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
14,DRR334977,DRX323973,DRS217313,DRP008001,PRJDB12578,Allometric scaling of RNA abundance from genes to communities,DRP008001,Other,The metabolic theory of ecology MTE and growth rate hypothesis GRH help explain the mechanistic basis of size allometry and temperature dependence on growth rate and whole  body RNA content in organisms. However  testing RNA allometric scaling with next generation sequencing is yet to be done. Here  we validated the assumptions of GRH and MTE on messenger RNA and ribosome abundance using mock community metatranscriptome analysis. Our findings highlight that fast growing smaller species harbor greater RNA abundance per mass of tissue compared with species having larger body sizes and slower growth rates. We found that genome size and body size impose significant constraints in interspecific RNA abundance scaling  while the assumed temperature dependence appeared to be weak. Lastly  allometric scaling integration in community level models may extend the use of metatranscriptomics as a reliable tool for estimating ecosystem processes.,,,totalRNA metatranscriptomic sequences from mock communities consist of five model species,rRNA mock community at 28 degrees rep 3,SAMD00422597,,sample name:rRNA mock community 28 degrees rep 3|biological replicate:3|collection date:2021 01 15|dev stage:Adult|technical replicate:3|temp:28|treatment:rRNA,,,,,,,,,NextSeq 2000 sequencing of SAMD00422597,DRX323973,t28 3 tRNA.fastq,1,NEBNext Kit for Illumina,,RNA-Seq,METATRANSCRIPTOMIC,cDNA,SINGLE,ILLUMINA,NextSeq 2000,<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>101</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>,DRP008001,NextSeq 2000 sequencing of SAMD00422597,,,,3791170746.0,37701921.0,DRR334977,0:100.56 1:0,A:967477491;C:926887571;G:898697642;T:998107868;N:174,100,0,,,967477491,926887571,898697642,998107868,174,DRX323973,DRS217313,DRA013226,"SINICA|Machida Laboratory Biodiversity Research Center, Academia Sinica","SINICA|Machida Laboratory Biodiversity Research Center, Academia Sinica",1,0.31527,,0.06446,,0.88844,,0.62118,,101,,B,,usable mapping rate,illumina,nextseq_v2,unknown,random_priming,nebnext,bulk,unknown,unknown,,Taiwan,2021-12-23,Adult,Adult,Undetermined,Undetermined
15,DRR334976,DRX323972,DRS217312,DRP008001,PRJDB12578,Allometric scaling of RNA abundance from genes to communities,DRP008001,Other,The metabolic theory of ecology MTE and growth rate hypothesis GRH help explain the mechanistic basis of size allometry and temperature dependence on growth rate and whole  body RNA content in organisms. However  testing RNA allometric scaling with next generation sequencing is yet to be done. Here  we validated the assumptions of GRH and MTE on messenger RNA and ribosome abundance using mock community metatranscriptome analysis. Our findings highlight that fast growing smaller species harbor greater RNA abundance per mass of tissue compared with species having larger body sizes and slower growth rates. We found that genome size and body size impose significant constraints in interspecific RNA abundance scaling  while the assumed temperature dependence appeared to be weak. Lastly  allometric scaling integration in community level models may extend the use of metatranscriptomics as a reliable tool for estimating ecosystem processes.,,,totalRNA metatranscriptomic sequences from mock communities consist of five model species,rRNA mock community at 28 degrees rep 2,SAMD00422596,,sample name:rRNA mock community 28 degrees rep 2|biological replicate:3|collection date:2021 01 15|dev stage:Adult|technical replicate:2|temp:28|treatment:rRNA,,,,,,,,,NextSeq 2000 sequencing of SAMD00422596,DRX323972,t28 2 tRNA.fastq,1,NEBNext Kit for Illumina,,RNA-Seq,METATRANSCRIPTOMIC,cDNA,SINGLE,ILLUMINA,NextSeq 2000,<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>101</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>,DRP008001,NextSeq 2000 sequencing of SAMD00422596,,,,2801693695.0,27860658.0,DRR334976,0:100.56 1:0,A:700189496;C:702936549;G:679920984;T:718646067;N:599,100,0,,,700189496,702936549,679920984,718646067,599,DRX323972,DRS217312,DRA013226,"SINICA|Machida Laboratory Biodiversity Research Center, Academia Sinica","SINICA|Machida Laboratory Biodiversity Research Center, Academia Sinica",1,0.43508,,0.08819,,0.85859,,0.69447,,101,,B,,usable mapping rate,illumina,nextseq_v2,unknown,random_priming,nebnext,bulk,unknown,unknown,,Taiwan,2021-12-23,Adult,Adult,Undetermined,Undetermined
16,DRR334975,DRX323971,DRS217311,DRP008001,PRJDB12578,Allometric scaling of RNA abundance from genes to communities,DRP008001,Other,The metabolic theory of ecology MTE and growth rate hypothesis GRH help explain the mechanistic basis of size allometry and temperature dependence on growth rate and whole  body RNA content in organisms. However  testing RNA allometric scaling with next generation sequencing is yet to be done. Here  we validated the assumptions of GRH and MTE on messenger RNA and ribosome abundance using mock community metatranscriptome analysis. Our findings highlight that fast growing smaller species harbor greater RNA abundance per mass of tissue compared with species having larger body sizes and slower growth rates. We found that genome size and body size impose significant constraints in interspecific RNA abundance scaling  while the assumed temperature dependence appeared to be weak. Lastly  allometric scaling integration in community level models may extend the use of metatranscriptomics as a reliable tool for estimating ecosystem processes.,,,totalRNA metatranscriptomic sequences from mock communities consist of five model species,rRNA mock community at 28 degrees rep 1,SAMD00422595,,sample name:rRNA mock community 28 degrees rep 1|biological replicate:3|collection date:2021 01 15|dev stage:Adult|technical replicate:1|temp:28|treatment:rRNA,,,,,,,,,NextSeq 2000 sequencing of SAMD00422595,DRX323971,t28 1 tRNA.fastq,1,NEBNext Kit for Illumina,,RNA-Seq,METATRANSCRIPTOMIC,cDNA,SINGLE,ILLUMINA,NextSeq 2000,<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>101</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>,DRP008001,NextSeq 2000 sequencing of SAMD00422595,,,,3148691934.0,31307464.0,DRR334975,0:100.57 1:0,A:785000734;C:791315678;G:766594599;T:805780465;N:458,100,0,,,785000734,791315678,766594599,805780465,458,DRX323971,DRS217311,DRA013226,"SINICA|Machida Laboratory Biodiversity Research Center, Academia Sinica","SINICA|Machida Laboratory Biodiversity Research Center, Academia Sinica",1,0.37139,,0.09061,,0.94065,,0.74047,,101,,B,,usable mapping rate,illumina,nextseq_v2,unknown,random_priming,nebnext,bulk,unknown,unknown,,Taiwan,2021-12-23,Adult,Adult,Undetermined,Undetermined
17,DRR334974,DRX323970,DRS217310,DRP008001,PRJDB12578,Allometric scaling of RNA abundance from genes to communities,DRP008001,Other,The metabolic theory of ecology MTE and growth rate hypothesis GRH help explain the mechanistic basis of size allometry and temperature dependence on growth rate and whole  body RNA content in organisms. However  testing RNA allometric scaling with next generation sequencing is yet to be done. Here  we validated the assumptions of GRH and MTE on messenger RNA and ribosome abundance using mock community metatranscriptome analysis. Our findings highlight that fast growing smaller species harbor greater RNA abundance per mass of tissue compared with species having larger body sizes and slower growth rates. We found that genome size and body size impose significant constraints in interspecific RNA abundance scaling  while the assumed temperature dependence appeared to be weak. Lastly  allometric scaling integration in community level models may extend the use of metatranscriptomics as a reliable tool for estimating ecosystem processes.,,,totalRNA metatranscriptomic sequences from mock communities consist of five model species,rRNA mock community at 19 degrees rep 3,SAMD00422594,,sample name:rRNA mock community 19 degrees rep 3|biological replicate:2|collection date:2021 01 15|dev stage:Adult|technical replicate:3|temp:19|treatment:rRNA,,,,,,,,,NextSeq 2000 sequencing of SAMD00422594,DRX323970,t19 3 tRNA.fastq,1,NEBNext Kit for Illumina,,RNA-Seq,METATRANSCRIPTOMIC,cDNA,SINGLE,ILLUMINA,NextSeq 2000,<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>101</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>,DRP008001,NextSeq 2000 sequencing of SAMD00422594,,,,2856186273.0,28400524.0,DRR334974,0:100.57 1:0,A:695685787;C:733754277;G:715270279;T:711475544;N:386,100,0,,,695685787,733754277,715270279,711475544,386,DRX323970,DRS217310,DRA013226,"SINICA|Machida Laboratory Biodiversity Research Center, Academia Sinica","SINICA|Machida Laboratory Biodiversity Research Center, Academia Sinica",1,0.48152,,0.10933,,0.87105,,0.7287,,101,,B,,usable mapping rate,illumina,nextseq_v2,unknown,random_priming,nebnext,bulk,unknown,unknown,,Taiwan,2021-12-23,Adult,Adult,Undetermined,Undetermined
18,DRR334973,DRX323969,DRS217309,DRP008001,PRJDB12578,Allometric scaling of RNA abundance from genes to communities,DRP008001,Other,The metabolic theory of ecology MTE and growth rate hypothesis GRH help explain the mechanistic basis of size allometry and temperature dependence on growth rate and whole  body RNA content in organisms. However  testing RNA allometric scaling with next generation sequencing is yet to be done. Here  we validated the assumptions of GRH and MTE on messenger RNA and ribosome abundance using mock community metatranscriptome analysis. Our findings highlight that fast growing smaller species harbor greater RNA abundance per mass of tissue compared with species having larger body sizes and slower growth rates. We found that genome size and body size impose significant constraints in interspecific RNA abundance scaling  while the assumed temperature dependence appeared to be weak. Lastly  allometric scaling integration in community level models may extend the use of metatranscriptomics as a reliable tool for estimating ecosystem processes.,,,totalRNA metatranscriptomic sequences from mock communities consist of five model species,rRNA mock community at 19 degrees rep 2,SAMD00422593,,sample name:rRNA mock community 19 degrees rep 2|biological replicate:2|collection date:2021 01 15|dev stage:Adult|technical replicate:2|temp:19|treatment:rRNA,,,,,,,,,NextSeq 2000 sequencing of SAMD00422593,DRX323969,t19 2 tRNA.fastq,1,NEBNext Kit for Illumina,,RNA-Seq,METATRANSCRIPTOMIC,cDNA,SINGLE,ILLUMINA,NextSeq 2000,<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>101</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>,DRP008001,NextSeq 2000 sequencing of SAMD00422593,,,,3199929804.0,31816971.0,DRR334973,0:100.57 1:0,A:777149590;C:825478743;G:804835148;T:792466124;N:199,100,0,,,777149590,825478743,804835148,792466124,199,DRX323969,DRS217309,DRA013226,"SINICA|Machida Laboratory Biodiversity Research Center, Academia Sinica","SINICA|Machida Laboratory Biodiversity Research Center, Academia Sinica",1,0.4418,,0.10282,,0.89706,,0.74667,,101,,B,,usable mapping rate,illumina,nextseq_v2,unknown,random_priming,nebnext,bulk,unknown,unknown,,Taiwan,2021-12-23,Adult,Adult,Undetermined,Undetermined
19,DRR334972,DRX323968,DRS217308,DRP008001,PRJDB12578,Allometric scaling of RNA abundance from genes to communities,DRP008001,Other,The metabolic theory of ecology MTE and growth rate hypothesis GRH help explain the mechanistic basis of size allometry and temperature dependence on growth rate and whole  body RNA content in organisms. However  testing RNA allometric scaling with next generation sequencing is yet to be done. Here  we validated the assumptions of GRH and MTE on messenger RNA and ribosome abundance using mock community metatranscriptome analysis. Our findings highlight that fast growing smaller species harbor greater RNA abundance per mass of tissue compared with species having larger body sizes and slower growth rates. We found that genome size and body size impose significant constraints in interspecific RNA abundance scaling  while the assumed temperature dependence appeared to be weak. Lastly  allometric scaling integration in community level models may extend the use of metatranscriptomics as a reliable tool for estimating ecosystem processes.,,,totalRNA metatranscriptomic sequences from mock communities consist of five model species,rRNA mock community at 19 degrees rep 1,SAMD00422592,,sample name:rRNA mock community 19 degrees rep 1|biological replicate:2|collection date:2021 01 15|dev stage:Adult|technical replicate:1|temp:19|treatment:rRNA,,,,,,,,,NextSeq 2000 sequencing of SAMD00422592,DRX323968,t19 1 tRNA.fastq,1,NEBNext Kit for Illumina,,RNA-Seq,METATRANSCRIPTOMIC,cDNA,SINGLE,ILLUMINA,NextSeq 2000,<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>101</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>,DRP008001,NextSeq 2000 sequencing of SAMD00422592,,,,3658675391.0,36374718.0,DRR334972,0:100.58 1:0,A:879342063;C:954687406;G:929537615;T:895107890;N:417,100,0,,,879342063,954687406,929537615,895107890,417,DRX323968,DRS217308,DRA013226,"SINICA|Machida Laboratory Biodiversity Research Center, Academia Sinica","SINICA|Machida Laboratory Biodiversity Research Center, Academia Sinica",1,0.49439,,0.11691,,0.88239,,0.73925,,101,,B,,usable mapping rate,illumina,nextseq_v2,unknown,random_priming,nebnext,bulk,unknown,unknown,,Taiwan,2021-12-23,Adult,Adult,Undetermined,Undetermined
20,DRR334971,DRX323967,DRS217307,DRP008001,PRJDB12578,Allometric scaling of RNA abundance from genes to communities,DRP008001,Other,The metabolic theory of ecology MTE and growth rate hypothesis GRH help explain the mechanistic basis of size allometry and temperature dependence on growth rate and whole  body RNA content in organisms. However  testing RNA allometric scaling with next generation sequencing is yet to be done. Here  we validated the assumptions of GRH and MTE on messenger RNA and ribosome abundance using mock community metatranscriptome analysis. Our findings highlight that fast growing smaller species harbor greater RNA abundance per mass of tissue compared with species having larger body sizes and slower growth rates. We found that genome size and body size impose significant constraints in interspecific RNA abundance scaling  while the assumed temperature dependence appeared to be weak. Lastly  allometric scaling integration in community level models may extend the use of metatranscriptomics as a reliable tool for estimating ecosystem processes.,,,totalRNA metatranscriptomic sequences from mock communities consist of five model species,rRNA mock community at 10 degrees rep 3,SAMD00422591,,sample name:rRNA mock community 10 degrees rep 3|biological replicate:1|collection date:2021 01 15|dev stage:Adult|technical replicate:3|temp:10|treatment:rRNA,,,,,,,,,NextSeq 2000 sequencing of SAMD00422591,DRX323967,t10 3 tRNA.fastq,1,NEBNext Kit for Illumina,,RNA-Seq,METATRANSCRIPTOMIC,cDNA,SINGLE,ILLUMINA,NextSeq 2000,<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>101</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>,DRP008001,NextSeq 2000 sequencing of SAMD00422591,,,,3017524690.0,30006334.0,DRR334971,0:100.56 1:0,A:771967717;C:738814269;G:712866126;T:793876235;N:343,100,0,,,771967717,738814269,712866126,793876235,343,DRX323967,DRS217307,DRA013226,"SINICA|Machida Laboratory Biodiversity Research Center, Academia Sinica","SINICA|Machida Laboratory Biodiversity Research Center, Academia Sinica",1,0.33157,,0.07363,,0.9093,,0.73422,,100,,B,,usable mapping rate,illumina,nextseq_v2,unknown,random_priming,nebnext,bulk,unknown,unknown,,Taiwan,2021-12-23,Adult,Adult,Undetermined,Undetermined
21,DRR334970,DRX323966,DRS217306,DRP008001,PRJDB12578,Allometric scaling of RNA abundance from genes to communities,DRP008001,Other,The metabolic theory of ecology MTE and growth rate hypothesis GRH help explain the mechanistic basis of size allometry and temperature dependence on growth rate and whole  body RNA content in organisms. However  testing RNA allometric scaling with next generation sequencing is yet to be done. Here  we validated the assumptions of GRH and MTE on messenger RNA and ribosome abundance using mock community metatranscriptome analysis. Our findings highlight that fast growing smaller species harbor greater RNA abundance per mass of tissue compared with species having larger body sizes and slower growth rates. We found that genome size and body size impose significant constraints in interspecific RNA abundance scaling  while the assumed temperature dependence appeared to be weak. Lastly  allometric scaling integration in community level models may extend the use of metatranscriptomics as a reliable tool for estimating ecosystem processes.,,,totalRNA metatranscriptomic sequences from mock communities consist of five model species,rRNA mock community at 10 degrees rep 2,SAMD00422590,,sample name:rRNA mock community 10 degrees rep 2|biological replicate:1|collection date:2021 01 15|dev stage:Adult|technical replicate:2|temp:10|treatment:rRNA,,,,,,,,,NextSeq 2000 sequencing of SAMD00422590,DRX323966,t10 2 tRNA.fastq,1,NEBNext Kit for Illumina,,RNA-Seq,METATRANSCRIPTOMIC,cDNA,SINGLE,ILLUMINA,NextSeq 2000,<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>101</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>,DRP008001,NextSeq 2000 sequencing of SAMD00422590,,,,3115915184.0,30982336.0,DRR334970,0:100.57 1:0,A:765727966;C:794741415;G:771082024;T:784363609;N:170,100,0,,,765727966,794741415,771082024,784363609,170,DRX323966,DRS217306,DRA013226,"SINICA|Machida Laboratory Biodiversity Research Center, Academia Sinica","SINICA|Machida Laboratory Biodiversity Research Center, Academia Sinica",1,0.45458,,0.10504,,0.89357,,0.749,,100,,B,,usable mapping rate,illumina,nextseq_v2,unknown,random_priming,nebnext,bulk,unknown,unknown,,Taiwan,2021-12-23,Adult,Adult,Undetermined,Undetermined
22,DRR334969,DRX323965,DRS217305,DRP008001,PRJDB12578,Allometric scaling of RNA abundance from genes to communities,DRP008001,Other,The metabolic theory of ecology MTE and growth rate hypothesis GRH help explain the mechanistic basis of size allometry and temperature dependence on growth rate and whole  body RNA content in organisms. However  testing RNA allometric scaling with next generation sequencing is yet to be done. Here  we validated the assumptions of GRH and MTE on messenger RNA and ribosome abundance using mock community metatranscriptome analysis. Our findings highlight that fast growing smaller species harbor greater RNA abundance per mass of tissue compared with species having larger body sizes and slower growth rates. We found that genome size and body size impose significant constraints in interspecific RNA abundance scaling  while the assumed temperature dependence appeared to be weak. Lastly  allometric scaling integration in community level models may extend the use of metatranscriptomics as a reliable tool for estimating ecosystem processes.,,,totalRNA metatranscriptomic sequences from mock communities consist of five model species,rRNA mock community at 10 degrees rep 1,SAMD00422589,,sample name:rRNA mock community 10 degrees rep 1|biological replicate:1|collection date:2021 01 15|dev stage:Adult|technical replicate:1|temp:10|treatment:rRNA,,,,,,,,,NextSeq 2000 sequencing of SAMD00422589,DRX323965,t10 1 tRNA.fastq,1,NEBNext Kit for Illumina,,RNA-Seq,METATRANSCRIPTOMIC,cDNA,SINGLE,ILLUMINA,NextSeq 2000,<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>101</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>,DRP008001,NextSeq 2000 sequencing of SAMD00422589,,,,3206657309.0,31883532.0,DRR334969,0:100.57 1:0,A:792874386;C:814578518;G:787469614;T:811734581;N:210,100,0,,,792874386,814578518,787469614,811734581,210,DRX323965,DRS217305,DRA013226,"SINICA|Machida Laboratory Biodiversity Research Center, Academia Sinica","SINICA|Machida Laboratory Biodiversity Research Center, Academia Sinica",1,0.40156,,0.09664,,0.92898,,0.74114,,101,,B,,usable mapping rate,illumina,nextseq_v2,unknown,random_priming,nebnext,bulk,unknown,unknown,,Taiwan,2021-12-23,Adult,Adult,Undetermined,Undetermined
15504,ERR757154,ERX701784,ERS659467,ERP007147,PRJEB7420,Two Sets of Synthetic Spike in Controls for Size Selection and Data Normalisation in small RNA seq,ena-STUDY-UNIVERSITY OF AMSTERDAM-01-10-2014-14:02:22:856-622,Other,There is an increasing interest in complementing standard RNA seq experiments with small RNA expression data to obtain a comprehensive view of the transcriptome. Two aspects need to be considered when small RNA seq sRNA seq is used. First  sRNA seq protocols are size selective and typically optimized for sequencing miRNAs. Second  given the dynamic composition of the small RNA fraction a reliable normalization strategy is needed to identify differentially expressed sRNAs. To address both issues we here present two sets of synthetic RNA spike in controls for monitoring size selectivity and for performing normalization. Size spike ins comprising 18 oligoribonucleotides 10–300 nucleotides were designed and tested using controlled modifications to the size selectivity of sRNA seq. As an applied example  the loss of RNA molecules <30 nucleotides during small RNA isolation from zebrafish oocytes is demonstrated. Normalization spike ins comprising 19 oligoribonucleotides were designed to use as an external reference for DESeq normalization. Spike in based normalization improved the quantification of predetermined fold changes. Lastly  sRNA seq on female and male zebrafish demonstrated that the higher miRNA content in males was correctly preserved post spike in based normalization.,,,,Normalization across length,SAMEA3251321,UNIVERSITY OF AMSTERDAM,ENA first public:2015 02 12|ENA last update:2015 02 12|External Id:SAMEA3251321|INSDC center alias:UNIVERSITY OF AMSTERDAM|INSDC center name:UNIVERSITY OF AMSTERDAM|INSDC first public:2015 02 12T17:06:49Z|INSDC last update:2015 02 12T09:52:20Z|INSDC status:public|Submitter Id:Female X|common name:zebrafish|dev stage:Adult|sample name:Female X|sex:female,,,,,,,,,Ion Torrent Proton sequencing,ena EXPERIMENT UNIVERSITY OF AMSTERDAM 12 02 2015 09:52:08:968 2,RID0035,1,,,miRNA-Seq,TRANSCRIPTOMIC,cDNA,SINGLE,ION_TORRENT,Ion Torrent Proton,,ERP007147,Ion Torrent Proton sequencing,ENA FIRST PUBLIC:2015 02 12|ENA LAST UPDATE:2018 11 16,RID0035_003.fastq.gz,fastq,275591336.0,7611054.0,ena RUN UNIVERSITY OF AMSTERDAM 12 02 2015 09:52:08:968 2,0:36.21,A:72212971;C:63331647;G:68054270;T:71992448;N:0,36,,,,72212971,63331647,68054270,71992448,0,ERX701784,ERS659467,ERA410345,UNIVERSITY OF AMSTERDAM,UNIVERSITY OF AMSTERDAM,1,0.76262,,0.4273,,0.8101,,0.56676,,8,,B,,usable mapping rate,ion_torrent,ion_torrent,unknown,small_rna,unknown,bulk,unknown,unknown,,Netherlands,2015-02-12,Adult,Adult,Undetermined,Undetermined
15505,ERR757153,ERX701783,ERS659466,ERP007147,PRJEB7420,Two Sets of Synthetic Spike in Controls for Size Selection and Data Normalisation in small RNA seq,ena-STUDY-UNIVERSITY OF AMSTERDAM-01-10-2014-14:02:22:856-622,Other,There is an increasing interest in complementing standard RNA seq experiments with small RNA expression data to obtain a comprehensive view of the transcriptome. Two aspects need to be considered when small RNA seq sRNA seq is used. First  sRNA seq protocols are size selective and typically optimized for sequencing miRNAs. Second  given the dynamic composition of the small RNA fraction a reliable normalization strategy is needed to identify differentially expressed sRNAs. To address both issues we here present two sets of synthetic RNA spike in controls for monitoring size selectivity and for performing normalization. Size spike ins comprising 18 oligoribonucleotides 10–300 nucleotides were designed and tested using controlled modifications to the size selectivity of sRNA seq. As an applied example  the loss of RNA molecules <30 nucleotides during small RNA isolation from zebrafish oocytes is demonstrated. Normalization spike ins comprising 19 oligoribonucleotides were designed to use as an external reference for DESeq normalization. Spike in based normalization improved the quantification of predetermined fold changes. Lastly  sRNA seq on female and male zebrafish demonstrated that the higher miRNA content in males was correctly preserved post spike in based normalization.,,,,Normalization across length,SAMEA3251320,UNIVERSITY OF AMSTERDAM,ENA first public:2015 02 12|ENA last update:2015 02 12|External Id:SAMEA3251320|INSDC center alias:UNIVERSITY OF AMSTERDAM|INSDC center name:UNIVERSITY OF AMSTERDAM|INSDC first public:2015 02 12T17:06:49Z|INSDC last update:2015 02 12T09:52:20Z|INSDC status:public|Submitter Id:Female 002|common name:zebrafish|dev stage:Adult|sample name:Female 002|sex:female,,,,,,,,,Ion Torrent Proton sequencing,ena EXPERIMENT UNIVERSITY OF AMSTERDAM 12 02 2015 09:52:08:968 1,RID0035,1,,,miRNA-Seq,TRANSCRIPTOMIC,cDNA,SINGLE,ION_TORRENT,Ion Torrent Proton,,ERP007147,Ion Torrent Proton sequencing,ENA FIRST PUBLIC:2015 02 12|ENA LAST UPDATE:2018 11 16,RID0035_006.fastq.gz,fastq,193706106.0,6343893.0,ena RUN UNIVERSITY OF AMSTERDAM 12 02 2015 09:52:08:968 1,0:30.53,A:52756888;C:42895374;G:46979869;T:51073975;N:0,30,,,,52756888,42895374,46979869,51073975,0,ERX701783,ERS659466,ERA410345,UNIVERSITY OF AMSTERDAM,UNIVERSITY OF AMSTERDAM,1,0.74991,,0.41319,,0.83002,,0.55823,,8,,B,,usable mapping rate,ion_torrent,ion_torrent,unknown,small_rna,unknown,bulk,unknown,unknown,,Netherlands,2015-02-12,Adult,Adult,Undetermined,Undetermined
15506,ERR647638,ERX604074,ERS557914,ERP007147,PRJEB7420,Two Sets of Synthetic Spike in Controls for Size Selection and Data Normalisation in small RNA seq,ena-STUDY-UNIVERSITY OF AMSTERDAM-01-10-2014-14:02:22:856-622,Other,There is an increasing interest in complementing standard RNA seq experiments with small RNA expression data to obtain a comprehensive view of the transcriptome. Two aspects need to be considered when small RNA seq sRNA seq is used. First  sRNA seq protocols are size selective and typically optimized for sequencing miRNAs. Second  given the dynamic composition of the small RNA fraction a reliable normalization strategy is needed to identify differentially expressed sRNAs. To address both issues we here present two sets of synthetic RNA spike in controls for monitoring size selectivity and for performing normalization. Size spike ins comprising 18 oligoribonucleotides 10–300 nucleotides were designed and tested using controlled modifications to the size selectivity of sRNA seq. As an applied example  the loss of RNA molecules <30 nucleotides during small RNA isolation from zebrafish oocytes is demonstrated. Normalization spike ins comprising 19 oligoribonucleotides were designed to use as an external reference for DESeq normalization. Spike in based normalization improved the quantification of predetermined fold changes. Lastly  sRNA seq on female and male zebrafish demonstrated that the higher miRNA content in males was correctly preserved post spike in based normalization.,,,,Male 001,SAMEA2796299,UNIVERSITY OF AMSTERDAM,Alias:Male 001|ENA checklist:ERC000011|INSDC center alias:UNIVERSITY OF AMSTERDAM|INSDC center name:UNIVERSITY OF AMSTERDAM|INSDC first public:2014 11 29T17:02:28Z|INSDC last update:2014 10 01T14:42:44Z|INSDC status:public|SRA accession:ERS557914|Sample Name:ERS557914|Title:Male ZF|dev stage:Adult|sex:male|strain:ABxTL,,,,,,,,,Ion Torrent Proton sequencing,ena EXPERIMENT UNIVERSITY OF AMSTERDAM 01 10 2014 15:26:05:679 7,RID0015,Fold Change,,,miRNA-Seq,TRANSCRIPTOMIC,cDNA,SINGLE,ION_TORRENT,Ion Torrent Proton,,ERP007147,Ion Torrent Proton sequencing,ENA FIRST PUBLIC:2014 11 29|ENA LAST UPDATE:2018 11 16,RID0015_007.fastq.gz,fastq,181485343.0,7581675.0,ena RUN UNIVERSITY OF AMSTERDAM 01 10 2014 15:26:05:679 7,0:23.94,A:49408107;C:35660562;G:44520624;T:51896050;N:0,23,,,,49408107,35660562,44520624,51896050,0,ERX604074,ERS557914,ERA363852,UNIVERSITY OF AMSTERDAM,UNIVERSITY OF AMSTERDAM,1,0.75831,,0.16017,,0.90723,,0.48684,,13,,B,,usable mapping rate,ion_torrent,ion_torrent,unknown,small_rna,unknown,bulk,unknown,unknown,,Netherlands,2014-10-01,Adult,Adult,Undetermined,Undetermined
15507,ERR647632,ERX604068,ERS557914,ERP007147,PRJEB7420,Two Sets of Synthetic Spike in Controls for Size Selection and Data Normalisation in small RNA seq,ena-STUDY-UNIVERSITY OF AMSTERDAM-01-10-2014-14:02:22:856-622,Other,There is an increasing interest in complementing standard RNA seq experiments with small RNA expression data to obtain a comprehensive view of the transcriptome. Two aspects need to be considered when small RNA seq sRNA seq is used. First  sRNA seq protocols are size selective and typically optimized for sequencing miRNAs. Second  given the dynamic composition of the small RNA fraction a reliable normalization strategy is needed to identify differentially expressed sRNAs. To address both issues we here present two sets of synthetic RNA spike in controls for monitoring size selectivity and for performing normalization. Size spike ins comprising 18 oligoribonucleotides 10–300 nucleotides were designed and tested using controlled modifications to the size selectivity of sRNA seq. As an applied example  the loss of RNA molecules <30 nucleotides during small RNA isolation from zebrafish oocytes is demonstrated. Normalization spike ins comprising 19 oligoribonucleotides were designed to use as an external reference for DESeq normalization. Spike in based normalization improved the quantification of predetermined fold changes. Lastly  sRNA seq on female and male zebrafish demonstrated that the higher miRNA content in males was correctly preserved post spike in based normalization.,,,,Male 001,SAMEA2796299,UNIVERSITY OF AMSTERDAM,Alias:Male 001|ENA checklist:ERC000011|INSDC center alias:UNIVERSITY OF AMSTERDAM|INSDC center name:UNIVERSITY OF AMSTERDAM|INSDC first public:2014 11 29T17:02:28Z|INSDC last update:2014 10 01T14:42:44Z|INSDC status:public|SRA accession:ERS557914|Sample Name:ERS557914|Title:Male ZF|dev stage:Adult|sex:male|strain:ABxTL,,,,,,,,,Ion Torrent Proton sequencing,ena EXPERIMENT UNIVERSITY OF AMSTERDAM 01 10 2014 15:26:05:678 1,RID0015,Fold Change,,,miRNA-Seq,TRANSCRIPTOMIC,cDNA,SINGLE,ION_TORRENT,Ion Torrent Proton,,ERP007147,Ion Torrent Proton sequencing,ENA FIRST PUBLIC:2014 11 29|ENA LAST UPDATE:2018 11 16,RID0015_001.fastq.gz,fastq,158714692.0,5407747.0,ena RUN UNIVERSITY OF AMSTERDAM 01 10 2014 15:26:05:678 1,0:29.35,A:42098161;C:32991434;G:38596553;T:45028544;N:0,29,,,,42098161,32991434,38596553,45028544,0,ERX604068,ERS557914,ERA363852,UNIVERSITY OF AMSTERDAM,UNIVERSITY OF AMSTERDAM,1,0.75901,,0.20293,,0.89505,,0.48215,,24,,B,,usable mapping rate,ion_torrent,ion_torrent,unknown,small_rna,unknown,bulk,unknown,unknown,,Netherlands,2014-10-01,Adult,Adult,Undetermined,Undetermined
15508,ERR647636,ERX604072,ERS557914,ERP007147,PRJEB7420,Two Sets of Synthetic Spike in Controls for Size Selection and Data Normalisation in small RNA seq,ena-STUDY-UNIVERSITY OF AMSTERDAM-01-10-2014-14:02:22:856-622,Other,There is an increasing interest in complementing standard RNA seq experiments with small RNA expression data to obtain a comprehensive view of the transcriptome. Two aspects need to be considered when small RNA seq sRNA seq is used. First  sRNA seq protocols are size selective and typically optimized for sequencing miRNAs. Second  given the dynamic composition of the small RNA fraction a reliable normalization strategy is needed to identify differentially expressed sRNAs. To address both issues we here present two sets of synthetic RNA spike in controls for monitoring size selectivity and for performing normalization. Size spike ins comprising 18 oligoribonucleotides 10–300 nucleotides were designed and tested using controlled modifications to the size selectivity of sRNA seq. As an applied example  the loss of RNA molecules <30 nucleotides during small RNA isolation from zebrafish oocytes is demonstrated. Normalization spike ins comprising 19 oligoribonucleotides were designed to use as an external reference for DESeq normalization. Spike in based normalization improved the quantification of predetermined fold changes. Lastly  sRNA seq on female and male zebrafish demonstrated that the higher miRNA content in males was correctly preserved post spike in based normalization.,,,,Male 001,SAMEA2796299,UNIVERSITY OF AMSTERDAM,Alias:Male 001|ENA checklist:ERC000011|INSDC center alias:UNIVERSITY OF AMSTERDAM|INSDC center name:UNIVERSITY OF AMSTERDAM|INSDC first public:2014 11 29T17:02:28Z|INSDC last update:2014 10 01T14:42:44Z|INSDC status:public|SRA accession:ERS557914|Sample Name:ERS557914|Title:Male ZF|dev stage:Adult|sex:male|strain:ABxTL,,,,,,,,,Ion Torrent Proton sequencing,ena EXPERIMENT UNIVERSITY OF AMSTERDAM 01 10 2014 15:26:05:678 5,RID0015,Fold Change,,,miRNA-Seq,TRANSCRIPTOMIC,cDNA,SINGLE,ION_TORRENT,Ion Torrent Proton,,ERP007147,Ion Torrent Proton sequencing,ENA FIRST PUBLIC:2014 11 29|ENA LAST UPDATE:2018 11 16,RID0015_005.fastq.gz,fastq,124167412.0,4838491.0,ena RUN UNIVERSITY OF AMSTERDAM 01 10 2014 15:26:05:678 5,0:25.66,A:33439510;C:24728035;G:30897675;T:35102192;N:0,25,,,,33439510,24728035,30897675,35102192,0,ERX604072,ERS557914,ERA363852,UNIVERSITY OF AMSTERDAM,UNIVERSITY OF AMSTERDAM,1,0.76027,,0.17783,,0.89692,,0.48421,,30,,B,,usable mapping rate,ion_torrent,ion_torrent,unknown,small_rna,unknown,bulk,unknown,unknown,,Netherlands,2014-10-01,Adult,Adult,Undetermined,Undetermined
15509,ERR647635,ERX604071,ERS557914,ERP007147,PRJEB7420,Two Sets of Synthetic Spike in Controls for Size Selection and Data Normalisation in small RNA seq,ena-STUDY-UNIVERSITY OF AMSTERDAM-01-10-2014-14:02:22:856-622,Other,There is an increasing interest in complementing standard RNA seq experiments with small RNA expression data to obtain a comprehensive view of the transcriptome. Two aspects need to be considered when small RNA seq sRNA seq is used. First  sRNA seq protocols are size selective and typically optimized for sequencing miRNAs. Second  given the dynamic composition of the small RNA fraction a reliable normalization strategy is needed to identify differentially expressed sRNAs. To address both issues we here present two sets of synthetic RNA spike in controls for monitoring size selectivity and for performing normalization. Size spike ins comprising 18 oligoribonucleotides 10–300 nucleotides were designed and tested using controlled modifications to the size selectivity of sRNA seq. As an applied example  the loss of RNA molecules <30 nucleotides during small RNA isolation from zebrafish oocytes is demonstrated. Normalization spike ins comprising 19 oligoribonucleotides were designed to use as an external reference for DESeq normalization. Spike in based normalization improved the quantification of predetermined fold changes. Lastly  sRNA seq on female and male zebrafish demonstrated that the higher miRNA content in males was correctly preserved post spike in based normalization.,,,,Male 001,SAMEA2796299,UNIVERSITY OF AMSTERDAM,Alias:Male 001|ENA checklist:ERC000011|INSDC center alias:UNIVERSITY OF AMSTERDAM|INSDC center name:UNIVERSITY OF AMSTERDAM|INSDC first public:2014 11 29T17:02:28Z|INSDC last update:2014 10 01T14:42:44Z|INSDC status:public|SRA accession:ERS557914|Sample Name:ERS557914|Title:Male ZF|dev stage:Adult|sex:male|strain:ABxTL,,,,,,,,,Ion Torrent Proton sequencing,ena EXPERIMENT UNIVERSITY OF AMSTERDAM 01 10 2014 15:26:05:678 4,RID0015,Fold Change,,,miRNA-Seq,TRANSCRIPTOMIC,cDNA,SINGLE,ION_TORRENT,Ion Torrent Proton,,ERP007147,Ion Torrent Proton sequencing,ENA FIRST PUBLIC:2014 11 29|ENA LAST UPDATE:2018 11 16,RID0015_004.fastq.gz,fastq,124786630.0,4701452.0,ena RUN UNIVERSITY OF AMSTERDAM 01 10 2014 15:26:05:678 4,0:26.54,A:33803418;C:24800330;G:30482560;T:35700322;N:0,26,,,,33803418,24800330,30482560,35700322,0,ERX604071,ERS557914,ERA363852,UNIVERSITY OF AMSTERDAM,UNIVERSITY OF AMSTERDAM,1,0.74872,,0.18448,,0.89789,,0.50377,,12,,B,,usable mapping rate,ion_torrent,ion_torrent,unknown,small_rna,unknown,bulk,unknown,unknown,,Netherlands,2014-10-01,Adult,Adult,Undetermined,Undetermined
15510,ERR647634,ERX604070,ERS557914,ERP007147,PRJEB7420,Two Sets of Synthetic Spike in Controls for Size Selection and Data Normalisation in small RNA seq,ena-STUDY-UNIVERSITY OF AMSTERDAM-01-10-2014-14:02:22:856-622,Other,There is an increasing interest in complementing standard RNA seq experiments with small RNA expression data to obtain a comprehensive view of the transcriptome. Two aspects need to be considered when small RNA seq sRNA seq is used. First  sRNA seq protocols are size selective and typically optimized for sequencing miRNAs. Second  given the dynamic composition of the small RNA fraction a reliable normalization strategy is needed to identify differentially expressed sRNAs. To address both issues we here present two sets of synthetic RNA spike in controls for monitoring size selectivity and for performing normalization. Size spike ins comprising 18 oligoribonucleotides 10–300 nucleotides were designed and tested using controlled modifications to the size selectivity of sRNA seq. As an applied example  the loss of RNA molecules <30 nucleotides during small RNA isolation from zebrafish oocytes is demonstrated. Normalization spike ins comprising 19 oligoribonucleotides were designed to use as an external reference for DESeq normalization. Spike in based normalization improved the quantification of predetermined fold changes. Lastly  sRNA seq on female and male zebrafish demonstrated that the higher miRNA content in males was correctly preserved post spike in based normalization.,,,,Male 001,SAMEA2796299,UNIVERSITY OF AMSTERDAM,Alias:Male 001|ENA checklist:ERC000011|INSDC center alias:UNIVERSITY OF AMSTERDAM|INSDC center name:UNIVERSITY OF AMSTERDAM|INSDC first public:2014 11 29T17:02:28Z|INSDC last update:2014 10 01T14:42:44Z|INSDC status:public|SRA accession:ERS557914|Sample Name:ERS557914|Title:Male ZF|dev stage:Adult|sex:male|strain:ABxTL,,,,,,,,,Ion Torrent Proton sequencing,ena EXPERIMENT UNIVERSITY OF AMSTERDAM 01 10 2014 15:26:05:678 3,RID0015,Fold Change,,,miRNA-Seq,TRANSCRIPTOMIC,cDNA,SINGLE,ION_TORRENT,Ion Torrent Proton,,ERP007147,Ion Torrent Proton sequencing,ENA FIRST PUBLIC:2014 11 29|ENA LAST UPDATE:2018 11 16,RID0015_003.fastq.gz,fastq,110526752.0,4078127.0,ena RUN UNIVERSITY OF AMSTERDAM 01 10 2014 15:26:05:678 3,0:27.10,A:29453167;C:22981184;G:27444083;T:30648318;N:0,27,,,,29453167,22981184,27444083,30648318,0,ERX604070,ERS557914,ERA363852,UNIVERSITY OF AMSTERDAM,UNIVERSITY OF AMSTERDAM,1,0.73961,,0.1804,,0.89686,,0.50069,,22,,B,,usable mapping rate,ion_torrent,ion_torrent,unknown,small_rna,unknown,bulk,unknown,unknown,,Netherlands,2014-10-01,Adult,Adult,Undetermined,Undetermined
15511,ERR647633,ERX604069,ERS557914,ERP007147,PRJEB7420,Two Sets of Synthetic Spike in Controls for Size Selection and Data Normalisation in small RNA seq,ena-STUDY-UNIVERSITY OF AMSTERDAM-01-10-2014-14:02:22:856-622,Other,There is an increasing interest in complementing standard RNA seq experiments with small RNA expression data to obtain a comprehensive view of the transcriptome. Two aspects need to be considered when small RNA seq sRNA seq is used. First  sRNA seq protocols are size selective and typically optimized for sequencing miRNAs. Second  given the dynamic composition of the small RNA fraction a reliable normalization strategy is needed to identify differentially expressed sRNAs. To address both issues we here present two sets of synthetic RNA spike in controls for monitoring size selectivity and for performing normalization. Size spike ins comprising 18 oligoribonucleotides 10–300 nucleotides were designed and tested using controlled modifications to the size selectivity of sRNA seq. As an applied example  the loss of RNA molecules <30 nucleotides during small RNA isolation from zebrafish oocytes is demonstrated. Normalization spike ins comprising 19 oligoribonucleotides were designed to use as an external reference for DESeq normalization. Spike in based normalization improved the quantification of predetermined fold changes. Lastly  sRNA seq on female and male zebrafish demonstrated that the higher miRNA content in males was correctly preserved post spike in based normalization.,,,,Male 001,SAMEA2796299,UNIVERSITY OF AMSTERDAM,Alias:Male 001|ENA checklist:ERC000011|INSDC center alias:UNIVERSITY OF AMSTERDAM|INSDC center name:UNIVERSITY OF AMSTERDAM|INSDC first public:2014 11 29T17:02:28Z|INSDC last update:2014 10 01T14:42:44Z|INSDC status:public|SRA accession:ERS557914|Sample Name:ERS557914|Title:Male ZF|dev stage:Adult|sex:male|strain:ABxTL,,,,,,,,,Ion Torrent Proton sequencing,ena EXPERIMENT UNIVERSITY OF AMSTERDAM 01 10 2014 15:26:05:678 2,RID0015,Fold Change,,,miRNA-Seq,TRANSCRIPTOMIC,cDNA,SINGLE,ION_TORRENT,Ion Torrent Proton,,ERP007147,Ion Torrent Proton sequencing,ENA FIRST PUBLIC:2014 11 29|ENA LAST UPDATE:2018 11 16,RID0015_002.fastq.gz,fastq,114721515.0,4468497.0,ena RUN UNIVERSITY OF AMSTERDAM 01 10 2014 15:26:05:678 2,0:25.67,A:31387085;C:22123581;G:28270438;T:32940411;N:0,25,,,,31387085,22123581,28270438,32940411,0,ERX604069,ERS557914,ERA363852,UNIVERSITY OF AMSTERDAM,UNIVERSITY OF AMSTERDAM,1,0.75767,,0.17199,,0.90118,,0.49949,,22,,B,,usable mapping rate,ion_torrent,ion_torrent,unknown,small_rna,unknown,bulk,unknown,unknown,,Netherlands,2014-10-01,Adult,Adult,Undetermined,Undetermined
15512,ERR647645,ERX604081,ERS557914,ERP007147,PRJEB7420,Two Sets of Synthetic Spike in Controls for Size Selection and Data Normalisation in small RNA seq,ena-STUDY-UNIVERSITY OF AMSTERDAM-01-10-2014-14:02:22:856-622,Other,There is an increasing interest in complementing standard RNA seq experiments with small RNA expression data to obtain a comprehensive view of the transcriptome. Two aspects need to be considered when small RNA seq sRNA seq is used. First  sRNA seq protocols are size selective and typically optimized for sequencing miRNAs. Second  given the dynamic composition of the small RNA fraction a reliable normalization strategy is needed to identify differentially expressed sRNAs. To address both issues we here present two sets of synthetic RNA spike in controls for monitoring size selectivity and for performing normalization. Size spike ins comprising 18 oligoribonucleotides 10–300 nucleotides were designed and tested using controlled modifications to the size selectivity of sRNA seq. As an applied example  the loss of RNA molecules <30 nucleotides during small RNA isolation from zebrafish oocytes is demonstrated. Normalization spike ins comprising 19 oligoribonucleotides were designed to use as an external reference for DESeq normalization. Spike in based normalization improved the quantification of predetermined fold changes. Lastly  sRNA seq on female and male zebrafish demonstrated that the higher miRNA content in males was correctly preserved post spike in based normalization.,,,,Male 001,SAMEA2796299,UNIVERSITY OF AMSTERDAM,Alias:Male 001|ENA checklist:ERC000011|INSDC center alias:UNIVERSITY OF AMSTERDAM|INSDC center name:UNIVERSITY OF AMSTERDAM|INSDC first public:2014 11 29T17:02:28Z|INSDC last update:2014 10 01T14:42:44Z|INSDC status:public|SRA accession:ERS557914|Sample Name:ERS557914|Title:Male ZF|dev stage:Adult|sex:male|strain:ABxTL,,,,,,,,,Ion Torrent Proton sequencing,ena EXPERIMENT UNIVERSITY OF AMSTERDAM 01 10 2014 15:26:05:679 14,RID0015,Reproducibility,,,miRNA-Seq,TRANSCRIPTOMIC,cDNA,SINGLE,ION_TORRENT,Ion Torrent Proton,,ERP007147,Ion Torrent Proton sequencing,ENA FIRST PUBLIC:2014 11 29|ENA LAST UPDATE:2018 11 16,RID0015_014.fastq.gz,fastq,127742942.0,5487454.0,ena RUN UNIVERSITY OF AMSTERDAM 01 10 2014 15:26:05:679 14,0:23.28,A:35700746;C:25577569;G:31187339;T:35277288;N:0,23,,,,35700746,25577569,31187339,35277288,0,ERX604081,ERS557914,ERA363852,UNIVERSITY OF AMSTERDAM,UNIVERSITY OF AMSTERDAM,1,0.72451,,0.1507,,0.91078,,0.47283,,30,,B,,usable mapping rate,ion_torrent,ion_torrent,unknown,small_rna,unknown,bulk,unknown,unknown,,Netherlands,2014-10-01,Adult,Adult,Undetermined,Undetermined
15513,ERR647644,ERX604080,ERS557914,ERP007147,PRJEB7420,Two Sets of Synthetic Spike in Controls for Size Selection and Data Normalisation in small RNA seq,ena-STUDY-UNIVERSITY OF AMSTERDAM-01-10-2014-14:02:22:856-622,Other,There is an increasing interest in complementing standard RNA seq experiments with small RNA expression data to obtain a comprehensive view of the transcriptome. Two aspects need to be considered when small RNA seq sRNA seq is used. First  sRNA seq protocols are size selective and typically optimized for sequencing miRNAs. Second  given the dynamic composition of the small RNA fraction a reliable normalization strategy is needed to identify differentially expressed sRNAs. To address both issues we here present two sets of synthetic RNA spike in controls for monitoring size selectivity and for performing normalization. Size spike ins comprising 18 oligoribonucleotides 10–300 nucleotides were designed and tested using controlled modifications to the size selectivity of sRNA seq. As an applied example  the loss of RNA molecules <30 nucleotides during small RNA isolation from zebrafish oocytes is demonstrated. Normalization spike ins comprising 19 oligoribonucleotides were designed to use as an external reference for DESeq normalization. Spike in based normalization improved the quantification of predetermined fold changes. Lastly  sRNA seq on female and male zebrafish demonstrated that the higher miRNA content in males was correctly preserved post spike in based normalization.,,,,Male 001,SAMEA2796299,UNIVERSITY OF AMSTERDAM,Alias:Male 001|ENA checklist:ERC000011|INSDC center alias:UNIVERSITY OF AMSTERDAM|INSDC center name:UNIVERSITY OF AMSTERDAM|INSDC first public:2014 11 29T17:02:28Z|INSDC last update:2014 10 01T14:42:44Z|INSDC status:public|SRA accession:ERS557914|Sample Name:ERS557914|Title:Male ZF|dev stage:Adult|sex:male|strain:ABxTL,,,,,,,,,Ion Torrent Proton sequencing,ena EXPERIMENT UNIVERSITY OF AMSTERDAM 01 10 2014 15:26:05:679 13,RID0015,Reproducibility,,,miRNA-Seq,TRANSCRIPTOMIC,cDNA,SINGLE,ION_TORRENT,Ion Torrent Proton,,ERP007147,Ion Torrent Proton sequencing,ENA FIRST PUBLIC:2014 11 29|ENA LAST UPDATE:2018 11 16,RID0015_013.fastq.gz,fastq,175319872.0,7193103.0,ena RUN UNIVERSITY OF AMSTERDAM 01 10 2014 15:26:05:679 13,0:24.37,A:48008107;C:34657005;G:43047489;T:49607271;N:0,24,,,,48008107,34657005,43047489,49607271,0,ERX604080,ERS557914,ERA363852,UNIVERSITY OF AMSTERDAM,UNIVERSITY OF AMSTERDAM,1,0.75539,,0.16288,,0.90388,,0.47538,,22,,B,,usable mapping rate,ion_torrent,ion_torrent,unknown,small_rna,unknown,bulk,unknown,unknown,,Netherlands,2014-10-01,Adult,Adult,Undetermined,Undetermined
15514,ERR647643,ERX604079,ERS557914,ERP007147,PRJEB7420,Two Sets of Synthetic Spike in Controls for Size Selection and Data Normalisation in small RNA seq,ena-STUDY-UNIVERSITY OF AMSTERDAM-01-10-2014-14:02:22:856-622,Other,There is an increasing interest in complementing standard RNA seq experiments with small RNA expression data to obtain a comprehensive view of the transcriptome. Two aspects need to be considered when small RNA seq sRNA seq is used. First  sRNA seq protocols are size selective and typically optimized for sequencing miRNAs. Second  given the dynamic composition of the small RNA fraction a reliable normalization strategy is needed to identify differentially expressed sRNAs. To address both issues we here present two sets of synthetic RNA spike in controls for monitoring size selectivity and for performing normalization. Size spike ins comprising 18 oligoribonucleotides 10–300 nucleotides were designed and tested using controlled modifications to the size selectivity of sRNA seq. As an applied example  the loss of RNA molecules <30 nucleotides during small RNA isolation from zebrafish oocytes is demonstrated. Normalization spike ins comprising 19 oligoribonucleotides were designed to use as an external reference for DESeq normalization. Spike in based normalization improved the quantification of predetermined fold changes. Lastly  sRNA seq on female and male zebrafish demonstrated that the higher miRNA content in males was correctly preserved post spike in based normalization.,,,,Male 001,SAMEA2796299,UNIVERSITY OF AMSTERDAM,Alias:Male 001|ENA checklist:ERC000011|INSDC center alias:UNIVERSITY OF AMSTERDAM|INSDC center name:UNIVERSITY OF AMSTERDAM|INSDC first public:2014 11 29T17:02:28Z|INSDC last update:2014 10 01T14:42:44Z|INSDC status:public|SRA accession:ERS557914|Sample Name:ERS557914|Title:Male ZF|dev stage:Adult|sex:male|strain:ABxTL,,,,,,,,,Ion Torrent Proton sequencing,ena EXPERIMENT UNIVERSITY OF AMSTERDAM 01 10 2014 15:26:05:679 12,RID0015,Reproducibility,,,miRNA-Seq,TRANSCRIPTOMIC,cDNA,SINGLE,ION_TORRENT,Ion Torrent Proton,,ERP007147,Ion Torrent Proton sequencing,ENA FIRST PUBLIC:2014 11 29|ENA LAST UPDATE:2018 11 16,RID0015_012.fastq.gz,fastq,177443752.0,7567733.0,ena RUN UNIVERSITY OF AMSTERDAM 01 10 2014 15:26:05:679 12,0:23.45,A:48143286;C:36300870;G:44060167;T:48939429;N:0,23,,,,48143286,36300870,44060167,48939429,0,ERX604079,ERS557914,ERA363852,UNIVERSITY OF AMSTERDAM,UNIVERSITY OF AMSTERDAM,1,0.74839,,0.15018,,0.90782,,0.49076,,27,,B,,usable mapping rate,ion_torrent,ion_torrent,unknown,small_rna,unknown,bulk,unknown,unknown,,Netherlands,2014-10-01,Adult,Adult,Undetermined,Undetermined
15515,ERR647642,ERX604078,ERS557914,ERP007147,PRJEB7420,Two Sets of Synthetic Spike in Controls for Size Selection and Data Normalisation in small RNA seq,ena-STUDY-UNIVERSITY OF AMSTERDAM-01-10-2014-14:02:22:856-622,Other,There is an increasing interest in complementing standard RNA seq experiments with small RNA expression data to obtain a comprehensive view of the transcriptome. Two aspects need to be considered when small RNA seq sRNA seq is used. First  sRNA seq protocols are size selective and typically optimized for sequencing miRNAs. Second  given the dynamic composition of the small RNA fraction a reliable normalization strategy is needed to identify differentially expressed sRNAs. To address both issues we here present two sets of synthetic RNA spike in controls for monitoring size selectivity and for performing normalization. Size spike ins comprising 18 oligoribonucleotides 10–300 nucleotides were designed and tested using controlled modifications to the size selectivity of sRNA seq. As an applied example  the loss of RNA molecules <30 nucleotides during small RNA isolation from zebrafish oocytes is demonstrated. Normalization spike ins comprising 19 oligoribonucleotides were designed to use as an external reference for DESeq normalization. Spike in based normalization improved the quantification of predetermined fold changes. Lastly  sRNA seq on female and male zebrafish demonstrated that the higher miRNA content in males was correctly preserved post spike in based normalization.,,,,Male 001,SAMEA2796299,UNIVERSITY OF AMSTERDAM,Alias:Male 001|ENA checklist:ERC000011|INSDC center alias:UNIVERSITY OF AMSTERDAM|INSDC center name:UNIVERSITY OF AMSTERDAM|INSDC first public:2014 11 29T17:02:28Z|INSDC last update:2014 10 01T14:42:44Z|INSDC status:public|SRA accession:ERS557914|Sample Name:ERS557914|Title:Male ZF|dev stage:Adult|sex:male|strain:ABxTL,,,,,,,,,Ion Torrent Proton sequencing,ena EXPERIMENT UNIVERSITY OF AMSTERDAM 01 10 2014 15:26:05:679 11,RID0015,Reproducibility,,,miRNA-Seq,TRANSCRIPTOMIC,cDNA,SINGLE,ION_TORRENT,Ion Torrent Proton,,ERP007147,Ion Torrent Proton sequencing,ENA FIRST PUBLIC:2014 11 29|ENA LAST UPDATE:2018 11 16,RID0015_011.fastq.gz,fastq,163389373.0,6320373.0,ena RUN UNIVERSITY OF AMSTERDAM 01 10 2014 15:26:05:679 11,0:25.85,A:44540588;C:32608476;G:40066295;T:46174014;N:0,25,,,,44540588,32608476,40066295,46174014,0,ERX604078,ERS557914,ERA363852,UNIVERSITY OF AMSTERDAM,UNIVERSITY OF AMSTERDAM,1,0.75948,,0.17375,,0.90252,,0.47536,,33,,B,,usable mapping rate,ion_torrent,ion_torrent,unknown,small_rna,unknown,bulk,unknown,unknown,,Netherlands,2014-10-01,Adult,Adult,Undetermined,Undetermined
15516,ERR647641,ERX604077,ERS557914,ERP007147,PRJEB7420,Two Sets of Synthetic Spike in Controls for Size Selection and Data Normalisation in small RNA seq,ena-STUDY-UNIVERSITY OF AMSTERDAM-01-10-2014-14:02:22:856-622,Other,There is an increasing interest in complementing standard RNA seq experiments with small RNA expression data to obtain a comprehensive view of the transcriptome. Two aspects need to be considered when small RNA seq sRNA seq is used. First  sRNA seq protocols are size selective and typically optimized for sequencing miRNAs. Second  given the dynamic composition of the small RNA fraction a reliable normalization strategy is needed to identify differentially expressed sRNAs. To address both issues we here present two sets of synthetic RNA spike in controls for monitoring size selectivity and for performing normalization. Size spike ins comprising 18 oligoribonucleotides 10–300 nucleotides were designed and tested using controlled modifications to the size selectivity of sRNA seq. As an applied example  the loss of RNA molecules <30 nucleotides during small RNA isolation from zebrafish oocytes is demonstrated. Normalization spike ins comprising 19 oligoribonucleotides were designed to use as an external reference for DESeq normalization. Spike in based normalization improved the quantification of predetermined fold changes. Lastly  sRNA seq on female and male zebrafish demonstrated that the higher miRNA content in males was correctly preserved post spike in based normalization.,,,,Male 001,SAMEA2796299,UNIVERSITY OF AMSTERDAM,Alias:Male 001|ENA checklist:ERC000011|INSDC center alias:UNIVERSITY OF AMSTERDAM|INSDC center name:UNIVERSITY OF AMSTERDAM|INSDC first public:2014 11 29T17:02:28Z|INSDC last update:2014 10 01T14:42:44Z|INSDC status:public|SRA accession:ERS557914|Sample Name:ERS557914|Title:Male ZF|dev stage:Adult|sex:male|strain:ABxTL,,,,,,,,,Ion Torrent Proton sequencing,ena EXPERIMENT UNIVERSITY OF AMSTERDAM 01 10 2014 15:26:05:679 10,RID0015,Reproducibility,,,miRNA-Seq,TRANSCRIPTOMIC,cDNA,SINGLE,ION_TORRENT,Ion Torrent Proton,,ERP007147,Ion Torrent Proton sequencing,ENA FIRST PUBLIC:2014 11 29|ENA LAST UPDATE:2018 11 16,RID0015_010.fastq.gz,fastq,128059692.0,5701206.0,ena RUN UNIVERSITY OF AMSTERDAM 01 10 2014 15:26:05:679 10,0:22.46,A:35418188;C:24802528;G:31593786;T:36245190;N:0,22,,,,35418188,24802528,31593786,36245190,0,ERX604077,ERS557914,ERA363852,UNIVERSITY OF AMSTERDAM,UNIVERSITY OF AMSTERDAM,1,0.72586,,0.1331,,0.92514,,0.4216,,22,,B,,usable mapping rate,ion_torrent,ion_torrent,unknown,small_rna,unknown,bulk,unknown,unknown,,Netherlands,2014-10-01,Adult,Adult,Undetermined,Undetermined
15517,ERR647637,ERX604073,ERS557914,ERP007147,PRJEB7420,Two Sets of Synthetic Spike in Controls for Size Selection and Data Normalisation in small RNA seq,ena-STUDY-UNIVERSITY OF AMSTERDAM-01-10-2014-14:02:22:856-622,Other,There is an increasing interest in complementing standard RNA seq experiments with small RNA expression data to obtain a comprehensive view of the transcriptome. Two aspects need to be considered when small RNA seq sRNA seq is used. First  sRNA seq protocols are size selective and typically optimized for sequencing miRNAs. Second  given the dynamic composition of the small RNA fraction a reliable normalization strategy is needed to identify differentially expressed sRNAs. To address both issues we here present two sets of synthetic RNA spike in controls for monitoring size selectivity and for performing normalization. Size spike ins comprising 18 oligoribonucleotides 10–300 nucleotides were designed and tested using controlled modifications to the size selectivity of sRNA seq. As an applied example  the loss of RNA molecules <30 nucleotides during small RNA isolation from zebrafish oocytes is demonstrated. Normalization spike ins comprising 19 oligoribonucleotides were designed to use as an external reference for DESeq normalization. Spike in based normalization improved the quantification of predetermined fold changes. Lastly  sRNA seq on female and male zebrafish demonstrated that the higher miRNA content in males was correctly preserved post spike in based normalization.,,,,Male 001,SAMEA2796299,UNIVERSITY OF AMSTERDAM,Alias:Male 001|ENA checklist:ERC000011|INSDC center alias:UNIVERSITY OF AMSTERDAM|INSDC center name:UNIVERSITY OF AMSTERDAM|INSDC first public:2014 11 29T17:02:28Z|INSDC last update:2014 10 01T14:42:44Z|INSDC status:public|SRA accession:ERS557914|Sample Name:ERS557914|Title:Male ZF|dev stage:Adult|sex:male|strain:ABxTL,,,,,,,,,Ion Torrent Proton sequencing,ena EXPERIMENT UNIVERSITY OF AMSTERDAM 01 10 2014 15:26:05:678 6,RID0015,Fold Change,,,miRNA-Seq,TRANSCRIPTOMIC,cDNA,SINGLE,ION_TORRENT,Ion Torrent Proton,,ERP007147,Ion Torrent Proton sequencing,ENA FIRST PUBLIC:2014 11 29|ENA LAST UPDATE:2018 11 16,RID0015_006.fastq.gz,fastq,165327404.0,6835740.0,ena RUN UNIVERSITY OF AMSTERDAM 01 10 2014 15:26:05:679 6,0:24.19,A:45252916;C:32442683;G:40306020;T:47325785;N:0,24,,,,45252916,32442683,40306020,47325785,0,ERX604073,ERS557914,ERA363852,UNIVERSITY OF AMSTERDAM,UNIVERSITY OF AMSTERDAM,1,0.74944,,0.16,,0.91068,,0.47704,,21,,B,,usable mapping rate,ion_torrent,ion_torrent,unknown,small_rna,unknown,bulk,unknown,unknown,,Netherlands,2014-10-01,Adult,Adult,Undetermined,Undetermined
15518,ERR647640,ERX604076,ERS557914,ERP007147,PRJEB7420,Two Sets of Synthetic Spike in Controls for Size Selection and Data Normalisation in small RNA seq,ena-STUDY-UNIVERSITY OF AMSTERDAM-01-10-2014-14:02:22:856-622,Other,There is an increasing interest in complementing standard RNA seq experiments with small RNA expression data to obtain a comprehensive view of the transcriptome. Two aspects need to be considered when small RNA seq sRNA seq is used. First  sRNA seq protocols are size selective and typically optimized for sequencing miRNAs. Second  given the dynamic composition of the small RNA fraction a reliable normalization strategy is needed to identify differentially expressed sRNAs. To address both issues we here present two sets of synthetic RNA spike in controls for monitoring size selectivity and for performing normalization. Size spike ins comprising 18 oligoribonucleotides 10–300 nucleotides were designed and tested using controlled modifications to the size selectivity of sRNA seq. As an applied example  the loss of RNA molecules <30 nucleotides during small RNA isolation from zebrafish oocytes is demonstrated. Normalization spike ins comprising 19 oligoribonucleotides were designed to use as an external reference for DESeq normalization. Spike in based normalization improved the quantification of predetermined fold changes. Lastly  sRNA seq on female and male zebrafish demonstrated that the higher miRNA content in males was correctly preserved post spike in based normalization.,,,,Male 001,SAMEA2796299,UNIVERSITY OF AMSTERDAM,Alias:Male 001|ENA checklist:ERC000011|INSDC center alias:UNIVERSITY OF AMSTERDAM|INSDC center name:UNIVERSITY OF AMSTERDAM|INSDC first public:2014 11 29T17:02:28Z|INSDC last update:2014 10 01T14:42:44Z|INSDC status:public|SRA accession:ERS557914|Sample Name:ERS557914|Title:Male ZF|dev stage:Adult|sex:male|strain:ABxTL,,,,,,,,,Ion Torrent Proton sequencing,ena EXPERIMENT UNIVERSITY OF AMSTERDAM 01 10 2014 15:26:05:679 9,RID0015,Reproducibility,,,miRNA-Seq,TRANSCRIPTOMIC,cDNA,SINGLE,ION_TORRENT,Ion Torrent Proton,,ERP007147,Ion Torrent Proton sequencing,ENA FIRST PUBLIC:2014 11 29|ENA LAST UPDATE:2018 11 16,RID0015_009.fastq.gz,fastq,134426587.0,5846482.0,ena RUN UNIVERSITY OF AMSTERDAM 01 10 2014 15:26:05:679 9,0:22.99,A:36803811;C:26283055;G:33442229;T:37897492;N:0,22,,,,36803811,26283055,33442229,37897492,0,ERX604076,ERS557914,ERA363852,UNIVERSITY OF AMSTERDAM,UNIVERSITY OF AMSTERDAM,1,0.74219,,0.13958,,0.91837,,0.47819,,22,,B,,usable mapping rate,ion_torrent,ion_torrent,unknown,small_rna,unknown,bulk,unknown,unknown,,Netherlands,2014-10-01,Adult,Adult,Undetermined,Undetermined
15519,ERR647639,ERX604075,ERS557914,ERP007147,PRJEB7420,Two Sets of Synthetic Spike in Controls for Size Selection and Data Normalisation in small RNA seq,ena-STUDY-UNIVERSITY OF AMSTERDAM-01-10-2014-14:02:22:856-622,Other,There is an increasing interest in complementing standard RNA seq experiments with small RNA expression data to obtain a comprehensive view of the transcriptome. Two aspects need to be considered when small RNA seq sRNA seq is used. First  sRNA seq protocols are size selective and typically optimized for sequencing miRNAs. Second  given the dynamic composition of the small RNA fraction a reliable normalization strategy is needed to identify differentially expressed sRNAs. To address both issues we here present two sets of synthetic RNA spike in controls for monitoring size selectivity and for performing normalization. Size spike ins comprising 18 oligoribonucleotides 10–300 nucleotides were designed and tested using controlled modifications to the size selectivity of sRNA seq. As an applied example  the loss of RNA molecules <30 nucleotides during small RNA isolation from zebrafish oocytes is demonstrated. Normalization spike ins comprising 19 oligoribonucleotides were designed to use as an external reference for DESeq normalization. Spike in based normalization improved the quantification of predetermined fold changes. Lastly  sRNA seq on female and male zebrafish demonstrated that the higher miRNA content in males was correctly preserved post spike in based normalization.,,,,Male 001,SAMEA2796299,UNIVERSITY OF AMSTERDAM,Alias:Male 001|ENA checklist:ERC000011|INSDC center alias:UNIVERSITY OF AMSTERDAM|INSDC center name:UNIVERSITY OF AMSTERDAM|INSDC first public:2014 11 29T17:02:28Z|INSDC last update:2014 10 01T14:42:44Z|INSDC status:public|SRA accession:ERS557914|Sample Name:ERS557914|Title:Male ZF|dev stage:Adult|sex:male|strain:ABxTL,,,,,,,,,Ion Torrent Proton sequencing,ena EXPERIMENT UNIVERSITY OF AMSTERDAM 01 10 2014 15:26:05:679 8,RID0015,Fold Change,,,miRNA-Seq,TRANSCRIPTOMIC,cDNA,SINGLE,ION_TORRENT,Ion Torrent Proton,,ERP007147,Ion Torrent Proton sequencing,ENA FIRST PUBLIC:2014 11 29|ENA LAST UPDATE:2018 11 16,RID0015_008.fastq.gz,fastq,164369360.0,6762174.0,ena RUN UNIVERSITY OF AMSTERDAM 01 10 2014 15:26:05:679 8,0:24.31,A:44826982;C:33030972;G:40615427;T:45895979;N:0,24,,,,44826982,33030972,40615427,45895979,0,ERX604075,ERS557914,ERA363852,UNIVERSITY OF AMSTERDAM,UNIVERSITY OF AMSTERDAM,1,0.75513,,0.16254,,0.90534,,0.50535,,22,,B,,usable mapping rate,ion_torrent,ion_torrent,unknown,small_rna,unknown,bulk,unknown,unknown,,Netherlands,2014-10-01,Adult,Adult,Undetermined,Undetermined
15520,ERR647623,ERX604059,ERS557914,ERP007147,PRJEB7420,Two Sets of Synthetic Spike in Controls for Size Selection and Data Normalisation in small RNA seq,ena-STUDY-UNIVERSITY OF AMSTERDAM-01-10-2014-14:02:22:856-622,Other,There is an increasing interest in complementing standard RNA seq experiments with small RNA expression data to obtain a comprehensive view of the transcriptome. Two aspects need to be considered when small RNA seq sRNA seq is used. First  sRNA seq protocols are size selective and typically optimized for sequencing miRNAs. Second  given the dynamic composition of the small RNA fraction a reliable normalization strategy is needed to identify differentially expressed sRNAs. To address both issues we here present two sets of synthetic RNA spike in controls for monitoring size selectivity and for performing normalization. Size spike ins comprising 18 oligoribonucleotides 10–300 nucleotides were designed and tested using controlled modifications to the size selectivity of sRNA seq. As an applied example  the loss of RNA molecules <30 nucleotides during small RNA isolation from zebrafish oocytes is demonstrated. Normalization spike ins comprising 19 oligoribonucleotides were designed to use as an external reference for DESeq normalization. Spike in based normalization improved the quantification of predetermined fold changes. Lastly  sRNA seq on female and male zebrafish demonstrated that the higher miRNA content in males was correctly preserved post spike in based normalization.,,,,Male 001,SAMEA2796299,UNIVERSITY OF AMSTERDAM,Alias:Male 001|ENA checklist:ERC000011|INSDC center alias:UNIVERSITY OF AMSTERDAM|INSDC center name:UNIVERSITY OF AMSTERDAM|INSDC first public:2014 11 29T17:02:28Z|INSDC last update:2014 10 01T14:42:44Z|INSDC status:public|SRA accession:ERS557914|Sample Name:ERS557914|Title:Male ZF|dev stage:Adult|sex:male|strain:ABxTL,,,,,,,,,Ion Torrent Proton sequencing,ena EXPERIMENT UNIVERSITY OF AMSTERDAM 01 10 2014 15:08:22:087 8,RID0017,EtOH conc. experiment,,,miRNA-Seq,TRANSCRIPTOMIC,cDNA,SINGLE,ION_TORRENT,Ion Torrent Proton,,ERP007147,Ion Torrent Proton sequencing,ENA FIRST PUBLIC:2014 11 29|ENA LAST UPDATE:2018 11 16,RID0017_008.fastq.gz,fastq,198146766.0,7373392.0,ena RUN UNIVERSITY OF AMSTERDAM 01 10 2014 15:08:22:087 8,0:26.87,A:50518864;C:42346985;G:50683068;T:54597849;N:0,26,,,,50518864,42346985,50683068,54597849,0,ERX604059,ERS557914,ERA363851,UNIVERSITY OF AMSTERDAM,UNIVERSITY OF AMSTERDAM,1,0.73719,,0.16567,,0.89869,,0.49695,,76,,B,,usable mapping rate,ion_torrent,ion_torrent,unknown,small_rna,unknown,bulk,unknown,unknown,,Netherlands,2014-10-01,Adult,Adult,Undetermined,Undetermined
15521,ERR647622,ERX604058,ERS557914,ERP007147,PRJEB7420,Two Sets of Synthetic Spike in Controls for Size Selection and Data Normalisation in small RNA seq,ena-STUDY-UNIVERSITY OF AMSTERDAM-01-10-2014-14:02:22:856-622,Other,There is an increasing interest in complementing standard RNA seq experiments with small RNA expression data to obtain a comprehensive view of the transcriptome. Two aspects need to be considered when small RNA seq sRNA seq is used. First  sRNA seq protocols are size selective and typically optimized for sequencing miRNAs. Second  given the dynamic composition of the small RNA fraction a reliable normalization strategy is needed to identify differentially expressed sRNAs. To address both issues we here present two sets of synthetic RNA spike in controls for monitoring size selectivity and for performing normalization. Size spike ins comprising 18 oligoribonucleotides 10–300 nucleotides were designed and tested using controlled modifications to the size selectivity of sRNA seq. As an applied example  the loss of RNA molecules <30 nucleotides during small RNA isolation from zebrafish oocytes is demonstrated. Normalization spike ins comprising 19 oligoribonucleotides were designed to use as an external reference for DESeq normalization. Spike in based normalization improved the quantification of predetermined fold changes. Lastly  sRNA seq on female and male zebrafish demonstrated that the higher miRNA content in males was correctly preserved post spike in based normalization.,,,,Male 001,SAMEA2796299,UNIVERSITY OF AMSTERDAM,Alias:Male 001|ENA checklist:ERC000011|INSDC center alias:UNIVERSITY OF AMSTERDAM|INSDC center name:UNIVERSITY OF AMSTERDAM|INSDC first public:2014 11 29T17:02:28Z|INSDC last update:2014 10 01T14:42:44Z|INSDC status:public|SRA accession:ERS557914|Sample Name:ERS557914|Title:Male ZF|dev stage:Adult|sex:male|strain:ABxTL,,,,,,,,,Ion Torrent Proton sequencing,ena EXPERIMENT UNIVERSITY OF AMSTERDAM 01 10 2014 15:08:22:087 7,RID0017,EtOH conc. experiment,,,miRNA-Seq,TRANSCRIPTOMIC,cDNA,SINGLE,ION_TORRENT,Ion Torrent Proton,,ERP007147,Ion Torrent Proton sequencing,ENA FIRST PUBLIC:2014 11 29|ENA LAST UPDATE:2018 11 16,RID0017_007.fastq.gz,fastq,240260456.0,9194064.0,ena RUN UNIVERSITY OF AMSTERDAM 01 10 2014 15:08:22:087 7,0:26.13,A:62434032;C:50861577;G:60916218;T:66048629;N:0,26,,,,62434032,50861577,60916218,66048629,0,ERX604058,ERS557914,ERA363851,UNIVERSITY OF AMSTERDAM,UNIVERSITY OF AMSTERDAM,1,0.73042,,0.17017,,0.89509,,0.51784,,44,,B,,usable mapping rate,ion_torrent,ion_torrent,unknown,small_rna,unknown,bulk,unknown,unknown,,Netherlands,2014-10-01,Adult,Adult,Undetermined,Undetermined
15522,ERR647620,ERX604056,ERS557914,ERP007147,PRJEB7420,Two Sets of Synthetic Spike in Controls for Size Selection and Data Normalisation in small RNA seq,ena-STUDY-UNIVERSITY OF AMSTERDAM-01-10-2014-14:02:22:856-622,Other,There is an increasing interest in complementing standard RNA seq experiments with small RNA expression data to obtain a comprehensive view of the transcriptome. Two aspects need to be considered when small RNA seq sRNA seq is used. First  sRNA seq protocols are size selective and typically optimized for sequencing miRNAs. Second  given the dynamic composition of the small RNA fraction a reliable normalization strategy is needed to identify differentially expressed sRNAs. To address both issues we here present two sets of synthetic RNA spike in controls for monitoring size selectivity and for performing normalization. Size spike ins comprising 18 oligoribonucleotides 10–300 nucleotides were designed and tested using controlled modifications to the size selectivity of sRNA seq. As an applied example  the loss of RNA molecules <30 nucleotides during small RNA isolation from zebrafish oocytes is demonstrated. Normalization spike ins comprising 19 oligoribonucleotides were designed to use as an external reference for DESeq normalization. Spike in based normalization improved the quantification of predetermined fold changes. Lastly  sRNA seq on female and male zebrafish demonstrated that the higher miRNA content in males was correctly preserved post spike in based normalization.,,,,Male 001,SAMEA2796299,UNIVERSITY OF AMSTERDAM,Alias:Male 001|ENA checklist:ERC000011|INSDC center alias:UNIVERSITY OF AMSTERDAM|INSDC center name:UNIVERSITY OF AMSTERDAM|INSDC first public:2014 11 29T17:02:28Z|INSDC last update:2014 10 01T14:42:44Z|INSDC status:public|SRA accession:ERS557914|Sample Name:ERS557914|Title:Male ZF|dev stage:Adult|sex:male|strain:ABxTL,,,,,,,,,Ion Torrent Proton sequencing,ena EXPERIMENT UNIVERSITY OF AMSTERDAM 01 10 2014 15:08:22:087 5,RID0017,EtOH conc. experiment,,,miRNA-Seq,TRANSCRIPTOMIC,cDNA,SINGLE,ION_TORRENT,Ion Torrent Proton,,ERP007147,Ion Torrent Proton sequencing,ENA FIRST PUBLIC:2014 11 29|ENA LAST UPDATE:2018 11 16,RID0017_005.fastq.gz,fastq,140470735.0,4903805.0,ena RUN UNIVERSITY OF AMSTERDAM 01 10 2014 15:08:22:087 5,0:28.65,A:35312706;C:29191443;G:36788541;T:39178045;N:0,28,,,,35312706,29191443,36788541,39178045,0,ERX604056,ERS557914,ERA363851,UNIVERSITY OF AMSTERDAM,UNIVERSITY OF AMSTERDAM,1,0.76081,,0.16609,,0.90216,,0.48155,,72,,B,,usable mapping rate,ion_torrent,ion_torrent,unknown,small_rna,unknown,bulk,unknown,unknown,,Netherlands,2014-10-01,Adult,Adult,Undetermined,Undetermined
15523,ERR647617,ERX604053,ERS557914,ERP007147,PRJEB7420,Two Sets of Synthetic Spike in Controls for Size Selection and Data Normalisation in small RNA seq,ena-STUDY-UNIVERSITY OF AMSTERDAM-01-10-2014-14:02:22:856-622,Other,There is an increasing interest in complementing standard RNA seq experiments with small RNA expression data to obtain a comprehensive view of the transcriptome. Two aspects need to be considered when small RNA seq sRNA seq is used. First  sRNA seq protocols are size selective and typically optimized for sequencing miRNAs. Second  given the dynamic composition of the small RNA fraction a reliable normalization strategy is needed to identify differentially expressed sRNAs. To address both issues we here present two sets of synthetic RNA spike in controls for monitoring size selectivity and for performing normalization. Size spike ins comprising 18 oligoribonucleotides 10–300 nucleotides were designed and tested using controlled modifications to the size selectivity of sRNA seq. As an applied example  the loss of RNA molecules <30 nucleotides during small RNA isolation from zebrafish oocytes is demonstrated. Normalization spike ins comprising 19 oligoribonucleotides were designed to use as an external reference for DESeq normalization. Spike in based normalization improved the quantification of predetermined fold changes. Lastly  sRNA seq on female and male zebrafish demonstrated that the higher miRNA content in males was correctly preserved post spike in based normalization.,,,,Male 001,SAMEA2796299,UNIVERSITY OF AMSTERDAM,Alias:Male 001|ENA checklist:ERC000011|INSDC center alias:UNIVERSITY OF AMSTERDAM|INSDC center name:UNIVERSITY OF AMSTERDAM|INSDC first public:2014 11 29T17:02:28Z|INSDC last update:2014 10 01T14:42:44Z|INSDC status:public|SRA accession:ERS557914|Sample Name:ERS557914|Title:Male ZF|dev stage:Adult|sex:male|strain:ABxTL,,,,,,,,,Ion Torrent Proton sequencing,ena EXPERIMENT UNIVERSITY OF AMSTERDAM 01 10 2014 15:08:22:087 2,RID0017,EtOH conc. experiment,,,miRNA-Seq,TRANSCRIPTOMIC,cDNA,SINGLE,ION_TORRENT,Ion Torrent Proton,,ERP007147,Ion Torrent Proton sequencing,ENA FIRST PUBLIC:2014 11 29|ENA LAST UPDATE:2018 11 16,RID0017_002.fastq.gz,fastq,113953599.0,4875815.0,ena RUN UNIVERSITY OF AMSTERDAM 01 10 2014 15:08:22:087 2,0:23.37,A:29576305;C:23096908;G:29656780;T:31623606;N:0,23,,,,29576305,23096908,29656780,31623606,0,ERX604053,ERS557914,ERA363851,UNIVERSITY OF AMSTERDAM,UNIVERSITY OF AMSTERDAM,1,0.70891,,0.13528,,0.91208,,0.4622,,24,,B,,usable mapping rate,ion_torrent,ion_torrent,unknown,small_rna,unknown,bulk,unknown,unknown,,Netherlands,2014-10-01,Adult,Adult,Undetermined,Undetermined
15524,ERR647624,ERX604060,ERS557914,ERP007147,PRJEB7420,Two Sets of Synthetic Spike in Controls for Size Selection and Data Normalisation in small RNA seq,ena-STUDY-UNIVERSITY OF AMSTERDAM-01-10-2014-14:02:22:856-622,Other,There is an increasing interest in complementing standard RNA seq experiments with small RNA expression data to obtain a comprehensive view of the transcriptome. Two aspects need to be considered when small RNA seq sRNA seq is used. First  sRNA seq protocols are size selective and typically optimized for sequencing miRNAs. Second  given the dynamic composition of the small RNA fraction a reliable normalization strategy is needed to identify differentially expressed sRNAs. To address both issues we here present two sets of synthetic RNA spike in controls for monitoring size selectivity and for performing normalization. Size spike ins comprising 18 oligoribonucleotides 10–300 nucleotides were designed and tested using controlled modifications to the size selectivity of sRNA seq. As an applied example  the loss of RNA molecules <30 nucleotides during small RNA isolation from zebrafish oocytes is demonstrated. Normalization spike ins comprising 19 oligoribonucleotides were designed to use as an external reference for DESeq normalization. Spike in based normalization improved the quantification of predetermined fold changes. Lastly  sRNA seq on female and male zebrafish demonstrated that the higher miRNA content in males was correctly preserved post spike in based normalization.,,,,Male 001,SAMEA2796299,UNIVERSITY OF AMSTERDAM,Alias:Male 001|ENA checklist:ERC000011|INSDC center alias:UNIVERSITY OF AMSTERDAM|INSDC center name:UNIVERSITY OF AMSTERDAM|INSDC first public:2014 11 29T17:02:28Z|INSDC last update:2014 10 01T14:42:44Z|INSDC status:public|SRA accession:ERS557914|Sample Name:ERS557914|Title:Male ZF|dev stage:Adult|sex:male|strain:ABxTL,,,,,,,,,Ion Torrent Proton sequencing,ena EXPERIMENT UNIVERSITY OF AMSTERDAM 01 10 2014 15:08:22:087 9,RID0017,EtOH conc. experiment,,,miRNA-Seq,TRANSCRIPTOMIC,cDNA,SINGLE,ION_TORRENT,Ion Torrent Proton,,ERP007147,Ion Torrent Proton sequencing,ENA FIRST PUBLIC:2014 11 29|ENA LAST UPDATE:2018 11 16,RID0017_009.fastq.gz,fastq,127769435.0,5492615.0,ena RUN UNIVERSITY OF AMSTERDAM 01 10 2014 15:08:22:087 9,0:23.26,A:34397217;C:25332113;G:31991788;T:36048317;N:0,23,,,,34397217,25332113,31991788,36048317,0,ERX604060,ERS557914,ERA363851,UNIVERSITY OF AMSTERDAM,UNIVERSITY OF AMSTERDAM,1,0.71147,,0.1472,,0.91015,,0.49014,,22,,B,,usable mapping rate,ion_torrent,ion_torrent,unknown,small_rna,unknown,bulk,unknown,unknown,,Netherlands,2014-10-01,Adult,Adult,Undetermined,Undetermined
15525,ERR647629,ERX604065,ERS557914,ERP007147,PRJEB7420,Two Sets of Synthetic Spike in Controls for Size Selection and Data Normalisation in small RNA seq,ena-STUDY-UNIVERSITY OF AMSTERDAM-01-10-2014-14:02:22:856-622,Other,There is an increasing interest in complementing standard RNA seq experiments with small RNA expression data to obtain a comprehensive view of the transcriptome. Two aspects need to be considered when small RNA seq sRNA seq is used. First  sRNA seq protocols are size selective and typically optimized for sequencing miRNAs. Second  given the dynamic composition of the small RNA fraction a reliable normalization strategy is needed to identify differentially expressed sRNAs. To address both issues we here present two sets of synthetic RNA spike in controls for monitoring size selectivity and for performing normalization. Size spike ins comprising 18 oligoribonucleotides 10–300 nucleotides were designed and tested using controlled modifications to the size selectivity of sRNA seq. As an applied example  the loss of RNA molecules <30 nucleotides during small RNA isolation from zebrafish oocytes is demonstrated. Normalization spike ins comprising 19 oligoribonucleotides were designed to use as an external reference for DESeq normalization. Spike in based normalization improved the quantification of predetermined fold changes. Lastly  sRNA seq on female and male zebrafish demonstrated that the higher miRNA content in males was correctly preserved post spike in based normalization.,,,,Male 001,SAMEA2796299,UNIVERSITY OF AMSTERDAM,Alias:Male 001|ENA checklist:ERC000011|INSDC center alias:UNIVERSITY OF AMSTERDAM|INSDC center name:UNIVERSITY OF AMSTERDAM|INSDC first public:2014 11 29T17:02:28Z|INSDC last update:2014 10 01T14:42:44Z|INSDC status:public|SRA accession:ERS557914|Sample Name:ERS557914|Title:Male ZF|dev stage:Adult|sex:male|strain:ABxTL,,,,,,,,,Ion Torrent Proton sequencing,ena EXPERIMENT UNIVERSITY OF AMSTERDAM 01 10 2014 15:08:22:087 14,RID0017,EtOH conc. experiment,,,miRNA-Seq,TRANSCRIPTOMIC,cDNA,SINGLE,ION_TORRENT,Ion Torrent Proton,,ERP007147,Ion Torrent Proton sequencing,ENA FIRST PUBLIC:2014 11 29|ENA LAST UPDATE:2018 11 16,RID0017_014.fastq.gz,fastq,83983757.0,3823842.0,ena RUN UNIVERSITY OF AMSTERDAM 01 10 2014 15:08:22:087 14,0:21.96,A:22501534;C:16455147;G:21619305;T:23407771;N:0,21,,,,22501534,16455147,21619305,23407771,0,ERX604065,ERS557914,ERA363851,UNIVERSITY OF AMSTERDAM,UNIVERSITY OF AMSTERDAM,1,0.70211,,0.13351,,0.92038,,0.45898,,22,,B,,usable mapping rate,ion_torrent,ion_torrent,unknown,small_rna,unknown,bulk,unknown,unknown,,Netherlands,2014-10-01,Adult,Adult,Undetermined,Undetermined
15526,ERR647631,ERX604067,ERS557914,ERP007147,PRJEB7420,Two Sets of Synthetic Spike in Controls for Size Selection and Data Normalisation in small RNA seq,ena-STUDY-UNIVERSITY OF AMSTERDAM-01-10-2014-14:02:22:856-622,Other,There is an increasing interest in complementing standard RNA seq experiments with small RNA expression data to obtain a comprehensive view of the transcriptome. Two aspects need to be considered when small RNA seq sRNA seq is used. First  sRNA seq protocols are size selective and typically optimized for sequencing miRNAs. Second  given the dynamic composition of the small RNA fraction a reliable normalization strategy is needed to identify differentially expressed sRNAs. To address both issues we here present two sets of synthetic RNA spike in controls for monitoring size selectivity and for performing normalization. Size spike ins comprising 18 oligoribonucleotides 10–300 nucleotides were designed and tested using controlled modifications to the size selectivity of sRNA seq. As an applied example  the loss of RNA molecules <30 nucleotides during small RNA isolation from zebrafish oocytes is demonstrated. Normalization spike ins comprising 19 oligoribonucleotides were designed to use as an external reference for DESeq normalization. Spike in based normalization improved the quantification of predetermined fold changes. Lastly  sRNA seq on female and male zebrafish demonstrated that the higher miRNA content in males was correctly preserved post spike in based normalization.,,,,Male 001,SAMEA2796299,UNIVERSITY OF AMSTERDAM,Alias:Male 001|ENA checklist:ERC000011|INSDC center alias:UNIVERSITY OF AMSTERDAM|INSDC center name:UNIVERSITY OF AMSTERDAM|INSDC first public:2014 11 29T17:02:28Z|INSDC last update:2014 10 01T14:42:44Z|INSDC status:public|SRA accession:ERS557914|Sample Name:ERS557914|Title:Male ZF|dev stage:Adult|sex:male|strain:ABxTL,,,,,,,,,Ion Torrent Proton sequencing,ena EXPERIMENT UNIVERSITY OF AMSTERDAM 01 10 2014 15:08:22:087 16,RID0017,EtOH conc. experiment,,,miRNA-Seq,TRANSCRIPTOMIC,cDNA,SINGLE,ION_TORRENT,Ion Torrent Proton,,ERP007147,Ion Torrent Proton sequencing,ENA FIRST PUBLIC:2014 11 29|ENA LAST UPDATE:2018 11 16,RID0017_016.fastq.gz,fastq,117220472.0,4272650.0,ena RUN UNIVERSITY OF AMSTERDAM 01 10 2014 15:08:22:087 16,0:27.44,A:29509123;C:25768315;G:30220006;T:31723028;N:0,27,,,,29509123,25768315,30220006,31723028,0,ERX604067,ERS557914,ERA363851,UNIVERSITY OF AMSTERDAM,UNIVERSITY OF AMSTERDAM,1,0.68585,,0.14679,,0.90778,,0.49492,,20,,B,,usable mapping rate,ion_torrent,ion_torrent,unknown,small_rna,unknown,bulk,unknown,unknown,,Netherlands,2014-10-01,Adult,Adult,Undetermined,Undetermined
15527,ERR647618,ERX604054,ERS557914,ERP007147,PRJEB7420,Two Sets of Synthetic Spike in Controls for Size Selection and Data Normalisation in small RNA seq,ena-STUDY-UNIVERSITY OF AMSTERDAM-01-10-2014-14:02:22:856-622,Other,There is an increasing interest in complementing standard RNA seq experiments with small RNA expression data to obtain a comprehensive view of the transcriptome. Two aspects need to be considered when small RNA seq sRNA seq is used. First  sRNA seq protocols are size selective and typically optimized for sequencing miRNAs. Second  given the dynamic composition of the small RNA fraction a reliable normalization strategy is needed to identify differentially expressed sRNAs. To address both issues we here present two sets of synthetic RNA spike in controls for monitoring size selectivity and for performing normalization. Size spike ins comprising 18 oligoribonucleotides 10–300 nucleotides were designed and tested using controlled modifications to the size selectivity of sRNA seq. As an applied example  the loss of RNA molecules <30 nucleotides during small RNA isolation from zebrafish oocytes is demonstrated. Normalization spike ins comprising 19 oligoribonucleotides were designed to use as an external reference for DESeq normalization. Spike in based normalization improved the quantification of predetermined fold changes. Lastly  sRNA seq on female and male zebrafish demonstrated that the higher miRNA content in males was correctly preserved post spike in based normalization.,,,,Male 001,SAMEA2796299,UNIVERSITY OF AMSTERDAM,Alias:Male 001|ENA checklist:ERC000011|INSDC center alias:UNIVERSITY OF AMSTERDAM|INSDC center name:UNIVERSITY OF AMSTERDAM|INSDC first public:2014 11 29T17:02:28Z|INSDC last update:2014 10 01T14:42:44Z|INSDC status:public|SRA accession:ERS557914|Sample Name:ERS557914|Title:Male ZF|dev stage:Adult|sex:male|strain:ABxTL,,,,,,,,,Ion Torrent Proton sequencing,ena EXPERIMENT UNIVERSITY OF AMSTERDAM 01 10 2014 15:08:22:087 3,RID0017,EtOH conc. experiment,,,miRNA-Seq,TRANSCRIPTOMIC,cDNA,SINGLE,ION_TORRENT,Ion Torrent Proton,,ERP007147,Ion Torrent Proton sequencing,ENA FIRST PUBLIC:2014 11 29|ENA LAST UPDATE:2018 11 16,RID0017_003.fastq.gz,fastq,165279016.0,5211580.0,ena RUN UNIVERSITY OF AMSTERDAM 01 10 2014 15:08:22:087 3,0:31.71,A:41451579;C:36699133;G:41477197;T:45651107;N:0,31,,,,41451579,36699133,41477197,45651107,0,ERX604054,ERS557914,ERA363851,UNIVERSITY OF AMSTERDAM,UNIVERSITY OF AMSTERDAM,1,0.71827,,0.17456,,0.90554,,0.50274,,18,,B,,usable mapping rate,ion_torrent,ion_torrent,unknown,small_rna,unknown,bulk,unknown,unknown,,Netherlands,2014-10-01,Adult,Adult,Undetermined,Undetermined
15528,ERR647621,ERX604057,ERS557914,ERP007147,PRJEB7420,Two Sets of Synthetic Spike in Controls for Size Selection and Data Normalisation in small RNA seq,ena-STUDY-UNIVERSITY OF AMSTERDAM-01-10-2014-14:02:22:856-622,Other,There is an increasing interest in complementing standard RNA seq experiments with small RNA expression data to obtain a comprehensive view of the transcriptome. Two aspects need to be considered when small RNA seq sRNA seq is used. First  sRNA seq protocols are size selective and typically optimized for sequencing miRNAs. Second  given the dynamic composition of the small RNA fraction a reliable normalization strategy is needed to identify differentially expressed sRNAs. To address both issues we here present two sets of synthetic RNA spike in controls for monitoring size selectivity and for performing normalization. Size spike ins comprising 18 oligoribonucleotides 10–300 nucleotides were designed and tested using controlled modifications to the size selectivity of sRNA seq. As an applied example  the loss of RNA molecules <30 nucleotides during small RNA isolation from zebrafish oocytes is demonstrated. Normalization spike ins comprising 19 oligoribonucleotides were designed to use as an external reference for DESeq normalization. Spike in based normalization improved the quantification of predetermined fold changes. Lastly  sRNA seq on female and male zebrafish demonstrated that the higher miRNA content in males was correctly preserved post spike in based normalization.,,,,Male 001,SAMEA2796299,UNIVERSITY OF AMSTERDAM,Alias:Male 001|ENA checklist:ERC000011|INSDC center alias:UNIVERSITY OF AMSTERDAM|INSDC center name:UNIVERSITY OF AMSTERDAM|INSDC first public:2014 11 29T17:02:28Z|INSDC last update:2014 10 01T14:42:44Z|INSDC status:public|SRA accession:ERS557914|Sample Name:ERS557914|Title:Male ZF|dev stage:Adult|sex:male|strain:ABxTL,,,,,,,,,Ion Torrent Proton sequencing,ena EXPERIMENT UNIVERSITY OF AMSTERDAM 01 10 2014 15:08:22:087 6,RID0017,EtOH conc. experiment,,,miRNA-Seq,TRANSCRIPTOMIC,cDNA,SINGLE,ION_TORRENT,Ion Torrent Proton,,ERP007147,Ion Torrent Proton sequencing,ENA FIRST PUBLIC:2014 11 29|ENA LAST UPDATE:2018 11 16,RID0017_006.fastq.gz,fastq,181164500.0,7686285.0,ena RUN UNIVERSITY OF AMSTERDAM 01 10 2014 15:08:22:087 6,0:23.57,A:48622049;C:36019225;G:45318073;T:51205153;N:0,23,,,,48622049,36019225,45318073,51205153,0,ERX604057,ERS557914,ERA363851,UNIVERSITY OF AMSTERDAM,UNIVERSITY OF AMSTERDAM,1,0.73267,,0.15948,,0.9026,,0.483,,14,,B,,usable mapping rate,ion_torrent,ion_torrent,unknown,small_rna,unknown,bulk,unknown,unknown,,Netherlands,2014-10-01,Adult,Adult,Undetermined,Undetermined
15529,ERR647619,ERX604055,ERS557914,ERP007147,PRJEB7420,Two Sets of Synthetic Spike in Controls for Size Selection and Data Normalisation in small RNA seq,ena-STUDY-UNIVERSITY OF AMSTERDAM-01-10-2014-14:02:22:856-622,Other,There is an increasing interest in complementing standard RNA seq experiments with small RNA expression data to obtain a comprehensive view of the transcriptome. Two aspects need to be considered when small RNA seq sRNA seq is used. First  sRNA seq protocols are size selective and typically optimized for sequencing miRNAs. Second  given the dynamic composition of the small RNA fraction a reliable normalization strategy is needed to identify differentially expressed sRNAs. To address both issues we here present two sets of synthetic RNA spike in controls for monitoring size selectivity and for performing normalization. Size spike ins comprising 18 oligoribonucleotides 10–300 nucleotides were designed and tested using controlled modifications to the size selectivity of sRNA seq. As an applied example  the loss of RNA molecules <30 nucleotides during small RNA isolation from zebrafish oocytes is demonstrated. Normalization spike ins comprising 19 oligoribonucleotides were designed to use as an external reference for DESeq normalization. Spike in based normalization improved the quantification of predetermined fold changes. Lastly  sRNA seq on female and male zebrafish demonstrated that the higher miRNA content in males was correctly preserved post spike in based normalization.,,,,Male 001,SAMEA2796299,UNIVERSITY OF AMSTERDAM,Alias:Male 001|ENA checklist:ERC000011|INSDC center alias:UNIVERSITY OF AMSTERDAM|INSDC center name:UNIVERSITY OF AMSTERDAM|INSDC first public:2014 11 29T17:02:28Z|INSDC last update:2014 10 01T14:42:44Z|INSDC status:public|SRA accession:ERS557914|Sample Name:ERS557914|Title:Male ZF|dev stage:Adult|sex:male|strain:ABxTL,,,,,,,,,Ion Torrent Proton sequencing,ena EXPERIMENT UNIVERSITY OF AMSTERDAM 01 10 2014 15:08:22:087 4,RID0017,EtOH conc. experiment,,,miRNA-Seq,TRANSCRIPTOMIC,cDNA,SINGLE,ION_TORRENT,Ion Torrent Proton,,ERP007147,Ion Torrent Proton sequencing,ENA FIRST PUBLIC:2014 11 29|ENA LAST UPDATE:2018 11 16,RID0017_004.fastq.gz,fastq,131702671.0,4688094.0,ena RUN UNIVERSITY OF AMSTERDAM 01 10 2014 15:08:22:087 4,0:28.09,A:32537215;C:28853793;G:34317576;T:35994087;N:0,28,,,,32537215,28853793,34317576,35994087,0,ERX604055,ERS557914,ERA363851,UNIVERSITY OF AMSTERDAM,UNIVERSITY OF AMSTERDAM,1,0.68635,,0.14911,,0.90532,,0.50027,,31,,B,,usable mapping rate,ion_torrent,ion_torrent,unknown,small_rna,unknown,bulk,unknown,unknown,,Netherlands,2014-10-01,Adult,Adult,Undetermined,Undetermined
15530,ERR647628,ERX604064,ERS557914,ERP007147,PRJEB7420,Two Sets of Synthetic Spike in Controls for Size Selection and Data Normalisation in small RNA seq,ena-STUDY-UNIVERSITY OF AMSTERDAM-01-10-2014-14:02:22:856-622,Other,There is an increasing interest in complementing standard RNA seq experiments with small RNA expression data to obtain a comprehensive view of the transcriptome. Two aspects need to be considered when small RNA seq sRNA seq is used. First  sRNA seq protocols are size selective and typically optimized for sequencing miRNAs. Second  given the dynamic composition of the small RNA fraction a reliable normalization strategy is needed to identify differentially expressed sRNAs. To address both issues we here present two sets of synthetic RNA spike in controls for monitoring size selectivity and for performing normalization. Size spike ins comprising 18 oligoribonucleotides 10–300 nucleotides were designed and tested using controlled modifications to the size selectivity of sRNA seq. As an applied example  the loss of RNA molecules <30 nucleotides during small RNA isolation from zebrafish oocytes is demonstrated. Normalization spike ins comprising 19 oligoribonucleotides were designed to use as an external reference for DESeq normalization. Spike in based normalization improved the quantification of predetermined fold changes. Lastly  sRNA seq on female and male zebrafish demonstrated that the higher miRNA content in males was correctly preserved post spike in based normalization.,,,,Male 001,SAMEA2796299,UNIVERSITY OF AMSTERDAM,Alias:Male 001|ENA checklist:ERC000011|INSDC center alias:UNIVERSITY OF AMSTERDAM|INSDC center name:UNIVERSITY OF AMSTERDAM|INSDC first public:2014 11 29T17:02:28Z|INSDC last update:2014 10 01T14:42:44Z|INSDC status:public|SRA accession:ERS557914|Sample Name:ERS557914|Title:Male ZF|dev stage:Adult|sex:male|strain:ABxTL,,,,,,,,,Ion Torrent Proton sequencing,ena EXPERIMENT UNIVERSITY OF AMSTERDAM 01 10 2014 15:08:22:087 13,RID0017,EtOH conc. experiment,,,miRNA-Seq,TRANSCRIPTOMIC,cDNA,SINGLE,ION_TORRENT,Ion Torrent Proton,,ERP007147,Ion Torrent Proton sequencing,ENA FIRST PUBLIC:2014 11 29|ENA LAST UPDATE:2018 11 16,RID0017_013.fastq.gz,fastq,123881257.0,5143681.0,ena RUN UNIVERSITY OF AMSTERDAM 01 10 2014 15:08:22:087 13,0:24.08,A:32852368;C:25503683;G:31339781;T:34185425;N:0,24,,,,32852368,25503683,31339781,34185425,0,ERX604064,ERS557914,ERA363851,UNIVERSITY OF AMSTERDAM,UNIVERSITY OF AMSTERDAM,1,0.72384,,0.15147,,0.90648,,0.46,,24,,B,,usable mapping rate,ion_torrent,ion_torrent,unknown,small_rna,unknown,bulk,unknown,unknown,,Netherlands,2014-10-01,Adult,Adult,Undetermined,Undetermined
15531,ERR647627,ERX604063,ERS557914,ERP007147,PRJEB7420,Two Sets of Synthetic Spike in Controls for Size Selection and Data Normalisation in small RNA seq,ena-STUDY-UNIVERSITY OF AMSTERDAM-01-10-2014-14:02:22:856-622,Other,There is an increasing interest in complementing standard RNA seq experiments with small RNA expression data to obtain a comprehensive view of the transcriptome. Two aspects need to be considered when small RNA seq sRNA seq is used. First  sRNA seq protocols are size selective and typically optimized for sequencing miRNAs. Second  given the dynamic composition of the small RNA fraction a reliable normalization strategy is needed to identify differentially expressed sRNAs. To address both issues we here present two sets of synthetic RNA spike in controls for monitoring size selectivity and for performing normalization. Size spike ins comprising 18 oligoribonucleotides 10–300 nucleotides were designed and tested using controlled modifications to the size selectivity of sRNA seq. As an applied example  the loss of RNA molecules <30 nucleotides during small RNA isolation from zebrafish oocytes is demonstrated. Normalization spike ins comprising 19 oligoribonucleotides were designed to use as an external reference for DESeq normalization. Spike in based normalization improved the quantification of predetermined fold changes. Lastly  sRNA seq on female and male zebrafish demonstrated that the higher miRNA content in males was correctly preserved post spike in based normalization.,,,,Male 001,SAMEA2796299,UNIVERSITY OF AMSTERDAM,Alias:Male 001|ENA checklist:ERC000011|INSDC center alias:UNIVERSITY OF AMSTERDAM|INSDC center name:UNIVERSITY OF AMSTERDAM|INSDC first public:2014 11 29T17:02:28Z|INSDC last update:2014 10 01T14:42:44Z|INSDC status:public|SRA accession:ERS557914|Sample Name:ERS557914|Title:Male ZF|dev stage:Adult|sex:male|strain:ABxTL,,,,,,,,,Ion Torrent Proton sequencing,ena EXPERIMENT UNIVERSITY OF AMSTERDAM 01 10 2014 15:08:22:087 12,RID0017,EtOH conc. experiment,,,miRNA-Seq,TRANSCRIPTOMIC,cDNA,SINGLE,ION_TORRENT,Ion Torrent Proton,,ERP007147,Ion Torrent Proton sequencing,ENA FIRST PUBLIC:2014 11 29|ENA LAST UPDATE:2018 11 16,RID0017_012.fastq.gz,fastq,135155439.0,6123293.0,ena RUN UNIVERSITY OF AMSTERDAM 01 10 2014 15:08:22:087 12,0:22.07,A:35870227;C:27070386;G:34401412;T:37813414;N:0,22,,,,35870227,27070386,34401412,37813414,0,ERX604063,ERS557914,ERA363851,UNIVERSITY OF AMSTERDAM,UNIVERSITY OF AMSTERDAM,1,0.69126,,0.12647,,0.91695,,0.46572,,25,,B,,usable mapping rate,ion_torrent,ion_torrent,unknown,small_rna,unknown,bulk,unknown,unknown,,Netherlands,2014-10-01,Adult,Adult,Undetermined,Undetermined
15532,ERR647626,ERX604062,ERS557914,ERP007147,PRJEB7420,Two Sets of Synthetic Spike in Controls for Size Selection and Data Normalisation in small RNA seq,ena-STUDY-UNIVERSITY OF AMSTERDAM-01-10-2014-14:02:22:856-622,Other,There is an increasing interest in complementing standard RNA seq experiments with small RNA expression data to obtain a comprehensive view of the transcriptome. Two aspects need to be considered when small RNA seq sRNA seq is used. First  sRNA seq protocols are size selective and typically optimized for sequencing miRNAs. Second  given the dynamic composition of the small RNA fraction a reliable normalization strategy is needed to identify differentially expressed sRNAs. To address both issues we here present two sets of synthetic RNA spike in controls for monitoring size selectivity and for performing normalization. Size spike ins comprising 18 oligoribonucleotides 10–300 nucleotides were designed and tested using controlled modifications to the size selectivity of sRNA seq. As an applied example  the loss of RNA molecules <30 nucleotides during small RNA isolation from zebrafish oocytes is demonstrated. Normalization spike ins comprising 19 oligoribonucleotides were designed to use as an external reference for DESeq normalization. Spike in based normalization improved the quantification of predetermined fold changes. Lastly  sRNA seq on female and male zebrafish demonstrated that the higher miRNA content in males was correctly preserved post spike in based normalization.,,,,Male 001,SAMEA2796299,UNIVERSITY OF AMSTERDAM,Alias:Male 001|ENA checklist:ERC000011|INSDC center alias:UNIVERSITY OF AMSTERDAM|INSDC center name:UNIVERSITY OF AMSTERDAM|INSDC first public:2014 11 29T17:02:28Z|INSDC last update:2014 10 01T14:42:44Z|INSDC status:public|SRA accession:ERS557914|Sample Name:ERS557914|Title:Male ZF|dev stage:Adult|sex:male|strain:ABxTL,,,,,,,,,Ion Torrent Proton sequencing,ena EXPERIMENT UNIVERSITY OF AMSTERDAM 01 10 2014 15:08:22:087 11,RID0017,EtOH conc. experiment,,,miRNA-Seq,TRANSCRIPTOMIC,cDNA,SINGLE,ION_TORRENT,Ion Torrent Proton,,ERP007147,Ion Torrent Proton sequencing,ENA FIRST PUBLIC:2014 11 29|ENA LAST UPDATE:2018 11 16,RID0017_011.fastq.gz,fastq,138836612.0,5648801.0,ena RUN UNIVERSITY OF AMSTERDAM 01 10 2014 15:08:22:087 11,0:24.58,A:36426455;C:28359755;G:34985736;T:39064666;N:0,24,,,,36426455,28359755,34985736,39064666,0,ERX604062,ERS557914,ERA363851,UNIVERSITY OF AMSTERDAM,UNIVERSITY OF AMSTERDAM,1,0.73565,,0.15718,,0.90382,,0.45772,,67,,B,,usable mapping rate,ion_torrent,ion_torrent,unknown,small_rna,unknown,bulk,unknown,unknown,,Netherlands,2014-10-01,Adult,Adult,Undetermined,Undetermined
15533,ERR647625,ERX604061,ERS557914,ERP007147,PRJEB7420,Two Sets of Synthetic Spike in Controls for Size Selection and Data Normalisation in small RNA seq,ena-STUDY-UNIVERSITY OF AMSTERDAM-01-10-2014-14:02:22:856-622,Other,There is an increasing interest in complementing standard RNA seq experiments with small RNA expression data to obtain a comprehensive view of the transcriptome. Two aspects need to be considered when small RNA seq sRNA seq is used. First  sRNA seq protocols are size selective and typically optimized for sequencing miRNAs. Second  given the dynamic composition of the small RNA fraction a reliable normalization strategy is needed to identify differentially expressed sRNAs. To address both issues we here present two sets of synthetic RNA spike in controls for monitoring size selectivity and for performing normalization. Size spike ins comprising 18 oligoribonucleotides 10–300 nucleotides were designed and tested using controlled modifications to the size selectivity of sRNA seq. As an applied example  the loss of RNA molecules <30 nucleotides during small RNA isolation from zebrafish oocytes is demonstrated. Normalization spike ins comprising 19 oligoribonucleotides were designed to use as an external reference for DESeq normalization. Spike in based normalization improved the quantification of predetermined fold changes. Lastly  sRNA seq on female and male zebrafish demonstrated that the higher miRNA content in males was correctly preserved post spike in based normalization.,,,,Male 001,SAMEA2796299,UNIVERSITY OF AMSTERDAM,Alias:Male 001|ENA checklist:ERC000011|INSDC center alias:UNIVERSITY OF AMSTERDAM|INSDC center name:UNIVERSITY OF AMSTERDAM|INSDC first public:2014 11 29T17:02:28Z|INSDC last update:2014 10 01T14:42:44Z|INSDC status:public|SRA accession:ERS557914|Sample Name:ERS557914|Title:Male ZF|dev stage:Adult|sex:male|strain:ABxTL,,,,,,,,,Ion Torrent Proton sequencing,ena EXPERIMENT UNIVERSITY OF AMSTERDAM 01 10 2014 15:08:22:087 10,RID0017,EtOH conc. experiment,,,miRNA-Seq,TRANSCRIPTOMIC,cDNA,SINGLE,ION_TORRENT,Ion Torrent Proton,,ERP007147,Ion Torrent Proton sequencing,ENA FIRST PUBLIC:2014 11 29|ENA LAST UPDATE:2018 11 16,RID0017_010.fastq.gz,fastq,182404716.0,6612019.0,ena RUN UNIVERSITY OF AMSTERDAM 01 10 2014 15:08:22:087 10,0:27.59,A:47718609;C:38775928;G:45637186;T:50272993;N:0,27,,,,47718609,38775928,45637186,50272993,0,ERX604061,ERS557914,ERA363851,UNIVERSITY OF AMSTERDAM,UNIVERSITY OF AMSTERDAM,1,0.75246,,0.19746,,0.88544,,0.48212,,36,,B,,usable mapping rate,ion_torrent,ion_torrent,unknown,small_rna,unknown,bulk,unknown,unknown,,Netherlands,2014-10-01,Adult,Adult,Undetermined,Undetermined
15534,ERR647616,ERX604052,ERS557914,ERP007147,PRJEB7420,Two Sets of Synthetic Spike in Controls for Size Selection and Data Normalisation in small RNA seq,ena-STUDY-UNIVERSITY OF AMSTERDAM-01-10-2014-14:02:22:856-622,Other,There is an increasing interest in complementing standard RNA seq experiments with small RNA expression data to obtain a comprehensive view of the transcriptome. Two aspects need to be considered when small RNA seq sRNA seq is used. First  sRNA seq protocols are size selective and typically optimized for sequencing miRNAs. Second  given the dynamic composition of the small RNA fraction a reliable normalization strategy is needed to identify differentially expressed sRNAs. To address both issues we here present two sets of synthetic RNA spike in controls for monitoring size selectivity and for performing normalization. Size spike ins comprising 18 oligoribonucleotides 10–300 nucleotides were designed and tested using controlled modifications to the size selectivity of sRNA seq. As an applied example  the loss of RNA molecules <30 nucleotides during small RNA isolation from zebrafish oocytes is demonstrated. Normalization spike ins comprising 19 oligoribonucleotides were designed to use as an external reference for DESeq normalization. Spike in based normalization improved the quantification of predetermined fold changes. Lastly  sRNA seq on female and male zebrafish demonstrated that the higher miRNA content in males was correctly preserved post spike in based normalization.,,,,Male 001,SAMEA2796299,UNIVERSITY OF AMSTERDAM,Alias:Male 001|ENA checklist:ERC000011|INSDC center alias:UNIVERSITY OF AMSTERDAM|INSDC center name:UNIVERSITY OF AMSTERDAM|INSDC first public:2014 11 29T17:02:28Z|INSDC last update:2014 10 01T14:42:44Z|INSDC status:public|SRA accession:ERS557914|Sample Name:ERS557914|Title:Male ZF|dev stage:Adult|sex:male|strain:ABxTL,,,,,,,,,Ion Torrent Proton sequencing,ena EXPERIMENT UNIVERSITY OF AMSTERDAM 01 10 2014 15:08:22:086 1,RID0017,EtOH conc. experiment,,,miRNA-Seq,TRANSCRIPTOMIC,cDNA,SINGLE,ION_TORRENT,Ion Torrent Proton,,ERP007147,Ion Torrent Proton sequencing,ENA FIRST PUBLIC:2014 11 29|ENA LAST UPDATE:2018 11 16,RID0017_001.fastq.gz,fastq,137653436.0,5155975.0,ena RUN UNIVERSITY OF AMSTERDAM 01 10 2014 15:08:22:087 1,0:26.70,A:34561717;C:29961559;G:35320222;T:37809938;N:0,26,,,,34561717,29961559,35320222,37809938,0,ERX604052,ERS557914,ERA363851,UNIVERSITY OF AMSTERDAM,UNIVERSITY OF AMSTERDAM,1,0.71887,,0.15223,,0.90824,,0.49462,,22,,B,,usable mapping rate,ion_torrent,ion_torrent,unknown,small_rna,unknown,bulk,unknown,unknown,,Netherlands,2014-10-01,Adult,Adult,Undetermined,Undetermined
15535,ERR647630,ERX604066,ERS557914,ERP007147,PRJEB7420,Two Sets of Synthetic Spike in Controls for Size Selection and Data Normalisation in small RNA seq,ena-STUDY-UNIVERSITY OF AMSTERDAM-01-10-2014-14:02:22:856-622,Other,There is an increasing interest in complementing standard RNA seq experiments with small RNA expression data to obtain a comprehensive view of the transcriptome. Two aspects need to be considered when small RNA seq sRNA seq is used. First  sRNA seq protocols are size selective and typically optimized for sequencing miRNAs. Second  given the dynamic composition of the small RNA fraction a reliable normalization strategy is needed to identify differentially expressed sRNAs. To address both issues we here present two sets of synthetic RNA spike in controls for monitoring size selectivity and for performing normalization. Size spike ins comprising 18 oligoribonucleotides 10–300 nucleotides were designed and tested using controlled modifications to the size selectivity of sRNA seq. As an applied example  the loss of RNA molecules <30 nucleotides during small RNA isolation from zebrafish oocytes is demonstrated. Normalization spike ins comprising 19 oligoribonucleotides were designed to use as an external reference for DESeq normalization. Spike in based normalization improved the quantification of predetermined fold changes. Lastly  sRNA seq on female and male zebrafish demonstrated that the higher miRNA content in males was correctly preserved post spike in based normalization.,,,,Male 001,SAMEA2796299,UNIVERSITY OF AMSTERDAM,Alias:Male 001|ENA checklist:ERC000011|INSDC center alias:UNIVERSITY OF AMSTERDAM|INSDC center name:UNIVERSITY OF AMSTERDAM|INSDC first public:2014 11 29T17:02:28Z|INSDC last update:2014 10 01T14:42:44Z|INSDC status:public|SRA accession:ERS557914|Sample Name:ERS557914|Title:Male ZF|dev stage:Adult|sex:male|strain:ABxTL,,,,,,,,,Ion Torrent Proton sequencing,ena EXPERIMENT UNIVERSITY OF AMSTERDAM 01 10 2014 15:08:22:087 15,RID0017,EtOH conc. experiment,,,miRNA-Seq,TRANSCRIPTOMIC,cDNA,SINGLE,ION_TORRENT,Ion Torrent Proton,,ERP007147,Ion Torrent Proton sequencing,ENA FIRST PUBLIC:2014 11 29|ENA LAST UPDATE:2018 11 16,RID0017_015.fastq.gz,fastq,101714594.0,4045987.0,ena RUN UNIVERSITY OF AMSTERDAM 01 10 2014 15:08:22:087 15,0:25.14,A:26518632;C:20741074;G:25853629;T:28601259;N:0,25,,,,26518632,20741074,25853629,28601259,0,ERX604066,ERS557914,ERA363851,UNIVERSITY OF AMSTERDAM,UNIVERSITY OF AMSTERDAM,1,0.74566,,0.16455,,0.89534,,0.48977,,22,,B,,usable mapping rate,ion_torrent,ion_torrent,unknown,small_rna,unknown,bulk,unknown,unknown,,Netherlands,2014-10-01,Adult,Adult,Undetermined,Undetermined
15536,ERR647610,ERX604046,ERS557914,ERP007147,PRJEB7420,Two Sets of Synthetic Spike in Controls for Size Selection and Data Normalisation in small RNA seq,ena-STUDY-UNIVERSITY OF AMSTERDAM-01-10-2014-14:02:22:856-622,Other,There is an increasing interest in complementing standard RNA seq experiments with small RNA expression data to obtain a comprehensive view of the transcriptome. Two aspects need to be considered when small RNA seq sRNA seq is used. First  sRNA seq protocols are size selective and typically optimized for sequencing miRNAs. Second  given the dynamic composition of the small RNA fraction a reliable normalization strategy is needed to identify differentially expressed sRNAs. To address both issues we here present two sets of synthetic RNA spike in controls for monitoring size selectivity and for performing normalization. Size spike ins comprising 18 oligoribonucleotides 10–300 nucleotides were designed and tested using controlled modifications to the size selectivity of sRNA seq. As an applied example  the loss of RNA molecules <30 nucleotides during small RNA isolation from zebrafish oocytes is demonstrated. Normalization spike ins comprising 19 oligoribonucleotides were designed to use as an external reference for DESeq normalization. Spike in based normalization improved the quantification of predetermined fold changes. Lastly  sRNA seq on female and male zebrafish demonstrated that the higher miRNA content in males was correctly preserved post spike in based normalization.,,,,Male 001,SAMEA2796299,UNIVERSITY OF AMSTERDAM,Alias:Male 001|ENA checklist:ERC000011|INSDC center alias:UNIVERSITY OF AMSTERDAM|INSDC center name:UNIVERSITY OF AMSTERDAM|INSDC first public:2014 11 29T17:02:28Z|INSDC last update:2014 10 01T14:42:44Z|INSDC status:public|SRA accession:ERS557914|Sample Name:ERS557914|Title:Male ZF|dev stage:Adult|sex:male|strain:ABxTL,,,,,,,,,Ion Torrent PGM sequencing,ena EXPERIMENT UNIVERSITY OF AMSTERDAM 01 10 2014 14:59:02:785 1,RID0023,1,,,miRNA-Seq,TRANSCRIPTOMIC,cDNA,SINGLE,ION_TORRENT,Ion Torrent PGM,,ERP007147,Ion Torrent PGM sequencing,ENA FIRST PUBLIC:2014 11 29|ENA LAST UPDATE:2018 11 16,RID0023_009.fastq.gz,fastq,114880508.0,4321457.0,ena RUN UNIVERSITY OF AMSTERDAM 01 10 2014 14:59:02:785 1,0:26.58,A:31499097;C:23030789;G:27803371;T:32547251;N:0,26,,,,31499097,23030789,27803371,32547251,0,ERX604046,ERS557914,ERA363850,UNIVERSITY OF AMSTERDAM,UNIVERSITY OF AMSTERDAM,1,0.7932,,0.2086,,0.89045,,0.49364,,22,,B,,usable mapping rate,ion_torrent,ion_torrent,unknown,small_rna,unknown,bulk,unknown,unknown,,Netherlands,2014-10-01,Adult,Adult,Undetermined,Undetermined
15537,ERR647611,ERX604047,ERS557914,ERP007147,PRJEB7420,Two Sets of Synthetic Spike in Controls for Size Selection and Data Normalisation in small RNA seq,ena-STUDY-UNIVERSITY OF AMSTERDAM-01-10-2014-14:02:22:856-622,Other,There is an increasing interest in complementing standard RNA seq experiments with small RNA expression data to obtain a comprehensive view of the transcriptome. Two aspects need to be considered when small RNA seq sRNA seq is used. First  sRNA seq protocols are size selective and typically optimized for sequencing miRNAs. Second  given the dynamic composition of the small RNA fraction a reliable normalization strategy is needed to identify differentially expressed sRNAs. To address both issues we here present two sets of synthetic RNA spike in controls for monitoring size selectivity and for performing normalization. Size spike ins comprising 18 oligoribonucleotides 10–300 nucleotides were designed and tested using controlled modifications to the size selectivity of sRNA seq. As an applied example  the loss of RNA molecules <30 nucleotides during small RNA isolation from zebrafish oocytes is demonstrated. Normalization spike ins comprising 19 oligoribonucleotides were designed to use as an external reference for DESeq normalization. Spike in based normalization improved the quantification of predetermined fold changes. Lastly  sRNA seq on female and male zebrafish demonstrated that the higher miRNA content in males was correctly preserved post spike in based normalization.,,,,Male 001,SAMEA2796299,UNIVERSITY OF AMSTERDAM,Alias:Male 001|ENA checklist:ERC000011|INSDC center alias:UNIVERSITY OF AMSTERDAM|INSDC center name:UNIVERSITY OF AMSTERDAM|INSDC first public:2014 11 29T17:02:28Z|INSDC last update:2014 10 01T14:42:44Z|INSDC status:public|SRA accession:ERS557914|Sample Name:ERS557914|Title:Male ZF|dev stage:Adult|sex:male|strain:ABxTL,,,,,,,,,Ion Torrent Proton sequencing,ena EXPERIMENT UNIVERSITY OF AMSTERDAM 01 10 2014 14:59:02:785 2,RID0023,1,,,miRNA-Seq,TRANSCRIPTOMIC,cDNA,SINGLE,ION_TORRENT,Ion Torrent Proton,,ERP007147,Ion Torrent Proton sequencing,ENA FIRST PUBLIC:2014 11 29|ENA LAST UPDATE:2018 11 16,RID0023_010.fastq.gz,fastq,124380158.0,4885304.0,ena RUN UNIVERSITY OF AMSTERDAM 01 10 2014 14:59:02:785 2,0:25.46,A:33809369;C:25116497;G:30529372;T:34924920;N:0,25,,,,33809369,25116497,30529372,34924920,0,ERX604047,ERS557914,ERA363850,UNIVERSITY OF AMSTERDAM,UNIVERSITY OF AMSTERDAM,1,0.78302,,0.1944,,0.89398,,0.50469,,22,,B,,usable mapping rate,ion_torrent,ion_torrent,unknown,small_rna,unknown,bulk,unknown,unknown,,Netherlands,2014-10-01,Adult,Adult,Undetermined,Undetermined
15538,ERR647612,ERX604048,ERS557914,ERP007147,PRJEB7420,Two Sets of Synthetic Spike in Controls for Size Selection and Data Normalisation in small RNA seq,ena-STUDY-UNIVERSITY OF AMSTERDAM-01-10-2014-14:02:22:856-622,Other,There is an increasing interest in complementing standard RNA seq experiments with small RNA expression data to obtain a comprehensive view of the transcriptome. Two aspects need to be considered when small RNA seq sRNA seq is used. First  sRNA seq protocols are size selective and typically optimized for sequencing miRNAs. Second  given the dynamic composition of the small RNA fraction a reliable normalization strategy is needed to identify differentially expressed sRNAs. To address both issues we here present two sets of synthetic RNA spike in controls for monitoring size selectivity and for performing normalization. Size spike ins comprising 18 oligoribonucleotides 10–300 nucleotides were designed and tested using controlled modifications to the size selectivity of sRNA seq. As an applied example  the loss of RNA molecules <30 nucleotides during small RNA isolation from zebrafish oocytes is demonstrated. Normalization spike ins comprising 19 oligoribonucleotides were designed to use as an external reference for DESeq normalization. Spike in based normalization improved the quantification of predetermined fold changes. Lastly  sRNA seq on female and male zebrafish demonstrated that the higher miRNA content in males was correctly preserved post spike in based normalization.,,,,Male 001,SAMEA2796299,UNIVERSITY OF AMSTERDAM,Alias:Male 001|ENA checklist:ERC000011|INSDC center alias:UNIVERSITY OF AMSTERDAM|INSDC center name:UNIVERSITY OF AMSTERDAM|INSDC first public:2014 11 29T17:02:28Z|INSDC last update:2014 10 01T14:42:44Z|INSDC status:public|SRA accession:ERS557914|Sample Name:ERS557914|Title:Male ZF|dev stage:Adult|sex:male|strain:ABxTL,,,,,,,,,Ion Torrent Proton sequencing,ena EXPERIMENT UNIVERSITY OF AMSTERDAM 01 10 2014 14:59:02:785 3,RID0023,1,,,miRNA-Seq,TRANSCRIPTOMIC,cDNA,SINGLE,ION_TORRENT,Ion Torrent Proton,,ERP007147,Ion Torrent Proton sequencing,ENA FIRST PUBLIC:2014 11 29|ENA LAST UPDATE:2018 11 16,RID0023_011.fastq.gz,fastq,122081664.0,4959591.0,ena RUN UNIVERSITY OF AMSTERDAM 01 10 2014 14:59:02:785 3,0:24.62,A:33452935;C:24151113;G:29942213;T:34535403;N:0,24,,,,33452935,24151113,29942213,34535403,0,ERX604048,ERS557914,ERA363850,UNIVERSITY OF AMSTERDAM,UNIVERSITY OF AMSTERDAM,1,0.77425,,0.18982,,0.8911,,0.46046,,22,,B,,usable mapping rate,ion_torrent,ion_torrent,unknown,small_rna,unknown,bulk,unknown,unknown,,Netherlands,2014-10-01,Adult,Adult,Undetermined,Undetermined
15539,ERR647615,ERX604051,ERS557914,ERP007147,PRJEB7420,Two Sets of Synthetic Spike in Controls for Size Selection and Data Normalisation in small RNA seq,ena-STUDY-UNIVERSITY OF AMSTERDAM-01-10-2014-14:02:22:856-622,Other,There is an increasing interest in complementing standard RNA seq experiments with small RNA expression data to obtain a comprehensive view of the transcriptome. Two aspects need to be considered when small RNA seq sRNA seq is used. First  sRNA seq protocols are size selective and typically optimized for sequencing miRNAs. Second  given the dynamic composition of the small RNA fraction a reliable normalization strategy is needed to identify differentially expressed sRNAs. To address both issues we here present two sets of synthetic RNA spike in controls for monitoring size selectivity and for performing normalization. Size spike ins comprising 18 oligoribonucleotides 10–300 nucleotides were designed and tested using controlled modifications to the size selectivity of sRNA seq. As an applied example  the loss of RNA molecules <30 nucleotides during small RNA isolation from zebrafish oocytes is demonstrated. Normalization spike ins comprising 19 oligoribonucleotides were designed to use as an external reference for DESeq normalization. Spike in based normalization improved the quantification of predetermined fold changes. Lastly  sRNA seq on female and male zebrafish demonstrated that the higher miRNA content in males was correctly preserved post spike in based normalization.,,,,Male 001,SAMEA2796299,UNIVERSITY OF AMSTERDAM,Alias:Male 001|ENA checklist:ERC000011|INSDC center alias:UNIVERSITY OF AMSTERDAM|INSDC center name:UNIVERSITY OF AMSTERDAM|INSDC first public:2014 11 29T17:02:28Z|INSDC last update:2014 10 01T14:42:44Z|INSDC status:public|SRA accession:ERS557914|Sample Name:ERS557914|Title:Male ZF|dev stage:Adult|sex:male|strain:ABxTL,,,,,,,,,Ion Torrent Proton sequencing,ena EXPERIMENT UNIVERSITY OF AMSTERDAM 01 10 2014 14:59:02:785 6,RID0023,1,,,miRNA-Seq,TRANSCRIPTOMIC,cDNA,SINGLE,ION_TORRENT,Ion Torrent Proton,,ERP007147,Ion Torrent Proton sequencing,ENA FIRST PUBLIC:2014 11 29|ENA LAST UPDATE:2018 11 16,RID0023_014.fastq.gz,fastq,120491210.0,4564333.0,ena RUN UNIVERSITY OF AMSTERDAM 01 10 2014 14:59:02:785 6,0:26.40,A:33116448;C:24416657;G:29447901;T:33510204;N:0,26,,,,33116448,24416657,29447901,33510204,0,ERX604051,ERS557914,ERA363850,UNIVERSITY OF AMSTERDAM,UNIVERSITY OF AMSTERDAM,1,0.77843,,0.20568,,0.88605,,0.51892,,22,,B,,usable mapping rate,ion_torrent,ion_torrent,unknown,small_rna,unknown,bulk,unknown,unknown,,Netherlands,2014-10-01,Adult,Adult,Undetermined,Undetermined
15540,ERR647614,ERX604050,ERS557914,ERP007147,PRJEB7420,Two Sets of Synthetic Spike in Controls for Size Selection and Data Normalisation in small RNA seq,ena-STUDY-UNIVERSITY OF AMSTERDAM-01-10-2014-14:02:22:856-622,Other,There is an increasing interest in complementing standard RNA seq experiments with small RNA expression data to obtain a comprehensive view of the transcriptome. Two aspects need to be considered when small RNA seq sRNA seq is used. First  sRNA seq protocols are size selective and typically optimized for sequencing miRNAs. Second  given the dynamic composition of the small RNA fraction a reliable normalization strategy is needed to identify differentially expressed sRNAs. To address both issues we here present two sets of synthetic RNA spike in controls for monitoring size selectivity and for performing normalization. Size spike ins comprising 18 oligoribonucleotides 10–300 nucleotides were designed and tested using controlled modifications to the size selectivity of sRNA seq. As an applied example  the loss of RNA molecules <30 nucleotides during small RNA isolation from zebrafish oocytes is demonstrated. Normalization spike ins comprising 19 oligoribonucleotides were designed to use as an external reference for DESeq normalization. Spike in based normalization improved the quantification of predetermined fold changes. Lastly  sRNA seq on female and male zebrafish demonstrated that the higher miRNA content in males was correctly preserved post spike in based normalization.,,,,Male 001,SAMEA2796299,UNIVERSITY OF AMSTERDAM,Alias:Male 001|ENA checklist:ERC000011|INSDC center alias:UNIVERSITY OF AMSTERDAM|INSDC center name:UNIVERSITY OF AMSTERDAM|INSDC first public:2014 11 29T17:02:28Z|INSDC last update:2014 10 01T14:42:44Z|INSDC status:public|SRA accession:ERS557914|Sample Name:ERS557914|Title:Male ZF|dev stage:Adult|sex:male|strain:ABxTL,,,,,,,,,Ion Torrent Proton sequencing,ena EXPERIMENT UNIVERSITY OF AMSTERDAM 01 10 2014 14:59:02:785 5,RID0023,1,,,miRNA-Seq,TRANSCRIPTOMIC,cDNA,SINGLE,ION_TORRENT,Ion Torrent Proton,,ERP007147,Ion Torrent Proton sequencing,ENA FIRST PUBLIC:2014 11 29|ENA LAST UPDATE:2018 11 16,RID0023_013.fastq.gz,fastq,108193052.0,4221217.0,ena RUN UNIVERSITY OF AMSTERDAM 01 10 2014 14:59:02:785 5,0:25.63,A:29795112;C:21481151;G:26281164;T:30635625;N:0,25,,,,29795112,21481151,26281164,30635625,0,ERX604050,ERS557914,ERA363850,UNIVERSITY OF AMSTERDAM,UNIVERSITY OF AMSTERDAM,1,0.78861,,0.19966,,0.89207,,0.49332,,22,,B,,usable mapping rate,ion_torrent,ion_torrent,unknown,small_rna,unknown,bulk,unknown,unknown,,Netherlands,2014-10-01,Adult,Adult,Undetermined,Undetermined
15541,ERR647613,ERX604049,ERS557914,ERP007147,PRJEB7420,Two Sets of Synthetic Spike in Controls for Size Selection and Data Normalisation in small RNA seq,ena-STUDY-UNIVERSITY OF AMSTERDAM-01-10-2014-14:02:22:856-622,Other,There is an increasing interest in complementing standard RNA seq experiments with small RNA expression data to obtain a comprehensive view of the transcriptome. Two aspects need to be considered when small RNA seq sRNA seq is used. First  sRNA seq protocols are size selective and typically optimized for sequencing miRNAs. Second  given the dynamic composition of the small RNA fraction a reliable normalization strategy is needed to identify differentially expressed sRNAs. To address both issues we here present two sets of synthetic RNA spike in controls for monitoring size selectivity and for performing normalization. Size spike ins comprising 18 oligoribonucleotides 10–300 nucleotides were designed and tested using controlled modifications to the size selectivity of sRNA seq. As an applied example  the loss of RNA molecules <30 nucleotides during small RNA isolation from zebrafish oocytes is demonstrated. Normalization spike ins comprising 19 oligoribonucleotides were designed to use as an external reference for DESeq normalization. Spike in based normalization improved the quantification of predetermined fold changes. Lastly  sRNA seq on female and male zebrafish demonstrated that the higher miRNA content in males was correctly preserved post spike in based normalization.,,,,Male 001,SAMEA2796299,UNIVERSITY OF AMSTERDAM,Alias:Male 001|ENA checklist:ERC000011|INSDC center alias:UNIVERSITY OF AMSTERDAM|INSDC center name:UNIVERSITY OF AMSTERDAM|INSDC first public:2014 11 29T17:02:28Z|INSDC last update:2014 10 01T14:42:44Z|INSDC status:public|SRA accession:ERS557914|Sample Name:ERS557914|Title:Male ZF|dev stage:Adult|sex:male|strain:ABxTL,,,,,,,,,Ion Torrent Proton sequencing,ena EXPERIMENT UNIVERSITY OF AMSTERDAM 01 10 2014 14:59:02:785 4,RID0023,1,,,miRNA-Seq,TRANSCRIPTOMIC,cDNA,SINGLE,ION_TORRENT,Ion Torrent Proton,,ERP007147,Ion Torrent Proton sequencing,ENA FIRST PUBLIC:2014 11 29|ENA LAST UPDATE:2018 11 16,RID0023_012.fastq.gz,fastq,134807115.0,5232713.0,ena RUN UNIVERSITY OF AMSTERDAM 01 10 2014 14:59:02:785 4,0:25.76,A:37141537;C:27086121;G:32486547;T:38092910;N:0,25,,,,37141537,27086121,32486547,38092910,0,ERX604049,ERS557914,ERA363850,UNIVERSITY OF AMSTERDAM,UNIVERSITY OF AMSTERDAM,1,0.78328,,0.20061,,0.88903,,0.51655,,32,,B,,usable mapping rate,ion_torrent,ion_torrent,unknown,small_rna,unknown,bulk,unknown,unknown,,Netherlands,2014-10-01,Adult,Adult,Undetermined,Undetermined
15542,ERR647603,ERX604039,ERS557923,ERP007147,PRJEB7420,Two Sets of Synthetic Spike in Controls for Size Selection and Data Normalisation in small RNA seq,ena-STUDY-UNIVERSITY OF AMSTERDAM-01-10-2014-14:02:22:856-622,Other,There is an increasing interest in complementing standard RNA seq experiments with small RNA expression data to obtain a comprehensive view of the transcriptome. Two aspects need to be considered when small RNA seq sRNA seq is used. First  sRNA seq protocols are size selective and typically optimized for sequencing miRNAs. Second  given the dynamic composition of the small RNA fraction a reliable normalization strategy is needed to identify differentially expressed sRNAs. To address both issues we here present two sets of synthetic RNA spike in controls for monitoring size selectivity and for performing normalization. Size spike ins comprising 18 oligoribonucleotides 10–300 nucleotides were designed and tested using controlled modifications to the size selectivity of sRNA seq. As an applied example  the loss of RNA molecules <30 nucleotides during small RNA isolation from zebrafish oocytes is demonstrated. Normalization spike ins comprising 19 oligoribonucleotides were designed to use as an external reference for DESeq normalization. Spike in based normalization improved the quantification of predetermined fold changes. Lastly  sRNA seq on female and male zebrafish demonstrated that the higher miRNA content in males was correctly preserved post spike in based normalization.,,,,Female 016,SAMEA2796308,UNIVERSITY OF AMSTERDAM,Alias:Female 016|ENA checklist:ERC000011|INSDC center alias:UNIVERSITY OF AMSTERDAM|INSDC center name:UNIVERSITY OF AMSTERDAM|INSDC first public:2014 11 29T17:02:28Z|INSDC last update:2014 10 01T14:38:25Z|INSDC status:public|SRA accession:ERS557923|Sample Name:ERS557923|Title:Male vs Female|dev stage:Adult|sex:female|strain:ABxTL,,,,,,,,,Ion Torrent Proton sequencing,ena EXPERIMENT UNIVERSITY OF AMSTERDAM 01 10 2014 14:37:59:568 8,RID0035,1,,,miRNA-Seq,TRANSCRIPTOMIC,cDNA,SINGLE,ION_TORRENT,Ion Torrent Proton,,ERP007147,Ion Torrent Proton sequencing,ENA FIRST PUBLIC:2014 11 29|ENA LAST UPDATE:2018 11 16,RID0035_010.fastq.gz,fastq,186445198.0,6054478.0,ena RUN UNIVERSITY OF AMSTERDAM 01 10 2014 14:37:59:568 8,0:30.79,A:51431122;C:41043403;G:44213690;T:49756983;N:0,30,,,,51431122,41043403,44213690,49756983,0,ERX604039,ERS557923,ERA363846,UNIVERSITY OF AMSTERDAM,UNIVERSITY OF AMSTERDAM,1,0.74649,,0.44738,,0.84254,,0.55199,,13,,B,,usable mapping rate,ion_torrent,ion_torrent,unknown,small_rna,unknown,bulk,unknown,unknown,,Netherlands,2014-10-01,Adult,Adult,Undetermined,Undetermined
15543,ERR647602,ERX604038,ERS557922,ERP007147,PRJEB7420,Two Sets of Synthetic Spike in Controls for Size Selection and Data Normalisation in small RNA seq,ena-STUDY-UNIVERSITY OF AMSTERDAM-01-10-2014-14:02:22:856-622,Other,There is an increasing interest in complementing standard RNA seq experiments with small RNA expression data to obtain a comprehensive view of the transcriptome. Two aspects need to be considered when small RNA seq sRNA seq is used. First  sRNA seq protocols are size selective and typically optimized for sequencing miRNAs. Second  given the dynamic composition of the small RNA fraction a reliable normalization strategy is needed to identify differentially expressed sRNAs. To address both issues we here present two sets of synthetic RNA spike in controls for monitoring size selectivity and for performing normalization. Size spike ins comprising 18 oligoribonucleotides 10–300 nucleotides were designed and tested using controlled modifications to the size selectivity of sRNA seq. As an applied example  the loss of RNA molecules <30 nucleotides during small RNA isolation from zebrafish oocytes is demonstrated. Normalization spike ins comprising 19 oligoribonucleotides were designed to use as an external reference for DESeq normalization. Spike in based normalization improved the quantification of predetermined fold changes. Lastly  sRNA seq on female and male zebrafish demonstrated that the higher miRNA content in males was correctly preserved post spike in based normalization.,,,,Female 014,SAMEA2796307,UNIVERSITY OF AMSTERDAM,Alias:Female 014|ENA checklist:ERC000011|INSDC center alias:UNIVERSITY OF AMSTERDAM|INSDC center name:UNIVERSITY OF AMSTERDAM|INSDC first public:2014 11 29T17:02:28Z|INSDC last update:2014 10 01T14:38:25Z|INSDC status:public|SRA accession:ERS557922|Sample Name:ERS557922|Title:Male vs Female|dev stage:Adult|sex:female|strain:ABxTL,,,,,,,,,Ion Torrent Proton sequencing,ena EXPERIMENT UNIVERSITY OF AMSTERDAM 01 10 2014 14:37:59:568 7,RID0035,1,,,miRNA-Seq,TRANSCRIPTOMIC,cDNA,SINGLE,ION_TORRENT,Ion Torrent Proton,,ERP007147,Ion Torrent Proton sequencing,ENA FIRST PUBLIC:2014 11 29|ENA LAST UPDATE:2018 11 16,RID0035_009.fastq.gz,fastq,199860614.0,6227225.0,ena RUN UNIVERSITY OF AMSTERDAM 01 10 2014 14:37:59:568 7,0:32.09,A:53999848;C:44698032;G:48251471;T:52911263;N:0,32,,,,53999848,44698032,48251471,52911263,0,ERX604038,ERS557922,ERA363846,UNIVERSITY OF AMSTERDAM,UNIVERSITY OF AMSTERDAM,1,0.75262,,0.42794,,0.83619,,0.5624,,29,,B,,usable mapping rate,ion_torrent,ion_torrent,unknown,small_rna,unknown,bulk,unknown,unknown,,Netherlands,2014-10-01,Adult,Adult,Undetermined,Undetermined
15544,ERR647601,ERX604037,ERS557921,ERP007147,PRJEB7420,Two Sets of Synthetic Spike in Controls for Size Selection and Data Normalisation in small RNA seq,ena-STUDY-UNIVERSITY OF AMSTERDAM-01-10-2014-14:02:22:856-622,Other,There is an increasing interest in complementing standard RNA seq experiments with small RNA expression data to obtain a comprehensive view of the transcriptome. Two aspects need to be considered when small RNA seq sRNA seq is used. First  sRNA seq protocols are size selective and typically optimized for sequencing miRNAs. Second  given the dynamic composition of the small RNA fraction a reliable normalization strategy is needed to identify differentially expressed sRNAs. To address both issues we here present two sets of synthetic RNA spike in controls for monitoring size selectivity and for performing normalization. Size spike ins comprising 18 oligoribonucleotides 10–300 nucleotides were designed and tested using controlled modifications to the size selectivity of sRNA seq. As an applied example  the loss of RNA molecules <30 nucleotides during small RNA isolation from zebrafish oocytes is demonstrated. Normalization spike ins comprising 19 oligoribonucleotides were designed to use as an external reference for DESeq normalization. Spike in based normalization improved the quantification of predetermined fold changes. Lastly  sRNA seq on female and male zebrafish demonstrated that the higher miRNA content in males was correctly preserved post spike in based normalization.,,,,Female 008,SAMEA2796306,UNIVERSITY OF AMSTERDAM,Alias:Female 008|ENA checklist:ERC000011|INSDC center alias:UNIVERSITY OF AMSTERDAM|INSDC center name:UNIVERSITY OF AMSTERDAM|INSDC first public:2014 11 29T17:02:28Z|INSDC last update:2014 10 01T14:38:25Z|INSDC status:public|SRA accession:ERS557921|Sample Name:ERS557921|Title:Male vs Female|dev stage:Adult|sex:female|strain:ABxTL,,,,,,,,,Ion Torrent Proton sequencing,ena EXPERIMENT UNIVERSITY OF AMSTERDAM 01 10 2014 14:37:59:568 6,RID0035,1,,,miRNA-Seq,TRANSCRIPTOMIC,cDNA,SINGLE,ION_TORRENT,Ion Torrent Proton,,ERP007147,Ion Torrent Proton sequencing,ENA FIRST PUBLIC:2014 11 29|ENA LAST UPDATE:2018 11 16,RID0035_008.fastq.gz,fastq,190251948.0,6082600.0,ena RUN UNIVERSITY OF AMSTERDAM 01 10 2014 14:37:59:568 6,0:31.28,A:50176174;C:43027879;G:47458847;T:49589048;N:0,31,,,,50176174,43027879,47458847,49589048,0,ERX604037,ERS557921,ERA363846,UNIVERSITY OF AMSTERDAM,UNIVERSITY OF AMSTERDAM,1,0.72654,,0.373,,0.82785,,0.52436,,25,,B,,usable mapping rate,ion_torrent,ion_torrent,unknown,small_rna,unknown,bulk,unknown,unknown,,Netherlands,2014-10-01,Adult,Adult,Undetermined,Undetermined
15545,ERR647600,ERX604036,ERS557920,ERP007147,PRJEB7420,Two Sets of Synthetic Spike in Controls for Size Selection and Data Normalisation in small RNA seq,ena-STUDY-UNIVERSITY OF AMSTERDAM-01-10-2014-14:02:22:856-622,Other,There is an increasing interest in complementing standard RNA seq experiments with small RNA expression data to obtain a comprehensive view of the transcriptome. Two aspects need to be considered when small RNA seq sRNA seq is used. First  sRNA seq protocols are size selective and typically optimized for sequencing miRNAs. Second  given the dynamic composition of the small RNA fraction a reliable normalization strategy is needed to identify differentially expressed sRNAs. To address both issues we here present two sets of synthetic RNA spike in controls for monitoring size selectivity and for performing normalization. Size spike ins comprising 18 oligoribonucleotides 10–300 nucleotides were designed and tested using controlled modifications to the size selectivity of sRNA seq. As an applied example  the loss of RNA molecules <30 nucleotides during small RNA isolation from zebrafish oocytes is demonstrated. Normalization spike ins comprising 19 oligoribonucleotides were designed to use as an external reference for DESeq normalization. Spike in based normalization improved the quantification of predetermined fold changes. Lastly  sRNA seq on female and male zebrafish demonstrated that the higher miRNA content in males was correctly preserved post spike in based normalization.,,,,Female 007,SAMEA2796305,UNIVERSITY OF AMSTERDAM,Alias:Female 007|ENA checklist:ERC000011|INSDC center alias:UNIVERSITY OF AMSTERDAM|INSDC center name:UNIVERSITY OF AMSTERDAM|INSDC first public:2014 11 29T17:02:28Z|INSDC last update:2014 10 01T14:38:24Z|INSDC status:public|SRA accession:ERS557920|Sample Name:ERS557920|Title:Male vs Female|dev stage:Adult|sex:female|strain:ABxTL,,,,,,,,,Ion Torrent Proton sequencing,ena EXPERIMENT UNIVERSITY OF AMSTERDAM 01 10 2014 14:37:59:568 5,RID0035,1,,,miRNA-Seq,TRANSCRIPTOMIC,cDNA,SINGLE,ION_TORRENT,Ion Torrent Proton,,ERP007147,Ion Torrent Proton sequencing,ENA FIRST PUBLIC:2014 11 29|ENA LAST UPDATE:2018 11 16,RID0035_007.fastq.gz,fastq,214503694.0,6990446.0,ena RUN UNIVERSITY OF AMSTERDAM 01 10 2014 14:37:59:568 5,0:30.69,A:59354819;C:47472262;G:51306173;T:56370440;N:0,30,,,,59354819,47472262,51306173,56370440,0,ERX604036,ERS557920,ERA363846,UNIVERSITY OF AMSTERDAM,UNIVERSITY OF AMSTERDAM,1,0.74272,,0.45587,,0.83161,,0.53444,,22,,B,,usable mapping rate,ion_torrent,ion_torrent,unknown,small_rna,unknown,bulk,unknown,unknown,,Netherlands,2014-10-01,Adult,Adult,Undetermined,Undetermined
15546,ERR647599,ERX604035,ERS557919,ERP007147,PRJEB7420,Two Sets of Synthetic Spike in Controls for Size Selection and Data Normalisation in small RNA seq,ena-STUDY-UNIVERSITY OF AMSTERDAM-01-10-2014-14:02:22:856-622,Other,There is an increasing interest in complementing standard RNA seq experiments with small RNA expression data to obtain a comprehensive view of the transcriptome. Two aspects need to be considered when small RNA seq sRNA seq is used. First  sRNA seq protocols are size selective and typically optimized for sequencing miRNAs. Second  given the dynamic composition of the small RNA fraction a reliable normalization strategy is needed to identify differentially expressed sRNAs. To address both issues we here present two sets of synthetic RNA spike in controls for monitoring size selectivity and for performing normalization. Size spike ins comprising 18 oligoribonucleotides 10–300 nucleotides were designed and tested using controlled modifications to the size selectivity of sRNA seq. As an applied example  the loss of RNA molecules <30 nucleotides during small RNA isolation from zebrafish oocytes is demonstrated. Normalization spike ins comprising 19 oligoribonucleotides were designed to use as an external reference for DESeq normalization. Spike in based normalization improved the quantification of predetermined fold changes. Lastly  sRNA seq on female and male zebrafish demonstrated that the higher miRNA content in males was correctly preserved post spike in based normalization.,,,,Male 014,SAMEA2796304,UNIVERSITY OF AMSTERDAM,Alias:Male 014|ENA checklist:ERC000011|INSDC center alias:UNIVERSITY OF AMSTERDAM|INSDC center name:UNIVERSITY OF AMSTERDAM|INSDC first public:2014 11 29T17:02:28Z|INSDC last update:2014 10 01T14:38:24Z|INSDC status:public|SRA accession:ERS557919|Sample Name:ERS557919|Title:Male vs Female|dev stage:Adult|sex:male|strain:ABxTL,,,,,,,,,Ion Torrent Proton sequencing,ena EXPERIMENT UNIVERSITY OF AMSTERDAM 01 10 2014 14:37:59:568 4,RID0035,1,,,miRNA-Seq,TRANSCRIPTOMIC,cDNA,SINGLE,ION_TORRENT,Ion Torrent Proton,,ERP007147,Ion Torrent Proton sequencing,ENA FIRST PUBLIC:2014 11 29|ENA LAST UPDATE:2018 11 16,RID0035_005.fastq.gz,fastq,235098531.0,7522781.0,ena RUN UNIVERSITY OF AMSTERDAM 01 10 2014 14:37:59:568 4,0:31.25,A:58178492;C:54009752;G:64159987;T:58750300;N:0,31,,,,58178492,54009752,64159987,58750300,0,ERX604035,ERS557919,ERA363846,UNIVERSITY OF AMSTERDAM,UNIVERSITY OF AMSTERDAM,1,0.73752,,0.19698,,0.86665,,0.58697,,13,,B,,usable mapping rate,ion_torrent,ion_torrent,unknown,small_rna,unknown,bulk,unknown,unknown,,Netherlands,2014-10-01,Adult,Adult,Undetermined,Undetermined
15547,ERR647598,ERX604034,ERS557918,ERP007147,PRJEB7420,Two Sets of Synthetic Spike in Controls for Size Selection and Data Normalisation in small RNA seq,ena-STUDY-UNIVERSITY OF AMSTERDAM-01-10-2014-14:02:22:856-622,Other,There is an increasing interest in complementing standard RNA seq experiments with small RNA expression data to obtain a comprehensive view of the transcriptome. Two aspects need to be considered when small RNA seq sRNA seq is used. First  sRNA seq protocols are size selective and typically optimized for sequencing miRNAs. Second  given the dynamic composition of the small RNA fraction a reliable normalization strategy is needed to identify differentially expressed sRNAs. To address both issues we here present two sets of synthetic RNA spike in controls for monitoring size selectivity and for performing normalization. Size spike ins comprising 18 oligoribonucleotides 10–300 nucleotides were designed and tested using controlled modifications to the size selectivity of sRNA seq. As an applied example  the loss of RNA molecules <30 nucleotides during small RNA isolation from zebrafish oocytes is demonstrated. Normalization spike ins comprising 19 oligoribonucleotides were designed to use as an external reference for DESeq normalization. Spike in based normalization improved the quantification of predetermined fold changes. Lastly  sRNA seq on female and male zebrafish demonstrated that the higher miRNA content in males was correctly preserved post spike in based normalization.,,,,Male 011,SAMEA2796303,UNIVERSITY OF AMSTERDAM,Alias:Male 011|ENA checklist:ERC000011|INSDC center alias:UNIVERSITY OF AMSTERDAM|INSDC center name:UNIVERSITY OF AMSTERDAM|INSDC first public:2014 11 29T17:02:28Z|INSDC last update:2014 10 01T14:38:24Z|INSDC status:public|SRA accession:ERS557918|Sample Name:ERS557918|Title:Male vs Female|dev stage:Adult|sex:male|strain:ABxTL,,,,,,,,,Ion Torrent Proton sequencing,ena EXPERIMENT UNIVERSITY OF AMSTERDAM 01 10 2014 14:37:59:568 3,RID0035,1,,,miRNA-Seq,TRANSCRIPTOMIC,cDNA,SINGLE,ION_TORRENT,Ion Torrent Proton,,ERP007147,Ion Torrent Proton sequencing,ENA FIRST PUBLIC:2014 11 29|ENA LAST UPDATE:2018 11 16,RID0035_004.fastq.gz,fastq,223142261.0,6553993.0,ena RUN UNIVERSITY OF AMSTERDAM 01 10 2014 14:37:59:568 3,0:34.05,A:55488952;C:50941034;G:58123716;T:58588559;N:0,34,,,,55488952,50941034,58123716,58588559,0,ERX604034,ERS557918,ERA363846,UNIVERSITY OF AMSTERDAM,UNIVERSITY OF AMSTERDAM,1,0.74686,,0.2139,,0.86996,,0.55375,,11,,B,,usable mapping rate,ion_torrent,ion_torrent,unknown,small_rna,unknown,bulk,unknown,unknown,,Netherlands,2014-10-01,Adult,Adult,Undetermined,Undetermined
15548,ERR647597,ERX604033,ERS557917,ERP007147,PRJEB7420,Two Sets of Synthetic Spike in Controls for Size Selection and Data Normalisation in small RNA seq,ena-STUDY-UNIVERSITY OF AMSTERDAM-01-10-2014-14:02:22:856-622,Other,There is an increasing interest in complementing standard RNA seq experiments with small RNA expression data to obtain a comprehensive view of the transcriptome. Two aspects need to be considered when small RNA seq sRNA seq is used. First  sRNA seq protocols are size selective and typically optimized for sequencing miRNAs. Second  given the dynamic composition of the small RNA fraction a reliable normalization strategy is needed to identify differentially expressed sRNAs. To address both issues we here present two sets of synthetic RNA spike in controls for monitoring size selectivity and for performing normalization. Size spike ins comprising 18 oligoribonucleotides 10–300 nucleotides were designed and tested using controlled modifications to the size selectivity of sRNA seq. As an applied example  the loss of RNA molecules <30 nucleotides during small RNA isolation from zebrafish oocytes is demonstrated. Normalization spike ins comprising 19 oligoribonucleotides were designed to use as an external reference for DESeq normalization. Spike in based normalization improved the quantification of predetermined fold changes. Lastly  sRNA seq on female and male zebrafish demonstrated that the higher miRNA content in males was correctly preserved post spike in based normalization.,,,,Male 006,SAMEA2796302,UNIVERSITY OF AMSTERDAM,Alias:Male 006|ENA checklist:ERC000011|INSDC center alias:UNIVERSITY OF AMSTERDAM|INSDC center name:UNIVERSITY OF AMSTERDAM|INSDC first public:2014 11 29T17:02:28Z|INSDC last update:2014 10 01T14:38:24Z|INSDC status:public|SRA accession:ERS557917|Sample Name:ERS557917|Title:Male vs Female|dev stage:Adult|sex:male|strain:ABxTL,,,,,,,,,Ion Torrent Proton sequencing,ena EXPERIMENT UNIVERSITY OF AMSTERDAM 01 10 2014 14:37:59:568 2,RID0035,1,,,miRNA-Seq,TRANSCRIPTOMIC,cDNA,SINGLE,ION_TORRENT,Ion Torrent Proton,,ERP007147,Ion Torrent Proton sequencing,ENA FIRST PUBLIC:2014 11 29|ENA LAST UPDATE:2018 11 16,RID0035_002.fastq.gz,fastq,166401146.0,5656405.0,ena RUN UNIVERSITY OF AMSTERDAM 01 10 2014 14:37:59:568 2,0:29.42,A:41137490;C:38824883;G:44865980;T:41572793;N:0,29,,,,41137490,38824883,44865980,41572793,0,ERX604033,ERS557917,ERA363846,UNIVERSITY OF AMSTERDAM,UNIVERSITY OF AMSTERDAM,1,0.69452,,0.18245,,0.87044,,0.58162,,11,,B,,usable mapping rate,ion_torrent,ion_torrent,unknown,small_rna,unknown,bulk,unknown,unknown,,Netherlands,2014-10-01,Adult,Adult,Undetermined,Undetermined
15549,ERR647596,ERX604032,ERS557916,ERP007147,PRJEB7420,Two Sets of Synthetic Spike in Controls for Size Selection and Data Normalisation in small RNA seq,ena-STUDY-UNIVERSITY OF AMSTERDAM-01-10-2014-14:02:22:856-622,Other,There is an increasing interest in complementing standard RNA seq experiments with small RNA expression data to obtain a comprehensive view of the transcriptome. Two aspects need to be considered when small RNA seq sRNA seq is used. First  sRNA seq protocols are size selective and typically optimized for sequencing miRNAs. Second  given the dynamic composition of the small RNA fraction a reliable normalization strategy is needed to identify differentially expressed sRNAs. To address both issues we here present two sets of synthetic RNA spike in controls for monitoring size selectivity and for performing normalization. Size spike ins comprising 18 oligoribonucleotides 10–300 nucleotides were designed and tested using controlled modifications to the size selectivity of sRNA seq. As an applied example  the loss of RNA molecules <30 nucleotides during small RNA isolation from zebrafish oocytes is demonstrated. Normalization spike ins comprising 19 oligoribonucleotides were designed to use as an external reference for DESeq normalization. Spike in based normalization improved the quantification of predetermined fold changes. Lastly  sRNA seq on female and male zebrafish demonstrated that the higher miRNA content in males was correctly preserved post spike in based normalization.,,,,Male 003,SAMEA2796301,UNIVERSITY OF AMSTERDAM,Alias:Male 003|ENA checklist:ERC000011|INSDC center alias:UNIVERSITY OF AMSTERDAM|INSDC center name:UNIVERSITY OF AMSTERDAM|INSDC first public:2014 11 29T17:02:28Z|INSDC last update:2014 10 01T14:38:23Z|INSDC status:public|SRA accession:ERS557916|Sample Name:ERS557916|Title:Male vs Female|dev stage:Adult|sex:male|strain:ABxTL,,,,,,,,,Ion Torrent Proton sequencing,ena EXPERIMENT UNIVERSITY OF AMSTERDAM 01 10 2014 14:37:59:568 1,RID0035,1,,,miRNA-Seq,TRANSCRIPTOMIC,cDNA,SINGLE,ION_TORRENT,Ion Torrent Proton,,ERP007147,Ion Torrent Proton sequencing,ENA FIRST PUBLIC:2014 11 29|ENA LAST UPDATE:2018 11 16,RID0035_001.fastq.gz,fastq,167146177.0,6380638.0,ena RUN UNIVERSITY OF AMSTERDAM 01 10 2014 14:37:59:568 1,0:26.20,A:43620211;C:36811253;G:43301042;T:43413671;N:0,26,,,,43620211,36811253,43301042,43413671,0,ERX604032,ERS557916,ERA363846,UNIVERSITY OF AMSTERDAM,UNIVERSITY OF AMSTERDAM,1,0.70048,,0.18034,,0.88075,,0.55658,,11,,B,,usable mapping rate,ion_torrent,ion_torrent,unknown,small_rna,unknown,bulk,unknown,unknown,,Netherlands,2014-10-01,Adult,Adult,Undetermined,Undetermined
15551,ERR647594,ERX604030,ERS557914,ERP007147,PRJEB7420,Two Sets of Synthetic Spike in Controls for Size Selection and Data Normalisation in small RNA seq,ena-STUDY-UNIVERSITY OF AMSTERDAM-01-10-2014-14:02:22:856-622,Other,There is an increasing interest in complementing standard RNA seq experiments with small RNA expression data to obtain a comprehensive view of the transcriptome. Two aspects need to be considered when small RNA seq sRNA seq is used. First  sRNA seq protocols are size selective and typically optimized for sequencing miRNAs. Second  given the dynamic composition of the small RNA fraction a reliable normalization strategy is needed to identify differentially expressed sRNAs. To address both issues we here present two sets of synthetic RNA spike in controls for monitoring size selectivity and for performing normalization. Size spike ins comprising 18 oligoribonucleotides 10–300 nucleotides were designed and tested using controlled modifications to the size selectivity of sRNA seq. As an applied example  the loss of RNA molecules <30 nucleotides during small RNA isolation from zebrafish oocytes is demonstrated. Normalization spike ins comprising 19 oligoribonucleotides were designed to use as an external reference for DESeq normalization. Spike in based normalization improved the quantification of predetermined fold changes. Lastly  sRNA seq on female and male zebrafish demonstrated that the higher miRNA content in males was correctly preserved post spike in based normalization.,,,,Male 001,SAMEA2796299,UNIVERSITY OF AMSTERDAM,Alias:Male 001|ENA checklist:ERC000011|INSDC center alias:UNIVERSITY OF AMSTERDAM|INSDC center name:UNIVERSITY OF AMSTERDAM|INSDC first public:2014 11 29T17:02:28Z|INSDC last update:2014 10 01T14:42:44Z|INSDC status:public|SRA accession:ERS557914|Sample Name:ERS557914|Title:Male ZF|dev stage:Adult|sex:male|strain:ABxTL,,,,,,,,,Ion Torrent Proton sequencing,ena EXPERIMENT UNIVERSITY OF AMSTERDAM 01 10 2014 14:02:18:976 6,RID0011,1,,,miRNA-Seq,TRANSCRIPTOMIC,cDNA,SINGLE,ION_TORRENT,Ion Torrent Proton,,ERP007147,Ion Torrent Proton sequencing,ENA FIRST PUBLIC:2014 11 29|ENA LAST UPDATE:2018 11 16,RID0011_015.fastq.gz,fastq,273349184.0,9019669.0,ena RUN UNIVERSITY OF AMSTERDAM 01 10 2014 14:02:18:976 6,0:30.31,A:74069549;C:59041449;G:64551451;T:75686735;N:0,30,,,,74069549,59041449,64551451,75686735,0,ERX604030,ERS557914,ERA363842,UNIVERSITY OF AMSTERDAM,UNIVERSITY OF AMSTERDAM,1,0.78759,,0.26081,,0.90989,,0.51416,,29,,B,,usable mapping rate,ion_torrent,ion_torrent,unknown,small_rna,unknown,bulk,unknown,unknown,,Netherlands,2014-10-01,Adult,Adult,Undetermined,Undetermined
15552,ERR647589,ERX604025,ERS557914,ERP007147,PRJEB7420,Two Sets of Synthetic Spike in Controls for Size Selection and Data Normalisation in small RNA seq,ena-STUDY-UNIVERSITY OF AMSTERDAM-01-10-2014-14:02:22:856-622,Other,There is an increasing interest in complementing standard RNA seq experiments with small RNA expression data to obtain a comprehensive view of the transcriptome. Two aspects need to be considered when small RNA seq sRNA seq is used. First  sRNA seq protocols are size selective and typically optimized for sequencing miRNAs. Second  given the dynamic composition of the small RNA fraction a reliable normalization strategy is needed to identify differentially expressed sRNAs. To address both issues we here present two sets of synthetic RNA spike in controls for monitoring size selectivity and for performing normalization. Size spike ins comprising 18 oligoribonucleotides 10–300 nucleotides were designed and tested using controlled modifications to the size selectivity of sRNA seq. As an applied example  the loss of RNA molecules <30 nucleotides during small RNA isolation from zebrafish oocytes is demonstrated. Normalization spike ins comprising 19 oligoribonucleotides were designed to use as an external reference for DESeq normalization. Spike in based normalization improved the quantification of predetermined fold changes. Lastly  sRNA seq on female and male zebrafish demonstrated that the higher miRNA content in males was correctly preserved post spike in based normalization.,,,,Male 001,SAMEA2796299,UNIVERSITY OF AMSTERDAM,Alias:Male 001|ENA checklist:ERC000011|INSDC center alias:UNIVERSITY OF AMSTERDAM|INSDC center name:UNIVERSITY OF AMSTERDAM|INSDC first public:2014 11 29T17:02:28Z|INSDC last update:2014 10 01T14:42:44Z|INSDC status:public|SRA accession:ERS557914|Sample Name:ERS557914|Title:Male ZF|dev stage:Adult|sex:male|strain:ABxTL,,,,,,,,,Ion Torrent Proton sequencing,ena EXPERIMENT UNIVERSITY OF AMSTERDAM 01 10 2014 14:02:18:976 1,RID0011,1,,,miRNA-Seq,TRANSCRIPTOMIC,cDNA,SINGLE,ION_TORRENT,Ion Torrent Proton,,ERP007147,Ion Torrent Proton sequencing,ENA FIRST PUBLIC:2014 11 29|ENA LAST UPDATE:2018 11 16,RID0011_010.fastq.gz,fastq,54651692.0,2000589.0,ena RUN UNIVERSITY OF AMSTERDAM 01 10 2014 14:02:18:976 1,0:27.32,A:16624629;C:13894132;G:10557585;T:13575346;N:0,27,,,,16624629,13894132,10557585,13575346,0,ERX604025,ERS557914,ERA363842,UNIVERSITY OF AMSTERDAM,UNIVERSITY OF AMSTERDAM,1,0.11072,,0.02655,,0.97749,,0.53916,,26,,B,,usable mapping rate,ion_torrent,ion_torrent,unknown,small_rna,unknown,bulk,unknown,unknown,,Netherlands,2014-10-01,Adult,Adult,Undetermined,Undetermined
15553,ERR647590,ERX604026,ERS557914,ERP007147,PRJEB7420,Two Sets of Synthetic Spike in Controls for Size Selection and Data Normalisation in small RNA seq,ena-STUDY-UNIVERSITY OF AMSTERDAM-01-10-2014-14:02:22:856-622,Other,There is an increasing interest in complementing standard RNA seq experiments with small RNA expression data to obtain a comprehensive view of the transcriptome. Two aspects need to be considered when small RNA seq sRNA seq is used. First  sRNA seq protocols are size selective and typically optimized for sequencing miRNAs. Second  given the dynamic composition of the small RNA fraction a reliable normalization strategy is needed to identify differentially expressed sRNAs. To address both issues we here present two sets of synthetic RNA spike in controls for monitoring size selectivity and for performing normalization. Size spike ins comprising 18 oligoribonucleotides 10–300 nucleotides were designed and tested using controlled modifications to the size selectivity of sRNA seq. As an applied example  the loss of RNA molecules <30 nucleotides during small RNA isolation from zebrafish oocytes is demonstrated. Normalization spike ins comprising 19 oligoribonucleotides were designed to use as an external reference for DESeq normalization. Spike in based normalization improved the quantification of predetermined fold changes. Lastly  sRNA seq on female and male zebrafish demonstrated that the higher miRNA content in males was correctly preserved post spike in based normalization.,,,,Male 001,SAMEA2796299,UNIVERSITY OF AMSTERDAM,Alias:Male 001|ENA checklist:ERC000011|INSDC center alias:UNIVERSITY OF AMSTERDAM|INSDC center name:UNIVERSITY OF AMSTERDAM|INSDC first public:2014 11 29T17:02:28Z|INSDC last update:2014 10 01T14:42:44Z|INSDC status:public|SRA accession:ERS557914|Sample Name:ERS557914|Title:Male ZF|dev stage:Adult|sex:male|strain:ABxTL,,,,,,,,,Ion Torrent Proton sequencing,ena EXPERIMENT UNIVERSITY OF AMSTERDAM 01 10 2014 14:02:18:976 2,RID0011,1,,,miRNA-Seq,TRANSCRIPTOMIC,cDNA,SINGLE,ION_TORRENT,Ion Torrent Proton,,ERP007147,Ion Torrent Proton sequencing,ENA FIRST PUBLIC:2014 11 29|ENA LAST UPDATE:2018 11 16,RID0011_011.fastq.gz,fastq,47051190.0,1414933.0,ena RUN UNIVERSITY OF AMSTERDAM 01 10 2014 14:02:18:976 2,0:33.25,A:12984359;C:11329853;G:10330928;T:12406050;N:0,33,,,,12984359,11329853,10330928,12406050,0,ERX604026,ERS557914,ERA363842,UNIVERSITY OF AMSTERDAM,UNIVERSITY OF AMSTERDAM,1,0.36871,,0.10094,,0.9483,,0.51008,,40,,B,,usable mapping rate,ion_torrent,ion_torrent,unknown,small_rna,unknown,bulk,unknown,unknown,,Netherlands,2014-10-01,Adult,Adult,Undetermined,Undetermined
15554,ERR647592,ERX604028,ERS557914,ERP007147,PRJEB7420,Two Sets of Synthetic Spike in Controls for Size Selection and Data Normalisation in small RNA seq,ena-STUDY-UNIVERSITY OF AMSTERDAM-01-10-2014-14:02:22:856-622,Other,There is an increasing interest in complementing standard RNA seq experiments with small RNA expression data to obtain a comprehensive view of the transcriptome. Two aspects need to be considered when small RNA seq sRNA seq is used. First  sRNA seq protocols are size selective and typically optimized for sequencing miRNAs. Second  given the dynamic composition of the small RNA fraction a reliable normalization strategy is needed to identify differentially expressed sRNAs. To address both issues we here present two sets of synthetic RNA spike in controls for monitoring size selectivity and for performing normalization. Size spike ins comprising 18 oligoribonucleotides 10–300 nucleotides were designed and tested using controlled modifications to the size selectivity of sRNA seq. As an applied example  the loss of RNA molecules <30 nucleotides during small RNA isolation from zebrafish oocytes is demonstrated. Normalization spike ins comprising 19 oligoribonucleotides were designed to use as an external reference for DESeq normalization. Spike in based normalization improved the quantification of predetermined fold changes. Lastly  sRNA seq on female and male zebrafish demonstrated that the higher miRNA content in males was correctly preserved post spike in based normalization.,,,,Male 001,SAMEA2796299,UNIVERSITY OF AMSTERDAM,Alias:Male 001|ENA checklist:ERC000011|INSDC center alias:UNIVERSITY OF AMSTERDAM|INSDC center name:UNIVERSITY OF AMSTERDAM|INSDC first public:2014 11 29T17:02:28Z|INSDC last update:2014 10 01T14:42:44Z|INSDC status:public|SRA accession:ERS557914|Sample Name:ERS557914|Title:Male ZF|dev stage:Adult|sex:male|strain:ABxTL,,,,,,,,,Ion Torrent Proton sequencing,ena EXPERIMENT UNIVERSITY OF AMSTERDAM 01 10 2014 14:02:18:976 4,RID0011,1,,,miRNA-Seq,TRANSCRIPTOMIC,cDNA,SINGLE,ION_TORRENT,Ion Torrent Proton,,ERP007147,Ion Torrent Proton sequencing,ENA FIRST PUBLIC:2014 11 29|ENA LAST UPDATE:2018 11 16,RID0011_013.fastq.gz,fastq,394812059.0,13329274.0,ena RUN UNIVERSITY OF AMSTERDAM 01 10 2014 14:02:18:976 4,0:29.62,A:108705027;C:84131955;G:92090437;T:109884640;N:0,29,,,,108705027,84131955,92090437,109884640,0,ERX604028,ERS557914,ERA363842,UNIVERSITY OF AMSTERDAM,UNIVERSITY OF AMSTERDAM,1,0.65205,,0.21183,,0.91977,,0.52643,,21,,B,,usable mapping rate,ion_torrent,ion_torrent,unknown,small_rna,unknown,bulk,unknown,unknown,,Netherlands,2014-10-01,Adult,Adult,Undetermined,Undetermined
15555,ERR647593,ERX604029,ERS557914,ERP007147,PRJEB7420,Two Sets of Synthetic Spike in Controls for Size Selection and Data Normalisation in small RNA seq,ena-STUDY-UNIVERSITY OF AMSTERDAM-01-10-2014-14:02:22:856-622,Other,There is an increasing interest in complementing standard RNA seq experiments with small RNA expression data to obtain a comprehensive view of the transcriptome. Two aspects need to be considered when small RNA seq sRNA seq is used. First  sRNA seq protocols are size selective and typically optimized for sequencing miRNAs. Second  given the dynamic composition of the small RNA fraction a reliable normalization strategy is needed to identify differentially expressed sRNAs. To address both issues we here present two sets of synthetic RNA spike in controls for monitoring size selectivity and for performing normalization. Size spike ins comprising 18 oligoribonucleotides 10–300 nucleotides were designed and tested using controlled modifications to the size selectivity of sRNA seq. As an applied example  the loss of RNA molecules <30 nucleotides during small RNA isolation from zebrafish oocytes is demonstrated. Normalization spike ins comprising 19 oligoribonucleotides were designed to use as an external reference for DESeq normalization. Spike in based normalization improved the quantification of predetermined fold changes. Lastly  sRNA seq on female and male zebrafish demonstrated that the higher miRNA content in males was correctly preserved post spike in based normalization.,,,,Male 001,SAMEA2796299,UNIVERSITY OF AMSTERDAM,Alias:Male 001|ENA checklist:ERC000011|INSDC center alias:UNIVERSITY OF AMSTERDAM|INSDC center name:UNIVERSITY OF AMSTERDAM|INSDC first public:2014 11 29T17:02:28Z|INSDC last update:2014 10 01T14:42:44Z|INSDC status:public|SRA accession:ERS557914|Sample Name:ERS557914|Title:Male ZF|dev stage:Adult|sex:male|strain:ABxTL,,,,,,,,,Ion Torrent Proton sequencing,ena EXPERIMENT UNIVERSITY OF AMSTERDAM 01 10 2014 14:02:18:976 5,RID0011,1,,,miRNA-Seq,TRANSCRIPTOMIC,cDNA,SINGLE,ION_TORRENT,Ion Torrent Proton,,ERP007147,Ion Torrent Proton sequencing,ENA FIRST PUBLIC:2014 11 29|ENA LAST UPDATE:2018 11 16,RID0011_014.fastq.gz,fastq,143238806.0,4225461.0,ena RUN UNIVERSITY OF AMSTERDAM 01 10 2014 14:02:18:976 5,0:33.90,A:38374880;C:31424768;G:33687670;T:39751488;N:0,33,,,,38374880,31424768,33687670,39751488,0,ERX604029,ERS557914,ERA363842,UNIVERSITY OF AMSTERDAM,UNIVERSITY OF AMSTERDAM,1,0.78469,,0.26587,,0.92178,,0.51694,,80,,B,,usable mapping rate,ion_torrent,ion_torrent,unknown,small_rna,unknown,bulk,unknown,unknown,,Netherlands,2014-10-01,Adult,Adult,Undetermined,Undetermined
15556,ERR647591,ERX604027,ERS557914,ERP007147,PRJEB7420,Two Sets of Synthetic Spike in Controls for Size Selection and Data Normalisation in small RNA seq,ena-STUDY-UNIVERSITY OF AMSTERDAM-01-10-2014-14:02:22:856-622,Other,There is an increasing interest in complementing standard RNA seq experiments with small RNA expression data to obtain a comprehensive view of the transcriptome. Two aspects need to be considered when small RNA seq sRNA seq is used. First  sRNA seq protocols are size selective and typically optimized for sequencing miRNAs. Second  given the dynamic composition of the small RNA fraction a reliable normalization strategy is needed to identify differentially expressed sRNAs. To address both issues we here present two sets of synthetic RNA spike in controls for monitoring size selectivity and for performing normalization. Size spike ins comprising 18 oligoribonucleotides 10–300 nucleotides were designed and tested using controlled modifications to the size selectivity of sRNA seq. As an applied example  the loss of RNA molecules <30 nucleotides during small RNA isolation from zebrafish oocytes is demonstrated. Normalization spike ins comprising 19 oligoribonucleotides were designed to use as an external reference for DESeq normalization. Spike in based normalization improved the quantification of predetermined fold changes. Lastly  sRNA seq on female and male zebrafish demonstrated that the higher miRNA content in males was correctly preserved post spike in based normalization.,,,,Male 001,SAMEA2796299,UNIVERSITY OF AMSTERDAM,Alias:Male 001|ENA checklist:ERC000011|INSDC center alias:UNIVERSITY OF AMSTERDAM|INSDC center name:UNIVERSITY OF AMSTERDAM|INSDC first public:2014 11 29T17:02:28Z|INSDC last update:2014 10 01T14:42:44Z|INSDC status:public|SRA accession:ERS557914|Sample Name:ERS557914|Title:Male ZF|dev stage:Adult|sex:male|strain:ABxTL,,,,,,,,,Ion Torrent Proton sequencing,ena EXPERIMENT UNIVERSITY OF AMSTERDAM 01 10 2014 14:02:18:976 3,RID0011,1,,,miRNA-Seq,TRANSCRIPTOMIC,cDNA,SINGLE,ION_TORRENT,Ion Torrent Proton,,ERP007147,Ion Torrent Proton sequencing,ENA FIRST PUBLIC:2014 11 29|ENA LAST UPDATE:2018 11 16,RID0011_012.fastq.gz,fastq,55541174.0,1649692.0,ena RUN UNIVERSITY OF AMSTERDAM 01 10 2014 14:02:18:976 3,0:33.67,A:16076639;C:14164415;G:11139997;T:14160123;N:0,33,,,,16076639,14164415,11139997,14160123,0,ERX604027,ERS557914,ERA363842,UNIVERSITY OF AMSTERDAM,UNIVERSITY OF AMSTERDAM,1,0.16692,,0.04528,,0.96384,,0.52823,,17,,B,,usable mapping rate,ion_torrent,ion_torrent,unknown,small_rna,unknown,bulk,unknown,unknown,,Netherlands,2014-10-01,Adult,Adult,Undetermined,Undetermined
21547,ERR1374860,ERX1445986,ERS1036031,ERP011007,PRJEB9859,Transcriptome profiling of single zebrafish cells,Transcriptome_profiling_of_single_zebrafish_cells-sc-2991,Transcriptome Analysis,Paired end sequence data from the Illumina HiSeq was prepared from individual wild type zebrafish cells. Generated to study  the transcriptome of single cells.,,,,Single cell TC6281340,SAMEA3728882,Wellcome Sanger Institute,ArrayExpress Species:Danio rerio|ENA first public:2016 04 26|ENA last update:2016 01 19|External Id:SAMEA3728882|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 04 26T14:06:05Z|INSDC last update:2016 01 19T16:49:28Z|INSDC status:public|Submitter Id:63f8d9b0 a4bf 11e5 bdd9 68b59976a382|common name:zebrafish|sample description:3 prime end enriched mRNA from single cells. An 11 base indexing sequence TTTTCCAGCGT is bases 11 to 21 of read 1 followed by CG and polyT.|sample name:63f8d9b0 a4bf 11e5 bdd9 68b59976a382,,,,,,,,,Illumina MiSeq paired end sequencing,SC EXP 18668 1#384,15545073,Illumina sequencing of library 15545073  constructed from sample accession ERS1036031 for study accession ERP011007.  This is part of an Illumina multiplexed sequencing run 18668 1.  This submission includes reads tagged with the sequence TTTTCCAGCGT.,Transcriptome counting qPCR only,,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina MiSeq,,ERP011007,Illumina MiSeq paired end sequencing,ENA FIRST PUBLIC:2016 04 26|ENA LAST UPDATE:2018 11 16,18668_1#384.cram,cram,284058.0,2202.0,SC RUN 18668 1#384,0:54 1:75,A:76261;C:66156;G:64128;T:77513;N:0,54,75,,,76261,66156,64128,77513,0,ERX1445986,ERS1036031,ERA610021,European Nucleotide Archive,Wellcome Sanger Institute,2,0.0,0.0007,0.0,0.00069,1.0,1.0,,,54,75,T,T,mates < 9% mapping rate,illumina,miseq,3prime,cdna_unspecified,unknown,bulk,unknown,unknown,,United Kingdom,2016-01-19,Undetermined,Undetermined,Undetermined,Undetermined
21548,ERR1374859,ERX1445985,ERS1036030,ERP011007,PRJEB9859,Transcriptome profiling of single zebrafish cells,Transcriptome_profiling_of_single_zebrafish_cells-sc-2991,Transcriptome Analysis,Paired end sequence data from the Illumina HiSeq was prepared from individual wild type zebrafish cells. Generated to study  the transcriptome of single cells.,,,,Single cell TC6281339,SAMEA3728881,Wellcome Sanger Institute,ArrayExpress Species:Danio rerio|ENA first public:2016 04 26|ENA last update:2016 01 19|External Id:SAMEA3728881|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 04 26T14:06:05Z|INSDC last update:2016 01 19T16:49:28Z|INSDC status:public|Submitter Id:63ef8ae0 a4bf 11e5 bdd9 68b59976a382|common name:zebrafish|sample description:3 prime end enriched mRNA from single cells. An 11 base indexing sequence TTTGATTCTCG is bases 11 to 21 of read 1 followed by CG and polyT.|sample name:63ef8ae0 a4bf 11e5 bdd9 68b59976a382,,,,,,,,,Illumina MiSeq paired end sequencing,SC EXP 18668 1#383,15545072,Illumina sequencing of library 15545072  constructed from sample accession ERS1036030 for study accession ERP011007.  This is part of an Illumina multiplexed sequencing run 18668 1.  This submission includes reads tagged with the sequence TTTGATTCTCG.,Transcriptome counting qPCR only,,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina MiSeq,,ERP011007,Illumina MiSeq paired end sequencing,ENA FIRST PUBLIC:2016 04 26|ENA LAST UPDATE:2018 11 16,18668_1#383.cram,cram,1304835.0,10115.0,SC RUN 18668 1#383,0:54 1:75,A:352669;C:266861;G:245412;T:439893;N:0,54,75,,,352669,266861,245412,439893,0,ERX1445985,ERS1036030,ERA610021,European Nucleotide Archive,Wellcome Sanger Institute,2,0.31511,0.42794,0.3151,0.42793,1.0,1.0,,,54,75,T,B,mate1 technical by mapping diff,illumina,miseq,3prime,cdna_unspecified,unknown,bulk,unknown,unknown,,United Kingdom,2016-01-19,Undetermined,Undetermined,Undetermined,Undetermined
21549,ERR1374858,ERX1445984,ERS1036029,ERP011007,PRJEB9859,Transcriptome profiling of single zebrafish cells,Transcriptome_profiling_of_single_zebrafish_cells-sc-2991,Transcriptome Analysis,Paired end sequence data from the Illumina HiSeq was prepared from individual wild type zebrafish cells. Generated to study  the transcriptome of single cells.,,,,Single cell TC6281338,SAMEA3728880,Wellcome Sanger Institute,ArrayExpress Species:Danio rerio|ENA first public:2016 04 26|ENA last update:2016 01 19|External Id:SAMEA3728880|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 04 26T14:06:05Z|INSDC last update:2016 01 19T16:49:27Z|INSDC status:public|Submitter Id:63e21d60 a4bf 11e5 bdd9 68b59976a382|common name:zebrafish|sample description:3 prime end enriched mRNA from single cells. An 11 base indexing sequence TTTCGTGTAGA is bases 11 to 21 of read 1 followed by CG and polyT.|sample name:63e21d60 a4bf 11e5 bdd9 68b59976a382,,,,,,,,,Illumina MiSeq paired end sequencing,SC EXP 18668 1#382,15545071,Illumina sequencing of library 15545071  constructed from sample accession ERS1036029 for study accession ERP011007.  This is part of an Illumina multiplexed sequencing run 18668 1.  This submission includes reads tagged with the sequence TTTCGTGTAGA.,Transcriptome counting qPCR only,,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina MiSeq,,ERP011007,Illumina MiSeq paired end sequencing,ENA FIRST PUBLIC:2016 04 26|ENA LAST UPDATE:2018 11 16,18668_1#382.cram,cram,1003104.0,7776.0,SC RUN 18668 1#382,0:54 1:75,A:275526;C:213901;G:190809;T:322868;N:0,54,75,,,275526,213901,190809,322868,0,ERX1445984,ERS1036029,ERA610021,European Nucleotide Archive,Wellcome Sanger Institute,2,0.17365,0.18304,0.17364,0.18074,1.0,0.99995,,0.0,54,75,B,B,biological fallback assumption,illumina,miseq,3prime,cdna_unspecified,unknown,bulk,unknown,unknown,,United Kingdom,2016-01-19,Undetermined,Undetermined,Undetermined,Undetermined
21550,ERR1374857,ERX1445983,ERS1036028,ERP011007,PRJEB9859,Transcriptome profiling of single zebrafish cells,Transcriptome_profiling_of_single_zebrafish_cells-sc-2991,Transcriptome Analysis,Paired end sequence data from the Illumina HiSeq was prepared from individual wild type zebrafish cells. Generated to study  the transcriptome of single cells.,,,,Single cell TC6281337,SAMEA3728879,Wellcome Sanger Institute,ArrayExpress Species:Danio rerio|ENA first public:2016 04 26|ENA last update:2016 01 19|External Id:SAMEA3728879|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 04 26T14:06:04Z|INSDC last update:2016 01 19T16:49:27Z|INSDC status:public|Submitter Id:63d8ce90 a4bf 11e5 bdd9 68b59976a382|common name:zebrafish|sample description:3 prime end enriched mRNA from single cells. An 11 base indexing sequence TTTATTAGACG is bases 11 to 21 of read 1 followed by CG and polyT.|sample name:63d8ce90 a4bf 11e5 bdd9 68b59976a382,,,,,,,,,Illumina MiSeq paired end sequencing,SC EXP 18668 1#381,15545070,Illumina sequencing of library 15545070  constructed from sample accession ERS1036028 for study accession ERP011007.  This is part of an Illumina multiplexed sequencing run 18668 1.  This submission includes reads tagged with the sequence TTTATTAGACG.,Transcriptome counting qPCR only,,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina MiSeq,,ERP011007,Illumina MiSeq paired end sequencing,ENA FIRST PUBLIC:2016 04 26|ENA LAST UPDATE:2018 11 16,18668_1#381.cram,cram,553023.0,4287.0,SC RUN 18668 1#381,0:54 1:75,A:147453;C:125606;G:113473;T:166491;N:0,54,75,,,147453,125606,113473,166491,0,ERX1445983,ERS1036028,ERA610021,European Nucleotide Archive,Wellcome Sanger Institute,2,0.07054,0.14591,0.07053,0.1459,1.0,1.0,,,54,75,B,B,mate1-mate2 similar by mapping diff,illumina,miseq,3prime,cdna_unspecified,unknown,bulk,unknown,unknown,,United Kingdom,2016-01-19,Undetermined,Undetermined,Undetermined,Undetermined
21551,ERR1374856,ERX1445982,ERS1036027,ERP011007,PRJEB9859,Transcriptome profiling of single zebrafish cells,Transcriptome_profiling_of_single_zebrafish_cells-sc-2991,Transcriptome Analysis,Paired end sequence data from the Illumina HiSeq was prepared from individual wild type zebrafish cells. Generated to study  the transcriptome of single cells.,,,,Single cell TC6281336,SAMEA3728878,Wellcome Sanger Institute,ArrayExpress Species:Danio rerio|ENA first public:2016 04 26|ENA last update:2016 01 19|External Id:SAMEA3728878|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 04 26T14:06:05Z|INSDC last update:2016 01 19T16:49:27Z|INSDC status:public|Submitter Id:63cfa6d0 a4bf 11e5 bdd9 68b59976a382|common name:zebrafish|sample description:3 prime end enriched mRNA from single cells. An 11 base indexing sequence TTTAGCTCGGT is bases 11 to 21 of read 1 followed by CG and polyT.|sample name:63cfa6d0 a4bf 11e5 bdd9 68b59976a382,,,,,,,,,Illumina MiSeq paired end sequencing,SC EXP 18668 1#380,15545069,Illumina sequencing of library 15545069  constructed from sample accession ERS1036027 for study accession ERP011007.  This is part of an Illumina multiplexed sequencing run 18668 1.  This submission includes reads tagged with the sequence TTTAGCTCGGT.,Transcriptome counting qPCR only,,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina MiSeq,,ERP011007,Illumina MiSeq paired end sequencing,ENA FIRST PUBLIC:2016 04 26|ENA LAST UPDATE:2018 11 16,18668_1#380.cram,cram,1052640.0,8160.0,SC RUN 18668 1#380,0:54 1:75,A:272334;C:229709;G:203715;T:346882;N:0,54,75,,,272334,229709,203715,346882,0,ERX1445982,ERS1036027,ERA610021,European Nucleotide Archive,Wellcome Sanger Institute,2,0.31077,0.37992,0.31076,0.37991,1.0,1.0,,,54,75,B,B,biological fallback assumption,illumina,miseq,3prime,cdna_unspecified,unknown,bulk,unknown,unknown,,United Kingdom,2016-01-19,Undetermined,Undetermined,Undetermined,Undetermined
21552,ERR1374855,ERX1445981,ERS1036026,ERP011007,PRJEB9859,Transcriptome profiling of single zebrafish cells,Transcriptome_profiling_of_single_zebrafish_cells-sc-2991,Transcriptome Analysis,Paired end sequence data from the Illumina HiSeq was prepared from individual wild type zebrafish cells. Generated to study  the transcriptome of single cells.,,,,Single cell TC6281335,SAMEA3728877,Wellcome Sanger Institute,ArrayExpress Species:Danio rerio|ENA first public:2016 04 26|ENA last update:2016 01 19|External Id:SAMEA3728877|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 04 26T14:06:05Z|INSDC last update:2016 01 19T16:49:26Z|INSDC status:public|Submitter Id:63c630f0 a4bf 11e5 bdd9 68b59976a382|common name:zebrafish|sample description:3 prime end enriched mRNA from single cells. An 11 base indexing sequence TTGCGATGTCC is bases 11 to 21 of read 1 followed by CG and polyT.|sample name:63c630f0 a4bf 11e5 bdd9 68b59976a382,,,,,,,,,Illumina MiSeq paired end sequencing,SC EXP 18668 1#379,15545068,Illumina sequencing of library 15545068  constructed from sample accession ERS1036026 for study accession ERP011007.  This is part of an Illumina multiplexed sequencing run 18668 1.  This submission includes reads tagged with the sequence TTGCGATGTCC.,Transcriptome counting qPCR only,,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina MiSeq,,ERP011007,Illumina MiSeq paired end sequencing,ENA FIRST PUBLIC:2016 04 26|ENA LAST UPDATE:2018 11 16,18668_1#379.cram,cram,1640622.0,12718.0,SC RUN 18668 1#379,0:54 1:75,A:431283;C:344682;G:321969;T:542688;N:0,54,75,,,431283,344682,321969,542688,0,ERX1445981,ERS1036026,ERA610021,European Nucleotide Archive,Wellcome Sanger Institute,2,0.29581,0.39023,0.2958,0.39022,1.0,1.0,,,54,75,B,B,biological fallback assumption,illumina,miseq,3prime,cdna_unspecified,unknown,bulk,unknown,unknown,,United Kingdom,2016-01-19,Undetermined,Undetermined,Undetermined,Undetermined
21553,ERR1374854,ERX1445980,ERS1036025,ERP011007,PRJEB9859,Transcriptome profiling of single zebrafish cells,Transcriptome_profiling_of_single_zebrafish_cells-sc-2991,Transcriptome Analysis,Paired end sequence data from the Illumina HiSeq was prepared from individual wild type zebrafish cells. Generated to study  the transcriptome of single cells.,,,,Single cell TC6281334,SAMEA3728876,Wellcome Sanger Institute,ArrayExpress Species:Danio rerio|ENA first public:2016 04 26|ENA last update:2016 01 19|External Id:SAMEA3728876|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 04 26T14:06:05Z|INSDC last update:2016 01 19T16:49:26Z|INSDC status:public|Submitter Id:63bd0930 a4bf 11e5 bdd9 68b59976a382|common name:zebrafish|sample description:3 prime end enriched mRNA from single cells. An 11 base indexing sequence TTGCACTTAAT is bases 11 to 21 of read 1 followed by CG and polyT.|sample name:63bd0930 a4bf 11e5 bdd9 68b59976a382,,,,,,,,,Illumina MiSeq paired end sequencing,SC EXP 18668 1#378,15545067,Illumina sequencing of library 15545067  constructed from sample accession ERS1036025 for study accession ERP011007.  This is part of an Illumina multiplexed sequencing run 18668 1.  This submission includes reads tagged with the sequence TTGCACTTAAT.,Transcriptome counting qPCR only,,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina MiSeq,,ERP011007,Illumina MiSeq paired end sequencing,ENA FIRST PUBLIC:2016 04 26|ENA LAST UPDATE:2018 11 16,18668_1#378.cram,cram,906999.0,7031.0,SC RUN 18668 1#378,0:54 1:75,A:245673;C:184416;G:171222;T:305688;N:0,54,75,,,245673,184416,171222,305688,0,ERX1445980,ERS1036025,ERA610021,European Nucleotide Archive,Wellcome Sanger Institute,2,0.24186,0.3482,0.24185,0.34819,1.0,1.0,,,54,75,B,B,mate1-mate2 similar by mapping diff,illumina,miseq,3prime,cdna_unspecified,unknown,bulk,unknown,unknown,,United Kingdom,2016-01-19,Undetermined,Undetermined,Undetermined,Undetermined
21554,ERR1374853,ERX1445979,ERS1036024,ERP011007,PRJEB9859,Transcriptome profiling of single zebrafish cells,Transcriptome_profiling_of_single_zebrafish_cells-sc-2991,Transcriptome Analysis,Paired end sequence data from the Illumina HiSeq was prepared from individual wild type zebrafish cells. Generated to study  the transcriptome of single cells.,,,,Single cell TC6281333,SAMEA3728875,Wellcome Sanger Institute,ArrayExpress Species:Danio rerio|ENA first public:2016 04 26|ENA last update:2016 01 19|External Id:SAMEA3728875|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 04 26T14:06:05Z|INSDC last update:2016 01 19T16:49:25Z|INSDC status:public|Submitter Id:63b3ba60 a4bf 11e5 bdd9 68b59976a382|common name:zebrafish|sample description:3 prime end enriched mRNA from single cells. An 11 base indexing sequence TTCTGGGAGAG is bases 11 to 21 of read 1 followed by CG and polyT.|sample name:63b3ba60 a4bf 11e5 bdd9 68b59976a382,,,,,,,,,Illumina MiSeq paired end sequencing,SC EXP 18668 1#377,15545066,Illumina sequencing of library 15545066  constructed from sample accession ERS1036024 for study accession ERP011007.  This is part of an Illumina multiplexed sequencing run 18668 1.  This submission includes reads tagged with the sequence TTCTGGGAGAG.,Transcriptome counting qPCR only,,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina MiSeq,,ERP011007,Illumina MiSeq paired end sequencing,ENA FIRST PUBLIC:2016 04 26|ENA LAST UPDATE:2018 11 16,18668_1#377.cram,cram,390612.0,3028.0,SC RUN 18668 1#377,0:54 1:75,A:98977;C:98046;G:87213;T:106376;N:0,54,75,,,98977,98046,87213,106376,0,ERX1445979,ERS1036024,ERA610021,European Nucleotide Archive,Wellcome Sanger Institute,2,0.00038,0.00048,0.00037,0.00047,1.0,1.0,,,54,75,T,T,mates < 9% mapping rate,illumina,miseq,3prime,cdna_unspecified,unknown,bulk,unknown,unknown,,United Kingdom,2016-01-19,Undetermined,Undetermined,Undetermined,Undetermined
21555,ERR1374852,ERX1445978,ERS1036023,ERP011007,PRJEB9859,Transcriptome profiling of single zebrafish cells,Transcriptome_profiling_of_single_zebrafish_cells-sc-2991,Transcriptome Analysis,Paired end sequence data from the Illumina HiSeq was prepared from individual wild type zebrafish cells. Generated to study  the transcriptome of single cells.,,,,Single cell TC6281332,SAMEA3728874,Wellcome Sanger Institute,ArrayExpress Species:Danio rerio|ENA first public:2016 04 26|ENA last update:2016 01 19|External Id:SAMEA3728874|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 04 26T14:06:04Z|INSDC last update:2016 01 19T16:49:25Z|INSDC status:public|Submitter Id:63aa4480 a4bf 11e5 bdd9 68b59976a382|common name:zebrafish|sample description:3 prime end enriched mRNA from single cells. An 11 base indexing sequence TTCTGATTTTG is bases 11 to 21 of read 1 followed by CG and polyT.|sample name:63aa4480 a4bf 11e5 bdd9 68b59976a382,,,,,,,,,Illumina MiSeq paired end sequencing,SC EXP 18668 1#376,15545065,Illumina sequencing of library 15545065  constructed from sample accession ERS1036023 for study accession ERP011007.  This is part of an Illumina multiplexed sequencing run 18668 1.  This submission includes reads tagged with the sequence TTCTGATTTTG.,Transcriptome counting qPCR only,,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina MiSeq,,ERP011007,Illumina MiSeq paired end sequencing,ENA FIRST PUBLIC:2016 04 26|ENA LAST UPDATE:2018 11 16,18668_1#376.cram,cram,1790907.0,13883.0,SC RUN 18668 1#376,0:54 1:75,A:508300;C:371765;G:340642;T:570200;N:0,54,75,,,508300,371765,340642,570200,0,ERX1445978,ERS1036023,ERA610021,European Nucleotide Archive,Wellcome Sanger Institute,2,0.22446,0.28647,0.22445,0.28626,1.0,0.99997,,0.0,54,75,B,B,biological fallback assumption,illumina,miseq,3prime,cdna_unspecified,unknown,bulk,unknown,unknown,,United Kingdom,2016-01-19,Undetermined,Undetermined,Undetermined,Undetermined
21556,ERR1374851,ERX1445977,ERS1036022,ERP011007,PRJEB9859,Transcriptome profiling of single zebrafish cells,Transcriptome_profiling_of_single_zebrafish_cells-sc-2991,Transcriptome Analysis,Paired end sequence data from the Illumina HiSeq was prepared from individual wild type zebrafish cells. Generated to study  the transcriptome of single cells.,,,,Single cell TC6281331,SAMEA3728873,Wellcome Sanger Institute,ArrayExpress Species:Danio rerio|ENA first public:2016 04 26|ENA last update:2016 01 19|External Id:SAMEA3728873|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 04 26T14:06:05Z|INSDC last update:2016 01 19T16:49:24Z|INSDC status:public|Submitter Id:63a11cc0 a4bf 11e5 bdd9 68b59976a382|common name:zebrafish|sample description:3 prime end enriched mRNA from single cells. An 11 base indexing sequence TTCGTGCTTTC is bases 11 to 21 of read 1 followed by CG and polyT.|sample name:63a11cc0 a4bf 11e5 bdd9 68b59976a382,,,,,,,,,Illumina MiSeq paired end sequencing,SC EXP 18668 1#375,15545064,Illumina sequencing of library 15545064  constructed from sample accession ERS1036022 for study accession ERP011007.  This is part of an Illumina multiplexed sequencing run 18668 1.  This submission includes reads tagged with the sequence TTCGTGCTTTC.,Transcriptome counting qPCR only,,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina MiSeq,,ERP011007,Illumina MiSeq paired end sequencing,ENA FIRST PUBLIC:2016 04 26|ENA LAST UPDATE:2018 11 16,18668_1#375.cram,cram,1313349.0,10181.0,SC RUN 18668 1#375,0:54 1:75,A:354351;C:262296;G:244012;T:452690;N:0,54,75,,,354351,262296,244012,452690,0,ERX1445977,ERS1036022,ERA610021,European Nucleotide Archive,Wellcome Sanger Institute,2,0.37529,0.46316,0.37528,0.45581,1.0,0.99993,,0.01754,54,75,B,B,biological fallback assumption,illumina,miseq,3prime,cdna_unspecified,unknown,bulk,unknown,unknown,,United Kingdom,2016-01-19,Undetermined,Undetermined,Undetermined,Undetermined
21557,ERR1374850,ERX1445976,ERS1036021,ERP011007,PRJEB9859,Transcriptome profiling of single zebrafish cells,Transcriptome_profiling_of_single_zebrafish_cells-sc-2991,Transcriptome Analysis,Paired end sequence data from the Illumina HiSeq was prepared from individual wild type zebrafish cells. Generated to study  the transcriptome of single cells.,,,,Single cell TC6281330,SAMEA3728872,Wellcome Sanger Institute,ArrayExpress Species:Danio rerio|ENA first public:2016 04 26|ENA last update:2016 01 19|External Id:SAMEA3728872|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 04 26T14:06:05Z|INSDC last update:2016 01 19T16:49:24Z|INSDC status:public|Submitter Id:6397cdf0 a4bf 11e5 bdd9 68b59976a382|common name:zebrafish|sample description:3 prime end enriched mRNA from single cells. An 11 base indexing sequence TTCGGCCCAAT is bases 11 to 21 of read 1 followed by CG and polyT.|sample name:6397cdf0 a4bf 11e5 bdd9 68b59976a382,,,,,,,,,Illumina MiSeq paired end sequencing,SC EXP 18668 1#374,15545063,Illumina sequencing of library 15545063  constructed from sample accession ERS1036021 for study accession ERP011007.  This is part of an Illumina multiplexed sequencing run 18668 1.  This submission includes reads tagged with the sequence TTCGGCCCAAT.,Transcriptome counting qPCR only,,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina MiSeq,,ERP011007,Illumina MiSeq paired end sequencing,ENA FIRST PUBLIC:2016 04 26|ENA LAST UPDATE:2018 11 16,18668_1#374.cram,cram,9495561.0,73609.0,SC RUN 18668 1#374,0:54 1:75,A:2538234;C:2126986;G:1889072;T:2941269;N:0,54,75,,,2538234,2126986,1889072,2941269,0,ERX1445976,ERS1036021,ERA610021,European Nucleotide Archive,Wellcome Sanger Institute,2,0.12462,0.15044,0.12459,0.15041,0.99997,0.99997,1.0,0.0,54,75,B,B,biological fallback assumption,illumina,miseq,3prime,cdna_unspecified,unknown,bulk,unknown,unknown,,United Kingdom,2016-01-19,Undetermined,Undetermined,Undetermined,Undetermined
21558,ERR1374849,ERX1445975,ERS1036020,ERP011007,PRJEB9859,Transcriptome profiling of single zebrafish cells,Transcriptome_profiling_of_single_zebrafish_cells-sc-2991,Transcriptome Analysis,Paired end sequence data from the Illumina HiSeq was prepared from individual wild type zebrafish cells. Generated to study  the transcriptome of single cells.,,,,Single cell TC6281329,SAMEA3728871,Wellcome Sanger Institute,ArrayExpress Species:Danio rerio|ENA first public:2016 04 26|ENA last update:2016 01 19|External Id:SAMEA3728871|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 04 26T14:06:05Z|INSDC last update:2016 01 19T16:49:23Z|INSDC status:public|Submitter Id:638e5810 a4bf 11e5 bdd9 68b59976a382|common name:zebrafish|sample description:3 prime end enriched mRNA from single cells. An 11 base indexing sequence TTCCCGTTTAA is bases 11 to 21 of read 1 followed by CG and polyT.|sample name:638e5810 a4bf 11e5 bdd9 68b59976a382,,,,,,,,,Illumina MiSeq paired end sequencing,SC EXP 18668 1#373,15545062,Illumina sequencing of library 15545062  constructed from sample accession ERS1036020 for study accession ERP011007.  This is part of an Illumina multiplexed sequencing run 18668 1.  This submission includes reads tagged with the sequence TTCCCGTTTAA.,Transcriptome counting qPCR only,,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina MiSeq,,ERP011007,Illumina MiSeq paired end sequencing,ENA FIRST PUBLIC:2016 04 26|ENA LAST UPDATE:2018 11 16,18668_1#373.cram,cram,1347663.0,10447.0,SC RUN 18668 1#373,0:54 1:75,A:364080;C:281280;G:262702;T:439601;N:0,54,75,,,364080,281280,262702,439601,0,ERX1445975,ERS1036020,ERA610021,European Nucleotide Archive,Wellcome Sanger Institute,2,0.29672,0.29248,0.2966,0.29223,0.99997,0.99997,0.0,0.0,54,75,B,B,biological fallback assumption,illumina,miseq,3prime,cdna_unspecified,unknown,bulk,unknown,unknown,,United Kingdom,2016-01-19,Undetermined,Undetermined,Undetermined,Undetermined
21559,ERR1374848,ERX1445974,ERS1036019,ERP011007,PRJEB9859,Transcriptome profiling of single zebrafish cells,Transcriptome_profiling_of_single_zebrafish_cells-sc-2991,Transcriptome Analysis,Paired end sequence data from the Illumina HiSeq was prepared from individual wild type zebrafish cells. Generated to study  the transcriptome of single cells.,,,,Single cell TC6281328,SAMEA3728870,Wellcome Sanger Institute,ArrayExpress Species:Danio rerio|ENA first public:2016 04 26|ENA last update:2016 01 19|External Id:SAMEA3728870|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 04 26T14:06:05Z|INSDC last update:2016 01 19T16:49:23Z|INSDC status:public|Submitter Id:63846d00 a4bf 11e5 bdd9 68b59976a382|common name:zebrafish|sample description:3 prime end enriched mRNA from single cells. An 11 base indexing sequence TTCATCCAATA is bases 11 to 21 of read 1 followed by CG and polyT.|sample name:63846d00 a4bf 11e5 bdd9 68b59976a382,,,,,,,,,Illumina MiSeq paired end sequencing,SC EXP 18668 1#372,15545061,Illumina sequencing of library 15545061  constructed from sample accession ERS1036019 for study accession ERP011007.  This is part of an Illumina multiplexed sequencing run 18668 1.  This submission includes reads tagged with the sequence TTCATCCAATA.,Transcriptome counting qPCR only,,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina MiSeq,,ERP011007,Illumina MiSeq paired end sequencing,ENA FIRST PUBLIC:2016 04 26|ENA LAST UPDATE:2018 11 16,18668_1#372.cram,cram,1457442.0,11298.0,SC RUN 18668 1#372,0:54 1:75,A:392913;C:312562;G:282308;T:469659;N:0,54,75,,,392913,312562,282308,469659,0,ERX1445974,ERS1036019,ERA610021,European Nucleotide Archive,Wellcome Sanger Institute,2,0.16521,0.1733,0.1652,0.17329,1.0,1.0,,,54,75,B,B,biological fallback assumption,illumina,miseq,3prime,cdna_unspecified,unknown,bulk,unknown,unknown,,United Kingdom,2016-01-19,Undetermined,Undetermined,Undetermined,Undetermined
21560,ERR1374847,ERX1445973,ERS1036018,ERP011007,PRJEB9859,Transcriptome profiling of single zebrafish cells,Transcriptome_profiling_of_single_zebrafish_cells-sc-2991,Transcriptome Analysis,Paired end sequence data from the Illumina HiSeq was prepared from individual wild type zebrafish cells. Generated to study  the transcriptome of single cells.,,,,Single cell TC6281327,SAMEA3728869,Wellcome Sanger Institute,ArrayExpress Species:Danio rerio|ENA first public:2016 04 26|ENA last update:2016 01 19|External Id:SAMEA3728869|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 04 26T14:06:05Z|INSDC last update:2016 01 19T16:49:22Z|INSDC status:public|Submitter Id:6379e5b0 a4bf 11e5 bdd9 68b59976a382|common name:zebrafish|sample description:3 prime end enriched mRNA from single cells. An 11 base indexing sequence TTATCGTCAAG is bases 11 to 21 of read 1 followed by CG and polyT.|sample name:6379e5b0 a4bf 11e5 bdd9 68b59976a382,,,,,,,,,Illumina MiSeq paired end sequencing,SC EXP 18668 1#371,15545060,Illumina sequencing of library 15545060  constructed from sample accession ERS1036018 for study accession ERP011007.  This is part of an Illumina multiplexed sequencing run 18668 1.  This submission includes reads tagged with the sequence TTATCGTCAAG.,Transcriptome counting qPCR only,,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina MiSeq,,ERP011007,Illumina MiSeq paired end sequencing,ENA FIRST PUBLIC:2016 04 26|ENA LAST UPDATE:2018 11 16,18668_1#371.cram,cram,528900.0,4100.0,SC RUN 18668 1#371,0:54 1:75,A:135092;C:121387;G:114485;T:157936;N:0,54,75,,,135092,121387,114485,157936,0,ERX1445973,ERS1036018,ERA610021,European Nucleotide Archive,Wellcome Sanger Institute,,,,,,,,,,,,B,B,biological fallback assumption,illumina,miseq,3prime,cdna_unspecified,unknown,bulk,unknown,unknown,,United Kingdom,2016-01-19,Undetermined,Undetermined,Undetermined,Undetermined
21561,ERR1374846,ERX1445972,ERS1036017,ERP011007,PRJEB9859,Transcriptome profiling of single zebrafish cells,Transcriptome_profiling_of_single_zebrafish_cells-sc-2991,Transcriptome Analysis,Paired end sequence data from the Illumina HiSeq was prepared from individual wild type zebrafish cells. Generated to study  the transcriptome of single cells.,,,,Single cell TC6281326,SAMEA3728868,Wellcome Sanger Institute,ArrayExpress Species:Danio rerio|ENA first public:2016 04 26|ENA last update:2016 01 19|External Id:SAMEA3728868|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 04 26T14:06:05Z|INSDC last update:2016 01 19T16:49:22Z|INSDC status:public|Submitter Id:63706fd0 a4bf 11e5 bdd9 68b59976a382|common name:zebrafish|sample description:3 prime end enriched mRNA from single cells. An 11 base indexing sequence TTAAGGAAGTA is bases 11 to 21 of read 1 followed by CG and polyT.|sample name:63706fd0 a4bf 11e5 bdd9 68b59976a382,,,,,,,,,Illumina MiSeq paired end sequencing,SC EXP 18668 1#370,15545059,Illumina sequencing of library 15545059  constructed from sample accession ERS1036017 for study accession ERP011007.  This is part of an Illumina multiplexed sequencing run 18668 1.  This submission includes reads tagged with the sequence TTAAGGAAGTA.,Transcriptome counting qPCR only,,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina MiSeq,,ERP011007,Illumina MiSeq paired end sequencing,ENA FIRST PUBLIC:2016 04 26|ENA LAST UPDATE:2018 11 16,18668_1#370.cram,cram,891648.0,6912.0,SC RUN 18668 1#370,0:54 1:75,A:224658;C:209577;G:190876;T:266537;N:0,54,75,,,224658,209577,190876,266537,0,ERX1445972,ERS1036017,ERA610021,European Nucleotide Archive,Wellcome Sanger Institute,2,0.06502,0.08158,0.06501,0.06692,1.0,0.99995,,1.0,54,75,T,T,mates < 9% mapping rate,illumina,miseq,3prime,cdna_unspecified,unknown,bulk,unknown,unknown,,United Kingdom,2016-01-19,Undetermined,Undetermined,Undetermined,Undetermined
21562,ERR1374845,ERX1445971,ERS1036016,ERP011007,PRJEB9859,Transcriptome profiling of single zebrafish cells,Transcriptome_profiling_of_single_zebrafish_cells-sc-2991,Transcriptome Analysis,Paired end sequence data from the Illumina HiSeq was prepared from individual wild type zebrafish cells. Generated to study  the transcriptome of single cells.,,,,Single cell TC6281325,SAMEA3728867,Wellcome Sanger Institute,ArrayExpress Species:Danio rerio|ENA first public:2016 04 26|ENA last update:2016 01 19|External Id:SAMEA3728867|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 04 26T14:06:05Z|INSDC last update:2016 01 19T16:49:21Z|INSDC status:public|Submitter Id:63672100 a4bf 11e5 bdd9 68b59976a382|common name:zebrafish|sample description:3 prime end enriched mRNA from single cells. An 11 base indexing sequence TTAACAAGTAT is bases 11 to 21 of read 1 followed by CG and polyT.|sample name:63672100 a4bf 11e5 bdd9 68b59976a382,,,,,,,,,Illumina MiSeq paired end sequencing,SC EXP 18668 1#369,15545058,Illumina sequencing of library 15545058  constructed from sample accession ERS1036016 for study accession ERP011007.  This is part of an Illumina multiplexed sequencing run 18668 1.  This submission includes reads tagged with the sequence TTAACAAGTAT.,Transcriptome counting qPCR only,,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina MiSeq,,ERP011007,Illumina MiSeq paired end sequencing,ENA FIRST PUBLIC:2016 04 26|ENA LAST UPDATE:2018 11 16,18668_1#369.cram,cram,1606695.0,12455.0,SC RUN 18668 1#369,0:54 1:75,A:422391;C:343604;G:312477;T:528223;N:0,54,75,,,422391,343604,312477,528223,0,ERX1445971,ERS1036016,ERA610021,European Nucleotide Archive,Wellcome Sanger Institute,2,0.16991,0.23867,0.1699,0.23866,1.0,1.0,,,54,75,B,B,mate1-mate2 similar by mapping diff,illumina,miseq,3prime,cdna_unspecified,unknown,bulk,unknown,unknown,,United Kingdom,2016-01-19,Undetermined,Undetermined,Undetermined,Undetermined
21563,ERR1374844,ERX1445970,ERS1036015,ERP011007,PRJEB9859,Transcriptome profiling of single zebrafish cells,Transcriptome_profiling_of_single_zebrafish_cells-sc-2991,Transcriptome Analysis,Paired end sequence data from the Illumina HiSeq was prepared from individual wild type zebrafish cells. Generated to study  the transcriptome of single cells.,,,,Single cell TC6281324,SAMEA3728866,Wellcome Sanger Institute,ArrayExpress Species:Danio rerio|ENA first public:2016 04 26|ENA last update:2016 01 19|External Id:SAMEA3728866|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 04 26T14:06:04Z|INSDC last update:2016 01 19T16:49:21Z|INSDC status:public|Submitter Id:635dd230 a4bf 11e5 bdd9 68b59976a382|common name:zebrafish|sample description:3 prime end enriched mRNA from single cells. An 11 base indexing sequence TGTTGAACTCC is bases 11 to 21 of read 1 followed by CG and polyT.|sample name:635dd230 a4bf 11e5 bdd9 68b59976a382,,,,,,,,,Illumina MiSeq paired end sequencing,SC EXP 18668 1#368,15545057,Illumina sequencing of library 15545057  constructed from sample accession ERS1036015 for study accession ERP011007.  This is part of an Illumina multiplexed sequencing run 18668 1.  This submission includes reads tagged with the sequence TGTTGAACTCC.,Transcriptome counting qPCR only,,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina MiSeq,,ERP011007,Illumina MiSeq paired end sequencing,ENA FIRST PUBLIC:2016 04 26|ENA LAST UPDATE:2018 11 16,18668_1#368.cram,cram,1928292.0,14948.0,SC RUN 18668 1#368,0:54 1:75,A:521180;C:393086;G:370859;T:643167;N:0,54,75,,,521180,393086,370859,643167,0,ERX1445970,ERS1036015,ERA610021,European Nucleotide Archive,Wellcome Sanger Institute,2,0.27112,0.35395,0.27111,0.35331,1.0,0.99997,,0.0,54,75,B,B,biological fallback assumption,illumina,miseq,3prime,cdna_unspecified,unknown,bulk,unknown,unknown,,United Kingdom,2016-01-19,Undetermined,Undetermined,Undetermined,Undetermined
21564,ERR1374843,ERX1445969,ERS1036014,ERP011007,PRJEB9859,Transcriptome profiling of single zebrafish cells,Transcriptome_profiling_of_single_zebrafish_cells-sc-2991,Transcriptome Analysis,Paired end sequence data from the Illumina HiSeq was prepared from individual wild type zebrafish cells. Generated to study  the transcriptome of single cells.,,,,Single cell TC6281323,SAMEA3728865,Wellcome Sanger Institute,ArrayExpress Species:Danio rerio|ENA first public:2016 04 26|ENA last update:2016 01 19|External Id:SAMEA3728865|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 04 26T14:06:05Z|INSDC last update:2016 01 19T16:49:20Z|INSDC status:public|Submitter Id:63548360 a4bf 11e5 bdd9 68b59976a382|common name:zebrafish|sample description:3 prime end enriched mRNA from single cells. An 11 base indexing sequence TGTTACCCGTA is bases 11 to 21 of read 1 followed by CG and polyT.|sample name:63548360 a4bf 11e5 bdd9 68b59976a382,,,,,,,,,Illumina MiSeq paired end sequencing,SC EXP 18668 1#367,15545056,Illumina sequencing of library 15545056  constructed from sample accession ERS1036014 for study accession ERP011007.  This is part of an Illumina multiplexed sequencing run 18668 1.  This submission includes reads tagged with the sequence TGTTACCCGTA.,Transcriptome counting qPCR only,,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina MiSeq,,ERP011007,Illumina MiSeq paired end sequencing,ENA FIRST PUBLIC:2016 04 26|ENA LAST UPDATE:2018 11 16,18668_1#367.cram,cram,1013940.0,7860.0,SC RUN 18668 1#367,0:54 1:75,A:271289;C:212352;G:203745;T:326554;N:0,54,75,,,271289,212352,203745,326554,0,ERX1445969,ERS1036014,ERA610021,European Nucleotide Archive,Wellcome Sanger Institute,2,0.24792,0.25875,0.24791,0.25841,1.0,0.99997,,0.0,54,75,B,B,biological fallback assumption,illumina,miseq,3prime,cdna_unspecified,unknown,bulk,unknown,unknown,,United Kingdom,2016-01-19,Undetermined,Undetermined,Undetermined,Undetermined
21565,ERR1374842,ERX1445968,ERS1036013,ERP011007,PRJEB9859,Transcriptome profiling of single zebrafish cells,Transcriptome_profiling_of_single_zebrafish_cells-sc-2991,Transcriptome Analysis,Paired end sequence data from the Illumina HiSeq was prepared from individual wild type zebrafish cells. Generated to study  the transcriptome of single cells.,,,,Single cell TC6281322,SAMEA3728864,Wellcome Sanger Institute,ArrayExpress Species:Danio rerio|ENA first public:2016 04 26|ENA last update:2016 01 19|External Id:SAMEA3728864|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 04 26T14:06:04Z|INSDC last update:2016 01 19T16:49:20Z|INSDC status:public|Submitter Id:634b3490 a4bf 11e5 bdd9 68b59976a382|common name:zebrafish|sample description:3 prime end enriched mRNA from single cells. An 11 base indexing sequence TGTGCATAGTT is bases 11 to 21 of read 1 followed by CG and polyT.|sample name:634b3490 a4bf 11e5 bdd9 68b59976a382,,,,,,,,,Illumina MiSeq paired end sequencing,SC EXP 18668 1#366,15545055,Illumina sequencing of library 15545055  constructed from sample accession ERS1036013 for study accession ERP011007.  This is part of an Illumina multiplexed sequencing run 18668 1.  This submission includes reads tagged with the sequence TGTGCATAGTT.,Transcriptome counting qPCR only,,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina MiSeq,,ERP011007,Illumina MiSeq paired end sequencing,ENA FIRST PUBLIC:2016 04 26|ENA LAST UPDATE:2018 11 16,18668_1#366.cram,cram,1844313.0,14297.0,SC RUN 18668 1#366,0:54 1:75,A:496299;C:374567;G:338084;T:635363;N:0,54,75,,,496299,374567,338084,635363,0,ERX1445968,ERS1036013,ERA610021,European Nucleotide Archive,Wellcome Sanger Institute,2,0.35247,0.39799,0.35246,0.39665,1.0,0.99993,,0.06666,54,75,B,B,biological fallback assumption,illumina,miseq,3prime,cdna_unspecified,unknown,bulk,unknown,unknown,,United Kingdom,2016-01-19,Undetermined,Undetermined,Undetermined,Undetermined
21566,ERR1374841,ERX1445967,ERS1036012,ERP011007,PRJEB9859,Transcriptome profiling of single zebrafish cells,Transcriptome_profiling_of_single_zebrafish_cells-sc-2991,Transcriptome Analysis,Paired end sequence data from the Illumina HiSeq was prepared from individual wild type zebrafish cells. Generated to study  the transcriptome of single cells.,,,,Single cell TC6281321,SAMEA3728863,Wellcome Sanger Institute,ArrayExpress Species:Danio rerio|ENA first public:2016 04 26|ENA last update:2016 01 19|External Id:SAMEA3728863|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 04 26T14:06:04Z|INSDC last update:2016 01 19T16:49:19Z|INSDC status:public|Submitter Id:6341e5c0 a4bf 11e5 bdd9 68b59976a382|common name:zebrafish|sample description:3 prime end enriched mRNA from single cells. An 11 base indexing sequence TGTCTATTCAC is bases 11 to 21 of read 1 followed by CG and polyT.|sample name:6341e5c0 a4bf 11e5 bdd9 68b59976a382,,,,,,,,,Illumina MiSeq paired end sequencing,SC EXP 18668 1#365,15545054,Illumina sequencing of library 15545054  constructed from sample accession ERS1036012 for study accession ERP011007.  This is part of an Illumina multiplexed sequencing run 18668 1.  This submission includes reads tagged with the sequence TGTCTATTCAC.,Transcriptome counting qPCR only,,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina MiSeq,,ERP011007,Illumina MiSeq paired end sequencing,ENA FIRST PUBLIC:2016 04 26|ENA LAST UPDATE:2018 11 16,18668_1#365.cram,cram,1835283.0,14227.0,SC RUN 18668 1#365,0:54 1:75,A:493273;C:380459;G:370077;T:591474;N:0,54,75,,,493273,380459,370077,591474,0,ERX1445967,ERS1036012,ERA610021,European Nucleotide Archive,Wellcome Sanger Institute,2,0.23628,0.28935,0.23627,0.27695,1.0,0.99995,,0.93181,54,75,B,B,biological fallback assumption,illumina,miseq,3prime,cdna_unspecified,unknown,bulk,unknown,unknown,,United Kingdom,2016-01-19,Undetermined,Undetermined,Undetermined,Undetermined
21567,ERR1374840,ERX1445966,ERS1036011,ERP011007,PRJEB9859,Transcriptome profiling of single zebrafish cells,Transcriptome_profiling_of_single_zebrafish_cells-sc-2991,Transcriptome Analysis,Paired end sequence data from the Illumina HiSeq was prepared from individual wild type zebrafish cells. Generated to study  the transcriptome of single cells.,,,,Single cell TC6281320,SAMEA3728862,Wellcome Sanger Institute,ArrayExpress Species:Danio rerio|ENA first public:2016 04 26|ENA last update:2016 01 19|External Id:SAMEA3728862|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 04 26T14:06:05Z|INSDC last update:2016 01 19T16:49:19Z|INSDC status:public|Submitter Id:633896f0 a4bf 11e5 bdd9 68b59976a382|common name:zebrafish|sample description:3 prime end enriched mRNA from single cells. An 11 base indexing sequence TGTAGCTTACC is bases 11 to 21 of read 1 followed by CG and polyT.|sample name:633896f0 a4bf 11e5 bdd9 68b59976a382,,,,,,,,,Illumina MiSeq paired end sequencing,SC EXP 18668 1#364,15545053,Illumina sequencing of library 15545053  constructed from sample accession ERS1036011 for study accession ERP011007.  This is part of an Illumina multiplexed sequencing run 18668 1.  This submission includes reads tagged with the sequence TGTAGCTTACC.,Transcriptome counting qPCR only,,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina MiSeq,,ERP011007,Illumina MiSeq paired end sequencing,ENA FIRST PUBLIC:2016 04 26|ENA LAST UPDATE:2018 11 16,18668_1#364.cram,cram,1688223.0,13087.0,SC RUN 18668 1#364,0:54 1:75,A:450385;C:348993;G:330742;T:558103;N:0,54,75,,,450385,348993,330742,558103,0,ERX1445966,ERS1036011,ERA610021,European Nucleotide Archive,Wellcome Sanger Institute,2,0.28027,0.3579,0.28026,0.34887,1.0,0.99997,,1.0,54,75,B,B,biological fallback assumption,illumina,miseq,3prime,cdna_unspecified,unknown,bulk,unknown,unknown,,United Kingdom,2016-01-19,Undetermined,Undetermined,Undetermined,Undetermined
21568,ERR1374839,ERX1445965,ERS1036010,ERP011007,PRJEB9859,Transcriptome profiling of single zebrafish cells,Transcriptome_profiling_of_single_zebrafish_cells-sc-2991,Transcriptome Analysis,Paired end sequence data from the Illumina HiSeq was prepared from individual wild type zebrafish cells. Generated to study  the transcriptome of single cells.,,,,Single cell TC6281319,SAMEA3728861,Wellcome Sanger Institute,ArrayExpress Species:Danio rerio|ENA first public:2016 04 26|ENA last update:2016 01 19|External Id:SAMEA3728861|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 04 26T14:06:05Z|INSDC last update:2016 01 19T16:49:19Z|INSDC status:public|Submitter Id:632f4820 a4bf 11e5 bdd9 68b59976a382|common name:zebrafish|sample description:3 prime end enriched mRNA from single cells. An 11 base indexing sequence TGTAAGAATCA is bases 11 to 21 of read 1 followed by CG and polyT.|sample name:632f4820 a4bf 11e5 bdd9 68b59976a382,,,,,,,,,Illumina MiSeq paired end sequencing,SC EXP 18668 1#363,15545052,Illumina sequencing of library 15545052  constructed from sample accession ERS1036010 for study accession ERP011007.  This is part of an Illumina multiplexed sequencing run 18668 1.  This submission includes reads tagged with the sequence TGTAAGAATCA.,Transcriptome counting qPCR only,,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina MiSeq,,ERP011007,Illumina MiSeq paired end sequencing,ENA FIRST PUBLIC:2016 04 26|ENA LAST UPDATE:2018 11 16,18668_1#363.cram,cram,4013319.0,31111.0,SC RUN 18668 1#363,0:54 1:75,A:1047562;C:843784;G:749096;T:1372877;N:0,54,75,,,1047562,843784,749096,1372877,0,ERX1445965,ERS1036010,ERA610021,European Nucleotide Archive,Wellcome Sanger Institute,2,0.26474,0.30978,0.26473,0.30683,1.0,0.99997,,0.0,54,75,B,B,biological fallback assumption,illumina,miseq,3prime,cdna_unspecified,unknown,bulk,unknown,unknown,,United Kingdom,2016-01-19,Undetermined,Undetermined,Undetermined,Undetermined
21569,ERR1374838,ERX1445964,ERS1036009,ERP011007,PRJEB9859,Transcriptome profiling of single zebrafish cells,Transcriptome_profiling_of_single_zebrafish_cells-sc-2991,Transcriptome Analysis,Paired end sequence data from the Illumina HiSeq was prepared from individual wild type zebrafish cells. Generated to study  the transcriptome of single cells.,,,,Single cell TC6281318,SAMEA3728860,Wellcome Sanger Institute,ArrayExpress Species:Danio rerio|ENA first public:2016 04 26|ENA last update:2016 01 19|External Id:SAMEA3728860|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 04 26T14:06:04Z|INSDC last update:2016 01 19T16:49:18Z|INSDC status:public|Submitter Id:6325f950 a4bf 11e5 bdd9 68b59976a382|common name:zebrafish|sample description:3 prime end enriched mRNA from single cells. An 11 base indexing sequence TGGTTGTGGCC is bases 11 to 21 of read 1 followed by CG and polyT.|sample name:6325f950 a4bf 11e5 bdd9 68b59976a382,,,,,,,,,Illumina MiSeq paired end sequencing,SC EXP 18668 1#362,15545051,Illumina sequencing of library 15545051  constructed from sample accession ERS1036009 for study accession ERP011007.  This is part of an Illumina multiplexed sequencing run 18668 1.  This submission includes reads tagged with the sequence TGGTTGTGGCC.,Transcriptome counting qPCR only,,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina MiSeq,,ERP011007,Illumina MiSeq paired end sequencing,ENA FIRST PUBLIC:2016 04 26|ENA LAST UPDATE:2018 11 16,18668_1#362.cram,cram,8268255.0,64095.0,SC RUN 18668 1#362,0:54 1:75,A:2174138;C:1756790;G:1553021;T:2784306;N:0,54,75,,,2174138,1756790,1553021,2784306,0,ERX1445964,ERS1036009,ERA610021,European Nucleotide Archive,Wellcome Sanger Institute,2,0.33246,0.46406,0.33243,0.46312,0.99997,0.99981,0.0,0.27906,54,75,T,B,mate1 technical by mapping diff,illumina,miseq,3prime,cdna_unspecified,unknown,bulk,unknown,unknown,,United Kingdom,2016-01-19,Undetermined,Undetermined,Undetermined,Undetermined
21570,ERR1374837,ERX1445963,ERS1036008,ERP011007,PRJEB9859,Transcriptome profiling of single zebrafish cells,Transcriptome_profiling_of_single_zebrafish_cells-sc-2991,Transcriptome Analysis,Paired end sequence data from the Illumina HiSeq was prepared from individual wild type zebrafish cells. Generated to study  the transcriptome of single cells.,,,,Single cell TC6281317,SAMEA3728859,Wellcome Sanger Institute,ArrayExpress Species:Danio rerio|ENA first public:2016 04 26|ENA last update:2016 01 19|External Id:SAMEA3728859|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 04 26T14:06:05Z|INSDC last update:2016 01 19T16:49:18Z|INSDC status:public|Submitter Id:631caa80 a4bf 11e5 bdd9 68b59976a382|common name:zebrafish|sample description:3 prime end enriched mRNA from single cells. An 11 base indexing sequence TGGGTATCAGG is bases 11 to 21 of read 1 followed by CG and polyT.|sample name:631caa80 a4bf 11e5 bdd9 68b59976a382,,,,,,,,,Illumina MiSeq paired end sequencing,SC EXP 18668 1#361,15545050,Illumina sequencing of library 15545050  constructed from sample accession ERS1036008 for study accession ERP011007.  This is part of an Illumina multiplexed sequencing run 18668 1.  This submission includes reads tagged with the sequence TGGGTATCAGG.,Transcriptome counting qPCR only,,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina MiSeq,,ERP011007,Illumina MiSeq paired end sequencing,ENA FIRST PUBLIC:2016 04 26|ENA LAST UPDATE:2018 11 16,18668_1#361.cram,cram,1545807.0,11983.0,SC RUN 18668 1#361,0:54 1:75,A:388157;C:353499;G:299492;T:504659;N:0,54,75,,,388157,353499,299492,504659,0,ERX1445963,ERS1036008,ERA610021,European Nucleotide Archive,Wellcome Sanger Institute,2,0.32705,0.36263,0.32704,0.36251,1.0,0.99997,,1.0,54,75,B,B,biological fallback assumption,illumina,miseq,3prime,cdna_unspecified,unknown,bulk,unknown,unknown,,United Kingdom,2016-01-19,Undetermined,Undetermined,Undetermined,Undetermined
21571,ERR1374836,ERX1445962,ERS1036007,ERP011007,PRJEB9859,Transcriptome profiling of single zebrafish cells,Transcriptome_profiling_of_single_zebrafish_cells-sc-2991,Transcriptome Analysis,Paired end sequence data from the Illumina HiSeq was prepared from individual wild type zebrafish cells. Generated to study  the transcriptome of single cells.,,,,Single cell TC6281316,SAMEA3728858,Wellcome Sanger Institute,ArrayExpress Species:Danio rerio|ENA first public:2016 04 26|ENA last update:2016 01 19|External Id:SAMEA3728858|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 04 26T14:06:05Z|INSDC last update:2016 01 19T16:49:17Z|INSDC status:public|Submitter Id:63122330 a4bf 11e5 bdd9 68b59976a382|common name:zebrafish|sample description:3 prime end enriched mRNA from single cells. An 11 base indexing sequence TGGGCCTTTAG is bases 11 to 21 of read 1 followed by CG and polyT.|sample name:63122330 a4bf 11e5 bdd9 68b59976a382,,,,,,,,,Illumina MiSeq paired end sequencing,SC EXP 18668 1#360,15545049,Illumina sequencing of library 15545049  constructed from sample accession ERS1036007 for study accession ERP011007.  This is part of an Illumina multiplexed sequencing run 18668 1.  This submission includes reads tagged with the sequence TGGGCCTTTAG.,Transcriptome counting qPCR only,,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina MiSeq,,ERP011007,Illumina MiSeq paired end sequencing,ENA FIRST PUBLIC:2016 04 26|ENA LAST UPDATE:2018 11 16,18668_1#360.cram,cram,796962.0,6178.0,SC RUN 18668 1#360,0:54 1:75,A:205421;C:183412;G:167684;T:240445;N:0,54,75,,,205421,183412,167684,240445,0,ERX1445962,ERS1036007,ERA610021,European Nucleotide Archive,Wellcome Sanger Institute,2,0.16008,0.21906,0.16007,0.21905,1.0,1.0,,,54,75,B,B,mate1-mate2 similar by mapping diff,illumina,miseq,3prime,cdna_unspecified,unknown,bulk,unknown,unknown,,United Kingdom,2016-01-19,Undetermined,Undetermined,Undetermined,Undetermined
21572,ERR1374835,ERX1445961,ERS1036006,ERP011007,PRJEB9859,Transcriptome profiling of single zebrafish cells,Transcriptome_profiling_of_single_zebrafish_cells-sc-2991,Transcriptome Analysis,Paired end sequence data from the Illumina HiSeq was prepared from individual wild type zebrafish cells. Generated to study  the transcriptome of single cells.,,,,Single cell TC6281315,SAMEA3728857,Wellcome Sanger Institute,ArrayExpress Species:Danio rerio|ENA first public:2016 04 26|ENA last update:2016 01 19|External Id:SAMEA3728857|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 04 26T14:06:05Z|INSDC last update:2016 01 19T16:49:17Z|INSDC status:public|Submitter Id:6308d460 a4bf 11e5 bdd9 68b59976a382|common name:zebrafish|sample description:3 prime end enriched mRNA from single cells. An 11 base indexing sequence TGGCAAGTTCG is bases 11 to 21 of read 1 followed by CG and polyT.|sample name:6308d460 a4bf 11e5 bdd9 68b59976a382,,,,,,,,,Illumina MiSeq paired end sequencing,SC EXP 18668 1#359,15545048,Illumina sequencing of library 15545048  constructed from sample accession ERS1036006 for study accession ERP011007.  This is part of an Illumina multiplexed sequencing run 18668 1.  This submission includes reads tagged with the sequence TGGCAAGTTCG.,Transcriptome counting qPCR only,,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina MiSeq,,ERP011007,Illumina MiSeq paired end sequencing,ENA FIRST PUBLIC:2016 04 26|ENA LAST UPDATE:2018 11 16,18668_1#359.cram,cram,1457700.0,11300.0,SC RUN 18668 1#359,0:54 1:75,A:381691;C:306041;G:273166;T:496802;N:0,54,75,,,381691,306041,273166,496802,0,ERX1445961,ERS1036006,ERA610021,European Nucleotide Archive,Wellcome Sanger Institute,2,0.35568,0.40861,0.35567,0.40802,1.0,0.99995,,0.0,54,75,B,B,biological fallback assumption,illumina,miseq,3prime,cdna_unspecified,unknown,bulk,unknown,unknown,,United Kingdom,2016-01-19,Undetermined,Undetermined,Undetermined,Undetermined
21573,ERR1374834,ERX1445960,ERS1036005,ERP011007,PRJEB9859,Transcriptome profiling of single zebrafish cells,Transcriptome_profiling_of_single_zebrafish_cells-sc-2991,Transcriptome Analysis,Paired end sequence data from the Illumina HiSeq was prepared from individual wild type zebrafish cells. Generated to study  the transcriptome of single cells.,,,,Single cell TC6281314,SAMEA3728856,Wellcome Sanger Institute,ArrayExpress Species:Danio rerio|ENA first public:2016 04 26|ENA last update:2016 01 19|External Id:SAMEA3728856|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 04 26T14:06:05Z|INSDC last update:2016 01 19T16:49:16Z|INSDC status:public|Submitter Id:62ff8590 a4bf 11e5 bdd9 68b59976a382|common name:zebrafish|sample description:3 prime end enriched mRNA from single cells. An 11 base indexing sequence TGCGCTCGGAT is bases 11 to 21 of read 1 followed by CG and polyT.|sample name:62ff8590 a4bf 11e5 bdd9 68b59976a382,,,,,,,,,Illumina MiSeq paired end sequencing,SC EXP 18668 1#358,15545047,Illumina sequencing of library 15545047  constructed from sample accession ERS1036005 for study accession ERP011007.  This is part of an Illumina multiplexed sequencing run 18668 1.  This submission includes reads tagged with the sequence TGCGCTCGGAT.,Transcriptome counting qPCR only,,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina MiSeq,,ERP011007,Illumina MiSeq paired end sequencing,ENA FIRST PUBLIC:2016 04 26|ENA LAST UPDATE:2018 11 16,18668_1#358.cram,cram,1580766.0,12254.0,SC RUN 18668 1#358,0:54 1:75,A:407154;C:319618;G:294050;T:559944;N:0,54,75,,,407154,319618,294050,559944,0,ERX1445960,ERS1036005,ERA610021,European Nucleotide Archive,Wellcome Sanger Institute,2,0.33503,0.48661,0.33502,0.48649,1.0,0.99997,,0.0,54,75,T,B,mate1 technical by mapping diff,illumina,miseq,3prime,cdna_unspecified,unknown,bulk,unknown,unknown,,United Kingdom,2016-01-19,Undetermined,Undetermined,Undetermined,Undetermined
21574,ERR1374833,ERX1445959,ERS1036004,ERP011007,PRJEB9859,Transcriptome profiling of single zebrafish cells,Transcriptome_profiling_of_single_zebrafish_cells-sc-2991,Transcriptome Analysis,Paired end sequence data from the Illumina HiSeq was prepared from individual wild type zebrafish cells. Generated to study  the transcriptome of single cells.,,,,Single cell TC6281313,SAMEA3728855,Wellcome Sanger Institute,ArrayExpress Species:Danio rerio|ENA first public:2016 04 26|ENA last update:2016 01 19|External Id:SAMEA3728855|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 04 26T14:06:06Z|INSDC last update:2016 01 19T16:49:15Z|INSDC status:public|Submitter Id:62f60fb0 a4bf 11e5 bdd9 68b59976a382|common name:zebrafish|sample description:3 prime end enriched mRNA from single cells. An 11 base indexing sequence TGCCCAGCATA is bases 11 to 21 of read 1 followed by CG and polyT.|sample name:62f60fb0 a4bf 11e5 bdd9 68b59976a382,,,,,,,,,Illumina MiSeq paired end sequencing,SC EXP 18668 1#357,15545046,Illumina sequencing of library 15545046  constructed from sample accession ERS1036004 for study accession ERP011007.  This is part of an Illumina multiplexed sequencing run 18668 1.  This submission includes reads tagged with the sequence TGCCCAGCATA.,Transcriptome counting qPCR only,,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina MiSeq,,ERP011007,Illumina MiSeq paired end sequencing,ENA FIRST PUBLIC:2016 04 26|ENA LAST UPDATE:2018 11 16,18668_1#357.cram,cram,1647717.0,12773.0,SC RUN 18668 1#357,0:54 1:75,A:421018;C:364506;G:348242;T:513951;N:0,54,75,,,421018,364506,348242,513951,0,ERX1445959,ERS1036004,ERA610021,European Nucleotide Archive,Wellcome Sanger Institute,2,0.18264,0.21622,0.18263,0.19406,1.0,0.99991,,0.81603,54,75,B,B,biological fallback assumption,illumina,miseq,3prime,cdna_unspecified,unknown,bulk,unknown,unknown,,United Kingdom,2016-01-19,Undetermined,Undetermined,Undetermined,Undetermined
21575,ERR1374832,ERX1445958,ERS1036003,ERP011007,PRJEB9859,Transcriptome profiling of single zebrafish cells,Transcriptome_profiling_of_single_zebrafish_cells-sc-2991,Transcriptome Analysis,Paired end sequence data from the Illumina HiSeq was prepared from individual wild type zebrafish cells. Generated to study  the transcriptome of single cells.,,,,Single cell TC6281312,SAMEA3728854,Wellcome Sanger Institute,ArrayExpress Species:Danio rerio|ENA first public:2016 04 26|ENA last update:2016 01 19|External Id:SAMEA3728854|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 04 26T14:06:05Z|INSDC last update:2016 01 19T16:49:15Z|INSDC status:public|Submitter Id:62ecc0e0 a4bf 11e5 bdd9 68b59976a382|common name:zebrafish|sample description:3 prime end enriched mRNA from single cells. An 11 base indexing sequence TGATTGATGGA is bases 11 to 21 of read 1 followed by CG and polyT.|sample name:62ecc0e0 a4bf 11e5 bdd9 68b59976a382,,,,,,,,,Illumina MiSeq paired end sequencing,SC EXP 18668 1#356,15545045,Illumina sequencing of library 15545045  constructed from sample accession ERS1036003 for study accession ERP011007.  This is part of an Illumina multiplexed sequencing run 18668 1.  This submission includes reads tagged with the sequence TGATTGATGGA.,Transcriptome counting qPCR only,,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina MiSeq,,ERP011007,Illumina MiSeq paired end sequencing,ENA FIRST PUBLIC:2016 04 26|ENA LAST UPDATE:2018 11 16,18668_1#356.cram,cram,1476921.0,11449.0,SC RUN 18668 1#356,0:54 1:75,A:388623;C:329404;G:278185;T:480709;N:0,54,75,,,388623,329404,278185,480709,0,ERX1445958,ERS1036003,ERA610021,European Nucleotide Archive,Wellcome Sanger Institute,2,0.28736,0.29022,0.28735,0.28988,1.0,0.99997,,0.0,54,75,B,B,biological fallback assumption,illumina,miseq,3prime,cdna_unspecified,unknown,bulk,unknown,unknown,,United Kingdom,2016-01-19,Undetermined,Undetermined,Undetermined,Undetermined
21576,ERR1374831,ERX1445957,ERS1036002,ERP011007,PRJEB9859,Transcriptome profiling of single zebrafish cells,Transcriptome_profiling_of_single_zebrafish_cells-sc-2991,Transcriptome Analysis,Paired end sequence data from the Illumina HiSeq was prepared from individual wild type zebrafish cells. Generated to study  the transcriptome of single cells.,,,,Single cell TC6281311,SAMEA3728853,Wellcome Sanger Institute,ArrayExpress Species:Danio rerio|ENA first public:2016 04 26|ENA last update:2016 01 19|External Id:SAMEA3728853|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 04 26T14:06:04Z|INSDC last update:2016 01 19T16:49:14Z|INSDC status:public|Submitter Id:62e39920 a4bf 11e5 bdd9 68b59976a382|common name:zebrafish|sample description:3 prime end enriched mRNA from single cells. An 11 base indexing sequence TGAGGGCTCGG is bases 11 to 21 of read 1 followed by CG and polyT.|sample name:62e39920 a4bf 11e5 bdd9 68b59976a382,,,,,,,,,Illumina MiSeq paired end sequencing,SC EXP 18668 1#355,15545044,Illumina sequencing of library 15545044  constructed from sample accession ERS1036002 for study accession ERP011007.  This is part of an Illumina multiplexed sequencing run 18668 1.  This submission includes reads tagged with the sequence TGAGGGCTCGG.,Transcriptome counting qPCR only,,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina MiSeq,,ERP011007,Illumina MiSeq paired end sequencing,ENA FIRST PUBLIC:2016 04 26|ENA LAST UPDATE:2018 11 16,18668_1#355.cram,cram,1297869.0,10061.0,SC RUN 18668 1#355,0:54 1:75,A:321675;C:309187;G:286434;T:380573;N:0,54,75,,,321675,309187,286434,380573,0,ERX1445957,ERS1036002,ERA610021,European Nucleotide Archive,Wellcome Sanger Institute,2,0.17335,0.1815,0.17334,0.18018,1.0,0.99995,,0.0,54,75,B,B,biological fallback assumption,illumina,miseq,3prime,cdna_unspecified,unknown,bulk,unknown,unknown,,United Kingdom,2016-01-19,Undetermined,Undetermined,Undetermined,Undetermined
21577,ERR1374830,ERX1445956,ERS1036001,ERP011007,PRJEB9859,Transcriptome profiling of single zebrafish cells,Transcriptome_profiling_of_single_zebrafish_cells-sc-2991,Transcriptome Analysis,Paired end sequence data from the Illumina HiSeq was prepared from individual wild type zebrafish cells. Generated to study  the transcriptome of single cells.,,,,Single cell TC6281310,SAMEA3728852,Wellcome Sanger Institute,ArrayExpress Species:Danio rerio|ENA first public:2016 04 26|ENA last update:2016 01 19|External Id:SAMEA3728852|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 04 26T14:06:04Z|INSDC last update:2016 01 19T16:49:14Z|INSDC status:public|Submitter Id:62da4a50 a4bf 11e5 bdd9 68b59976a382|common name:zebrafish|sample description:3 prime end enriched mRNA from single cells. An 11 base indexing sequence TGACGCGATTT is bases 11 to 21 of read 1 followed by CG and polyT.|sample name:62da4a50 a4bf 11e5 bdd9 68b59976a382,,,,,,,,,Illumina MiSeq paired end sequencing,SC EXP 18668 1#354,15545043,Illumina sequencing of library 15545043  constructed from sample accession ERS1036001 for study accession ERP011007.  This is part of an Illumina multiplexed sequencing run 18668 1.  This submission includes reads tagged with the sequence TGACGCGATTT.,Transcriptome counting qPCR only,,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina MiSeq,,ERP011007,Illumina MiSeq paired end sequencing,ENA FIRST PUBLIC:2016 04 26|ENA LAST UPDATE:2018 11 16,18668_1#354.cram,cram,2254404.0,17476.0,SC RUN 18668 1#354,0:54 1:75,A:593689;C:473532;G:416369;T:770814;N:0,54,75,,,593689,473532,416369,770814,0,ERX1445956,ERS1036001,ERA610021,European Nucleotide Archive,Wellcome Sanger Institute,2,0.44622,0.486,0.44621,0.48599,1.0,1.0,,,54,75,B,B,biological fallback assumption,illumina,miseq,3prime,cdna_unspecified,unknown,bulk,unknown,unknown,,United Kingdom,2016-01-19,Undetermined,Undetermined,Undetermined,Undetermined
21578,ERR1374829,ERX1445955,ERS1036000,ERP011007,PRJEB9859,Transcriptome profiling of single zebrafish cells,Transcriptome_profiling_of_single_zebrafish_cells-sc-2991,Transcriptome Analysis,Paired end sequence data from the Illumina HiSeq was prepared from individual wild type zebrafish cells. Generated to study  the transcriptome of single cells.,,,,Single cell TC6281309,SAMEA3728851,Wellcome Sanger Institute,ArrayExpress Species:Danio rerio|ENA first public:2016 04 26|ENA last update:2016 01 19|External Id:SAMEA3728851|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 04 26T14:06:05Z|INSDC last update:2016 01 19T16:49:14Z|INSDC status:public|Submitter Id:62d0d470 a4bf 11e5 bdd9 68b59976a382|common name:zebrafish|sample description:3 prime end enriched mRNA from single cells. An 11 base indexing sequence TGACAACGCTG is bases 11 to 21 of read 1 followed by CG and polyT.|sample name:62d0d470 a4bf 11e5 bdd9 68b59976a382,,,,,,,,,Illumina MiSeq paired end sequencing,SC EXP 18668 1#353,15545042,Illumina sequencing of library 15545042  constructed from sample accession ERS1036000 for study accession ERP011007.  This is part of an Illumina multiplexed sequencing run 18668 1.  This submission includes reads tagged with the sequence TGACAACGCTG.,Transcriptome counting qPCR only,,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina MiSeq,,ERP011007,Illumina MiSeq paired end sequencing,ENA FIRST PUBLIC:2016 04 26|ENA LAST UPDATE:2018 11 16,18668_1#353.cram,cram,2040651.0,15819.0,SC RUN 18668 1#353,0:54 1:75,A:536652;C:412332;G:375717;T:715950;N:0,54,75,,,536652,412332,375717,715950,0,ERX1445955,ERS1036000,ERA610021,European Nucleotide Archive,Wellcome Sanger Institute,2,0.34926,0.44657,0.34904,0.42924,0.99997,0.99989,1.0,0.97448,54,75,B,B,biological fallback assumption,illumina,miseq,3prime,cdna_unspecified,unknown,bulk,unknown,unknown,,United Kingdom,2016-01-19,Undetermined,Undetermined,Undetermined,Undetermined
21579,ERR1374828,ERX1445954,ERS1035999,ERP011007,PRJEB9859,Transcriptome profiling of single zebrafish cells,Transcriptome_profiling_of_single_zebrafish_cells-sc-2991,Transcriptome Analysis,Paired end sequence data from the Illumina HiSeq was prepared from individual wild type zebrafish cells. Generated to study  the transcriptome of single cells.,,,,Single cell TC6281308,SAMEA3728850,Wellcome Sanger Institute,ArrayExpress Species:Danio rerio|ENA first public:2016 04 26|ENA last update:2016 01 19|External Id:SAMEA3728850|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 04 26T14:06:06Z|INSDC last update:2016 01 19T16:49:13Z|INSDC status:public|Submitter Id:62c75e90 a4bf 11e5 bdd9 68b59976a382|common name:zebrafish|sample description:3 prime end enriched mRNA from single cells. An 11 base indexing sequence TCTTAATTGAG is bases 11 to 21 of read 1 followed by CG and polyT.|sample name:62c75e90 a4bf 11e5 bdd9 68b59976a382,,,,,,,,,Illumina MiSeq paired end sequencing,SC EXP 18668 1#352,15545041,Illumina sequencing of library 15545041  constructed from sample accession ERS1035999 for study accession ERP011007.  This is part of an Illumina multiplexed sequencing run 18668 1.  This submission includes reads tagged with the sequence TCTTAATTGAG.,Transcriptome counting qPCR only,,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina MiSeq,,ERP011007,Illumina MiSeq paired end sequencing,ENA FIRST PUBLIC:2016 04 26|ENA LAST UPDATE:2018 11 16,18668_1#352.cram,cram,2707452.0,20988.0,SC RUN 18668 1#352,0:54 1:75,A:718804;C:585757;G:511662;T:891229;N:0,54,75,,,718804,585757,511662,891229,0,ERX1445954,ERS1035999,ERA610021,European Nucleotide Archive,Wellcome Sanger Institute,2,0.26416,0.33244,0.26415,0.32476,1.0,0.99995,,0.0,54,75,B,B,biological fallback assumption,illumina,miseq,3prime,cdna_unspecified,unknown,bulk,unknown,unknown,,United Kingdom,2016-01-19,Undetermined,Undetermined,Undetermined,Undetermined
21580,ERR1374827,ERX1445953,ERS1035998,ERP011007,PRJEB9859,Transcriptome profiling of single zebrafish cells,Transcriptome_profiling_of_single_zebrafish_cells-sc-2991,Transcriptome Analysis,Paired end sequence data from the Illumina HiSeq was prepared from individual wild type zebrafish cells. Generated to study  the transcriptome of single cells.,,,,Single cell TC6281307,SAMEA3728849,Wellcome Sanger Institute,ArrayExpress Species:Danio rerio|ENA first public:2016 04 26|ENA last update:2016 01 19|External Id:SAMEA3728849|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 04 26T14:06:05Z|INSDC last update:2016 01 19T16:49:13Z|INSDC status:public|Submitter Id:62be0fc0 a4bf 11e5 bdd9 68b59976a382|common name:zebrafish|sample description:3 prime end enriched mRNA from single cells. An 11 base indexing sequence TCTTAAAGATT is bases 11 to 21 of read 1 followed by CG and polyT.|sample name:62be0fc0 a4bf 11e5 bdd9 68b59976a382,,,,,,,,,Illumina MiSeq paired end sequencing,SC EXP 18668 1#351,15545040,Illumina sequencing of library 15545040  constructed from sample accession ERS1035998 for study accession ERP011007.  This is part of an Illumina multiplexed sequencing run 18668 1.  This submission includes reads tagged with the sequence TCTTAAAGATT.,Transcriptome counting qPCR only,,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina MiSeq,,ERP011007,Illumina MiSeq paired end sequencing,ENA FIRST PUBLIC:2016 04 26|ENA LAST UPDATE:2018 11 16,18668_1#351.cram,cram,3549951.0,27519.0,SC RUN 18668 1#351,0:54 1:75,A:969722;C:703575;G:618005;T:1258649;N:0,54,75,,,969722,703575,618005,1258649,0,ERX1445953,ERS1035998,ERA610021,European Nucleotide Archive,Wellcome Sanger Institute,2,0.24619,0.3418,0.24606,0.34007,0.99993,0.99995,0.66666,0.0,54,75,B,B,mate1-mate2 similar by mapping diff,illumina,miseq,3prime,cdna_unspecified,unknown,bulk,unknown,unknown,,United Kingdom,2016-01-19,Undetermined,Undetermined,Undetermined,Undetermined
21581,ERR1374826,ERX1445952,ERS1035997,ERP011007,PRJEB9859,Transcriptome profiling of single zebrafish cells,Transcriptome_profiling_of_single_zebrafish_cells-sc-2991,Transcriptome Analysis,Paired end sequence data from the Illumina HiSeq was prepared from individual wild type zebrafish cells. Generated to study  the transcriptome of single cells.,,,,Single cell TC6281306,SAMEA3728848,Wellcome Sanger Institute,ArrayExpress Species:Danio rerio|ENA first public:2016 04 26|ENA last update:2016 01 19|External Id:SAMEA3728848|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 04 26T14:06:05Z|INSDC last update:2016 01 19T16:49:12Z|INSDC status:public|Submitter Id:62b4c0f0 a4bf 11e5 bdd9 68b59976a382|common name:zebrafish|sample description:3 prime end enriched mRNA from single cells. An 11 base indexing sequence TCTGAGTGCCC is bases 11 to 21 of read 1 followed by CG and polyT.|sample name:62b4c0f0 a4bf 11e5 bdd9 68b59976a382,,,,,,,,,Illumina MiSeq paired end sequencing,SC EXP 18668 1#350,15545039,Illumina sequencing of library 15545039  constructed from sample accession ERS1035997 for study accession ERP011007.  This is part of an Illumina multiplexed sequencing run 18668 1.  This submission includes reads tagged with the sequence TCTGAGTGCCC.,Transcriptome counting qPCR only,,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina MiSeq,,ERP011007,Illumina MiSeq paired end sequencing,ENA FIRST PUBLIC:2016 04 26|ENA LAST UPDATE:2018 11 16,18668_1#350.cram,cram,3638445.0,28205.0,SC RUN 18668 1#350,0:54 1:75,A:941688;C:783894;G:796467;T:1116396;N:0,54,75,,,941688,783894,796467,1116396,0,ERX1445952,ERS1035997,ERA610021,European Nucleotide Archive,Wellcome Sanger Institute,2,0.2456,0.29806,0.24559,0.29801,1.0,0.99997,,0.0,54,75,B,B,biological fallback assumption,illumina,miseq,3prime,cdna_unspecified,unknown,bulk,unknown,unknown,,United Kingdom,2016-01-19,Undetermined,Undetermined,Undetermined,Undetermined
21582,ERR1374825,ERX1445951,ERS1035996,ERP011007,PRJEB9859,Transcriptome profiling of single zebrafish cells,Transcriptome_profiling_of_single_zebrafish_cells-sc-2991,Transcriptome Analysis,Paired end sequence data from the Illumina HiSeq was prepared from individual wild type zebrafish cells. Generated to study  the transcriptome of single cells.,,,,Single cell TC6281305,SAMEA3728847,Wellcome Sanger Institute,ArrayExpress Species:Danio rerio|ENA first public:2016 04 26|ENA last update:2016 01 19|External Id:SAMEA3728847|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 04 26T14:06:04Z|INSDC last update:2016 01 19T16:49:12Z|INSDC status:public|Submitter Id:62ab4b10 a4bf 11e5 bdd9 68b59976a382|common name:zebrafish|sample description:3 prime end enriched mRNA from single cells. An 11 base indexing sequence TCTCGTCATAT is bases 11 to 21 of read 1 followed by CG and polyT.|sample name:62ab4b10 a4bf 11e5 bdd9 68b59976a382,,,,,,,,,Illumina MiSeq paired end sequencing,SC EXP 18668 1#349,15545038,Illumina sequencing of library 15545038  constructed from sample accession ERS1035996 for study accession ERP011007.  This is part of an Illumina multiplexed sequencing run 18668 1.  This submission includes reads tagged with the sequence TCTCGTCATAT.,Transcriptome counting qPCR only,,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina MiSeq,,ERP011007,Illumina MiSeq paired end sequencing,ENA FIRST PUBLIC:2016 04 26|ENA LAST UPDATE:2018 11 16,18668_1#349.cram,cram,2497182.0,19358.0,SC RUN 18668 1#349,0:54 1:75,A:674017;C:505786;G:488086;T:829293;N:0,54,75,,,674017,505786,488086,829293,0,ERX1445951,ERS1035996,ERA610021,European Nucleotide Archive,Wellcome Sanger Institute,2,0.28176,0.34387,0.28175,0.34273,1.0,0.99993,,0.0,54,75,B,B,biological fallback assumption,illumina,miseq,3prime,cdna_unspecified,unknown,bulk,unknown,unknown,,United Kingdom,2016-01-19,Undetermined,Undetermined,Undetermined,Undetermined
21583,ERR1374824,ERX1445950,ERS1035995,ERP011007,PRJEB9859,Transcriptome profiling of single zebrafish cells,Transcriptome_profiling_of_single_zebrafish_cells-sc-2991,Transcriptome Analysis,Paired end sequence data from the Illumina HiSeq was prepared from individual wild type zebrafish cells. Generated to study  the transcriptome of single cells.,,,,Single cell TC6281304,SAMEA3728846,Wellcome Sanger Institute,ArrayExpress Species:Danio rerio|ENA first public:2016 04 26|ENA last update:2016 01 19|External Id:SAMEA3728846|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 04 26T14:06:04Z|INSDC last update:2016 01 19T16:49:11Z|INSDC status:public|Submitter Id:62a1fc40 a4bf 11e5 bdd9 68b59976a382|common name:zebrafish|sample description:3 prime end enriched mRNA from single cells. An 11 base indexing sequence TCTCGGGTGAC is bases 11 to 21 of read 1 followed by CG and polyT.|sample name:62a1fc40 a4bf 11e5 bdd9 68b59976a382,,,,,,,,,Illumina MiSeq paired end sequencing,SC EXP 18668 1#348,15545037,Illumina sequencing of library 15545037  constructed from sample accession ERS1035995 for study accession ERP011007.  This is part of an Illumina multiplexed sequencing run 18668 1.  This submission includes reads tagged with the sequence TCTCGGGTGAC.,Transcriptome counting qPCR only,,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina MiSeq,,ERP011007,Illumina MiSeq paired end sequencing,ENA FIRST PUBLIC:2016 04 26|ENA LAST UPDATE:2018 11 16,18668_1#348.cram,cram,803928.0,6232.0,SC RUN 18668 1#348,0:54 1:75,A:202262;C:188022;G:170949;T:242695;N:0,54,75,,,202262,188022,170949,242695,0,ERX1445950,ERS1035995,ERA610021,European Nucleotide Archive,Wellcome Sanger Institute,2,0.20466,0.22909,0.20465,0.22908,1.0,1.0,,,54,75,B,B,biological fallback assumption,illumina,miseq,3prime,cdna_unspecified,unknown,bulk,unknown,unknown,,United Kingdom,2016-01-19,Undetermined,Undetermined,Undetermined,Undetermined
21584,ERR1374823,ERX1445949,ERS1035994,ERP011007,PRJEB9859,Transcriptome profiling of single zebrafish cells,Transcriptome_profiling_of_single_zebrafish_cells-sc-2991,Transcriptome Analysis,Paired end sequence data from the Illumina HiSeq was prepared from individual wild type zebrafish cells. Generated to study  the transcriptome of single cells.,,,,Single cell TC6281303,SAMEA3728845,Wellcome Sanger Institute,ArrayExpress Species:Danio rerio|ENA first public:2016 04 26|ENA last update:2016 01 19|External Id:SAMEA3728845|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 04 26T14:06:05Z|INSDC last update:2016 01 19T16:49:11Z|INSDC status:public|Submitter Id:62988660 a4bf 11e5 bdd9 68b59976a382|common name:zebrafish|sample description:3 prime end enriched mRNA from single cells. An 11 base indexing sequence TCTCAGAACTG is bases 11 to 21 of read 1 followed by CG and polyT.|sample name:62988660 a4bf 11e5 bdd9 68b59976a382,,,,,,,,,Illumina MiSeq paired end sequencing,SC EXP 18668 1#347,15545036,Illumina sequencing of library 15545036  constructed from sample accession ERS1035994 for study accession ERP011007.  This is part of an Illumina multiplexed sequencing run 18668 1.  This submission includes reads tagged with the sequence TCTCAGAACTG.,Transcriptome counting qPCR only,,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina MiSeq,,ERP011007,Illumina MiSeq paired end sequencing,ENA FIRST PUBLIC:2016 04 26|ENA LAST UPDATE:2018 11 16,18668_1#347.cram,cram,827019.0,6411.0,SC RUN 18668 1#347,0:54 1:75,A:216088;C:173079;G:160104;T:277748;N:0,54,75,,,216088,173079,160104,277748,0,ERX1445949,ERS1035994,ERA610021,European Nucleotide Archive,Wellcome Sanger Institute,2,0.30412,0.30791,0.30411,0.30748,1.0,0.99997,,0.0,54,75,B,B,biological fallback assumption,illumina,miseq,3prime,cdna_unspecified,unknown,bulk,unknown,unknown,,United Kingdom,2016-01-19,Undetermined,Undetermined,Undetermined,Undetermined
21585,ERR1374822,ERX1445948,ERS1035993,ERP011007,PRJEB9859,Transcriptome profiling of single zebrafish cells,Transcriptome_profiling_of_single_zebrafish_cells-sc-2991,Transcriptome Analysis,Paired end sequence data from the Illumina HiSeq was prepared from individual wild type zebrafish cells. Generated to study  the transcriptome of single cells.,,,,Single cell TC6281302,SAMEA3728844,Wellcome Sanger Institute,ArrayExpress Species:Danio rerio|ENA first public:2016 04 26|ENA last update:2016 01 19|External Id:SAMEA3728844|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 04 26T14:06:04Z|INSDC last update:2016 01 19T16:49:10Z|INSDC status:public|Submitter Id:628d14b0 a4bf 11e5 bdd9 68b59976a382|common name:zebrafish|sample description:3 prime end enriched mRNA from single cells. An 11 base indexing sequence TCTATCCTCAT is bases 11 to 21 of read 1 followed by CG and polyT.|sample name:628d14b0 a4bf 11e5 bdd9 68b59976a382,,,,,,,,,Illumina MiSeq paired end sequencing,SC EXP 18668 1#346,15545035,Illumina sequencing of library 15545035  constructed from sample accession ERS1035993 for study accession ERP011007.  This is part of an Illumina multiplexed sequencing run 18668 1.  This submission includes reads tagged with the sequence TCTATCCTCAT.,Transcriptome counting qPCR only,,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina MiSeq,,ERP011007,Illumina MiSeq paired end sequencing,ENA FIRST PUBLIC:2016 04 26|ENA LAST UPDATE:2018 11 16,18668_1#346.cram,cram,1070958.0,8302.0,SC RUN 18668 1#346,0:54 1:75,A:282497;C:218462;G:212616;T:357383;N:0,54,75,,,282497,218462,212616,357383,0,ERX1445948,ERS1035993,ERA610021,European Nucleotide Archive,Wellcome Sanger Institute,2,0.34006,0.38903,0.34005,0.38902,1.0,1.0,,,54,75,B,B,biological fallback assumption,illumina,miseq,3prime,cdna_unspecified,unknown,bulk,unknown,unknown,,United Kingdom,2016-01-19,Undetermined,Undetermined,Undetermined,Undetermined