792.0 15968764.0 SC RUN 13129 8#6 0:53 1:75 A:525134102;C:334554692;G:372135205;T:806953076;N:5224717 53 75     525134102 334554692 372135205 806953076 5224717 ERX557511 ERS460536 ERA358077 SC Wellcome Sanger Institute 2 0.32466 0.83888 0.17696 0.03057 0.97451 0.82938 0.2392 0.48605 53 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2014-09-16 Zygote Embryo Multi-tissue Multi-system
10192 10192 ERR600681 ERX557510 ERS460535 ERP003932 PRJEB4632 Zebrafish oocyte maturation Zebrafish_oocyte_maturation-sc-2013-09-24T12:03:04Z-2777 Transcriptome Analysis The data within this study has been generated to study zebrafish oocyte maturation.         SAMEA2537626 SC ArrayExpress Genotype:buc|ArrayExpress OrganismPart:ovaries|ArrayExpress Sex:female|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2014 09 16T09:23:11Z|ENA LAST UPDATE:2018 03 08T17:41:18Z|External Id:SAMEA2537626|INSDC center name:SC|INSDC first public:2014 09 16T09:23:11Z|INSDC last update:2018 03 08T17:41:18Z|INSDC status:public|Submitter Id:stI oocytes TC5 buc 1 sc 1951838|common name:zebrafish|sample description:3 prime end enriched mRNA from oocytes. A 10 base indexing sequence TCCTCAATAT is bases 13 to 22 of read 1 followed by polyT.|sample name:stI oocytes TC5 buc 1 sc 1951838|scientific name:Danio rerio|strain:AB                 Illumina HiSeq 2000 paired end sequencing SC EXP 13129 8#5 10325314 Illumina sequencing of library 10325314 constructed from sample accession ERS460535 for study accession ERP003932. This is part of an Illumina multiplexed sequencing run 13129 8. This submission includes reads tagged with the sequence TCCTCAAT. qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2000   ERP003932 Illumina HiSeq 2000 paired end sequencing ENA FIRST PUBLIC:2014 09 16|ENA LAST UPDATE:2018 11 16 13129_8#5.cram cram 2936817024.0 22943883.0 SC RUN 13129 8#5 0:53 1:75 A:708314449;C:473731341;G:531306146;T:1215982569;N:7482519 53 75     708314449 473731341 531306146 1215982569 7482519 ERX557510 ERS460535 ERA358077 SC Wellcome Sanger Institute 2 0.38759 0.88578 0.22255 0.03034 0.9707 0.80984 0.2075 0.47267 53 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2014-09-16 Zygote Embryo Multi-tissue Multi-system
10193 10193 ERR600680 ERX557509 ERS460534 ERP003932 PRJEB4632 Zebrafish oocyte maturation Zebrafish_oocyte_maturation-sc-2013-09-24T12:03:04Z-2777 Transcriptome Analysis The data within this study has been generated to study zebrafish oocyte maturation.         SAMEA2537625 SC ArrayExpress Genotype:Tgbuc:del80|ArrayExpress OrganismPart:ovaries|ArrayExpress Sex:female|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2014 09 16T09:23:11Z|ENA LAST UPDATE:2018 03 08T17:57:23Z|External Id:SAMEA2537625|INSDC center name:SC|INSDC first public:2014 09 16T09:23:11Z|INSDC last update:2018 03 08T17:57:23Z|INSDC status:public|Submitter Id:stI oocytes TC4 Tg 1 sc 1951837|common name:zebrafish|sample description:3 prime end enriched mRNA from oocytes. A 10 base indexing sequence TACAGGATAT is bases 13 to 22 of read 1 followed by polyT.|sample name:stI oocytes TC4 Tg 1 sc 1951837|scientific name:Danio rerio|strain:AB                 Illumina HiSeq 2000 paired end sequencing SC EXP 13129 8#4 10325313 Illumina sequencing of library 10325313 constructed from sample accession ERS460534 for study accession ERP003932. This is part of an Illumina multiplexed sequencing run 13129 8. This submission includes reads tagged with the sequence TACAGGAT. qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2000   ERP003932 Illumina HiSeq 2000 paired end sequencing ENA FIRST PUBLIC:2014 09 16|ENA LAST UPDATE:2018 11 16 13129_8#4.cram cram 2384869248.0 18631791.0 SC RUN 13129 8#4 0:53 1:75 A:579389373;C:378753292;G:429075103;T:991563565;N:6087915 53 75     579389373 378753292 429075103 991563565 6087915 ERX557509 ERS460534 ERA358077 SC Wellcome Sanger Institute 2 0.48038 0.84929 0.28951 0.03671 0.97788 0.81249 0.13153 0.4899 53 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2014-09-16 Zygote Embryo Multi-tissue Multi-system
10194 10194 ERR600679 ERX557508 ERS460533 ERP003932 PRJEB4632 Zebrafish oocyte maturation Zebrafish_oocyte_maturation-sc-2013-09-24T12:03:04Z-2777 Transcriptome Analysis The data within this study has been generated to study zebrafish oocyte maturation.         SAMEA2537624 SC ArrayExpress Genotype:WT|ArrayExpress OrganismPart:ovaries|ArrayExpress Sex:female|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2014 09 16T09:23:11Z|ENA LAST UPDATE:2018 03 08T17:42:28Z|External Id:SAMEA2537624|INSDC center name:SC|INSDC first public:2014 09 16T09:23:11Z|INSDC last update:2018 03 08T17:42:28Z|INSDC status:public|Submitter Id:stI oocytes TC3 WT 3 sc 1951836|common name:zebrafish|sample description:3 prime end enriched mRNA from oocytes. A 10 base indexing sequence TAGTGACTAT is bases 13 to 22 of read 1 followed by polyT.|sample name:stI oocytes TC3 WT 3 sc 1951836|scientific name:Danio rerio|strain:AB                 Illumina HiSeq 2000 paired end sequencing SC EXP 13129 8#3 10325312 Illumina sequencing of library 10325312 constructed from sample accession ERS460533 for study accession ERP003932. This is part of an Illumina multiplexed sequencing run 13129 8. This submission includes reads tagged with the sequence TAGTGACT. qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2000   ERP003932 Illumina HiSeq 2000 paired end sequencing ENA FIRST PUBLIC:2014 09 16|ENA LAST UPDATE:2018 11 16 13129_8#3.cram cram 2105031424.0 16445558.0 SC RUN 13129 8#3 0:53 1:75 A:508334707;C:332423893;G:374815782;T:884154321;N:5302721 53 75     508334707 332423893 374815782 884154321 5302721 ERX557508 ERS460533 ERA358077 SC Wellcome Sanger Institute 2 0.50684 0.84751 0.30664 0.04222 0.97853 0.81343 0.11336 0.49639 53 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2014-09-16 Zygote Embryo Multi-tissue Multi-system
10195 10195 ERR600678 ERX557507 ERS460532 ERP003932 PRJEB4632 Zebrafish oocyte maturation Zebrafish_oocyte_maturation-sc-2013-09-24T12:03:04Z-2777 Transcriptome Analysis The data within this study has been generated to study zebrafish oocyte maturation.         SAMEA2537623 SC ArrayExpress Genotype:WT|ArrayExpress OrganismPart:ovaries|ArrayExpress Sex:female|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2014 09 16T09:23:11Z|ENA LAST UPDATE:2018 03 08T17:41:18Z|External Id:SAMEA2537623|INSDC center name:SC|INSDC first public:2014 09 16T09:23:11Z|INSDC last update:2018 03 08T17:41:18Z|INSDC status:public|Submitter Id:stI oocytes TC2 WT 2 sc 1951835|common name:zebrafish|sample description:3 prime end enriched mRNA from oocytes. A 10 base indexing sequence TTCCTGCTAT is bases 13 to 22 of read 1 followed by polyT.|sample name:stI oocytes TC2 WT 2 sc 1951835|scientific name:Danio rerio|strain:AB                 Illumina HiSeq 2000 paired end sequencing SC EXP 13129 8#2 10325311 Illumina sequencing of library 10325311 constructed from sample accession ERS460532 for study accession ERP003932. This is part of an Illumina multiplexed sequencing run 13129 8. This submission includes reads tagged with the sequence TTCCTGCT. qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2000   ERP003932 Illumina HiSeq 2000 paired end sequencing ENA FIRST PUBLIC:2014 09 16|ENA LAST UPDATE:2018 11 16 13129_8#2.cram cram 1616469504.0 12628668.0 SC RUN 13129 8#2 0:53 1:75 A:415492342;C:254209235;G:288719848;T:653979238;N:4068841 53 75     415492342 254209235 288719848 653979238 4068841 ERX557507 ERS460532 ERA358077 SC Wellcome Sanger Institute 2 0.44661 0.81908 0.25181 0.0449 0.96469 0.80306 0.22578 0.49499 53 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2014-09-16 Zygote Embryo Multi-tissue Multi-system
10196 10196 ERR600677 ERX557506 ERS460531 ERP003932 PRJEB4632 Zebrafish oocyte maturation Zebrafish_oocyte_maturation-sc-2013-09-24T12:03:04Z-2777 Transcriptome Analysis The data within this study has been generated to study zebrafish oocyte maturation.         SAMEA2537622 SC ArrayExpress Genotype:WT|ArrayExpress OrganismPart:ovaries|ArrayExpress Sex:female|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2014 09 16T09:23:11Z|ENA LAST UPDATE:2018 03 08T17:57:22Z|External Id:SAMEA2537622|INSDC center name:SC|INSDC first public:2014 09 16T09:23:11Z|INSDC last update:2018 03 08T17:57:22Z|INSDC status:public|Submitter Id:stI oocytes TC1 WT 1 sc 1951834|common name:zebrafish|sample description:3 prime end enriched mRNA from oocytes. A 10 base indexing sequence TGCGATCTAT is bases 13 to 22 of read 1 followed by polyT.|sample name:stI oocytes TC1 WT 1 sc 1951834|scientific name:Danio rerio|strain:AB                 Illumina HiSeq 2000 paired end sequencing SC EXP 13129 8#1 10325310 Illumina sequencing of library 10325310 constructed from sample accession ERS460531 for study accession ERP003932. This is part of an Illumina multiplexed sequencing run 13129 8. This submission includes reads tagged with the sequence TGCGATCT. qPCR only   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2000   ERP003932 Illumina HiSeq 2000 paired end sequencing ENA FIRST PUBLIC:2014 09 16|ENA LAST UPDATE:2018 11 16 13129_8#1.cram cram 1741512832.0 13605569.0 SC RUN 13129 8#1 0:53 1:75 A:460247357;C:265029516;G:295203994;T:716636989;N:4394976 53 75     460247357 265029516 295203994 716636989 4394976 ERX557506 ERS460531 ERA358077 SC Wellcome Sanger Institute 2 0.36591 0.79177 0.21838 0.03785 0.97569 0.81095 0.16098 0.49496 53 75 T B mate1 technical by mapping diff illumina hiseq_era 3prime cdna_unspecified unknown bulk unknown unknown   United Kingdom 2014-09-16 Zygote Embryo Multi-tissue Multi-system
10197 10197 ERR596433 ERX553396 ERS462797 ERP003932 PRJEB4632 Zebrafish oocyte maturation Zebrafish_oocyte_maturation-sc-2013-09-24T12:03:04Z-2777 Transcriptome Analysis The data within this study has been generated to study zebrafish oocyte maturation.         SAMEA2547987 SC ArrayExpress Genotype:WT|ArrayExpress OrganismPart:ovaries|ArrayExpress Sex:female|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2014 09 09T09:35:46Z|ENA LAST UPDATE:2018 03 08T17:41:51Z|External Id:SAMEA2547987|INSDC center name:SC|INSDC first public:2014 09 09T09:35:46Z|INSDC last update:2018 03 08T17:41:51Z|INSDC status:public|Submitter Id:stI oocytes Fraction9 WT F sc 1971686|common name:zebrafish|sample description:Oocyte RNA fraction.|sample name:stI oocytes Fraction9 WT F sc 1971686|scientific name:Danio rerio|strain:AB                 Illumina MiSeq paired end sequencing SC EXP 13147 1#9 10347698 Illumina sequencing of library 10347698 constructed from sample accession ERS462797 for study accession ERP003932. This is part of an Illumina multiplexed sequencing run 13147 1. This submission includes reads tagged with the sequence GATCAG. RNA seq dUTP   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina MiSeq   ERP003932 Illumina MiSeq paired end sequencing ENA FIRST PUBLIC:2014 09 09|ENA LAST UPDATE:2018 11 16 13147_1#9.cram cram 552103200.0 1840344.0 SC RUN 13147 1#9 0:150 1:150 A:124691243;C:154385942;G:155440122;T:117585893;N:0 150 150     124691243 154385942 155440122 117585893 0 ERX553396 ERS462797 ERA356861 SC Wellcome Sanger Institute 2 0.97349 0.97184 0.25562 0.26367 0.73754 0.76534 0.68526 0.65497 150 150 B B biological fallback assumption illumina miseq unknown cdna_unspecified unknown bulk unknown unknown   United Kingdom 2014-09-09 Zygote Embryo Multi-tissue Multi-system
10198 10198 ERR596432 ERX553395 ERS462796 ERP003932 PRJEB4632 Zebrafish oocyte maturation Zebrafish_oocyte_maturation-sc-2013-09-24T12:03:04Z-2777 Transcriptome Analysis The data within this study has been generated to study zebrafish oocyte maturation.         SAMEA2547986 SC ArrayExpress Genotype:buc|ArrayExpress OrganismPart:ovaries|ArrayExpress Sex:female|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2014 09 09T09:35:46Z|ENA LAST UPDATE:2018 03 08T17:58:35Z|External Id:SAMEA2547986|INSDC center name:SC|INSDC first public:2014 09 09T09:35:46Z|INSDC last update:2018 03 08T17:58:35Z|INSDC status:public|Submitter Id:stI oocytes Fraction8 buc 4 sc 1971685|common name:zebrafish|sample description:Oocyte RNA fraction.|sample name:stI oocytes Fraction8 buc 4 sc 1971685|scientific name:Danio rerio|strain:AB                 Illumina MiSeq paired end sequencing SC EXP 13147 1#8 10347697 Illumina sequencing of library 10347697 constructed from sample accession ERS462796 for study accession ERP003932. This is part of an Illumina multiplexed sequencing run 13147 1. This submission includes reads tagged with the sequence ACTTGA. RNA seq dUTP   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina MiSeq   ERP003932 Illumina MiSeq paired end sequencing ENA FIRST PUBLIC:2014 09 09|ENA LAST UPDATE:2018 11 16 13147_1#8.cram cram 625194300.0 2083981.0 SC RUN 13147 1#8 0:150 1:150 A:145587865;C:170554648;G:171453968;T:137597813;N:6 150 150     145587865 170554648 171453968 137597813 6 ERX553395 ERS462796 ERA356861 SC Wellcome Sanger Institute 2 0.97066 0.96788 0.23219 0.23823 0.7205 0.75623 0.61734 0.60233 150 150 B B biological fallback assumption illumina miseq unknown cdna_unspecified unknown bulk unknown unknown   United Kingdom 2014-09-09 Zygote Embryo Multi-tissue Multi-system
10199 10199 ERR596431 ERX553394 ERS462795 ERP003932 PRJEB4632 Zebrafish oocyte maturation Zebrafish_oocyte_maturation-sc-2013-09-24T12:03:04Z-2777 Transcriptome Analysis The data within this study has been generated to study zebrafish oocyte maturation.         SAMEA2547985 SC ArrayExpress Genotype:buc|ArrayExpress OrganismPart:ovaries|ArrayExpress Sex:female|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2014 09 09T09:35:46Z|ENA LAST UPDATE:2018 03 08T17:42:18Z|External Id:SAMEA2547985|INSDC center name:SC|INSDC first public:2014 09 09T09:35:46Z|INSDC last update:2018 03 08T17:42:18Z|INSDC status:public|Submitter Id:stI oocytes Fraction7 buc 3 sc 1971684|common name:zebrafish|sample description:Oocyte RNA fraction.|sample name:stI oocytes Fraction7 buc 3 sc 1971684|scientific name:Danio rerio|strain:AB                 Illumina MiSeq paired end sequencing SC EXP 13147 1#7 10347696 Illumina sequencing of library 10347696 constructed from sample accession ERS462795 for study accession ERP003932. This is part of an Illumina multiplexed sequencing run 13147 1. This submission includes reads tagged with the sequence CAGATC. RNA seq dUTP   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina MiSeq   ERP003932 Illumina MiSeq paired end sequencing ENA FIRST PUBLIC:2014 09 09|ENA LAST UPDATE:2018 11 16 13147_1#7.cram cram 498083400.0 1660278.0 SC RUN 13147 1#7 0:150 1:150 A:127449944;C:127409242;G:133869886;T:109354327;N:1 150 150     127449944 127409242 133869886 109354327 1 ERX553394 ERS462795 ERA356861 SC Wellcome Sanger Institute 2 0.94952 0.95502 0.14913 0.14846 0.73807 0.74572 0.54621 0.54335 150 150 B B biological fallback assumption illumina miseq unknown cdna_unspecified unknown bulk unknown unknown   United Kingdom 2014-09-09 Zygote Embryo Multi-tissue Multi-system
10200 10200 ERR596430 ERX553393 ERS462794 ERP003932 PRJEB4632 Zebrafish oocyte maturation Zebrafish_oocyte_maturation-sc-2013-09-24T12:03:04Z-2777 Transcriptome Analysis The data within this study has been generated to study zebrafish oocyte maturation.         SAMEA2547984 SC ArrayExpress Genotype:buc|ArrayExpress OrganismPart:ovaries|ArrayExpress Sex:female|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2014 09 09T09:35:46Z|ENA LAST UPDATE:2018 03 08T17:41:51Z|External Id:SAMEA2547984|INSDC center name:SC|INSDC first public:2014 09 09T09:35:46Z|INSDC last update:2018 03 08T17:41:51Z|INSDC status:public|Submitter Id:stI oocytes Fraction6 buc 2 sc 1971683|common name:zebrafish|sample description:Oocyte RNA fraction.|sample name:stI oocytes Fraction6 buc 2 sc 1971683|scientific name:Danio rerio|strain:AB                 Illumina MiSeq paired end sequencing SC EXP 13147 1#6 10347695 Illumina sequencing of library 10347695 constructed from sample accession ERS462794 for study accession ERP003932. This is part of an Illumina multiplexed sequencing run 13147 1. This submission includes reads tagged with the sequence GCCAAT. RNA seq dUTP   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina MiSeq   ERP003932 Illumina MiSeq paired end sequencing ENA FIRST PUBLIC:2014 09 09|ENA LAST UPDATE:2018 11 16 13147_1#6.cram cram 433626600.0 1445422.0 SC RUN 13147 1#6 0:150 1:150 A:113030099;C:110060861;G:116695113;T:93840526;N:1 150 150     113030099 110060861 116695113 93840526 1 ERX553393 ERS462794 ERA356861 SC Wellcome Sanger Institute 2 0.94512 0.95418 0.13754 0.13509 0.76274 0.77542 0.54752 0.54127 150 150 B B biological fallback assumption illumina miseq unknown cdna_unspecified unknown bulk unknown unknown   United Kingdom 2014-09-09 Zygote Embryo Multi-tissue Multi-system
10201 10201 ERR596429 ERX553392 ERS462793 ERP003932 PRJEB4632 Zebrafish oocyte maturation Zebrafish_oocyte_maturation-sc-2013-09-24T12:03:04Z-2777 Transcriptome Analysis The data within this study has been generated to study zebrafish oocyte maturation.         SAMEA2547983 SC ArrayExpress Genotype:buc|ArrayExpress OrganismPart:ovaries|ArrayExpress Sex:female|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2014 09 09T09:35:46Z|ENA LAST UPDATE:2018 03 08T17:58:34Z|External Id:SAMEA2547983|INSDC center name:SC|INSDC first public:2014 09 09T09:35:46Z|INSDC last update:2018 03 08T17:58:34Z|INSDC status:public|Submitter Id:stI oocytes Fraction5 buc 1 sc 1971682|common name:zebrafish|sample description:Oocyte RNA fraction.|sample name:stI oocytes Fraction5 buc 1 sc 1971682|scientific name:Danio rerio|strain:AB                 Illumina MiSeq paired end sequencing SC EXP 13147 1#5 10347694 Illumina sequencing of library 10347694 constructed from sample accession ERS462793 for study accession ERP003932. This is part of an Illumina multiplexed sequencing run 13147 1. This submission includes reads tagged with the sequence ACAGTG. RNA seq dUTP   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina MiSeq   ERP003932 Illumina MiSeq paired end sequencing ENA FIRST PUBLIC:2014 09 09|ENA LAST UPDATE:2018 11 16 13147_1#5.cram cram 670533600.0 2235112.0 SC RUN 13147 1#5 0:150 1:150 A:152057213;C:184952145;G:191337018;T:142187224;N:0 150 150     152057213 184952145 191337018 142187224 0 ERX553392 ERS462793 ERA356861 SC Wellcome Sanger Institute 2 0.95987 0.95954 0.20495 0.20606 0.73726 0.7529 0.61328 0.61986 150 150 B B biological fallback assumption illumina miseq unknown cdna_unspecified unknown bulk unknown unknown   United Kingdom 2014-09-09 Zygote Embryo Multi-tissue Multi-system
10202 10202 ERR596428 ERX553391 ERS462792 ERP003932 PRJEB4632 Zebrafish oocyte maturation Zebrafish_oocyte_maturation-sc-2013-09-24T12:03:04Z-2777 Transcriptome Analysis The data within this study has been generated to study zebrafish oocyte maturation.         SAMEA2547982 SC ArrayExpress Genotype:Tgbuc:del80|ArrayExpress OrganismPart:ovaries|ArrayExpress Sex:female|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2014 09 09T09:35:46Z|ENA LAST UPDATE:2018 03 08T17:42:18Z|External Id:SAMEA2547982|INSDC center name:SC|INSDC first public:2014 09 09T09:35:46Z|INSDC last update:2018 03 08T17:42:18Z|INSDC status:public|Submitter Id:stI oocytes Fraction4 Tg 1 sc 1971681|common name:zebrafish|sample description:Oocyte RNA fraction.|sample name:stI oocytes Fraction4 Tg 1 sc 1971681|scientific name:Danio rerio|strain:AB                 Illumina MiSeq paired end sequencing SC EXP 13147 1#4 10347693 Illumina sequencing of library 10347693 constructed from sample accession ERS462792 for study accession ERP003932. This is part of an Illumina multiplexed sequencing run 13147 1. This submission includes reads tagged with the sequence TGACCA. RNA seq dUTP   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina MiSeq   ERP003932 Illumina MiSeq paired end sequencing ENA FIRST PUBLIC:2014 09 09|ENA LAST UPDATE:2018 11 16 13147_1#4.cram cram 524202300.0 1747341.0 SC RUN 13147 1#4 0:150 1:150 A:117529161;C:147865152;G:153007969;T:105800018;N:0 150 150     117529161 147865152 153007969 105800018 0 ERX553391 ERS462792 ERA356861 SC Wellcome Sanger Institute 2 0.95955 0.96175 0.21001 0.20834 0.76445 0.78281 0.70435 0.68975 150 150 B B biological fallback assumption illumina miseq unknown cdna_unspecified unknown bulk unknown unknown   United Kingdom 2014-09-09 Zygote Embryo Multi-tissue Multi-system
10203 10203 ERR596427 ERX553390 ERS462791 ERP003932 PRJEB4632 Zebrafish oocyte maturation Zebrafish_oocyte_maturation-sc-2013-09-24T12:03:04Z-2777 Transcriptome Analysis The data within this study has been generated to study zebrafish oocyte maturation.         SAMEA2547981 SC ArrayExpress Genotype:WT|ArrayExpress OrganismPart:ovaries|ArrayExpress Sex:female|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2014 09 09T09:35:46Z|ENA LAST UPDATE:2018 03 08T17:41:51Z|External Id:SAMEA2547981|INSDC center name:SC|INSDC first public:2014 09 09T09:35:46Z|INSDC last update:2018 03 08T17:41:51Z|INSDC status:public|Submitter Id:stI oocytes Fraction3 WT 3 sc 1971680|common name:zebrafish|sample description:Oocyte RNA fraction.|sample name:stI oocytes Fraction3 WT 3 sc 1971680|scientific name:Danio rerio|strain:AB                 Illumina MiSeq paired end sequencing SC EXP 13147 1#3 10347692 Illumina sequencing of library 10347692 constructed from sample accession ERS462791 for study accession ERP003932. This is part of an Illumina multiplexed sequencing run 13147 1. This submission includes reads tagged with the sequence TTAGGC. RNA seq dUTP   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina MiSeq   ERP003932 Illumina MiSeq paired end sequencing ENA FIRST PUBLIC:2014 09 09|ENA LAST UPDATE:2018 11 16 13147_1#3.cram cram 1142124300.0 3807081.0 SC RUN 13147 1#3 0:150 1:150 A:239327535;C:334933829;G:339423780;T:228439155;N:1 150 150     239327535 334933829 339423780 228439155 1 ERX553390 ERS462791 ERA356861 SC Wellcome Sanger Institute 2 0.98041 0.98099 0.28225 0.28585 0.80273 0.81012 0.81256 0.81436 150 150 B B biological fallback assumption illumina miseq unknown cdna_unspecified unknown bulk unknown unknown   United Kingdom 2014-09-09 Zygote Embryo Multi-tissue Multi-system
10204 10204 ERR596426 ERX553389 ERS462790 ERP003932 PRJEB4632 Zebrafish oocyte maturation Zebrafish_oocyte_maturation-sc-2013-09-24T12:03:04Z-2777 Transcriptome Analysis The data within this study has been generated to study zebrafish oocyte maturation.         SAMEA2547980 SC ArrayExpress Genotype:WT|ArrayExpress OrganismPart:ovaries|ArrayExpress Sex:female|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2014 09 09T09:35:46Z|ENA LAST UPDATE:2018 03 08T17:58:34Z|External Id:SAMEA2547980|INSDC center name:SC|INSDC first public:2014 09 09T09:35:46Z|INSDC last update:2018 03 08T17:58:34Z|INSDC status:public|Submitter Id:stI oocytes Fraction2 WT 2 sc 1971679|common name:zebrafish|sample description:Oocyte RNA fraction.|sample name:stI oocytes Fraction2 WT 2 sc 1971679|scientific name:Danio rerio|strain:AB                 Illumina MiSeq paired end sequencing SC EXP 13147 1#2 10347691 Illumina sequencing of library 10347691 constructed from sample accession ERS462790 for study accession ERP003932. This is part of an Illumina multiplexed sequencing run 13147 1. This submission includes reads tagged with the sequence CGATGT. RNA seq dUTP   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina MiSeq   ERP003932 Illumina MiSeq paired end sequencing ENA FIRST PUBLIC:2014 09 09|ENA LAST UPDATE:2018 11 16 13147_1#2.cram cram 714969600.0 2383232.0 SC RUN 13147 1#2 0:150 1:150 A:151578902;C:207835645;G:217545196;T:138009856;N:1 150 150     151578902 207835645 217545196 138009856 1 ERX553389 ERS462790 ERA356861 SC Wellcome Sanger Institute 2 0.97925 0.981 0.2548 0.25496 0.77447 0.78462 0.77035 0.76498 150 150 B B biological fallback assumption illumina miseq unknown cdna_unspecified unknown bulk unknown unknown   United Kingdom 2014-09-09 Zygote Embryo Multi-tissue Multi-system
10205 10205 ERR596425 ERX553388 ERS462789 ERP003932 PRJEB4632 Zebrafish oocyte maturation Zebrafish_oocyte_maturation-sc-2013-09-24T12:03:04Z-2777 Transcriptome Analysis The data within this study has been generated to study zebrafish oocyte maturation.         SAMEA2547979 SC ArrayExpress Genotype:WT|ArrayExpress OrganismPart:ovaries|ArrayExpress Sex:female|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2014 09 09T09:35:46Z|ENA LAST UPDATE:2018 03 08T17:42:18Z|External Id:SAMEA2547979|INSDC center name:SC|INSDC first public:2014 09 09T09:35:46Z|INSDC last update:2018 03 08T17:42:18Z|INSDC status:public|Submitter Id:stI oocytes Fraction1 WT 1 sc 1971678|common name:zebrafish|sample description:Oocyte RNA fraction.|sample name:stI oocytes Fraction1 WT 1 sc 1971678|scientific name:Danio rerio|strain:AB                 Illumina MiSeq paired end sequencing SC EXP 13147 1#1 10347690 Illumina sequencing of library 10347690 constructed from sample accession ERS462789 for study accession ERP003932. This is part of an Illumina multiplexed sequencing run 13147 1. This submission includes reads tagged with the sequence ATCACG. RNA seq dUTP   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina MiSeq   ERP003932 Illumina MiSeq paired end sequencing ENA FIRST PUBLIC:2014 09 09|ENA LAST UPDATE:2018 11 16 13147_1#1.cram cram 567682800.0 1892276.0 SC RUN 13147 1#1 0:150 1:150 A:133087363;C:153887726;G:158264603;T:122443107;N:1 150 150     133087363 153887726 158264603 122443107 1 ERX553388 ERS462789 ERA356861 SC Wellcome Sanger Institute 2 0.94832 0.94927 0.19305 0.19445 0.72421 0.73551 0.59172 0.60783 150 150 B B biological fallback assumption illumina miseq unknown cdna_unspecified unknown bulk unknown unknown   United Kingdom 2014-09-09 Zygote Embryo Multi-tissue Multi-system
24854 24854 SRR25519420 SRX21249697 SRS18503946 SRP453374 PRJNA1002260 Effects of AR 42 Treatment on Gene Expression in the Zebrafish Tail Fin Amputation TFA Model GSE240080 Transcriptome Analysis We investigated the inflammatory environmental effects of AR 42 on neutrophil recruitment by performing an RNA seq analysis with tail tissue in the zebrafish TFA model. The RNA seq results showed that AR 42 modulates cytokine/chemokine signaling in the local inflammatory environment. Overall design: For RNA sequencing RNA seq analysis the 3 dpf WT zebrafish larvae receiving DMSO or 10 µM AR 42 treatments were categorized into 4 groups: ? DMSO treated larvae without xxx modeling referred to as DMSO ? AR 42 treated larvae without xxx modeling AR 42 ? DMSO treated larvae with TFA modeling DMSO TFA and ? AR 42 treated larvae with TFA modeling AR 42 TFA. And there are four biological replicates in each group. post tail fin amputation larvae were immediately treated with DMSO or 10 µM AR 42 for 1 hr before sampling. Tail tissues posterior to the cloaca in each larva were collected n = 150 and immediately froze in liquid nitrogen before RNA isolation.   pubmed:37728477   zebrafish AR42 TFA 4 3dpf GSM7681266   source name:tail|tissue:tail|treatment:AR 42 treated larvae with TFA modeling|geo loc name:missing|collection date:missing zebrafish AR42 TFA 4 3dpf Sequence reads were trimmed for adaptor sequence/low quality sequence using Trimmomatic version 0.36 Clean Reads were further treated with UMI soft in house to eliminate duplication bias introduced in library preparation and sequencing on using UMI. （Default Parameter developed by Wuhan Seqhealth Co. Ltd.） The de duplicated consensus sequences were mapped to GRCh38 using STAR software version 2.5.3a parameters outSAMtype BAM SortedByCoordinate Read count extraction and normalization were performed using featureCounts（Version 1.5.1）（parameter T 10 d 30 D 1000 C s 1 t {exon} g {geneid} primary O a {gff annotation file}） Assembly: GRCz10 Supplementary files format and content: tab delimited text files include raw counts for each Sample Supplementary files format and content: tab delimited text files include RPKM values for each Sample tail   RNA was harvested using TRIzol Reagent Invitrogen cat. NO 15596026）. 2 ug of total RNA was used for the construction of sequencing libraries. total RNAs were used for stranded RNA sequencing library preparation using KCTM Stranded mRNA Library Prep Kit Catalog NO. DR08402 Wuhan Seqhealth Co. Ltd. China following the manufacturer’s instruction.   tissue:tail|treatment:AR 42 treated larvae with TFA modeling GSM7681266 GSM7681266: zebrafish AR42 TFA 4 3dpf; Danio rerio; RNA Seq GSM7681266 r1 GSM7681266 1 RNA was harvested using TRIzol Reagent Invitrogen cat. NO 15596026）. 2 ug of total RNA was used for the construction of sequencing libraries. total RNAs were used for stranded RNA sequencing library preparation using KCTM Stranded mRNA Library Prep Kit Catalog NO. DR08402 Wuhan Seqhealth Co. Ltd. China following the manufacturer's instruction.   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED DNBSEQ DNBSEQ-T7   SRP453374     AR42_TFA_4.R1.fq.gz AR42_TFA_4.R2.fq.gz fastq fastq 9896772900.0 32989243.0 GSM7681266 r1 0:150 1:150 A:2382403653;C:2457377213;G:2470646159;T:2586345875;N:0 150 150     2382403653 2457377213 2470646159 2586345875 0 SRX21249697 SRS18503946 SRA1687041 Chongqing medical university Chongqing medical university 2 0.70537 0.88934 0.03159 0.04209 0.78013 0.75416 0.50713 0.45138 150 150 B B biological fallback assumption bgi bgi unknown cdna_unspecified unknown bulk unknown unknown   China 2023-08-04 Larval Larval Tail Multi-system
24855 24855 SRR25519421 SRX21249696 SRS18503945 SRP453374 PRJNA1002260 Effects of AR 42 Treatment on Gene Expression in the Zebrafish Tail Fin Amputation TFA Model GSE240080 Transcriptome Analysis We investigated the inflammatory environmental effects of AR 42 on neutrophil recruitment by performing an RNA seq analysis with tail tissue in the zebrafish TFA model. The RNA seq results showed that AR 42 modulates cytokine/chemokine signaling in the local inflammatory environment. Overall design: For RNA sequencing RNA seq analysis the 3 dpf WT zebrafish larvae receiving DMSO or 10 µM AR 42 treatments were categorized into 4 groups: ? DMSO treated larvae without xxx modeling referred to as DMSO ? AR 42 treated larvae without xxx modeling AR 42 ? DMSO treated larvae with TFA modeling DMSO TFA and ? AR 42 treated larvae with TFA modeling AR 42 TFA. And there are four biological replicates in each group. post tail fin amputation larvae were immediately treated with DMSO or 10 µM AR 42 for 1 hr before sampling. Tail tissues posterior to the cloaca in each larva were collected n = 150 and immediately froze in liquid nitrogen before RNA isolation.   pubmed:37728477   zebrafish AR42 TFA 3 3dpf GSM7681265   source name:tail|tissue:tail|treatment:AR 42 treated larvae with TFA modeling|geo loc name:missing|collection date:missing zebrafish AR42 TFA 3 3dpf Sequence reads were trimmed for adaptor sequence/low quality sequence using Trimmomatic version 0.36 Clean Reads were further treated with UMI soft in house to eliminate duplication bias introduced in library preparation and sequencing on using UMI. （Default Parameter developed by Wuhan Seqhealth Co. Ltd.） The de duplicated consensus sequences were mapped to GRCh38 using STAR software version 2.5.3a parameters outSAMtype BAM SortedByCoordinate Read count extraction and normalization were performed using featureCounts（Version 1.5.1）（parameter T 10 d 30 D 1000 C s 1 t {exon} g {geneid} primary O a {gff annotation file}） Assembly: GRCz10 Supplementary files format and content: tab delimited text files include raw counts for each Sample Supplementary files format and content: tab delimited text files include RPKM values for each Sample tail   RNA was harvested using TRIzol Reagent Invitrogen cat. NO 15596026）. 2 ug of total RNA was used for the construction of sequencing libraries. total RNAs were used for stranded RNA sequencing library preparation using KCTM Stranded mRNA Library Prep Kit Catalog NO. DR08402 Wuhan Seqhealth Co. Ltd. China following the manufacturer’s instruction.   tissue:tail|treatment:AR 42 treated larvae with TFA modeling GSM7681265 GSM7681265: zebrafish AR42 TFA 3 3dpf; Danio rerio; RNA Seq GSM7681265 r1 GSM7681265 1 RNA was harvested using TRIzol Reagent Invitrogen cat. NO 15596026）. 2 ug of total RNA was used for the construction of sequencing libraries. total RNAs were used for stranded RNA sequencing library preparation using KCTM Stranded mRNA Library Prep Kit Catalog NO. DR08402 Wuhan Seqhealth Co. Ltd. China following the manufacturer's instruction.   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED DNBSEQ DNBSEQ-T7   SRP453374     AR42_TFA_3.R1.fq.gz AR42_TFA_3.R2.fq.gz fastq fastq 10265927100.0 34219757.0 GSM7681265 r1 0:150 1:150 A:2473552302;C:2548535087;G:2562873160;T:2680966551;N:0 150 150     2473552302 2548535087 2562873160 2680966551 0 SRX21249696 SRS18503945 SRA1687041 Chongqing medical university Chongqing medical university 2 0.70516 0.88765 0.03163 0.04168 0.7782 0.75083 0.50851 0.45305 150 150 B B biological fallback assumption bgi bgi unknown cdna_unspecified unknown bulk unknown unknown   China 2023-08-04 Larval Larval Tail Multi-system
24856 24856 SRR25519422 SRX21249695 SRS18503944 SRP453374 PRJNA1002260 Effects of AR 42 Treatment on Gene Expression in the Zebrafish Tail Fin Amputation TFA Model GSE240080 Transcriptome Analysis We investigated the inflammatory environmental effects of AR 42 on neutrophil recruitment by performing an RNA seq analysis with tail tissue in the zebrafish TFA model. The RNA seq results showed that AR 42 modulates cytokine/chemokine signaling in the local inflammatory environment. Overall design: For RNA sequencing RNA seq analysis the 3 dpf WT zebrafish larvae receiving DMSO or 10 µM AR 42 treatments were categorized into 4 groups: ? DMSO treated larvae without xxx modeling referred to as DMSO ? AR 42 treated larvae without xxx modeling AR 42 ? DMSO treated larvae with TFA modeling DMSO TFA and ? AR 42 treated larvae with TFA modeling AR 42 TFA. And there are four biological replicates in each group. post tail fin amputation larvae were immediately treated with DMSO or 10 µM AR 42 for 1 hr before sampling. Tail tissues posterior to the cloaca in each larva were collected n = 150 and immediately froze in liquid nitrogen before RNA isolation.   pubmed:37728477   zebrafish AR42 TFA 2 3dpf GSM7681264   source name:tail|tissue:tail|treatment:AR 42 treated larvae with TFA modeling|geo loc name:missing|collection date:missing zebrafish AR42 TFA 2 3dpf Sequence reads were trimmed for adaptor sequence/low quality sequence using Trimmomatic version 0.36 Clean Reads were further treated with UMI soft in house to eliminate duplication bias introduced in library preparation and sequencing on using UMI. （Default Parameter developed by Wuhan Seqhealth Co. Ltd.） The de duplicated consensus sequences were mapped to GRCh38 using STAR software version 2.5.3a parameters outSAMtype BAM SortedByCoordinate Read count extraction and normalization were performed using featureCounts（Version 1.5.1）（parameter T 10 d 30 D 1000 C s 1 t {exon} g {geneid} primary O a {gff annotation file}） Assembly: GRCz10 Supplementary files format and content: tab delimited text files include raw counts for each Sample Supplementary files format and content: tab delimited text files include RPKM values for each Sample tail   RNA was harvested using TRIzol Reagent Invitrogen cat. NO 15596026）. 2 ug of total RNA was used for the construction of sequencing libraries. total RNAs were used for stranded RNA sequencing library preparation using KCTM Stranded mRNA Library Prep Kit Catalog NO. DR08402 Wuhan Seqhealth Co. Ltd. China following the manufacturer’s instruction.   tissue:tail|treatment:AR 42 treated larvae with TFA modeling GSM7681264 GSM7681264: zebrafish AR42 TFA 2 3dpf; Danio rerio; RNA Seq GSM7681264 r1 GSM7681264 1 RNA was harvested using TRIzol Reagent Invitrogen cat. NO 15596026）. 2 ug of total RNA was used for the construction of sequencing libraries. total RNAs were used for stranded RNA sequencing library preparation using KCTM Stranded mRNA Library Prep Kit Catalog NO. DR08402 Wuhan Seqhealth Co. Ltd. China following the manufacturer's instruction.   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED DNBSEQ DNBSEQ-T7   SRP453374     AR42_TFA_2.R2.fq.gz AR42_TFA_2.R1.fq.gz fastq fastq 10003398900.0 33344663.0 GSM7681264 r1 0:150 1:150 A:2409580340;C:2483650756;G:2497057051;T:2613110753;N:0 150 150     2409580340 2483650756 2497057051 2613110753 0 SRX21249695 SRS18503944 SRA1687041 Chongqing medical university Chongqing medical university 2 0.70787 0.89158 0.03203 0.04194 0.77851 0.75108 0.5072 0.45508 150 150 B B biological fallback assumption bgi bgi unknown cdna_unspecified unknown bulk unknown unknown   China 2023-08-04 Larval Larval Tail Multi-system
24857 24857 SRR25519423 SRX21249694 SRS18503943 SRP453374 PRJNA1002260 Effects of AR 42 Treatment on Gene Expression in the Zebrafish Tail Fin Amputation TFA Model GSE240080 Transcriptome Analysis We investigated the inflammatory environmental effects of AR 42 on neutrophil recruitment by performing an RNA seq analysis with tail tissue in the zebrafish TFA model. The RNA seq results showed that AR 42 modulates cytokine/chemokine signaling in the local inflammatory environment. Overall design: For RNA sequencing RNA seq analysis the 3 dpf WT zebrafish larvae receiving DMSO or 10 µM AR 42 treatments were categorized into 4 groups: ? DMSO treated larvae without xxx modeling referred to as DMSO ? AR 42 treated larvae without xxx modeling AR 42 ? DMSO treated larvae with TFA modeling DMSO TFA and ? AR 42 treated larvae with TFA modeling AR 42 TFA. And there are four biological replicates in each group. post tail fin amputation larvae were immediately treated with DMSO or 10 µM AR 42 for 1 hr before sampling. Tail tissues posterior to the cloaca in each larva were collected n = 150 and immediately froze in liquid nitrogen before RNA isolation.   pubmed:37728477   zebrafish AR42 TFA 1 3dpf GSM7681263   source name:tail|tissue:tail|treatment:AR 42 treated larvae with TFA modeling|geo loc name:missing|collection date:missing zebrafish AR42 TFA 1 3dpf Sequence reads were trimmed for adaptor sequence/low quality sequence using Trimmomatic version 0.36 Clean Reads were further treated with UMI soft in house to eliminate duplication bias introduced in library preparation and sequencing on using UMI. （Default Parameter developed by Wuhan Seqhealth Co. Ltd.） The de duplicated consensus sequences were mapped to GRCh38 using STAR software version 2.5.3a parameters outSAMtype BAM SortedByCoordinate Read count extraction and normalization were performed using featureCounts（Version 1.5.1）（parameter T 10 d 30 D 1000 C s 1 t {exon} g {geneid} primary O a {gff annotation file}） Assembly: GRCz10 Supplementary files format and content: tab delimited text files include raw counts for each Sample Supplementary files format and content: tab delimited text files include RPKM values for each Sample tail   RNA was harvested using TRIzol Reagent Invitrogen cat. NO 15596026）. 2 ug of total RNA was used for the construction of sequencing libraries. total RNAs were used for stranded RNA sequencing library preparation using KCTM Stranded mRNA Library Prep Kit Catalog NO. DR08402 Wuhan Seqhealth Co. Ltd. China following the manufacturer’s instruction.   tissue:tail|treatment:AR 42 treated larvae with TFA modeling GSM7681263 GSM7681263: zebrafish AR42 TFA 1 3dpf; Danio rerio; RNA Seq GSM7681263 r1 GSM7681263 1 RNA was harvested using TRIzol Reagent Invitrogen cat. NO 15596026）. 2 ug of total RNA was used for the construction of sequencing libraries. total RNAs were used for stranded RNA sequencing library preparation using KCTM Stranded mRNA Library Prep Kit Catalog NO. DR08402 Wuhan Seqhealth Co. Ltd. China following the manufacturer's instruction.   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED DNBSEQ DNBSEQ-T7   SRP453374     AR42_TFA_1.R1.fq.gz AR42_TFA_1.R2.fq.gz fastq fastq 7420308900.0 24734363.0 GSM7681263 r1 0:150 1:150 A:1791092728;C:1841012408;G:1852583633;T:1935620131;N:0 150 150     1791092728 1841012408 1852583633 1935620131 0 SRX21249694 SRS18503943 SRA1687041 Chongqing medical university Chongqing medical university 2 0.69668 0.87862 0.03153 0.04215 0.77463 0.74949 0.50657 0.45971 150 150 B B biological fallback assumption bgi bgi unknown cdna_unspecified unknown bulk unknown unknown   China 2023-08-04 Larval Larval Tail Multi-system
24858 24858 SRR25519424 SRX21249693 SRS18503942 SRP453374 PRJNA1002260 Effects of AR 42 Treatment on Gene Expression in the Zebrafish Tail Fin Amputation TFA Model GSE240080 Transcriptome Analysis We investigated the inflammatory environmental effects of AR 42 on neutrophil recruitment by performing an RNA seq analysis with tail tissue in the zebrafish TFA model. The RNA seq results showed that AR 42 modulates cytokine/chemokine signaling in the local inflammatory environment. Overall design: For RNA sequencing RNA seq analysis the 3 dpf WT zebrafish larvae receiving DMSO or 10 µM AR 42 treatments were categorized into 4 groups: ? DMSO treated larvae without xxx modeling referred to as DMSO ? AR 42 treated larvae without xxx modeling AR 42 ? DMSO treated larvae with TFA modeling DMSO TFA and ? AR 42 treated larvae with TFA modeling AR 42 TFA. And there are four biological replicates in each group. post tail fin amputation larvae were immediately treated with DMSO or 10 µM AR 42 for 1 hr before sampling. Tail tissues posterior to the cloaca in each larva were collected n = 150 and immediately froze in liquid nitrogen before RNA isolation.   pubmed:37728477   zebrafish DMSO TFA 4 3dpf GSM7681262   source name:tail|tissue:tail|treatment:DMSO treated larvae with TFA modeling|geo loc name:missing|collection date:missing zebrafish DMSO TFA 4 3dpf Sequence reads were trimmed for adaptor sequence/low quality sequence using Trimmomatic version 0.36 Clean Reads were further treated with UMI soft in house to eliminate duplication bias introduced in library preparation and sequencing on using UMI. （Default Parameter developed by Wuhan Seqhealth Co. Ltd.） The de duplicated consensus sequences were mapped to GRCh38 using STAR software version 2.5.3a parameters outSAMtype BAM SortedByCoordinate Read count extraction and normalization were performed using featureCounts（Version 1.5.1）（parameter T 10 d 30 D 1000 C s 1 t {exon} g {geneid} primary O a {gff annotation file}） Assembly: GRCz10 Supplementary files format and content: tab delimited text files include raw counts for each Sample Supplementary files format and content: tab delimited text files include RPKM values for each Sample tail   RNA was harvested using TRIzol Reagent Invitrogen cat. NO 15596026）. 2 ug of total RNA was used for the construction of sequencing libraries. total RNAs were used for stranded RNA sequencing library preparation using KCTM Stranded mRNA Library Prep Kit Catalog NO. DR08402 Wuhan Seqhealth Co. Ltd. China following the manufacturer’s instruction.   tissue:tail|treatment:DMSO treated larvae with TFA modeling GSM7681262 GSM7681262: zebrafish DMSO TFA 4 3dpf; Danio rerio; RNA Seq GSM7681262 r1 GSM7681262 1 RNA was harvested using TRIzol Reagent Invitrogen cat. NO 15596026）. 2 ug of total RNA was used for the construction of sequencing libraries. total RNAs were used for stranded RNA sequencing library preparation using KCTM Stranded mRNA Library Prep Kit Catalog NO. DR08402 Wuhan Seqhealth Co. Ltd. China following the manufacturer's instruction.   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED DNBSEQ DNBSEQ-T7   SRP453374     DMSO_TFA_4.R1.fq.gz DMSO_TFA_4.R2.fq.gz fastq fastq 10178474100.0 33928247.0 GSM7681262 r1 0:150 1:150 A:2452172460;C:2526571372;G:2532799116;T:2666931152;N:0 150 150     2452172460 2526571372 2532799116 2666931152 0 SRX21249693 SRS18503942 SRA1687041 Chongqing medical university Chongqing medical university 2 0.72132 0.91072 0.03161 0.04366 0.77709 0.75016 0.516 0.45312 150 150 B B biological fallback assumption bgi bgi unknown cdna_unspecified unknown bulk unknown unknown   China 2023-08-04 Larval Larval Tail Multi-system
24859 24859 SRR25519425 SRX21249692 SRS18503941 SRP453374 PRJNA1002260 Effects of AR 42 Treatment on Gene Expression in the Zebrafish Tail Fin Amputation TFA Model GSE240080 Transcriptome Analysis We investigated the inflammatory environmental effects of AR 42 on neutrophil recruitment by performing an RNA seq analysis with tail tissue in the zebrafish TFA model. The RNA seq results showed that AR 42 modulates cytokine/chemokine signaling in the local inflammatory environment. Overall design: For RNA sequencing RNA seq analysis the 3 dpf WT zebrafish larvae receiving DMSO or 10 µM AR 42 treatments were categorized into 4 groups: ? DMSO treated larvae without xxx modeling referred to as DMSO ? AR 42 treated larvae without xxx modeling AR 42 ? DMSO treated larvae with TFA modeling DMSO TFA and ? AR 42 treated larvae with TFA modeling AR 42 TFA. And there are four biological replicates in each group. post tail fin amputation larvae were immediately treated with DMSO or 10 µM AR 42 for 1 hr before sampling. Tail tissues posterior to the cloaca in each larva were collected n = 150 and immediately froze in liquid nitrogen before RNA isolation.   pubmed:37728477   zebrafish DMSO TFA 3 3dpf GSM7681261   source name:tail|tissue:tail|treatment:DMSO treated larvae with TFA modeling|geo loc name:missing|collection date:missing zebrafish DMSO TFA 3 3dpf Sequence reads were trimmed for adaptor sequence/low quality sequence using Trimmomatic version 0.36 Clean Reads were further treated with UMI soft in house to eliminate duplication bias introduced in library preparation and sequencing on using UMI. （Default Parameter developed by Wuhan Seqhealth Co. Ltd.） The de duplicated consensus sequences were mapped to GRCh38 using STAR software version 2.5.3a parameters outSAMtype BAM SortedByCoordinate Read count extraction and normalization were performed using featureCounts（Version 1.5.1）（parameter T 10 d 30 D 1000 C s 1 t {exon} g {geneid} primary O a {gff annotation file}） Assembly: GRCz10 Supplementary files format and content: tab delimited text files include raw counts for each Sample Supplementary files format and content: tab delimited text files include RPKM values for each Sample tail   RNA was harvested using TRIzol Reagent Invitrogen cat. NO 15596026）. 2 ug of total RNA was used for the construction of sequencing libraries. total RNAs were used for stranded RNA sequencing library preparation using KCTM Stranded mRNA Library Prep Kit Catalog NO. DR08402 Wuhan Seqhealth Co. Ltd. China following the manufacturer’s instruction.   tissue:tail|treatment:DMSO treated larvae with TFA modeling GSM7681261 GSM7681261: zebrafish DMSO TFA 3 3dpf; Danio rerio; RNA Seq GSM7681261 r1 GSM7681261 1 RNA was harvested using TRIzol Reagent Invitrogen cat. NO 15596026）. 2 ug of total RNA was used for the construction of sequencing libraries. total RNAs were used for stranded RNA sequencing library preparation using KCTM Stranded mRNA Library Prep Kit Catalog NO. DR08402 Wuhan Seqhealth Co. Ltd. China following the manufacturer's instruction.   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED DNBSEQ DNBSEQ-T7   SRP453374     DMSO_TFA_3.R1.fq.gz DMSO_TFA_3.R2.fq.gz fastq fastq 9483201300.0 31610671.0 GSM7681261 r1 0:150 1:150 A:2282797855;C:2354211318;G:2361918927;T:2484273200;N:0 150 150     2282797855 2354211318 2361918927 2484273200 0 SRX21249692 SRS18503941 SRA1687041 Chongqing medical university Chongqing medical university 2 0.71779 0.90757 0.03224 0.04329 0.77853 0.74862 0.51128 0.44891 150 150 B B biological fallback assumption bgi bgi unknown cdna_unspecified unknown bulk unknown unknown   China 2023-08-04 Larval Larval Tail Multi-system
24860 24860 SRR25519426 SRX21249691 SRS18503940 SRP453374 PRJNA1002260 Effects of AR 42 Treatment on Gene Expression in the Zebrafish Tail Fin Amputation TFA Model GSE240080 Transcriptome Analysis We investigated the inflammatory environmental effects of AR 42 on neutrophil recruitment by performing an RNA seq analysis with tail tissue in the zebrafish TFA model. The RNA seq results showed that AR 42 modulates cytokine/chemokine signaling in the local inflammatory environment. Overall design: For RNA sequencing RNA seq analysis the 3 dpf WT zebrafish larvae receiving DMSO or 10 µM AR 42 treatments were categorized into 4 groups: ? DMSO treated larvae without xxx modeling referred to as DMSO ? AR 42 treated larvae without xxx modeling AR 42 ? DMSO treated larvae with TFA modeling DMSO TFA and ? AR 42 treated larvae with TFA modeling AR 42 TFA. And there are four biological replicates in each group. post tail fin amputation larvae were immediately treated with DMSO or 10 µM AR 42 for 1 hr before sampling. Tail tissues posterior to the cloaca in each larva were collected n = 150 and immediately froze in liquid nitrogen before RNA isolation.   pubmed:37728477   zebrafish DMSO TFA 2 3dpf GSM7681260   source name:tail|tissue:tail|treatment:DMSO treated larvae with TFA modeling|geo loc name:missing|collection date:missing zebrafish DMSO TFA 2 3dpf Sequence reads were trimmed for adaptor sequence/low quality sequence using Trimmomatic version 0.36 Clean Reads were further treated with UMI soft in house to eliminate duplication bias introduced in library preparation and sequencing on using UMI. （Default Parameter developed by Wuhan Seqhealth Co. Ltd.） The de duplicated consensus sequences were mapped to GRCh38 using STAR software version 2.5.3a parameters outSAMtype BAM SortedByCoordinate Read count extraction and normalization were performed using featureCounts（Version 1.5.1）（parameter T 10 d 30 D 1000 C s 1 t {exon} g {geneid} primary O a {gff annotation file}） Assembly: GRCz10 Supplementary files format and content: tab delimited text files include raw counts for each Sample Supplementary files format and content: tab delimited text files include RPKM values for each Sample tail   RNA was harvested using TRIzol Reagent Invitrogen cat. NO 15596026）. 2 ug of total RNA was used for the construction of sequencing libraries. total RNAs were used for stranded RNA sequencing library preparation using KCTM Stranded mRNA Library Prep Kit Catalog NO. DR08402 Wuhan Seqhealth Co. Ltd. China following the manufacturer’s instruction.   tissue:tail|treatment:DMSO treated larvae with TFA modeling GSM7681260 GSM7681260: zebrafish DMSO TFA 2 3dpf; Danio rerio; RNA Seq GSM7681260 r1 GSM7681260 1 RNA was harvested using TRIzol Reagent Invitrogen cat. NO 15596026）. 2 ug of total RNA was used for the construction of sequencing libraries. total RNAs were used for stranded RNA sequencing library preparation using KCTM Stranded mRNA Library Prep Kit Catalog NO. DR08402 Wuhan Seqhealth Co. Ltd. China following the manufacturer's instruction.   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED DNBSEQ DNBSEQ-T7   SRP453374     DMSO_TFA_2.R1.fq.gz DMSO_TFA_2.R2.fq.gz fastq fastq 9372641700.0 31242139.0 GSM7681260 r1 0:150 1:150 A:2255045813;C:2327185536;G:2333956274;T:2456454077;N:0 150 150     2255045813 2327185536 2333956274 2456454077 0 SRX21249691 SRS18503940 SRA1687041 Chongqing medical university Chongqing medical university 2 0.71913 0.91061 0.0318 0.04251 0.7778 0.74907 0.51295 0.45006 150 150 B B biological fallback assumption bgi bgi unknown cdna_unspecified unknown bulk unknown unknown   China 2023-08-04 Larval Larval Tail Multi-system
24861 24861 SRR25519427 SRX21249690 SRS18503939 SRP453374 PRJNA1002260 Effects of AR 42 Treatment on Gene Expression in the Zebrafish Tail Fin Amputation TFA Model GSE240080 Transcriptome Analysis We investigated the inflammatory environmental effects of AR 42 on neutrophil recruitment by performing an RNA seq analysis with tail tissue in the zebrafish TFA model. The RNA seq results showed that AR 42 modulates cytokine/chemokine signaling in the local inflammatory environment. Overall design: For RNA sequencing RNA seq analysis the 3 dpf WT zebrafish larvae receiving DMSO or 10 µM AR 42 treatments were categorized into 4 groups: ? DMSO treated larvae without xxx modeling referred to as DMSO ? AR 42 treated larvae without xxx modeling AR 42 ? DMSO treated larvae with TFA modeling DMSO TFA and ? AR 42 treated larvae with TFA modeling AR 42 TFA. And there are four biological replicates in each group. post tail fin amputation larvae were immediately treated with DMSO or 10 µM AR 42 for 1 hr before sampling. Tail tissues posterior to the cloaca in each larva were collected n = 150 and immediately froze in liquid nitrogen before RNA isolation.   pubmed:37728477   zebrafish DMSO TFA 1 3dpf GSM7681259   source name:tail|tissue:tail|treatment:DMSO treated larvae with TFA modeling|geo loc name:missing|collection date:missing zebrafish DMSO TFA 1 3dpf Sequence reads were trimmed for adaptor sequence/low quality sequence using Trimmomatic version 0.36 Clean Reads were further treated with UMI soft in house to eliminate duplication bias introduced in library preparation and sequencing on using UMI. （Default Parameter developed by Wuhan Seqhealth Co. Ltd.） The de duplicated consensus sequences were mapped to GRCh38 using STAR software version 2.5.3a parameters outSAMtype BAM SortedByCoordinate Read count extraction and normalization were performed using featureCounts（Version 1.5.1）（parameter T 10 d 30 D 1000 C s 1 t {exon} g {geneid} primary O a {gff annotation file}） Assembly: GRCz10 Supplementary files format and content: tab delimited text files include raw counts for each Sample Supplementary files format and content: tab delimited text files include RPKM values for each Sample tail   RNA was harvested using TRIzol Reagent Invitrogen cat. NO 15596026）. 2 ug of total RNA was used for the construction of sequencing libraries. total RNAs were used for stranded RNA sequencing library preparation using KCTM Stranded mRNA Library Prep Kit Catalog NO. DR08402 Wuhan Seqhealth Co. Ltd. China following the manufacturer’s instruction.   tissue:tail|treatment:DMSO treated larvae with TFA modeling GSM7681259 GSM7681259: zebrafish DMSO TFA 1 3dpf; Danio rerio; RNA Seq GSM7681259 r1 GSM7681259 1 RNA was harvested using TRIzol Reagent Invitrogen cat. NO 15596026）. 2 ug of total RNA was used for the construction of sequencing libraries. total RNAs were used for stranded RNA sequencing library preparation using KCTM Stranded mRNA Library Prep Kit Catalog NO. DR08402 Wuhan Seqhealth Co. Ltd. China following the manufacturer's instruction.   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED DNBSEQ DNBSEQ-T7   SRP453374     DMSO_TFA_1.R1.fq.gz DMSO_TFA_1.R2.fq.gz fastq fastq 8665981200.0 28886604.0 GSM7681259 r1 0:150 1:150 A:2086560929;C:2153111953;G:2157203992;T:2269104326;N:0 150 150     2086560929 2153111953 2157203992 2269104326 0 SRX21249690 SRS18503939 SRA1687041 Chongqing medical university Chongqing medical university 2 0.71996 0.90816 0.03211 0.04297 0.77739 0.75097 0.5122 0.452 150 150 B B biological fallback assumption bgi bgi unknown cdna_unspecified unknown bulk unknown unknown   China 2023-08-04 Larval Larval Tail Multi-system
24862 24862 SRR25519428 SRX21249689 SRS18503938 SRP453374 PRJNA1002260 Effects of AR 42 Treatment on Gene Expression in the Zebrafish Tail Fin Amputation TFA Model GSE240080 Transcriptome Analysis We investigated the inflammatory environmental effects of AR 42 on neutrophil recruitment by performing an RNA seq analysis with tail tissue in the zebrafish TFA model. The RNA seq results showed that AR 42 modulates cytokine/chemokine signaling in the local inflammatory environment. Overall design: For RNA sequencing RNA seq analysis the 3 dpf WT zebrafish larvae receiving DMSO or 10 µM AR 42 treatments were categorized into 4 groups: ? DMSO treated larvae without xxx modeling referred to as DMSO ? AR 42 treated larvae without xxx modeling AR 42 ? DMSO treated larvae with TFA modeling DMSO TFA and ? AR 42 treated larvae with TFA modeling AR 42 TFA. And there are four biological replicates in each group. post tail fin amputation larvae were immediately treated with DMSO or 10 µM AR 42 for 1 hr before sampling. Tail tissues posterior to the cloaca in each larva were collected n = 150 and immediately froze in liquid nitrogen before RNA isolation.   pubmed:37728477   zebrafish AR42 4 3dpf GSM7681258   source name:tail|tissue:tail|treatment:AR 42 treated larvae without xxx modeling|geo loc name:missing|collection date:missing zebrafish AR42 4 3dpf Sequence reads were trimmed for adaptor sequence/low quality sequence using Trimmomatic version 0.36 Clean Reads were further treated with UMI soft in house to eliminate duplication bias introduced in library preparation and sequencing on using UMI. （Default Parameter developed by Wuhan Seqhealth Co. Ltd.） The de duplicated consensus sequences were mapped to GRCh38 using STAR software version 2.5.3a parameters outSAMtype BAM SortedByCoordinate Read count extraction and normalization were performed using featureCounts（Version 1.5.1）（parameter T 10 d 30 D 1000 C s 1 t {exon} g {geneid} primary O a {gff annotation file}） Assembly: GRCz10 Supplementary files format and content: tab delimited text files include raw counts for each Sample Supplementary files format and content: tab delimited text files include RPKM values for each Sample tail   RNA was harvested using TRIzol Reagent Invitrogen cat. NO 15596026）. 2 ug of total RNA was used for the construction of sequencing libraries. total RNAs were used for stranded RNA sequencing library preparation using KCTM Stranded mRNA Library Prep Kit Catalog NO. DR08402 Wuhan Seqhealth Co. Ltd. China following the manufacturer’s instruction.   tissue:tail|treatment:AR 42 treated larvae without xxx modeling GSM7681258 GSM7681258: zebrafish AR42 4 3dpf; Danio rerio; RNA Seq GSM7681258 r1 GSM7681258 1 RNA was harvested using TRIzol Reagent Invitrogen cat. NO 15596026）. 2 ug of total RNA was used for the construction of sequencing libraries. total RNAs were used for stranded RNA sequencing library preparation using KCTM Stranded mRNA Library Prep Kit Catalog NO. DR08402 Wuhan Seqhealth Co. Ltd. China following the manufacturer's instruction.   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED DNBSEQ DNBSEQ-T7   SRP453374     AR42_4.R1.fq.gz AR42_4.R2.fq.gz fastq fastq 10199154900.0 33997183.0 GSM7681258 r1 0:150 1:150 A:2461755295;C:2524481077;G:2536143078;T:2676775450;N:0 150 150     2461755295 2524481077 2536143078 2676775450 0 SRX21249689 SRS18503938 SRA1687041 Chongqing medical university Chongqing medical university 2 0.70676 0.89456 0.031 0.04108 0.77508 0.747 0.44642 0.47521 150 150 B B biological fallback assumption bgi bgi unknown cdna_unspecified unknown bulk unknown unknown   China 2023-08-04 Larval Larval Tail Multi-system
24863 24863 SRR25519429 SRX21249688 SRS18503937 SRP453374 PRJNA1002260 Effects of AR 42 Treatment on Gene Expression in the Zebrafish Tail Fin Amputation TFA Model GSE240080 Transcriptome Analysis We investigated the inflammatory environmental effects of AR 42 on neutrophil recruitment by performing an RNA seq analysis with tail tissue in the zebrafish TFA model. The RNA seq results showed that AR 42 modulates cytokine/chemokine signaling in the local inflammatory environment. Overall design: For RNA sequencing RNA seq analysis the 3 dpf WT zebrafish larvae receiving DMSO or 10 µM AR 42 treatments were categorized into 4 groups: ? DMSO treated larvae without xxx modeling referred to as DMSO ? AR 42 treated larvae without xxx modeling AR 42 ? DMSO treated larvae with TFA modeling DMSO TFA and ? AR 42 treated larvae with TFA modeling AR 42 TFA. And there are four biological replicates in each group. post tail fin amputation larvae were immediately treated with DMSO or 10 µM AR 42 for 1 hr before sampling. Tail tissues posterior to the cloaca in each larva were collected n = 150 and immediately froze in liquid nitrogen before RNA isolation.   pubmed:37728477   zebrafish AR42 3 3dpf GSM7681257   source name:tail|tissue:tail|treatment:AR 42 treated larvae without xxx modeling|geo loc name:missing|collection date:missing zebrafish AR42 3 3dpf Sequence reads were trimmed for adaptor sequence/low quality sequence using Trimmomatic version 0.36 Clean Reads were further treated with UMI soft in house to eliminate duplication bias introduced in library preparation and sequencing on using UMI. （Default Parameter developed by Wuhan Seqhealth Co. Ltd.） The de duplicated consensus sequences were mapped to GRCh38 using STAR software version 2.5.3a parameters outSAMtype BAM SortedByCoordinate Read count extraction and normalization were performed using featureCounts（Version 1.5.1）（parameter T 10 d 30 D 1000 C s 1 t {exon} g {geneid} primary O a {gff annotation file}） Assembly: GRCz10 Supplementary files format and content: tab delimited text files include raw counts for each Sample Supplementary files format and content: tab delimited text files include RPKM values for each Sample tail   RNA was harvested using TRIzol Reagent Invitrogen cat. NO 15596026）. 2 ug of total RNA was used for the construction of sequencing libraries. total RNAs were used for stranded RNA sequencing library preparation using KCTM Stranded mRNA Library Prep Kit Catalog NO. DR08402 Wuhan Seqhealth Co. Ltd. China following the manufacturer’s instruction.   tissue:tail|treatment:AR 42 treated larvae without xxx modeling GSM7681257 GSM7681257: zebrafish AR42 3 3dpf; Danio rerio; RNA Seq GSM7681257 r1 GSM7681257 1 RNA was harvested using TRIzol Reagent Invitrogen cat. NO 15596026）. 2 ug of total RNA was used for the construction of sequencing libraries. total RNAs were used for stranded RNA sequencing library preparation using KCTM Stranded mRNA Library Prep Kit Catalog NO. DR08402 Wuhan Seqhealth Co. Ltd. China following the manufacturer's instruction.   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED DNBSEQ DNBSEQ-T7   SRP453374     AR42_3.R1.fq.gz AR42_3.R2.fq.gz fastq fastq 9953498100.0 33178327.0 GSM7681257 r1 0:150 1:150 A:2400858967;C:2463285586;G:2477369817;T:2611983730;N:0 150 150     2400858967 2463285586 2477369817 2611983730 0 SRX21249688 SRS18503937 SRA1687041 Chongqing medical university Chongqing medical university 2 0.70865 0.89517 0.03101 0.04127 0.77325 0.74679 0.50253 0.50409 150 150 B B biological fallback assumption bgi bgi unknown cdna_unspecified unknown bulk unknown unknown   China 2023-08-04 Larval Larval Tail Multi-system
24864 24864 SRR25519430 SRX21249687 SRS18503936 SRP453374 PRJNA1002260 Effects of AR 42 Treatment on Gene Expression in the Zebrafish Tail Fin Amputation TFA Model GSE240080 Transcriptome Analysis We investigated the inflammatory environmental effects of AR 42 on neutrophil recruitment by performing an RNA seq analysis with tail tissue in the zebrafish TFA model. The RNA seq results showed that AR 42 modulates cytokine/chemokine signaling in the local inflammatory environment. Overall design: For RNA sequencing RNA seq analysis the 3 dpf WT zebrafish larvae receiving DMSO or 10 µM AR 42 treatments were categorized into 4 groups: ? DMSO treated larvae without xxx modeling referred to as DMSO ? AR 42 treated larvae without xxx modeling AR 42 ? DMSO treated larvae with TFA modeling DMSO TFA and ? AR 42 treated larvae with TFA modeling AR 42 TFA. And there are four biological replicates in each group. post tail fin amputation larvae were immediately treated with DMSO or 10 µM AR 42 for 1 hr before sampling. Tail tissues posterior to the cloaca in each larva were collected n = 150 and immediately froze in liquid nitrogen before RNA isolation.   pubmed:37728477   zebrafish AR42 2 3dpf GSM7681256   source name:tail|tissue:tail|treatment:AR 42 treated larvae without xxx modeling|geo loc name:missing|collection date:missing zebrafish AR42 2 3dpf Sequence reads were trimmed for adaptor sequence/low quality sequence using Trimmomatic version 0.36 Clean Reads were further treated with UMI soft in house to eliminate duplication bias introduced in library preparation and sequencing on using UMI. （Default Parameter developed by Wuhan Seqhealth Co. Ltd.） The de duplicated consensus sequences were mapped to GRCh38 using STAR software version 2.5.3a parameters outSAMtype BAM SortedByCoordinate Read count extraction and normalization were performed using featureCounts（Version 1.5.1）（parameter T 10 d 30 D 1000 C s 1 t {exon} g {geneid} primary O a {gff annotation file}） Assembly: GRCz10 Supplementary files format and content: tab delimited text files include raw counts for each Sample Supplementary files format and content: tab delimited text files include RPKM values for each Sample tail   RNA was harvested using TRIzol Reagent Invitrogen cat. NO 15596026）. 2 ug of total RNA was used for the construction of sequencing libraries. total RNAs were used for stranded RNA sequencing library preparation using KCTM Stranded mRNA Library Prep Kit Catalog NO. DR08402 Wuhan Seqhealth Co. Ltd. China following the manufacturer’s instruction.   tissue:tail|treatment:AR 42 treated larvae without xxx modeling GSM7681256 GSM7681256: zebrafish AR42 2 3dpf; Danio rerio; RNA Seq GSM7681256 r1 GSM7681256 1 RNA was harvested using TRIzol Reagent Invitrogen cat. NO 15596026）. 2 ug of total RNA was used for the construction of sequencing libraries. total RNAs were used for stranded RNA sequencing library preparation using KCTM Stranded mRNA Library Prep Kit Catalog NO. DR08402 Wuhan Seqhealth Co. Ltd. China following the manufacturer's instruction.   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED DNBSEQ DNBSEQ-T7   SRP453374     AR42_2.R1.fq.gz AR42_2.R2.fq.gz fastq fastq 10005489000.0 33351630.0 GSM7681256 r1 0:150 1:150 A:2413672248;C:2477611702;G:2491304598;T:2622900452;N:0 150 150     2413672248 2477611702 2491304598 2622900452 0 SRX21249687 SRS18503936 SRA1687041 Chongqing medical university Chongqing medical university 2 0.70639 0.89204 0.03035 0.04087 0.77502 0.74955 0.50558 0.50545 150 150 B B biological fallback assumption bgi bgi unknown cdna_unspecified unknown bulk unknown unknown   China 2023-08-04 Larval Larval Tail Multi-system
24865 24865 SRR25519431 SRX21249686 SRS18503935 SRP453374 PRJNA1002260 Effects of AR 42 Treatment on Gene Expression in the Zebrafish Tail Fin Amputation TFA Model GSE240080 Transcriptome Analysis We investigated the inflammatory environmental effects of AR 42 on neutrophil recruitment by performing an RNA seq analysis with tail tissue in the zebrafish TFA model. The RNA seq results showed that AR 42 modulates cytokine/chemokine signaling in the local inflammatory environment. Overall design: For RNA sequencing RNA seq analysis the 3 dpf WT zebrafish larvae receiving DMSO or 10 µM AR 42 treatments were categorized into 4 groups: ? DMSO treated larvae without xxx modeling referred to as DMSO ? AR 42 treated larvae without xxx modeling AR 42 ? DMSO treated larvae with TFA modeling DMSO TFA and ? AR 42 treated larvae with TFA modeling AR 42 TFA. And there are four biological replicates in each group. post tail fin amputation larvae were immediately treated with DMSO or 10 µM AR 42 for 1 hr before sampling. Tail tissues posterior to the cloaca in each larva were collected n = 150 and immediately froze in liquid nitrogen before RNA isolation.   pubmed:37728477   zebrafish AR42 1 3dpf GSM7681255   source name:tail|tissue:tail|treatment:AR 42 treated larvae without xxx modeling|geo loc name:missing|collection date:missing zebrafish AR42 1 3dpf Sequence reads were trimmed for adaptor sequence/low quality sequence using Trimmomatic version 0.36 Clean Reads were further treated with UMI soft in house to eliminate duplication bias introduced in library preparation and sequencing on using UMI. （Default Parameter developed by Wuhan Seqhealth Co. Ltd.） The de duplicated consensus sequences were mapped to GRCh38 using STAR software version 2.5.3a parameters outSAMtype BAM SortedByCoordinate Read count extraction and normalization were performed using featureCounts（Version 1.5.1）（parameter T 10 d 30 D 1000 C s 1 t {exon} g {geneid} primary O a {gff annotation file}） Assembly: GRCz10 Supplementary files format and content: tab delimited text files include raw counts for each Sample Supplementary files format and content: tab delimited text files include RPKM values for each Sample tail   RNA was harvested using TRIzol Reagent Invitrogen cat. NO 15596026）. 2 ug of total RNA was used for the construction of sequencing libraries. total RNAs were used for stranded RNA sequencing library preparation using KCTM Stranded mRNA Library Prep Kit Catalog NO. DR08402 Wuhan Seqhealth Co. Ltd. China following the manufacturer’s instruction.   tissue:tail|treatment:AR 42 treated larvae without xxx modeling GSM7681255 GSM7681255: zebrafish AR42 1 3dpf; Danio rerio; RNA Seq GSM7681255 r1 GSM7681255 1 RNA was harvested using TRIzol Reagent Invitrogen cat. NO 15596026）. 2 ug of total RNA was used for the construction of sequencing libraries. total RNAs were used for stranded RNA sequencing library preparation using KCTM Stranded mRNA Library Prep Kit Catalog NO. DR08402 Wuhan Seqhealth Co. Ltd. China following the manufacturer's instruction.   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED DNBSEQ DNBSEQ-T7   SRP453374     AR42_1.R1.fq.gz AR42_1.R2.fq.gz fastq fastq 9698587800.0 32328626.0 GSM7681255 r1 0:150 1:150 A:2337968859;C:2400315331;G:2416067610;T:2544236000;N:0 150 150     2337968859 2400315331 2416067610 2544236000 0 SRX21249686 SRS18503935 SRA1687041 Chongqing medical university Chongqing medical university 2 0.70903 0.89448 0.02976 0.04032 0.77583 0.74935 0.50747 0.5081 150 150 B B biological fallback assumption bgi bgi unknown cdna_unspecified unknown bulk unknown unknown   China 2023-08-04 Larval Larval Tail Multi-system
24866 24866 SRR25519432 SRX21249685 SRS18503934 SRP453374 PRJNA1002260 Effects of AR 42 Treatment on Gene Expression in the Zebrafish Tail Fin Amputation TFA Model GSE240080 Transcriptome Analysis We investigated the inflammatory environmental effects of AR 42 on neutrophil recruitment by performing an RNA seq analysis with tail tissue in the zebrafish TFA model. The RNA seq results showed that AR 42 modulates cytokine/chemokine signaling in the local inflammatory environment. Overall design: For RNA sequencing RNA seq analysis the 3 dpf WT zebrafish larvae receiving DMSO or 10 µM AR 42 treatments were categorized into 4 groups: ? DMSO treated larvae without xxx modeling referred to as DMSO ? AR 42 treated larvae without xxx modeling AR 42 ? DMSO treated larvae with TFA modeling DMSO TFA and ? AR 42 treated larvae with TFA modeling AR 42 TFA. And there are four biological replicates in each group. post tail fin amputation larvae were immediately treated with DMSO or 10 µM AR 42 for 1 hr before sampling. Tail tissues posterior to the cloaca in each larva were collected n = 150 and immediately froze in liquid nitrogen before RNA isolation.   pubmed:37728477   zebrafish DMSO 4 3dpf GSM7681254   source name:tail|tissue:tail|treatment:DMSO treated larvae without xxx modeling|geo loc name:missing|collection date:missing zebrafish DMSO 4 3dpf Sequence reads were trimmed for adaptor sequence/low quality sequence using Trimmomatic version 0.36 Clean Reads were further treated with UMI soft in house to eliminate duplication bias introduced in library preparation and sequencing on using UMI. （Default Parameter developed by Wuhan Seqhealth Co. Ltd.） The de duplicated consensus sequences were mapped to GRCh38 using STAR software version 2.5.3a parameters outSAMtype BAM SortedByCoordinate Read count extraction and normalization were performed using featureCounts（Version 1.5.1）（parameter T 10 d 30 D 1000 C s 1 t {exon} g {geneid} primary O a {gff annotation file}） Assembly: GRCz10 Supplementary files format and content: tab delimited text files include raw counts for each Sample Supplementary files format and content: tab delimited text files include RPKM values for each Sample tail   RNA was harvested using TRIzol Reagent Invitrogen cat. NO 15596026）. 2 ug of total RNA was used for the construction of sequencing libraries. total RNAs were used for stranded RNA sequencing library preparation using KCTM Stranded mRNA Library Prep Kit Catalog NO. DR08402 Wuhan Seqhealth Co. Ltd. China following the manufacturer’s instruction.   tissue:tail|treatment:DMSO treated larvae without xxx modeling GSM7681254 GSM7681254: zebrafish DMSO 4 3dpf; Danio rerio; RNA Seq GSM7681254 r1 GSM7681254 1 RNA was harvested using TRIzol Reagent Invitrogen cat. NO 15596026）. 2 ug of total RNA was used for the construction of sequencing libraries. total RNAs were used for stranded RNA sequencing library preparation using KCTM Stranded mRNA Library Prep Kit Catalog NO. DR08402 Wuhan Seqhealth Co. Ltd. China following the manufacturer's instruction.   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED DNBSEQ DNBSEQ-T7   SRP453374     DMSO_4.R1.fq.gz DMSO_4.R2.fq.gz fastq fastq 9083670000.0 30278900.0 GSM7681254 r1 0:150 1:150 A:2191941100;C:2247936730;G:2258913579;T:2384878591;N:0 150 150     2191941100 2247936730 2258913579 2384878591 0 SRX21249685 SRS18503934 SRA1687041 Chongqing medical university Chongqing medical university 2 0.71071 0.90457 0.03362 0.04688 0.77106 0.74357 0.50842 0.50975 150 150 B B biological fallback assumption bgi bgi unknown cdna_unspecified unknown bulk unknown unknown   China 2023-08-04 Larval Larval Tail Multi-system
24867 24867 SRR25519433 SRX21249684 SRS18503933 SRP453374 PRJNA1002260 Effects of AR 42 Treatment on Gene Expression in the Zebrafish Tail Fin Amputation TFA Model GSE240080 Transcriptome Analysis We investigated the inflammatory environmental effects of AR 42 on neutrophil recruitment by performing an RNA seq analysis with tail tissue in the zebrafish TFA model. The RNA seq results showed that AR 42 modulates cytokine/chemokine signaling in the local inflammatory environment. Overall design: For RNA sequencing RNA seq analysis the 3 dpf WT zebrafish larvae receiving DMSO or 10 µM AR 42 treatments were categorized into 4 groups: ? DMSO treated larvae without xxx modeling referred to as DMSO ? AR 42 treated larvae without xxx modeling AR 42 ? DMSO treated larvae with TFA modeling DMSO TFA and ? AR 42 treated larvae with TFA modeling AR 42 TFA. And there are four biological replicates in each group. post tail fin amputation larvae were immediately treated with DMSO or 10 µM AR 42 for 1 hr before sampling. Tail tissues posterior to the cloaca in each larva were collected n = 150 and immediately froze in liquid nitrogen before RNA isolation.   pubmed:37728477   zebrafish DMSO 3 3dpf GSM7681253   source name:tail|tissue:tail|treatment:DMSO treated larvae without xxx modeling|geo loc name:missing|collection date:missing zebrafish DMSO 3 3dpf Sequence reads were trimmed for adaptor sequence/low quality sequence using Trimmomatic version 0.36 Clean Reads were further treated with UMI soft in house to eliminate duplication bias introduced in library preparation and sequencing on using UMI. （Default Parameter developed by Wuhan Seqhealth Co. Ltd.） The de duplicated consensus sequences were mapped to GRCh38 using STAR software version 2.5.3a parameters outSAMtype BAM SortedByCoordinate Read count extraction and normalization were performed using featureCounts（Version 1.5.1）（parameter T 10 d 30 D 1000 C s 1 t {exon} g {geneid} primary O a {gff annotation file}） Assembly: GRCz10 Supplementary files format and content: tab delimited text files include raw counts for each Sample Supplementary files format and content: tab delimited text files include RPKM values for each Sample tail   RNA was harvested using TRIzol Reagent Invitrogen cat. NO 15596026）. 2 ug of total RNA was used for the construction of sequencing libraries. total RNAs were used for stranded RNA sequencing library preparation using KCTM Stranded mRNA Library Prep Kit Catalog NO. DR08402 Wuhan Seqhealth Co. Ltd. China following the manufacturer’s instruction.   tissue:tail|treatment:DMSO treated larvae without xxx modeling GSM7681253 GSM7681253: zebrafish DMSO 3 3dpf; Danio rerio; RNA Seq GSM7681253 r1 GSM7681253 1 RNA was harvested using TRIzol Reagent Invitrogen cat. NO 15596026）. 2 ug of total RNA was used for the construction of sequencing libraries. total RNAs were used for stranded RNA sequencing library preparation using KCTM Stranded mRNA Library Prep Kit Catalog NO. DR08402 Wuhan Seqhealth Co. Ltd. China following the manufacturer's instruction.   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED DNBSEQ DNBSEQ-T7   SRP453374     DMSO_3.R2.fq.gz DMSO_3.R1.fq.gz fastq fastq 9394455000.0 31314850.0 GSM7681253 r1 0:150 1:150 A:2266296733;C:2324081714;G:2335347043;T:2468729510;N:0 150 150     2266296733 2324081714 2335347043 2468729510 0 SRX21249684 SRS18503933 SRA1687041 Chongqing medical university Chongqing medical university 2 0.70975 0.90445 0.03329 0.04594 0.77005 0.7417 0.51188 0.5163 150 150 B B biological fallback assumption bgi bgi unknown cdna_unspecified unknown bulk unknown unknown   China 2023-08-04 Larval Larval Tail Multi-system
24868 24868 SRR25519434 SRX21249683 SRS18503932 SRP453374 PRJNA1002260 Effects of AR 42 Treatment on Gene Expression in the Zebrafish Tail Fin Amputation TFA Model GSE240080 Transcriptome Analysis We investigated the inflammatory environmental effects of AR 42 on neutrophil recruitment by performing an RNA seq analysis with tail tissue in the zebrafish TFA model. The RNA seq results showed that AR 42 modulates cytokine/chemokine signaling in the local inflammatory environment. Overall design: For RNA sequencing RNA seq analysis the 3 dpf WT zebrafish larvae receiving DMSO or 10 µM AR 42 treatments were categorized into 4 groups: ? DMSO treated larvae without xxx modeling referred to as DMSO ? AR 42 treated larvae without xxx modeling AR 42 ? DMSO treated larvae with TFA modeling DMSO TFA and ? AR 42 treated larvae with TFA modeling AR 42 TFA. And there are four biological replicates in each group. post tail fin amputation larvae were immediately treated with DMSO or 10 µM AR 42 for 1 hr before sampling. Tail tissues posterior to the cloaca in each larva were collected n = 150 and immediately froze in liquid nitrogen before RNA isolation.   pubmed:37728477   zebrafish DMSO 2 3dpf GSM7681252   source name:tail|tissue:tail|treatment:DMSO treated larvae without xxx modeling|geo loc name:missing|collection date:missing zebrafish DMSO 2 3dpf Sequence reads were trimmed for adaptor sequence/low quality sequence using Trimmomatic version 0.36 Clean Reads were further treated with UMI soft in house to eliminate duplication bias introduced in library preparation and sequencing on using UMI. （Default Parameter developed by Wuhan Seqhealth Co. Ltd.） The de duplicated consensus sequences were mapped to GRCh38 using STAR software version 2.5.3a parameters outSAMtype BAM SortedByCoordinate Read count extraction and normalization were performed using featureCounts（Version 1.5.1）（parameter T 10 d 30 D 1000 C s 1 t {exon} g {geneid} primary O a {gff annotation file}） Assembly: GRCz10 Supplementary files format and content: tab delimited text files include raw counts for each Sample Supplementary files format and content: tab delimited text files include RPKM values for each Sample tail   RNA was harvested using TRIzol Reagent Invitrogen cat. NO 15596026）. 2 ug of total RNA was used for the construction of sequencing libraries. total RNAs were used for stranded RNA sequencing library preparation using KCTM Stranded mRNA Library Prep Kit Catalog NO. DR08402 Wuhan Seqhealth Co. Ltd. China following the manufacturer’s instruction.   tissue:tail|treatment:DMSO treated larvae without xxx modeling GSM7681252 GSM7681252: zebrafish DMSO 2 3dpf; Danio rerio; RNA Seq GSM7681252 r1 GSM7681252 1 RNA was harvested using TRIzol Reagent Invitrogen cat. NO 15596026）. 2 ug of total RNA was used for the construction of sequencing libraries. total RNAs were used for stranded RNA sequencing library preparation using KCTM Stranded mRNA Library Prep Kit Catalog NO. DR08402 Wuhan Seqhealth Co. Ltd. China following the manufacturer's instruction.   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED DNBSEQ DNBSEQ-T7   SRP453374     DMSO_2.R1.fq.gz DMSO_2.R2.fq.gz fastq fastq 9157453500.0 30524845.0 GSM7681252 r1 0:150 1:150 A:2209331568;C:2266614182;G:2273923578;T:2407584172;N:0 150 150     2209331568 2266614182 2273923578 2407584172 0 SRX21249683 SRS18503932 SRA1687041 Chongqing medical university Chongqing medical university 2 0.70922 0.90538 0.03379 0.04616 0.7723 0.74213 0.50839 0.50803 150 150 B B biological fallback assumption bgi bgi unknown cdna_unspecified unknown bulk unknown unknown   China 2023-08-04 Larval Larval Tail Multi-system
24869 24869 SRR25519435 SRX21249682 SRS18503931 SRP453374 PRJNA1002260 Effects of AR 42 Treatment on Gene Expression in the Zebrafish Tail Fin Amputation TFA Model GSE240080 Transcriptome Analysis We investigated the inflammatory environmental effects of AR 42 on neutrophil recruitment by performing an RNA seq analysis with tail tissue in the zebrafish TFA model. The RNA seq results showed that AR 42 modulates cytokine/chemokine signaling in the local inflammatory environment. Overall design: For RNA sequencing RNA seq analysis the 3 dpf WT zebrafish larvae receiving DMSO or 10 µM AR 42 treatments were categorized into 4 groups: ? DMSO treated larvae without xxx modeling referred to as DMSO ? AR 42 treated larvae without xxx modeling AR 42 ? DMSO treated larvae with TFA modeling DMSO TFA and ? AR 42 treated larvae with TFA modeling AR 42 TFA. And there are four biological replicates in each group. post tail fin amputation larvae were immediately treated with DMSO or 10 µM AR 42 for 1 hr before sampling. Tail tissues posterior to the cloaca in each larva were collected n = 150 and immediately froze in liquid nitrogen before RNA isolation.   pubmed:37728477   zebrafish DMSO 1 3dpf GSM7681251   source name:tail|tissue:tail|treatment:DMSO treated larvae without xxx modeling|geo loc name:missing|collection date:missing zebrafish DMSO 1 3dpf Sequence reads were trimmed for adaptor sequence/low quality sequence using Trimmomatic version 0.36 Clean Reads were further treated with UMI soft in house to eliminate duplication bias introduced in library preparation and sequencing on using UMI. （Default Parameter developed by Wuhan Seqhealth Co. Ltd.） The de duplicated consensus sequences were mapped to GRCh38 using STAR software version 2.5.3a parameters outSAMtype BAM SortedByCoordinate Read count extraction and normalization were performed using featureCounts（Version 1.5.1）（parameter T 10 d 30 D 1000 C s 1 t {exon} g {geneid} primary O a {gff annotation file}） Assembly: GRCz10 Supplementary files format and content: tab delimited text files include raw counts for each Sample Supplementary files format and content: tab delimited text files include RPKM values for each Sample tail   RNA was harvested using TRIzol Reagent Invitrogen cat. NO 15596026）. 2 ug of total RNA was used for the construction of sequencing libraries. total RNAs were used for stranded RNA sequencing library preparation using KCTM Stranded mRNA Library Prep Kit Catalog NO. DR08402 Wuhan Seqhealth Co. Ltd. China following the manufacturer’s instruction.   tissue:tail|treatment:DMSO treated larvae without xxx modeling GSM7681251 GSM7681251: zebrafish DMSO 1 3dpf; Danio rerio; RNA Seq GSM7681251 r1 GSM7681251 1 RNA was harvested using TRIzol Reagent Invitrogen cat. NO 15596026）. 2 ug of total RNA was used for the construction of sequencing libraries. total RNAs were used for stranded RNA sequencing library preparation using KCTM Stranded mRNA Library Prep Kit Catalog NO. DR08402 Wuhan Seqhealth Co. Ltd. China following the manufacturer's instruction.   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED DNBSEQ DNBSEQ-T7   SRP453374     DMSO_1.R2.fq.gz DMSO_1.R1.fq.gz fastq fastq 8769040200.0 29230134.0 GSM7681251 r1 0:150 1:150 A:2114427483;C:2170929931;G:2179906163;T:2303776623;N:0 150 150     2114427483 2170929931 2179906163 2303776623 0 SRX21249682 SRS18503931 SRA1687041 Chongqing medical university Chongqing medical university 2 0.71002 0.9037 0.0335 0.04604 0.77155 0.74308 0.51339 0.50801 150 150 B B biological fallback assumption bgi bgi unknown cdna_unspecified unknown bulk unknown unknown   China 2023-08-04 Larval Larval Tail Multi-system
33696 33696 SRR30599775 SRX26022476 SRS22594195 SRP531514 PRJNA1158727 CRISPR/Cas9 induced zebrafish mutants for ebf3a and dhx30 GSE276705 Transcriptome Analysis Mutations in the transcription factor EBF3 results in a neurodevelopmental disorder and studies in animal models indicate that it has a critical role in neuronal differentiation. The molecular pathways and neuron types disrupted by its loss however have not been thoroughly investigated. Nor have the outcomes of these changes on behavior and brain activity. Here we generated and characterized a zebrafish ebf3a loss of function mutant. We discovered morphological and neural phenotypes including an overall smaller brain size particularly in the hypothalamus cerebellum and hindbrain. Brain function was also compromised with activity strongly increased in the cerebellum and abnormal behavior at baseline and in response to visual and acoustic stimuli. From RNA sequencing of developing larvae notable changes included significant downregulation of genes that mark olfactory sensory neurons the lateral line and cerebellar Purkinje neurons. This study sets the stage for determining which downstream pathways underlie the emergence of the observed phenotypes and establishes multiple strong phenotypes that could form the basis of a drug screen. Overall design: Total RNA was extracted from the anterior half of the body from 10 dpf 12 dpf 5 dpf larvae per sample at using the Rneasy Mini Kit Qiagen. RNA for the 2 dpf RNA seq samples were collected in the same way but with 15 20 embryos per pool. The 5 dpf RNA seq was collected also with 10 12 larvae. The posterior portion of the cuts was used for genotyping. The RNA was isolated from the anterior portion as described and submitted to sequencing by GENEWIZ at Azenta Life Sciences.       ebf3a wt 5 dpf rep 2 GSM8504328   source name:head with eyes 10 12 embryos pooled|tissue:head with eyes|age:5 dpf|genotype:ebf3a wild types|geo loc name:missing|collection date:missing ebf3a wt 5 dpf rep 2 Paired end reads were aligned to GRCz11 release 104 using the Lawson Lab Zebrafish Transcriptome Annotation version 4.3.2 with STAR aligner 2.7.3a GCC 6.4.0 2.28. The raw counts files from STAR in this record were normalized using the rlog method in DESeq2 for subsequent published analysis. Assembly: GRCz11 Supplementary files format and content: Raw counts files from STAR; expected input for DESeq2. head with eyes 10 12 embryos pooled   Total RNA was extracted from the anterior half of the body from larvae per sample at using the Rneasy Mini Kit Qiagen. 10 12 for 6 dpf and 15 20 for 2 dpf. Libraries were constructed by GENEWIZ Azenta with standard protocols   tissue:head with eyes|age:5 dpf|genotype:ebf3a wild types GSM8504328 GSM8504328: ebf3a wt 5 dpf rep 2; Danio rerio; RNA Seq GSM8504328 r1 GSM8504328 1 Total RNA was extracted from the anterior half of the body from larvae per sample at using the Rneasy Mini Kit Qiagen. 10 12 for 6 dpf and 15 20 for 2 dpf. Libraries were constructed by GENEWIZ Azenta with standard protocols   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 4000   SRP531514     Ebf-WT-2-5dpf_R1_001.fastq.gz Ebf-WT-2-5dpf_R2_001.fastq.gz fastq fastq 17620546500.0 58735155.0 GSM8504328 r1 0:150 1:150 A:4442356407;C:4365499245;G:4407165860;T:4405169272;N:355716 150 150     4442356407 4365499245 4407165860 4405169272 355716 SRX26022476 SRS22594195 SRA1966071 UMass Chan Medical School UMass Chan Medical School                       B B biological fallback assumption illumina hiseq_era unknown cdna_unspecified unknown bulk unknown unknown   United States 2024-09-09 Larval Larval Multi-tissue Multi-system
33697 33697 SRR30599776 SRX26022475 SRS22594194 SRP531514 PRJNA1158727 CRISPR/Cas9 induced zebrafish mutants for ebf3a and dhx30 GSE276705 Transcriptome Analysis Mutations in the transcription factor EBF3 results in a neurodevelopmental disorder and studies in animal models indicate that it has a critical role in neuronal differentiation. The molecular pathways and neuron types disrupted by its loss however have not been thoroughly investigated. Nor have the outcomes of these changes on behavior and brain activity. Here we generated and characterized a zebrafish ebf3a loss of function mutant. We discovered morphological and neural phenotypes including an overall smaller brain size particularly in the hypothalamus cerebellum and hindbrain. Brain function was also compromised with activity strongly increased in the cerebellum and abnormal behavior at baseline and in response to visual and acoustic stimuli. From RNA sequencing of developing larvae notable changes included significant downregulation of genes that mark olfactory sensory neurons the lateral line and cerebellar Purkinje neurons. This study sets the stage for determining which downstream pathways underlie the emergence of the observed phenotypes and establishes multiple strong phenotypes that could form the basis of a drug screen. Overall design: Total RNA was extracted from the anterior half of the body from 10 dpf 12 dpf 5 dpf larvae per sample at using the Rneasy Mini Kit Qiagen. RNA for the 2 dpf RNA seq samples were collected in the same way but with 15 20 embryos per pool. The 5 dpf RNA seq was collected also with 10 12 larvae. The posterior portion of the cuts was used for genotyping. The RNA was isolated from the anterior portion as described and submitted to sequencing by GENEWIZ at Azenta Life Sciences.       ebf3a wt 5 dpf rep 1 GSM8504327   source name:head with eyes 10 12 embryos pooled|tissue:head with eyes|age:5 dpf|genotype:ebf3a wild types|geo loc name:missing|collection date:missing ebf3a wt 5 dpf rep 1 Paired end reads were aligned to GRCz11 release 104 using the Lawson Lab Zebrafish Transcriptome Annotation version 4.3.2 with STAR aligner 2.7.3a GCC 6.4.0 2.28. The raw counts files from STAR in this record were normalized using the rlog method in DESeq2 for subsequent published analysis. Assembly: GRCz11 Supplementary files format and content: Raw counts files from STAR; expected input for DESeq2. head with eyes 10 12 embryos pooled   Total RNA was extracted from the anterior half of the body from larvae per sample at using the Rneasy Mini Kit Qiagen. 10 12 for 6 dpf and 15 20 for 2 dpf. Libraries were constructed by GENEWIZ Azenta with standard protocols   tissue:head with eyes|age:5 dpf|genotype:ebf3a wild types GSM8504327 GSM8504327: ebf3a wt 5 dpf rep 1; Danio rerio; RNA Seq GSM8504327 r1 GSM8504327 1 Total RNA was extracted from the anterior half of the body from larvae per sample at using the Rneasy Mini Kit Qiagen. 10 12 for 6 dpf and 15 20 for 2 dpf. Libraries were constructed by GENEWIZ Azenta with standard protocols   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 4000   SRP531514     Ebf-WT-1-5dpf_R1_001.fastq.gz Ebf-WT-1-5dpf_R2_001.fastq.gz fastq fastq 14881331700.0 49604439.0 GSM8504327 r1 0:150 1:150 A:3819750403;C:3611501542;G:3658667991;T:3791111572;N:300192 150 150     3819750403 3611501542 3658667991 3791111572 300192 SRX26022475 SRS22594194 SRA1966071 UMass Chan Medical School UMass Chan Medical School                       B B biological fallback assumption illumina hiseq_era unknown cdna_unspecified unknown bulk unknown unknown   United States 2024-09-09 Larval Larval Multi-tissue Multi-system
33698 33698 SRR30599777 SRX26022474 SRS22594193 SRP531514 PRJNA1158727 CRISPR/Cas9 induced zebrafish mutants for ebf3a and dhx30 GSE276705 Transcriptome Analysis Mutations in the transcription factor EBF3 results in a neurodevelopmental disorder and studies in animal models indicate that it has a critical role in neuronal differentiation. The molecular pathways and neuron types disrupted by its loss however have not been thoroughly investigated. Nor have the outcomes of these changes on behavior and brain activity. Here we generated and characterized a zebrafish ebf3a loss of function mutant. We discovered morphological and neural phenotypes including an overall smaller brain size particularly in the hypothalamus cerebellum and hindbrain. Brain function was also compromised with activity strongly increased in the cerebellum and abnormal behavior at baseline and in response to visual and acoustic stimuli. From RNA sequencing of developing larvae notable changes included significant downregulation of genes that mark olfactory sensory neurons the lateral line and cerebellar Purkinje neurons. This study sets the stage for determining which downstream pathways underlie the emergence of the observed phenotypes and establishes multiple strong phenotypes that could form the basis of a drug screen. Overall design: Total RNA was extracted from the anterior half of the body from 10 dpf 12 dpf 5 dpf larvae per sample at using the Rneasy Mini Kit Qiagen. RNA for the 2 dpf RNA seq samples were collected in the same way but with 15 20 embryos per pool. The 5 dpf RNA seq was collected also with 10 12 larvae. The posterior portion of the cuts was used for genotyping. The RNA was isolated from the anterior portion as described and submitted to sequencing by GENEWIZ at Azenta Life Sciences.       ebf3a hom 5 dpf rep 2 GSM8504326   source name:head with eyes 10 12 embryos pooled|tissue:head with eyes|age:5 dpf|genotype:ebf3a homozygous|geo loc name:missing|collection date:missing ebf3a hom 5 dpf rep 2 Paired end reads were aligned to GRCz11 release 104 using the Lawson Lab Zebrafish Transcriptome Annotation version 4.3.2 with STAR aligner 2.7.3a GCC 6.4.0 2.28. The raw counts files from STAR in this record were normalized using the rlog method in DESeq2 for subsequent published analysis. Assembly: GRCz11 Supplementary files format and content: Raw counts files from STAR; expected input for DESeq2. head with eyes 10 12 embryos pooled   Total RNA was extracted from the anterior half of the body from larvae per sample at using the Rneasy Mini Kit Qiagen. 10 12 for 6 dpf and 15 20 for 2 dpf. Libraries were constructed by GENEWIZ Azenta with standard protocols   tissue:head with eyes|age:5 dpf|genotype:ebf3a homozygous GSM8504326 GSM8504326: ebf3a hom 5 dpf rep 2; Danio rerio; RNA Seq GSM8504326 r1 GSM8504326 1 Total RNA was extracted from the anterior half of the body from larvae per sample at using the Rneasy Mini Kit Qiagen. 10 12 for 6 dpf and 15 20 for 2 dpf. Libraries were constructed by GENEWIZ Azenta with standard protocols   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 4000   SRP531514     Ebf-Homo-2-5dpf_R1_001.fastq.gz Ebf-Homo-2-5dpf_R2_001.fastq.gz fastq fastq 13980599100.0 46601997.0 GSM8504326 r1 0:150 1:150 A:3559157122;C:3432017726;G:3462680948;T:3526461889;N:281415 150 150     3559157122 3432017726 3462680948 3526461889 281415 SRX26022474 SRS22594193 SRA1966071 UMass Chan Medical School UMass Chan Medical School                       B B biological fallback assumption illumina hiseq_era unknown cdna_unspecified unknown bulk unknown unknown   United States 2024-09-09 Larval Larval Multi-tissue Multi-system
33699 33699 SRR30599778 SRX26022473 SRS22594192 SRP531514 PRJNA1158727 CRISPR/Cas9 induced zebrafish mutants for ebf3a and dhx30 GSE276705 Transcriptome Analysis Mutations in the transcription factor EBF3 results in a neurodevelopmental disorder and studies in animal models indicate that it has a critical role in neuronal differentiation. The molecular pathways and neuron types disrupted by its loss however have not been thoroughly investigated. Nor have the outcomes of these changes on behavior and brain activity. Here we generated and characterized a zebrafish ebf3a loss of function mutant. We discovered morphological and neural phenotypes including an overall smaller brain size particularly in the hypothalamus cerebellum and hindbrain. Brain function was also compromised with activity strongly increased in the cerebellum and abnormal behavior at baseline and in response to visual and acoustic stimuli. From RNA sequencing of developing larvae notable changes included significant downregulation of genes that mark olfactory sensory neurons the lateral line and cerebellar Purkinje neurons. This study sets the stage for determining which downstream pathways underlie the emergence of the observed phenotypes and establishes multiple strong phenotypes that could form the basis of a drug screen. Overall design: Total RNA was extracted from the anterior half of the body from 10 dpf 12 dpf 5 dpf larvae per sample at using the Rneasy Mini Kit Qiagen. RNA for the 2 dpf RNA seq samples were collected in the same way but with 15 20 embryos per pool. The 5 dpf RNA seq was collected also with 10 12 larvae. The posterior portion of the cuts was used for genotyping. The RNA was isolated from the anterior portion as described and submitted to sequencing by GENEWIZ at Azenta Life Sciences.       ebf3a hom 5 dpf rep 1 GSM8504325   source name:head with eyes 10 12 embryos pooled|tissue:head with eyes|age:5 dpf|genotype:ebf3a homozygous|geo loc name:missing|collection date:missing ebf3a hom 5 dpf rep 1 Paired end reads were aligned to GRCz11 release 104 using the Lawson Lab Zebrafish Transcriptome Annotation version 4.3.2 with STAR aligner 2.7.3a GCC 6.4.0 2.28. The raw counts files from STAR in this record were normalized using the rlog method in DESeq2 for subsequent published analysis. Assembly: GRCz11 Supplementary files format and content: Raw counts files from STAR; expected input for DESeq2. head with eyes 10 12 embryos pooled   Total RNA was extracted from the anterior half of the body from larvae per sample at using the Rneasy Mini Kit Qiagen. 10 12 for 6 dpf and 15 20 for 2 dpf. Libraries were constructed by GENEWIZ Azenta with standard protocols   tissue:head with eyes|age:5 dpf|genotype:ebf3a homozygous GSM8504325 GSM8504325: ebf3a hom 5 dpf rep 1; Danio rerio; RNA Seq GSM8504325 r1 GSM8504325 1 Total RNA was extracted from the anterior half of the body from larvae per sample at using the Rneasy Mini Kit Qiagen. 10 12 for 6 dpf and 15 20 for 2 dpf. Libraries were constructed by GENEWIZ Azenta with standard protocols   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 4000   SRP531514     Ebf-Homo-1-5dpf_R1_001.fastq.gz Ebf-Homo-1-5dpf_R2_001.fastq.gz fastq fastq 16257229800.0 54190766.0 GSM8504325 r1 0:150 1:150 A:4127739980;C:3994508761;G:4048290353;T:4086361510;N:329196 150 150     4127739980 3994508761 4048290353 4086361510 329196 SRX26022473 SRS22594192 SRA1966071 UMass Chan Medical School UMass Chan Medical School                       B B biological fallback assumption illumina hiseq_era unknown cdna_unspecified unknown bulk unknown unknown   United States 2024-09-09 Larval Larval Multi-tissue Multi-system
33700 33700 SRR30599779 SRX26022472 SRS22594191 SRP531514 PRJNA1158727 CRISPR/Cas9 induced zebrafish mutants for ebf3a and dhx30 GSE276705 Transcriptome Analysis Mutations in the transcription factor EBF3 results in a neurodevelopmental disorder and studies in animal models indicate that it has a critical role in neuronal differentiation. The molecular pathways and neuron types disrupted by its loss however have not been thoroughly investigated. Nor have the outcomes of these changes on behavior and brain activity. Here we generated and characterized a zebrafish ebf3a loss of function mutant. We discovered morphological and neural phenotypes including an overall smaller brain size particularly in the hypothalamus cerebellum and hindbrain. Brain function was also compromised with activity strongly increased in the cerebellum and abnormal behavior at baseline and in response to visual and acoustic stimuli. From RNA sequencing of developing larvae notable changes included significant downregulation of genes that mark olfactory sensory neurons the lateral line and cerebellar Purkinje neurons. This study sets the stage for determining which downstream pathways underlie the emergence of the observed phenotypes and establishes multiple strong phenotypes that could form the basis of a drug screen. Overall design: Total RNA was extracted from the anterior half of the body from 10 dpf 12 dpf 5 dpf larvae per sample at using the Rneasy Mini Kit Qiagen. RNA for the 2 dpf RNA seq samples were collected in the same way but with 15 20 embryos per pool. The 5 dpf RNA seq was collected also with 10 12 larvae. The posterior portion of the cuts was used for genotyping. The RNA was isolated from the anterior portion as described and submitted to sequencing by GENEWIZ at Azenta Life Sciences.       ebf3a wt 2 dpf rep 2 GSM8504324   source name:upper body with eyes 15 20 embryos pooled|tissue:upper body with eyes|age:2 dpf|genotype:ebf3a wild types|geo loc name:missing|collection date:missing ebf3a wt 2 dpf rep 2 Paired end reads were aligned to GRCz11 release 104 using the Lawson Lab Zebrafish Transcriptome Annotation version 4.3.2 with STAR aligner 2.7.3a GCC 6.4.0 2.28. The raw counts files from STAR in this record were normalized using the rlog method in DESeq2 for subsequent published analysis. Assembly: GRCz11 Supplementary files format and content: Raw counts files from STAR; expected input for DESeq2. upper body with eyes 15 20 embryos pooled   Total RNA was extracted from the anterior half of the body from larvae per sample at using the Rneasy Mini Kit Qiagen. 10 12 for 6 dpf and 15 20 for 2 dpf. Libraries were constructed by GENEWIZ Azenta with standard protocols   tissue:upper body with eyes|age:2 dpf|genotype:ebf3a wild types GSM8504324 GSM8504324: ebf3a wt 2 dpf rep 2; Danio rerio; RNA Seq GSM8504324 r1 GSM8504324 1 Total RNA was extracted from the anterior half of the body from larvae per sample at using the Rneasy Mini Kit Qiagen. 10 12 for 6 dpf and 15 20 for 2 dpf. Libraries were constructed by GENEWIZ Azenta with standard protocols   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 4000   SRP531514     Ebf-WT-2-2dpf_R1_001.fastq.gz Ebf-WT-2-2dpf_R2_001.fastq.gz fastq fastq 22635570600.0 75451902.0 GSM8504324 r1 0:150 1:150 A:6279354286;C:5013138453;G:5250498169;T:6092284847;N:294845 150 150     6279354286 5013138453 5250498169 6092284847 294845 SRX26022472 SRS22594191 SRA1966071 UMass Chan Medical School UMass Chan Medical School                       B B biological fallback assumption illumina hiseq_era unknown cdna_unspecified unknown bulk unknown unknown   United States 2024-09-09 Hatching Embryo Multi-tissue Multi-system
33701 33701 SRR30599780 SRX26022471 SRS22594190 SRP531514 PRJNA1158727 CRISPR/Cas9 induced zebrafish mutants for ebf3a and dhx30 GSE276705 Transcriptome Analysis Mutations in the transcription factor EBF3 results in a neurodevelopmental disorder and studies in animal models indicate that it has a critical role in neuronal differentiation. The molecular pathways and neuron types disrupted by its loss however have not been thoroughly investigated. Nor have the outcomes of these changes on behavior and brain activity. Here we generated and characterized a zebrafish ebf3a loss of function mutant. We discovered morphological and neural phenotypes including an overall smaller brain size particularly in the hypothalamus cerebellum and hindbrain. Brain function was also compromised with activity strongly increased in the cerebellum and abnormal behavior at baseline and in response to visual and acoustic stimuli. From RNA sequencing of developing larvae notable changes included significant downregulation of genes that mark olfactory sensory neurons the lateral line and cerebellar Purkinje neurons. This study sets the stage for determining which downstream pathways underlie the emergence of the observed phenotypes and establishes multiple strong phenotypes that could form the basis of a drug screen. Overall design: Total RNA was extracted from the anterior half of the body from 10 dpf 12 dpf 5 dpf larvae per sample at using the Rneasy Mini Kit Qiagen. RNA for the 2 dpf RNA seq samples were collected in the same way but with 15 20 embryos per pool. The 5 dpf RNA seq was collected also with 10 12 larvae. The posterior portion of the cuts was used for genotyping. The RNA was isolated from the anterior portion as described and submitted to sequencing by GENEWIZ at Azenta Life Sciences.       ebf3a wt 2 dpf rep 1 GSM8504323   source name:upper body with eyes 15 20 embryos pooled|tissue:upper body with eyes|age:2 dpf|genotype:ebf3a wild types|geo loc name:missing|collection date:missing ebf3a wt 2 dpf rep 1 Paired end reads were aligned to GRCz11 release 104 using the Lawson Lab Zebrafish Transcriptome Annotation version 4.3.2 with STAR aligner 2.7.3a GCC 6.4.0 2.28. The raw counts files from STAR in this record were normalized using the rlog method in DESeq2 for subsequent published analysis. Assembly: GRCz11 Supplementary files format and content: Raw counts files from STAR; expected input for DESeq2. upper body with eyes 15 20 embryos pooled   Total RNA was extracted from the anterior half of the body from larvae per sample at using the Rneasy Mini Kit Qiagen. 10 12 for 6 dpf and 15 20 for 2 dpf. Libraries were constructed by GENEWIZ Azenta with standard protocols   tissue:upper body with eyes|age:2 dpf|genotype:ebf3a wild types GSM8504323 GSM8504323: ebf3a wt 2 dpf rep 1; Danio rerio; RNA Seq GSM8504323 r1 GSM8504323 1 Total RNA was extracted from the anterior half of the body from larvae per sample at using the Rneasy Mini Kit Qiagen. 10 12 for 6 dpf and 15 20 for 2 dpf. Libraries were constructed by GENEWIZ Azenta with standard protocols   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 4000   SRP531514     Ebf-WT-1-2dpf_R1_001.fastq.gz Ebf-WT-1-2dpf_R2_001.fastq.gz fastq fastq 19711425600.0 65704752.0 GSM8504323 r1 0:150 1:150 A:5541464229;C:4291380685;G:4497372769;T:5380954703;N:253214 150 150     5541464229 4291380685 4497372769 5380954703 253214 SRX26022471 SRS22594190 SRA1966071 UMass Chan Medical School UMass Chan Medical School                       B B biological fallback assumption illumina hiseq_era unknown cdna_unspecified unknown bulk unknown unknown   United States 2024-09-09 Hatching Embryo Multi-tissue Multi-system

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CREATE TABLE run_metadata("run.accession" VARCHAR, "experiment.accession" VARCHAR, "sample.accession" VARCHAR, "study.accession" VARCHAR, bioproject VARCHAR, "study.title" VARCHAR, "study.alias" VARCHAR, "study.type" VARCHAR, "study.abstract" VARCHAR, "study.attributes" VARCHAR, "study.PMIDs" VARCHAR, "sample.description" VARCHAR, "sample.title" VARCHAR, "sample.alias" VARCHAR, "sample.centername" VARCHAR, "sample.attributes" VARCHAR, "GEOsample.title" VARCHAR, "GEOsample.dataprocessing" VARCHAR, "GEOsample.source" VARCHAR, "GEOsample.treatmentprotocol" VARCHAR, "GEOsample.extractprotocol" VARCHAR, "GEOsample.growthprotocol" VARCHAR, "GEOsample.characteristics" VARCHAR, "GEOsample.accession" VARCHAR, "experiment.title" VARCHAR, "experiment.alias" VARCHAR, "experiment.library_name" VARCHAR, "experiment.design_description" VARCHAR, "experiment.library_construction_protocol" VARCHAR, "experiment.attributes" VARCHAR, "experiment.library_strategy" VARCHAR, "experiment.library_source" VARCHAR, "experiment.library_selection" VARCHAR, "experiment.library_layout" VARCHAR, "experiment.platform" VARCHAR, "experiment.instrument_model" VARCHAR, "experiment.spot_descriptor" VARCHAR, "experiment.study_ref" VARCHAR, "run.title" VARCHAR, "run.attributes" VARCHAR, "run.filename" VARCHAR, "run.semantic_name" VARCHAR, "run.total_bases" DOUBLE, "run.total_spots" DOUBLE, "run.alias" VARCHAR, "run.read_lengths" VARCHAR, "run.base_counts" VARCHAR, "run.r1_length" BIGINT, "run.r2_length" BIGINT, "run.r3_length" BIGINT, "run.r4_length" BIGINT, "run.Acount" BIGINT, "run.Ccount" BIGINT, "run.Gcount" BIGINT, "run.Tcount" BIGINT, "run.Ncount" BIGINT, "run.experiment" VARCHAR, "run.pool_member" VARCHAR, "submission.accession" VARCHAR, "submission.srasource" VARCHAR, "submission.bioprojectsource" VARCHAR, "seqdetective.n_mates" BIGINT, "seqdetective.mapping_rate.mate1" DOUBLE, "seqdetective.mapping_rate.mate2" DOUBLE, "seqdetective.nofeature_rate.mate1" DOUBLE, "seqdetective.nofeature_rate.mate2" DOUBLE, "seqdetective.sparsity.mate1" DOUBLE, "seqdetective.sparsity.mate2" DOUBLE, "seqdetective.pos_strand_rate.mate1" DOUBLE, "seqdetective.pos_strand_rate.mate2" DOUBLE, "seqdetective.readlen.mate1" BIGINT, "seqdetective.readlen.mate2" BIGINT, "seqdetective.judgement.mate1" VARCHAR, "seqdetective.judgement.mate2" VARCHAR, "seqdetective.judgement.reason" VARCHAR, platform_family VARCHAR, instrument_generation VARCHAR, read_bias VARCHAR, selection_class VARCHAR, prep_kit VARCHAR, sc_or_bulk VARCHAR, tech_class VARCHAR, technology VARCHAR, tech_variant VARCHAR, "submission.bioprojectsource.country" VARCHAR, earliest_date DATE, devstage_curation VARCHAR, devstage_curation_coarse VARCHAR, tissue_curation VARCHAR, tissue_curation_coarse VARCHAR);;
CREATE INDEX idx_run_bioproject ON run_metadata(bioproject);;
CREATE INDEX idx_run_run_accession ON run_metadata("run.accession");;