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
5795,ERR1698352,ERX1767860,ERS1417534,ERP018188,PRJEB16335,RNA seq of the zebrafish danio rerio brain post developmental exposure to 17a ethinylestradiol,E-MTAB-5173,Transcriptome Analysis,17a ethinylestradiol EE2 is a synthetic estrogen commonly used as an active substance in oral contraceptives.  It is frequently found in waste water effluent and raise concern due to its persistent nature. EE2 binds to estrogen receptors with similar affinity to oestradiol and acts as one of the most potent hormone mimics found in the environment.  Estrogen is involved in many aspects of the development of the neuroendocrine system influencing both brain structure and behavior. We and others have reported a significant effect on non reproductive behaviors in adult fish and in recent studies we found that developmental exposure to EE2 resulted in an anxiogenic phenotype as adults even post a long remediation period.  In this study we aim to study possible mechanisms behind the behavior alterations of zebrafish developmentally exposed to EE2 by sequencing the whole brain transcriptome. Zebrafish embryos were exposed to 0  2.14 and 7.34 ng/L EE2 from 1 day to 80 dpf post the exposure period a remediation period of 120 days followed before the fish were sampled. 3 male brains from the control group 0 ng/L and the 2.14 ng/L group were sampled and 3 female brains from the control group 0 ng/L and 7.34 ng/L were sampled.,ENA FIRST PUBLIC:2017 10 02|ENA LAST UPDATE:2016 10 19|ArrayExpress:E MTAB 5173,,Protocols: RNA extraction Whole brains homogenized in TriReagent according to the manufacturer 0.8 ml/sample Sigma Aldrich  Germany EE2 exposure. Fish exposed to 0  2.14 or 7.34 ng/L EE2 for 80 days starting 1 dpf Ion Whole transcriptome analysis kit on RiboZero eukaryote depleted total RNA,IonXpressRNA 012 up 058 12,SAMEA4518355,"School of Natural Science, Technology and Environmental Studies Sodertorn University",ENA first public:2017 10 02|ENA last update:2016 10 19|External Id:SAMEA4518355|INSDC center alias:School of Natural Science  Technology and Environmental Studies Sodertorn University|INSDC center name:School of Natural Science  Technology and Environmental Studies Sodertorn University|INSDC first public:2017 10 02T17:05:16Z|INSDC last update:2016 10 19T13:53:59Z|INSDC status:public|Submitter Id:E MTAB 5173:IonXpressRNA 012 up 058 12|age:200|broker name:ArrayExpress|common name:zebrafish|organism part:brain|sample name:E MTAB 5173:IonXpressRNA 012 up 058 12|sex:male,,,,,,,,,Ion Torrent Proton sequencing; RNA seq of the zebrafish danio rerio brain post developmental exposure to 17α ethinylestradiol,E MTAB 5173:IonXpressRNA 012 up 058 12 s,IonXpressRNA 012 up 058 12 s,RNA seq of the zebrafish danio rerio brain post developmental exposure to 17α ethinylestradiol,RNA extraction Whole brains homogenized in TriReagent according to the manufacturer 0.8 ml/sample Sigma Aldrich  Germany EE2 exposure. Fish exposed to 0  2.14 or 7.34 ng/L EE2 for 80 days starting 1 dpf Ion Whole transcriptome analysis kit on RiboZero eukaryote depleted total RNA,Experimental Factor: male:sex|Experimental Factor: 17 ethinylestradiol:compound|Experimental Factor: 2.14:dose,RNA-Seq,TRANSCRIPTOMIC,RANDOM,SINGLE,ION_TORRENT,Ion Torrent Proton,,ERP018188,Ion Torrent Proton sequencing; RNA seq of the zebrafish danio rerio brain post developmental exposure to 17α ethinylestradiol,ENA FIRST PUBLIC:2017 10 02|ENA LAST UPDATE:2018 11 16,IonXpressRNA_012_up_058_12.fastq.gz,fastq,2535299006.0,33956077.0,E MTAB 5173:IonXpressRNA 012 up 058 12,0:74.66,A:719061985;C:581906269;G:579932234;T:654398518;N:0,74,,,,719061985,581906269,579932234,654398518,0,ERX1767860,ERS1417534,ERA739176,"School of Natural Science, Technology and Environmental Studies Sodertorn University|European Nucleotide Archive","School of Natural Science, Technology and Environmental Studies Sodertorn University|European Nucleotide Archive",1,0.7343,,0.34119,,0.7359,,0.48406,,66,,B,,usable mapping rate,ion_torrent,ion_torrent,full_length,random_priming,ribozero,bulk,unknown,unknown,,Sweden,2016-10-19,Pharyngula,Embryo,Brain,Nervous System
5796,ERR1698351,ERX1767859,ERS1417533,ERP018188,PRJEB16335,RNA seq of the zebrafish danio rerio brain post developmental exposure to 17a ethinylestradiol,E-MTAB-5173,Transcriptome Analysis,17a ethinylestradiol EE2 is a synthetic estrogen commonly used as an active substance in oral contraceptives.  It is frequently found in waste water effluent and raise concern due to its persistent nature. EE2 binds to estrogen receptors with similar affinity to oestradiol and acts as one of the most potent hormone mimics found in the environment.  Estrogen is involved in many aspects of the development of the neuroendocrine system influencing both brain structure and behavior. We and others have reported a significant effect on non reproductive behaviors in adult fish and in recent studies we found that developmental exposure to EE2 resulted in an anxiogenic phenotype as adults even post a long remediation period.  In this study we aim to study possible mechanisms behind the behavior alterations of zebrafish developmentally exposed to EE2 by sequencing the whole brain transcriptome. Zebrafish embryos were exposed to 0  2.14 and 7.34 ng/L EE2 from 1 day to 80 dpf post the exposure period a remediation period of 120 days followed before the fish were sampled. 3 male brains from the control group 0 ng/L and the 2.14 ng/L group were sampled and 3 female brains from the control group 0 ng/L and 7.34 ng/L were sampled.,ENA FIRST PUBLIC:2017 10 02|ENA LAST UPDATE:2016 10 19|ArrayExpress:E MTAB 5173,,Protocols: RNA extraction Whole brains homogenized in TriReagent according to the manufacturer 0.8 ml/sample Sigma Aldrich  Germany EE2 exposure. Fish exposed to 0  2.14 or 7.34 ng/L EE2 for 80 days starting 1 dpf Ion Whole transcriptome analysis kit on RiboZero eukaryote depleted total RNA,IonXpressRNA 011 up 058 11,SAMEA4518354,"School of Natural Science, Technology and Environmental Studies Sodertorn University",ENA first public:2017 10 02|ENA last update:2016 10 19|External Id:SAMEA4518354|INSDC center alias:School of Natural Science  Technology and Environmental Studies Sodertorn University|INSDC center name:School of Natural Science  Technology and Environmental Studies Sodertorn University|INSDC first public:2017 10 02T17:05:16Z|INSDC last update:2016 10 19T13:53:59Z|INSDC status:public|Submitter Id:E MTAB 5173:IonXpressRNA 011 up 058 11|age:200|broker name:ArrayExpress|common name:zebrafish|organism part:brain|sample name:E MTAB 5173:IonXpressRNA 011 up 058 11|sex:male,,,,,,,,,Ion Torrent Proton sequencing; RNA seq of the zebrafish danio rerio brain post developmental exposure to 17α ethinylestradiol,E MTAB 5173:IonXpressRNA 011 up 058 11 s,IonXpressRNA 011 up 058 11 s,RNA seq of the zebrafish danio rerio brain post developmental exposure to 17α ethinylestradiol,RNA extraction Whole brains homogenized in TriReagent according to the manufacturer 0.8 ml/sample Sigma Aldrich  Germany EE2 exposure. Fish exposed to 0  2.14 or 7.34 ng/L EE2 for 80 days starting 1 dpf Ion Whole transcriptome analysis kit on RiboZero eukaryote depleted total RNA,Experimental Factor: male:sex|Experimental Factor: 17 ethinylestradiol:compound|Experimental Factor: 2.14:dose,RNA-Seq,TRANSCRIPTOMIC,RANDOM,SINGLE,ION_TORRENT,Ion Torrent Proton,,ERP018188,Ion Torrent Proton sequencing; RNA seq of the zebrafish danio rerio brain post developmental exposure to 17α ethinylestradiol,ENA FIRST PUBLIC:2017 10 02|ENA LAST UPDATE:2018 11 16,IonXpressRNA_011_up_058_11.fastq.gz,fastq,3400774471.0,38709756.0,E MTAB 5173:IonXpressRNA 011 up 058 11,0:87.85,A:948991439;C:793389977;G:792539547;T:865853508;N:0,87,,,,948991439,793389977,792539547,865853508,0,ERX1767859,ERS1417533,ERA739176,"School of Natural Science, Technology and Environmental Studies Sodertorn University|European Nucleotide Archive","School of Natural Science, Technology and Environmental Studies Sodertorn University|European Nucleotide Archive",1,0.63968,,0.27033,,0.75213,,0.47966,,139,,B,,usable mapping rate,ion_torrent,ion_torrent,full_length,random_priming,ribozero,bulk,unknown,unknown,,Sweden,2016-10-19,Pharyngula,Embryo,Brain,Nervous System
5797,ERR1698350,ERX1767858,ERS1417532,ERP018188,PRJEB16335,RNA seq of the zebrafish danio rerio brain post developmental exposure to 17a ethinylestradiol,E-MTAB-5173,Transcriptome Analysis,17a ethinylestradiol EE2 is a synthetic estrogen commonly used as an active substance in oral contraceptives.  It is frequently found in waste water effluent and raise concern due to its persistent nature. EE2 binds to estrogen receptors with similar affinity to oestradiol and acts as one of the most potent hormone mimics found in the environment.  Estrogen is involved in many aspects of the development of the neuroendocrine system influencing both brain structure and behavior. We and others have reported a significant effect on non reproductive behaviors in adult fish and in recent studies we found that developmental exposure to EE2 resulted in an anxiogenic phenotype as adults even post a long remediation period.  In this study we aim to study possible mechanisms behind the behavior alterations of zebrafish developmentally exposed to EE2 by sequencing the whole brain transcriptome. Zebrafish embryos were exposed to 0  2.14 and 7.34 ng/L EE2 from 1 day to 80 dpf post the exposure period a remediation period of 120 days followed before the fish were sampled. 3 male brains from the control group 0 ng/L and the 2.14 ng/L group were sampled and 3 female brains from the control group 0 ng/L and 7.34 ng/L were sampled.,ENA FIRST PUBLIC:2017 10 02|ENA LAST UPDATE:2016 10 19|ArrayExpress:E MTAB 5173,,Protocols: RNA extraction Whole brains homogenized in TriReagent according to the manufacturer 0.8 ml/sample Sigma Aldrich  Germany EE2 exposure. Fish exposed to 0  2.14 or 7.34 ng/L EE2 for 80 days starting 1 dpf Ion Whole transcriptome analysis kit on RiboZero eukaryote depleted total RNA,IonXpressRNA 010 up 058 10,SAMEA4518353,"School of Natural Science, Technology and Environmental Studies Sodertorn University",ENA first public:2017 10 02|ENA last update:2016 10 19|External Id:SAMEA4518353|INSDC center alias:School of Natural Science  Technology and Environmental Studies Sodertorn University|INSDC center name:School of Natural Science  Technology and Environmental Studies Sodertorn University|INSDC first public:2017 10 02T17:05:16Z|INSDC last update:2016 10 19T13:53:59Z|INSDC status:public|Submitter Id:E MTAB 5173:IonXpressRNA 010 up 058 10|age:200|broker name:ArrayExpress|common name:zebrafish|organism part:brain|sample name:E MTAB 5173:IonXpressRNA 010 up 058 10|sex:male,,,,,,,,,Ion Torrent Proton sequencing; RNA seq of the zebrafish danio rerio brain post developmental exposure to 17α ethinylestradiol,E MTAB 5173:IonXpressRNA 010 up 058 10 s,IonXpressRNA 010 up 058 10 s,RNA seq of the zebrafish danio rerio brain post developmental exposure to 17α ethinylestradiol,RNA extraction Whole brains homogenized in TriReagent according to the manufacturer 0.8 ml/sample Sigma Aldrich  Germany EE2 exposure. Fish exposed to 0  2.14 or 7.34 ng/L EE2 for 80 days starting 1 dpf Ion Whole transcriptome analysis kit on RiboZero eukaryote depleted total RNA,Experimental Factor: male:sex|Experimental Factor: 17 ethinylestradiol:compound|Experimental Factor: 2.14:dose,RNA-Seq,TRANSCRIPTOMIC,RANDOM,SINGLE,ION_TORRENT,Ion Torrent Proton,,ERP018188,Ion Torrent Proton sequencing; RNA seq of the zebrafish danio rerio brain post developmental exposure to 17α ethinylestradiol,ENA FIRST PUBLIC:2017 10 02|ENA LAST UPDATE:2018 11 16,IonXpressRNA_010_up_058_10.fastq.gz,fastq,3502667998.0,39204781.0,E MTAB 5173:IonXpressRNA 010 up 058 10,0:89.34,A:976977303;C:803330255;G:808731995;T:913628445;N:0,89,,,,976977303,803330255,808731995,913628445,0,ERX1767858,ERS1417532,ERA739176,"School of Natural Science, Technology and Environmental Studies Sodertorn University|European Nucleotide Archive","School of Natural Science, Technology and Environmental Studies Sodertorn University|European Nucleotide Archive",1,0.65846,,0.2815,,0.74028,,0.47784,,86,,B,,usable mapping rate,ion_torrent,ion_torrent,full_length,random_priming,ribozero,bulk,unknown,unknown,,Sweden,2016-10-19,Pharyngula,Embryo,Brain,Nervous System
5798,ERR1698349,ERX1767857,ERS1417531,ERP018188,PRJEB16335,RNA seq of the zebrafish danio rerio brain post developmental exposure to 17a ethinylestradiol,E-MTAB-5173,Transcriptome Analysis,17a ethinylestradiol EE2 is a synthetic estrogen commonly used as an active substance in oral contraceptives.  It is frequently found in waste water effluent and raise concern due to its persistent nature. EE2 binds to estrogen receptors with similar affinity to oestradiol and acts as one of the most potent hormone mimics found in the environment.  Estrogen is involved in many aspects of the development of the neuroendocrine system influencing both brain structure and behavior. We and others have reported a significant effect on non reproductive behaviors in adult fish and in recent studies we found that developmental exposure to EE2 resulted in an anxiogenic phenotype as adults even post a long remediation period.  In this study we aim to study possible mechanisms behind the behavior alterations of zebrafish developmentally exposed to EE2 by sequencing the whole brain transcriptome. Zebrafish embryos were exposed to 0  2.14 and 7.34 ng/L EE2 from 1 day to 80 dpf post the exposure period a remediation period of 120 days followed before the fish were sampled. 3 male brains from the control group 0 ng/L and the 2.14 ng/L group were sampled and 3 female brains from the control group 0 ng/L and 7.34 ng/L were sampled.,ENA FIRST PUBLIC:2017 10 02|ENA LAST UPDATE:2016 10 19|ArrayExpress:E MTAB 5173,,Protocols: RNA extraction Whole brains homogenized in TriReagent according to the manufacturer 0.8 ml/sample Sigma Aldrich  Germany EE2 exposure. Fish exposed to 0  2.14 or 7.34 ng/L EE2 for 80 days starting 1 dpf Ion Whole transcriptome analysis kit on RiboZero eukaryote depleted total RNA,IonXpressRNA 009 up 058 9,SAMEA4518352,"School of Natural Science, Technology and Environmental Studies Sodertorn University",ENA first public:2017 10 02|ENA last update:2016 10 19|External Id:SAMEA4518352|INSDC center alias:School of Natural Science  Technology and Environmental Studies Sodertorn University|INSDC center name:School of Natural Science  Technology and Environmental Studies Sodertorn University|INSDC first public:2017 10 02T17:05:16Z|INSDC last update:2016 10 19T13:53:59Z|INSDC status:public|Submitter Id:E MTAB 5173:IonXpressRNA 009 up 058 9|age:200|broker name:ArrayExpress|common name:zebrafish|organism part:brain|sample name:E MTAB 5173:IonXpressRNA 009 up 058 9|sex:male,,,,,,,,,Ion Torrent Proton sequencing; RNA seq of the zebrafish danio rerio brain post developmental exposure to 17α ethinylestradiol,E MTAB 5173:IonXpressRNA 009 up 058 9 s,IonXpressRNA 009 up 058 9 s,RNA seq of the zebrafish danio rerio brain post developmental exposure to 17α ethinylestradiol,RNA extraction Whole brains homogenized in TriReagent according to the manufacturer 0.8 ml/sample Sigma Aldrich  Germany EE2 exposure. Fish exposed to 0  2.14 or 7.34 ng/L EE2 for 80 days starting 1 dpf Ion Whole transcriptome analysis kit on RiboZero eukaryote depleted total RNA,Experimental Factor: male:sex|Experimental Factor: n1:compound,RNA-Seq,TRANSCRIPTOMIC,RANDOM,SINGLE,ION_TORRENT,Ion Torrent Proton,,ERP018188,Ion Torrent Proton sequencing; RNA seq of the zebrafish danio rerio brain post developmental exposure to 17α ethinylestradiol,ENA FIRST PUBLIC:2017 10 02|ENA LAST UPDATE:2018 11 16,IonXpressRNA_009_up_058_9.fastq.gz,fastq,3575088264.0,39745481.0,E MTAB 5173:IonXpressRNA 009 up 058 9,0:89.95,A:1011474126;C:809896078;G:807471974;T:946246086;N:0,89,,,,1011474126,809896078,807471974,946246086,0,ERX1767857,ERS1417531,ERA739176,"School of Natural Science, Technology and Environmental Studies Sodertorn University|European Nucleotide Archive","School of Natural Science, Technology and Environmental Studies Sodertorn University|European Nucleotide Archive",1,0.65266,,0.30274,,0.75286,,0.48527,,94,,B,,usable mapping rate,ion_torrent,ion_torrent,full_length,random_priming,ribozero,bulk,unknown,unknown,,Sweden,2016-10-19,Pharyngula,Embryo,Brain,Nervous System
5799,ERR1698348,ERX1767856,ERS1417530,ERP018188,PRJEB16335,RNA seq of the zebrafish danio rerio brain post developmental exposure to 17a ethinylestradiol,E-MTAB-5173,Transcriptome Analysis,17a ethinylestradiol EE2 is a synthetic estrogen commonly used as an active substance in oral contraceptives.  It is frequently found in waste water effluent and raise concern due to its persistent nature. EE2 binds to estrogen receptors with similar affinity to oestradiol and acts as one of the most potent hormone mimics found in the environment.  Estrogen is involved in many aspects of the development of the neuroendocrine system influencing both brain structure and behavior. We and others have reported a significant effect on non reproductive behaviors in adult fish and in recent studies we found that developmental exposure to EE2 resulted in an anxiogenic phenotype as adults even post a long remediation period.  In this study we aim to study possible mechanisms behind the behavior alterations of zebrafish developmentally exposed to EE2 by sequencing the whole brain transcriptome. Zebrafish embryos were exposed to 0  2.14 and 7.34 ng/L EE2 from 1 day to 80 dpf post the exposure period a remediation period of 120 days followed before the fish were sampled. 3 male brains from the control group 0 ng/L and the 2.14 ng/L group were sampled and 3 female brains from the control group 0 ng/L and 7.34 ng/L were sampled.,ENA FIRST PUBLIC:2017 10 02|ENA LAST UPDATE:2016 10 19|ArrayExpress:E MTAB 5173,,Protocols: RNA extraction Whole brains homogenized in TriReagent according to the manufacturer 0.8 ml/sample Sigma Aldrich  Germany EE2 exposure. Fish exposed to 0  2.14 or 7.34 ng/L EE2 for 80 days starting 1 dpf Ion Whole transcriptome analysis kit on RiboZero eukaryote depleted total RNA,IonXpressRNA 008 up 058 8,SAMEA4518351,"School of Natural Science, Technology and Environmental Studies Sodertorn University",ENA first public:2017 10 02|ENA last update:2016 10 19|External Id:SAMEA4518351|INSDC center alias:School of Natural Science  Technology and Environmental Studies Sodertorn University|INSDC center name:School of Natural Science  Technology and Environmental Studies Sodertorn University|INSDC first public:2017 10 02T17:05:16Z|INSDC last update:2016 10 19T13:53:59Z|INSDC status:public|Submitter Id:E MTAB 5173:IonXpressRNA 008 up 058 8|age:200|broker name:ArrayExpress|common name:zebrafish|organism part:brain|sample name:E MTAB 5173:IonXpressRNA 008 up 058 8|sex:male,,,,,,,,,Ion Torrent Proton sequencing; RNA seq of the zebrafish danio rerio brain post developmental exposure to 17α ethinylestradiol,E MTAB 5173:IonXpressRNA 008 up 058 8 s,IonXpressRNA 008 up 058 8 s,RNA seq of the zebrafish danio rerio brain post developmental exposure to 17α ethinylestradiol,RNA extraction Whole brains homogenized in TriReagent according to the manufacturer 0.8 ml/sample Sigma Aldrich  Germany EE2 exposure. Fish exposed to 0  2.14 or 7.34 ng/L EE2 for 80 days starting 1 dpf Ion Whole transcriptome analysis kit on RiboZero eukaryote depleted total RNA,Experimental Factor: male:sex|Experimental Factor: n1:compound,RNA-Seq,TRANSCRIPTOMIC,RANDOM,SINGLE,ION_TORRENT,Ion Torrent Proton,,ERP018188,Ion Torrent Proton sequencing; RNA seq of the zebrafish danio rerio brain post developmental exposure to 17α ethinylestradiol,ENA FIRST PUBLIC:2017 10 02|ENA LAST UPDATE:2018 11 16,IonXpressRNA_008_up_058_8.fastq.gz,fastq,3259710114.0,38530802.0,E MTAB 5173:IonXpressRNA 008 up 058 8,0:84.60,A:916053004;C:755694888;G:751125332;T:836836890;N:0,84,,,,916053004,755694888,751125332,836836890,0,ERX1767856,ERS1417530,ERA739176,"School of Natural Science, Technology and Environmental Studies Sodertorn University|European Nucleotide Archive","School of Natural Science, Technology and Environmental Studies Sodertorn University|European Nucleotide Archive",1,0.70995,,0.31365,,0.74781,,0.48846,,61,,B,,usable mapping rate,ion_torrent,ion_torrent,full_length,random_priming,ribozero,bulk,unknown,unknown,,Sweden,2016-10-19,Pharyngula,Embryo,Brain,Nervous System
5800,ERR1698347,ERX1767855,ERS1417529,ERP018188,PRJEB16335,RNA seq of the zebrafish danio rerio brain post developmental exposure to 17a ethinylestradiol,E-MTAB-5173,Transcriptome Analysis,17a ethinylestradiol EE2 is a synthetic estrogen commonly used as an active substance in oral contraceptives.  It is frequently found in waste water effluent and raise concern due to its persistent nature. EE2 binds to estrogen receptors with similar affinity to oestradiol and acts as one of the most potent hormone mimics found in the environment.  Estrogen is involved in many aspects of the development of the neuroendocrine system influencing both brain structure and behavior. We and others have reported a significant effect on non reproductive behaviors in adult fish and in recent studies we found that developmental exposure to EE2 resulted in an anxiogenic phenotype as adults even post a long remediation period.  In this study we aim to study possible mechanisms behind the behavior alterations of zebrafish developmentally exposed to EE2 by sequencing the whole brain transcriptome. Zebrafish embryos were exposed to 0  2.14 and 7.34 ng/L EE2 from 1 day to 80 dpf post the exposure period a remediation period of 120 days followed before the fish were sampled. 3 male brains from the control group 0 ng/L and the 2.14 ng/L group were sampled and 3 female brains from the control group 0 ng/L and 7.34 ng/L were sampled.,ENA FIRST PUBLIC:2017 10 02|ENA LAST UPDATE:2016 10 19|ArrayExpress:E MTAB 5173,,Protocols: RNA extraction Whole brains homogenized in TriReagent according to the manufacturer 0.8 ml/sample Sigma Aldrich  Germany EE2 exposure. Fish exposed to 0  2.14 or 7.34 ng/L EE2 for 80 days starting 1 dpf Ion Whole transcriptome analysis kit on RiboZero eukaryote depleted total RNA,IonXpressRNA 007 up 058 7,SAMEA4518350,"School of Natural Science, Technology and Environmental Studies Sodertorn University",ENA first public:2017 10 02|ENA last update:2016 10 19|External Id:SAMEA4518350|INSDC center alias:School of Natural Science  Technology and Environmental Studies Sodertorn University|INSDC center name:School of Natural Science  Technology and Environmental Studies Sodertorn University|INSDC first public:2017 10 02T17:05:16Z|INSDC last update:2016 10 19T13:53:59Z|INSDC status:public|Submitter Id:E MTAB 5173:IonXpressRNA 007 up 058 7|age:200|broker name:ArrayExpress|common name:zebrafish|organism part:brain|sample name:E MTAB 5173:IonXpressRNA 007 up 058 7|sex:male,,,,,,,,,Ion Torrent Proton sequencing; RNA seq of the zebrafish danio rerio brain post developmental exposure to 17α ethinylestradiol,E MTAB 5173:IonXpressRNA 007 up 058 7 s,IonXpressRNA 007 up 058 7 s,RNA seq of the zebrafish danio rerio brain post developmental exposure to 17α ethinylestradiol,RNA extraction Whole brains homogenized in TriReagent according to the manufacturer 0.8 ml/sample Sigma Aldrich  Germany EE2 exposure. Fish exposed to 0  2.14 or 7.34 ng/L EE2 for 80 days starting 1 dpf Ion Whole transcriptome analysis kit on RiboZero eukaryote depleted total RNA,Experimental Factor: male:sex|Experimental Factor: n1:compound,RNA-Seq,TRANSCRIPTOMIC,RANDOM,SINGLE,ION_TORRENT,Ion Torrent Proton,,ERP018188,Ion Torrent Proton sequencing; RNA seq of the zebrafish danio rerio brain post developmental exposure to 17α ethinylestradiol,ENA FIRST PUBLIC:2017 10 02|ENA LAST UPDATE:2018 11 16,IonXpressRNA_007_up_058_7.fastq.gz,fastq,2307842164.0,28984666.0,E MTAB 5173:IonXpressRNA 007 up 058 7,0:79.62,A:634041732;C:548565089;G:545418985;T:579816358;N:0,79,,,,634041732,548565089,545418985,579816358,0,ERX1767855,ERS1417529,ERA739176,"School of Natural Science, Technology and Environmental Studies Sodertorn University|European Nucleotide Archive","School of Natural Science, Technology and Environmental Studies Sodertorn University|European Nucleotide Archive",1,0.67542,,0.2817,,0.74168,,0.47224,,37,,B,,usable mapping rate,ion_torrent,ion_torrent,full_length,random_priming,ribozero,bulk,unknown,unknown,,Sweden,2016-10-19,Pharyngula,Embryo,Brain,Nervous System
5801,ERR1698346,ERX1767854,ERS1417528,ERP018188,PRJEB16335,RNA seq of the zebrafish danio rerio brain post developmental exposure to 17a ethinylestradiol,E-MTAB-5173,Transcriptome Analysis,17a ethinylestradiol EE2 is a synthetic estrogen commonly used as an active substance in oral contraceptives.  It is frequently found in waste water effluent and raise concern due to its persistent nature. EE2 binds to estrogen receptors with similar affinity to oestradiol and acts as one of the most potent hormone mimics found in the environment.  Estrogen is involved in many aspects of the development of the neuroendocrine system influencing both brain structure and behavior. We and others have reported a significant effect on non reproductive behaviors in adult fish and in recent studies we found that developmental exposure to EE2 resulted in an anxiogenic phenotype as adults even post a long remediation period.  In this study we aim to study possible mechanisms behind the behavior alterations of zebrafish developmentally exposed to EE2 by sequencing the whole brain transcriptome. Zebrafish embryos were exposed to 0  2.14 and 7.34 ng/L EE2 from 1 day to 80 dpf post the exposure period a remediation period of 120 days followed before the fish were sampled. 3 male brains from the control group 0 ng/L and the 2.14 ng/L group were sampled and 3 female brains from the control group 0 ng/L and 7.34 ng/L were sampled.,ENA FIRST PUBLIC:2017 10 02|ENA LAST UPDATE:2016 10 19|ArrayExpress:E MTAB 5173,,Protocols: RNA extraction Whole brains homogenized in TriReagent according to the manufacturer 0.8 ml/sample Sigma Aldrich  Germany EE2 exposure. Fish exposed to 0  2.14 or 7.34 ng/L EE2 for 80 days starting 1 dpf Ion Whole transcriptome analysis kit on RiboZero eukaryote depleted total RNA,IonXpressRNA 006 up 058 6,SAMEA4518349,"School of Natural Science, Technology and Environmental Studies Sodertorn University",ENA first public:2017 10 02|ENA last update:2016 10 19|External Id:SAMEA4518349|INSDC center alias:School of Natural Science  Technology and Environmental Studies Sodertorn University|INSDC center name:School of Natural Science  Technology and Environmental Studies Sodertorn University|INSDC first public:2017 10 02T17:05:16Z|INSDC last update:2016 10 19T13:53:59Z|INSDC status:public|Submitter Id:E MTAB 5173:IonXpressRNA 006 up 058 6|age:200|broker name:ArrayExpress|common name:zebrafish|organism part:brain|sample name:E MTAB 5173:IonXpressRNA 006 up 058 6|sex:female,,,,,,,,,Ion Torrent Proton sequencing; RNA seq of the zebrafish danio rerio brain post developmental exposure to 17α ethinylestradiol,E MTAB 5173:IonXpressRNA 006 up 058 6 s,IonXpressRNA 006 up 058 6 s,RNA seq of the zebrafish danio rerio brain post developmental exposure to 17α ethinylestradiol,RNA extraction Whole brains homogenized in TriReagent according to the manufacturer 0.8 ml/sample Sigma Aldrich  Germany EE2 exposure. Fish exposed to 0  2.14 or 7.34 ng/L EE2 for 80 days starting 1 dpf Ion Whole transcriptome analysis kit on RiboZero eukaryote depleted total RNA,Experimental Factor: female:sex|Experimental Factor: 17 ethinylestradiol:compound|Experimental Factor: 7.34:dose,RNA-Seq,TRANSCRIPTOMIC,RANDOM,SINGLE,ION_TORRENT,Ion Torrent Proton,,ERP018188,Ion Torrent Proton sequencing; RNA seq of the zebrafish danio rerio brain post developmental exposure to 17α ethinylestradiol,ENA FIRST PUBLIC:2017 10 02|ENA LAST UPDATE:2018 11 16,IonXpressRNA_006_up_058_6.fastq.gz,fastq,2239484857.0,27021234.0,E MTAB 5173:IonXpressRNA 006 up 058 6,0:82.88,A:637326624;C:506830056;G:503508207;T:591819970;N:0,82,,,,637326624,506830056,503508207,591819970,0,ERX1767854,ERS1417528,ERA739176,"School of Natural Science, Technology and Environmental Studies Sodertorn University|European Nucleotide Archive","School of Natural Science, Technology and Environmental Studies Sodertorn University|European Nucleotide Archive",1,0.66441,,0.31904,,0.74905,,0.47154,,122,,B,,usable mapping rate,ion_torrent,ion_torrent,full_length,random_priming,ribozero,bulk,unknown,unknown,,Sweden,2016-10-19,Pharyngula,Embryo,Brain,Nervous System
5802,ERR1698345,ERX1767853,ERS1417527,ERP018188,PRJEB16335,RNA seq of the zebrafish danio rerio brain post developmental exposure to 17a ethinylestradiol,E-MTAB-5173,Transcriptome Analysis,17a ethinylestradiol EE2 is a synthetic estrogen commonly used as an active substance in oral contraceptives.  It is frequently found in waste water effluent and raise concern due to its persistent nature. EE2 binds to estrogen receptors with similar affinity to oestradiol and acts as one of the most potent hormone mimics found in the environment.  Estrogen is involved in many aspects of the development of the neuroendocrine system influencing both brain structure and behavior. We and others have reported a significant effect on non reproductive behaviors in adult fish and in recent studies we found that developmental exposure to EE2 resulted in an anxiogenic phenotype as adults even post a long remediation period.  In this study we aim to study possible mechanisms behind the behavior alterations of zebrafish developmentally exposed to EE2 by sequencing the whole brain transcriptome. Zebrafish embryos were exposed to 0  2.14 and 7.34 ng/L EE2 from 1 day to 80 dpf post the exposure period a remediation period of 120 days followed before the fish were sampled. 3 male brains from the control group 0 ng/L and the 2.14 ng/L group were sampled and 3 female brains from the control group 0 ng/L and 7.34 ng/L were sampled.,ENA FIRST PUBLIC:2017 10 02|ENA LAST UPDATE:2016 10 19|ArrayExpress:E MTAB 5173,,Protocols: RNA extraction Whole brains homogenized in TriReagent according to the manufacturer 0.8 ml/sample Sigma Aldrich  Germany EE2 exposure. Fish exposed to 0  2.14 or 7.34 ng/L EE2 for 80 days starting 1 dpf Ion Whole transcriptome analysis kit on RiboZero eukaryote depleted total RNA,IonXpressRNA 005 up 058 5,SAMEA4518348,"School of Natural Science, Technology and Environmental Studies Sodertorn University",ENA first public:2017 10 02|ENA last update:2016 10 19|External Id:SAMEA4518348|INSDC center alias:School of Natural Science  Technology and Environmental Studies Sodertorn University|INSDC center name:School of Natural Science  Technology and Environmental Studies Sodertorn University|INSDC first public:2017 10 02T17:05:16Z|INSDC last update:2016 10 19T13:53:59Z|INSDC status:public|Submitter Id:E MTAB 5173:IonXpressRNA 005 up 058 5|age:200|broker name:ArrayExpress|common name:zebrafish|organism part:brain|sample name:E MTAB 5173:IonXpressRNA 005 up 058 5|sex:female,,,,,,,,,Ion Torrent Proton sequencing; RNA seq of the zebrafish danio rerio brain post developmental exposure to 17α ethinylestradiol,E MTAB 5173:IonXpressRNA 005 up 058 5 s,IonXpressRNA 005 up 058 5 s,RNA seq of the zebrafish danio rerio brain post developmental exposure to 17α ethinylestradiol,RNA extraction Whole brains homogenized in TriReagent according to the manufacturer 0.8 ml/sample Sigma Aldrich  Germany EE2 exposure. Fish exposed to 0  2.14 or 7.34 ng/L EE2 for 80 days starting 1 dpf Ion Whole transcriptome analysis kit on RiboZero eukaryote depleted total RNA,Experimental Factor: female:sex|Experimental Factor: 17 ethinylestradiol:compound|Experimental Factor: 7.34:dose,RNA-Seq,TRANSCRIPTOMIC,RANDOM,SINGLE,ION_TORRENT,Ion Torrent Proton,,ERP018188,Ion Torrent Proton sequencing; RNA seq of the zebrafish danio rerio brain post developmental exposure to 17α ethinylestradiol,ENA FIRST PUBLIC:2017 10 02|ENA LAST UPDATE:2018 11 16,IonXpressRNA_005_up_058_5.fastq.gz,fastq,2920608487.0,39573075.0,E MTAB 5173:IonXpressRNA 005 up 058 5,0:73.80,A:814851327;C:678116994;G:691911192;T:735728974;N:0,73,,,,814851327,678116994,691911192,735728974,0,ERX1767853,ERS1417527,ERA739176,"School of Natural Science, Technology and Environmental Studies Sodertorn University|European Nucleotide Archive","School of Natural Science, Technology and Environmental Studies Sodertorn University|European Nucleotide Archive",1,0.60005,,0.25542,,0.76481,,0.4886,,12,,B,,usable mapping rate,ion_torrent,ion_torrent,full_length,random_priming,ribozero,bulk,unknown,unknown,,Sweden,2016-10-19,Pharyngula,Embryo,Brain,Nervous System
5803,ERR1698344,ERX1767852,ERS1417526,ERP018188,PRJEB16335,RNA seq of the zebrafish danio rerio brain post developmental exposure to 17a ethinylestradiol,E-MTAB-5173,Transcriptome Analysis,17a ethinylestradiol EE2 is a synthetic estrogen commonly used as an active substance in oral contraceptives.  It is frequently found in waste water effluent and raise concern due to its persistent nature. EE2 binds to estrogen receptors with similar affinity to oestradiol and acts as one of the most potent hormone mimics found in the environment.  Estrogen is involved in many aspects of the development of the neuroendocrine system influencing both brain structure and behavior. We and others have reported a significant effect on non reproductive behaviors in adult fish and in recent studies we found that developmental exposure to EE2 resulted in an anxiogenic phenotype as adults even post a long remediation period.  In this study we aim to study possible mechanisms behind the behavior alterations of zebrafish developmentally exposed to EE2 by sequencing the whole brain transcriptome. Zebrafish embryos were exposed to 0  2.14 and 7.34 ng/L EE2 from 1 day to 80 dpf post the exposure period a remediation period of 120 days followed before the fish were sampled. 3 male brains from the control group 0 ng/L and the 2.14 ng/L group were sampled and 3 female brains from the control group 0 ng/L and 7.34 ng/L were sampled.,ENA FIRST PUBLIC:2017 10 02|ENA LAST UPDATE:2016 10 19|ArrayExpress:E MTAB 5173,,Protocols: RNA extraction Whole brains homogenized in TriReagent according to the manufacturer 0.8 ml/sample Sigma Aldrich  Germany EE2 exposure. Fish exposed to 0  2.14 or 7.34 ng/L EE2 for 80 days starting 1 dpf Ion Whole transcriptome analysis kit on RiboZero eukaryote depleted total RNA,IonXpressRNA 004 up 058 4,SAMEA4518347,"School of Natural Science, Technology and Environmental Studies Sodertorn University",ENA first public:2017 10 02|ENA last update:2016 10 19|External Id:SAMEA4518347|INSDC center alias:School of Natural Science  Technology and Environmental Studies Sodertorn University|INSDC center name:School of Natural Science  Technology and Environmental Studies Sodertorn University|INSDC first public:2017 10 02T17:05:16Z|INSDC last update:2016 10 19T13:53:59Z|INSDC status:public|Submitter Id:E MTAB 5173:IonXpressRNA 004 up 058 4|age:200|broker name:ArrayExpress|common name:zebrafish|organism part:brain|sample name:E MTAB 5173:IonXpressRNA 004 up 058 4|sex:female,,,,,,,,,Ion Torrent Proton sequencing; RNA seq of the zebrafish danio rerio brain post developmental exposure to 17α ethinylestradiol,E MTAB 5173:IonXpressRNA 004 up 058 4 s,IonXpressRNA 004 up 058 4 s,RNA seq of the zebrafish danio rerio brain post developmental exposure to 17α ethinylestradiol,RNA extraction Whole brains homogenized in TriReagent according to the manufacturer 0.8 ml/sample Sigma Aldrich  Germany EE2 exposure. Fish exposed to 0  2.14 or 7.34 ng/L EE2 for 80 days starting 1 dpf Ion Whole transcriptome analysis kit on RiboZero eukaryote depleted total RNA,Experimental Factor: female:sex|Experimental Factor: 17 ethinylestradiol:compound|Experimental Factor: 7.34:dose,RNA-Seq,TRANSCRIPTOMIC,RANDOM,SINGLE,ION_TORRENT,Ion Torrent Proton,,ERP018188,Ion Torrent Proton sequencing; RNA seq of the zebrafish danio rerio brain post developmental exposure to 17α ethinylestradiol,ENA FIRST PUBLIC:2017 10 02|ENA LAST UPDATE:2018 11 16,IonXpressRNA_004_up_058_4.fastq.gz,fastq,2989727396.0,37953454.0,E MTAB 5173:IonXpressRNA 004 up 058 4,0:78.77,A:802963810;C:722434772;G:742850530;T:721478284;N:0,78,,,,802963810,722434772,742850530,721478284,0,ERX1767852,ERS1417526,ERA739176,"School of Natural Science, Technology and Environmental Studies Sodertorn University|European Nucleotide Archive","School of Natural Science, Technology and Environmental Studies Sodertorn University|European Nucleotide Archive",1,0.76402,,0.32503,,0.74241,,0.4815,,128,,B,,usable mapping rate,ion_torrent,ion_torrent,full_length,random_priming,ribozero,bulk,unknown,unknown,,Sweden,2016-10-19,Pharyngula,Embryo,Brain,Nervous System
5804,ERR1698343,ERX1767851,ERS1417525,ERP018188,PRJEB16335,RNA seq of the zebrafish danio rerio brain post developmental exposure to 17a ethinylestradiol,E-MTAB-5173,Transcriptome Analysis,17a ethinylestradiol EE2 is a synthetic estrogen commonly used as an active substance in oral contraceptives.  It is frequently found in waste water effluent and raise concern due to its persistent nature. EE2 binds to estrogen receptors with similar affinity to oestradiol and acts as one of the most potent hormone mimics found in the environment.  Estrogen is involved in many aspects of the development of the neuroendocrine system influencing both brain structure and behavior. We and others have reported a significant effect on non reproductive behaviors in adult fish and in recent studies we found that developmental exposure to EE2 resulted in an anxiogenic phenotype as adults even post a long remediation period.  In this study we aim to study possible mechanisms behind the behavior alterations of zebrafish developmentally exposed to EE2 by sequencing the whole brain transcriptome. Zebrafish embryos were exposed to 0  2.14 and 7.34 ng/L EE2 from 1 day to 80 dpf post the exposure period a remediation period of 120 days followed before the fish were sampled. 3 male brains from the control group 0 ng/L and the 2.14 ng/L group were sampled and 3 female brains from the control group 0 ng/L and 7.34 ng/L were sampled.,ENA FIRST PUBLIC:2017 10 02|ENA LAST UPDATE:2016 10 19|ArrayExpress:E MTAB 5173,,Protocols: RNA extraction Whole brains homogenized in TriReagent according to the manufacturer 0.8 ml/sample Sigma Aldrich  Germany EE2 exposure. Fish exposed to 0  2.14 or 7.34 ng/L EE2 for 80 days starting 1 dpf Ion Whole transcriptome analysis kit on RiboZero eukaryote depleted total RNA,IonXpressRNA 003 up 058 3,SAMEA4518346,"School of Natural Science, Technology and Environmental Studies Sodertorn University",ENA first public:2017 10 02|ENA last update:2016 10 19|External Id:SAMEA4518346|INSDC center alias:School of Natural Science  Technology and Environmental Studies Sodertorn University|INSDC center name:School of Natural Science  Technology and Environmental Studies Sodertorn University|INSDC first public:2017 10 02T17:05:16Z|INSDC last update:2016 10 19T13:53:59Z|INSDC status:public|Submitter Id:E MTAB 5173:IonXpressRNA 003 up 058 3|age:200|broker name:ArrayExpress|common name:zebrafish|organism part:brain|sample name:E MTAB 5173:IonXpressRNA 003 up 058 3|sex:female,,,,,,,,,Ion Torrent Proton sequencing; RNA seq of the zebrafish danio rerio brain post developmental exposure to 17α ethinylestradiol,E MTAB 5173:IonXpressRNA 003 up 058 3 s,IonXpressRNA 003 up 058 3 s,RNA seq of the zebrafish danio rerio brain post developmental exposure to 17α ethinylestradiol,RNA extraction Whole brains homogenized in TriReagent according to the manufacturer 0.8 ml/sample Sigma Aldrich  Germany EE2 exposure. Fish exposed to 0  2.14 or 7.34 ng/L EE2 for 80 days starting 1 dpf Ion Whole transcriptome analysis kit on RiboZero eukaryote depleted total RNA,Experimental Factor: female:sex|Experimental Factor: n1:compound,RNA-Seq,TRANSCRIPTOMIC,RANDOM,SINGLE,ION_TORRENT,Ion Torrent Proton,,ERP018188,Ion Torrent Proton sequencing; RNA seq of the zebrafish danio rerio brain post developmental exposure to 17α ethinylestradiol,ENA FIRST PUBLIC:2017 10 02|ENA LAST UPDATE:2018 11 16,IonXpressRNA_003_up_058_3.fastq.gz,fastq,4068383115.0,41996847.0,E MTAB 5173:IonXpressRNA 003 up 058 3,0:96.87,A:1133167706;C:944306379;G:948626944;T:1042282086;N:0,96,,,,1133167706,944306379,948626944,1042282086,0,ERX1767851,ERS1417525,ERA739176,"School of Natural Science, Technology and Environmental Studies Sodertorn University|European Nucleotide Archive","School of Natural Science, Technology and Environmental Studies Sodertorn University|European Nucleotide Archive",1,0.54804,,0.22334,,0.76353,,0.49163,,93,,B,,usable mapping rate,ion_torrent,ion_torrent,full_length,random_priming,ribozero,bulk,unknown,unknown,,Sweden,2016-10-19,Pharyngula,Embryo,Brain,Nervous System
5805,ERR1698342,ERX1767850,ERS1417524,ERP018188,PRJEB16335,RNA seq of the zebrafish danio rerio brain post developmental exposure to 17a ethinylestradiol,E-MTAB-5173,Transcriptome Analysis,17a ethinylestradiol EE2 is a synthetic estrogen commonly used as an active substance in oral contraceptives.  It is frequently found in waste water effluent and raise concern due to its persistent nature. EE2 binds to estrogen receptors with similar affinity to oestradiol and acts as one of the most potent hormone mimics found in the environment.  Estrogen is involved in many aspects of the development of the neuroendocrine system influencing both brain structure and behavior. We and others have reported a significant effect on non reproductive behaviors in adult fish and in recent studies we found that developmental exposure to EE2 resulted in an anxiogenic phenotype as adults even post a long remediation period.  In this study we aim to study possible mechanisms behind the behavior alterations of zebrafish developmentally exposed to EE2 by sequencing the whole brain transcriptome. Zebrafish embryos were exposed to 0  2.14 and 7.34 ng/L EE2 from 1 day to 80 dpf post the exposure period a remediation period of 120 days followed before the fish were sampled. 3 male brains from the control group 0 ng/L and the 2.14 ng/L group were sampled and 3 female brains from the control group 0 ng/L and 7.34 ng/L were sampled.,ENA FIRST PUBLIC:2017 10 02|ENA LAST UPDATE:2016 10 19|ArrayExpress:E MTAB 5173,,Protocols: RNA extraction Whole brains homogenized in TriReagent according to the manufacturer 0.8 ml/sample Sigma Aldrich  Germany EE2 exposure. Fish exposed to 0  2.14 or 7.34 ng/L EE2 for 80 days starting 1 dpf Ion Whole transcriptome analysis kit on RiboZero eukaryote depleted total RNA,IonXpressRNA 002 up 058 2,SAMEA4518345,"School of Natural Science, Technology and Environmental Studies Sodertorn University",ENA first public:2017 10 02|ENA last update:2016 10 19|External Id:SAMEA4518345|INSDC center alias:School of Natural Science  Technology and Environmental Studies Sodertorn University|INSDC center name:School of Natural Science  Technology and Environmental Studies Sodertorn University|INSDC first public:2017 10 02T17:05:16Z|INSDC last update:2016 10 19T13:53:59Z|INSDC status:public|Submitter Id:E MTAB 5173:IonXpressRNA 002 up 058 2|age:200|broker name:ArrayExpress|common name:zebrafish|organism part:brain|sample name:E MTAB 5173:IonXpressRNA 002 up 058 2|sex:female,,,,,,,,,Ion Torrent Proton sequencing; RNA seq of the zebrafish danio rerio brain post developmental exposure to 17α ethinylestradiol,E MTAB 5173:IonXpressRNA 002 up 058 2 s,IonXpressRNA 002 up 058 2 s,RNA seq of the zebrafish danio rerio brain post developmental exposure to 17α ethinylestradiol,RNA extraction Whole brains homogenized in TriReagent according to the manufacturer 0.8 ml/sample Sigma Aldrich  Germany EE2 exposure. Fish exposed to 0  2.14 or 7.34 ng/L EE2 for 80 days starting 1 dpf Ion Whole transcriptome analysis kit on RiboZero eukaryote depleted total RNA,Experimental Factor: female:sex|Experimental Factor: n1:compound,RNA-Seq,TRANSCRIPTOMIC,RANDOM,SINGLE,ION_TORRENT,Ion Torrent Proton,,ERP018188,Ion Torrent Proton sequencing; RNA seq of the zebrafish danio rerio brain post developmental exposure to 17α ethinylestradiol,ENA FIRST PUBLIC:2017 10 02|ENA LAST UPDATE:2018 11 16,IonXpressRNA_002_up_058_2.fastq.gz,fastq,2679963893.0,33552723.0,E MTAB 5173:IonXpressRNA 002 up 058 2,0:79.87,A:709092431;C:635329399;G:670478210;T:665063853;N:0,79,,,,709092431,635329399,670478210,665063853,0,ERX1767850,ERS1417524,ERA739176,"School of Natural Science, Technology and Environmental Studies Sodertorn University|European Nucleotide Archive","School of Natural Science, Technology and Environmental Studies Sodertorn University|European Nucleotide Archive",1,0.43283,,0.18649,,0.81178,,0.52885,,116,,B,,usable mapping rate,ion_torrent,ion_torrent,full_length,random_priming,ribozero,bulk,unknown,unknown,,Sweden,2016-10-19,Pharyngula,Embryo,Brain,Nervous System
5806,ERR1698341,ERX1767849,ERS1417523,ERP018188,PRJEB16335,RNA seq of the zebrafish danio rerio brain post developmental exposure to 17a ethinylestradiol,E-MTAB-5173,Transcriptome Analysis,17a ethinylestradiol EE2 is a synthetic estrogen commonly used as an active substance in oral contraceptives.  It is frequently found in waste water effluent and raise concern due to its persistent nature. EE2 binds to estrogen receptors with similar affinity to oestradiol and acts as one of the most potent hormone mimics found in the environment.  Estrogen is involved in many aspects of the development of the neuroendocrine system influencing both brain structure and behavior. We and others have reported a significant effect on non reproductive behaviors in adult fish and in recent studies we found that developmental exposure to EE2 resulted in an anxiogenic phenotype as adults even post a long remediation period.  In this study we aim to study possible mechanisms behind the behavior alterations of zebrafish developmentally exposed to EE2 by sequencing the whole brain transcriptome. Zebrafish embryos were exposed to 0  2.14 and 7.34 ng/L EE2 from 1 day to 80 dpf post the exposure period a remediation period of 120 days followed before the fish were sampled. 3 male brains from the control group 0 ng/L and the 2.14 ng/L group were sampled and 3 female brains from the control group 0 ng/L and 7.34 ng/L were sampled.,ENA FIRST PUBLIC:2017 10 02|ENA LAST UPDATE:2016 10 19|ArrayExpress:E MTAB 5173,,Protocols: RNA extraction Whole brains homogenized in TriReagent according to the manufacturer 0.8 ml/sample Sigma Aldrich  Germany EE2 exposure. Fish exposed to 0  2.14 or 7.34 ng/L EE2 for 80 days starting 1 dpf Ion Whole transcriptome analysis kit on RiboZero eukaryote depleted total RNA,IonXpressRNA 001 up 058 1,SAMEA4518344,"School of Natural Science, Technology and Environmental Studies Sodertorn University",ENA first public:2017 10 02|ENA last update:2016 10 19|External Id:SAMEA4518344|INSDC center alias:School of Natural Science  Technology and Environmental Studies Sodertorn University|INSDC center name:School of Natural Science  Technology and Environmental Studies Sodertorn University|INSDC first public:2017 10 02T17:05:16Z|INSDC last update:2016 10 19T13:53:59Z|INSDC status:public|Submitter Id:E MTAB 5173:IonXpressRNA 001 up 058 1|age:200|broker name:ArrayExpress|common name:zebrafish|organism part:brain|sample name:E MTAB 5173:IonXpressRNA 001 up 058 1|sex:female,,,,,,,,,Ion Torrent Proton sequencing; RNA seq of the zebrafish danio rerio brain post developmental exposure to 17α ethinylestradiol,E MTAB 5173:IonXpressRNA 001 up 058 1 s,IonXpressRNA 001 up 058 1 s,RNA seq of the zebrafish danio rerio brain post developmental exposure to 17α ethinylestradiol,RNA extraction Whole brains homogenized in TriReagent according to the manufacturer 0.8 ml/sample Sigma Aldrich  Germany EE2 exposure. Fish exposed to 0  2.14 or 7.34 ng/L EE2 for 80 days starting 1 dpf Ion Whole transcriptome analysis kit on RiboZero eukaryote depleted total RNA,Experimental Factor: female:sex|Experimental Factor: n1:compound,RNA-Seq,TRANSCRIPTOMIC,RANDOM,SINGLE,ION_TORRENT,Ion Torrent Proton,,ERP018188,Ion Torrent Proton sequencing; RNA seq of the zebrafish danio rerio brain post developmental exposure to 17α ethinylestradiol,ENA FIRST PUBLIC:2017 10 02|ENA LAST UPDATE:2018 11 16,IonXpressRNA_001_up_058_1.fastq.gz,fastq,3358902499.0,39857024.0,E MTAB 5173:IonXpressRNA 001 up 058 1,0:84.27,A:933405205;C:784111716;G:780404241;T:860981337;N:0,84,,,,933405205,784111716,780404241,860981337,0,ERX1767849,ERS1417523,ERA739176,"School of Natural Science, Technology and Environmental Studies Sodertorn University|European Nucleotide Archive","School of Natural Science, Technology and Environmental Studies Sodertorn University|European Nucleotide Archive",1,0.71789,,0.33159,,0.76619,,0.514,,56,,B,,usable mapping rate,ion_torrent,ion_torrent,full_length,random_priming,ribozero,bulk,unknown,unknown,,Sweden,2016-10-19,Pharyngula,Embryo,Brain,Nervous System
39827,SRR2441454,SRX1321833,SRS1109642,SRP062493,PRJNA293106,Danio rerio Raw sequence reads,PRJNA293106,Metagenomics,Zebrafish Hypoxia RNAseq,,,RNAseq at 24hpf following hypoxia,,24hpf hypoxia,,strain:TU|age:24hpf|sex:not determined|tissue:brain|treatment:hypoxia|BioSampleModel:Model organism or animal,,,,,,,,,Zebrafish Embryonic Development Hypoxia Versus Normoxia RNAseq: Sample       24hpf hypoxia,24hpf.hypoxia.3.10329X21,24hpf.hypoxia.3.10329X21,We collected whole RNA from zebrafish at five different embryonic developmental stages with experimental triplicates for each stage time point and experimental condition.  For hypoxia  we placed developing embryos in pre conditioned media in a sealed plexiglass chamber set to a reduced oxygen concentration for 12 hour periods. Immediately following hypoxia or normoxia embryos were sacrificed and RNA collected.  We used 1% pO2 for ages up to 48 hpf and 4% pO2 for older ages.  At the time point for collection embryos were dissected and only head tissue was used for subsequent RNA preparation.  RNA was prepared with a miRNeasy kit Qiagen. Quality of total RNAs was checked using a NanoDrop 2000 Spectrometer and an Agilent 2100 Bioanalyzer.  The sequencing libraries were created using the Illumina TruSeq Stranded Total RNA Sample Preparation Kit with Ribo Zero. These libraries were sequenced on an Illumina HiSeq2000 sequencer for 50 cycles ie. 50 nucleotides  single end  stranded using Illumina’s version 3 chemistry. 6 samples were multiplexed together in each lane of the sequencer  providing an average yield of 25.1 million reads per sample. The base calling was performed using Illumina’s CASAVA version 1.8.2 software.,,,RNA-Seq,TRANSCRIPTOMIC,RANDOM,SINGLE,ILLUMINA,Illumina HiSeq 2000,<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>50</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>,SRP062493,,,10329X21_130822_SN141_0719_AD2CK5ACXX_7.txt.gz,fastq,1205447950.0,24108959.0,24hpf.hypoxia.3.10329X21,0:50,A:299680333;C:267717935;G:264833481;T:357936794;N:15279407,50,,,,299680333,267717935,264833481,357936794,15279407,SRX1321833,SRS1109642,SRA289450,University of Utah|Bonkowsky,University of Utah,1,0.87455,,0.24266,,0.74121,,0.57777,,50,,B,,usable mapping rate,illumina,hiseq_era,unknown,random_priming,trueseq,bulk,unknown,unknown,,United States,2015-10-10,Pharyngula,Embryo,Brain,Nervous System
39828,SRR2437828,SRX1321832,SRS1109643,SRP062493,PRJNA293106,Danio rerio Raw sequence reads,PRJNA293106,Metagenomics,Zebrafish Hypoxia RNAseq,,,RNAseq at 48hpf following normoxia,,48hpf normoxia,,strain:TU|age:48hpf|sex:not determined|tissue:brain|treatment:normoxia|BioSampleModel:Model organism or animal,,,,,,,,,Zebrafish Embryonic Development Hypoxia Versus Normoxia RNAseq: Sample       48hpf normoxia,48hpf.normoxia.3.10329X16,48hpf.normoxia.3.10329X16,We collected whole RNA from zebrafish at five different embryonic developmental stages with experimental triplicates for each stage time point and experimental condition.  For hypoxia  we placed developing embryos in pre conditioned media in a sealed plexiglass chamber set to a reduced oxygen concentration for 12 hour periods. Immediately following hypoxia or normoxia embryos were sacrificed and RNA collected.  We used 1% pO2 for ages up to 48 hpf and 4% pO2 for older ages.  At the time point for collection embryos were dissected and only head tissue was used for subsequent RNA preparation.  RNA was prepared with a miRNeasy kit Qiagen. Quality of total RNAs was checked using a NanoDrop 2000 Spectrometer and an Agilent 2100 Bioanalyzer.  The sequencing libraries were created using the Illumina TruSeq Stranded Total RNA Sample Preparation Kit with Ribo Zero. These libraries were sequenced on an Illumina HiSeq2000 sequencer for 50 cycles ie. 50 nucleotides  single end  stranded using Illumina’s version 3 chemistry. 6 samples were multiplexed together in each lane of the sequencer  providing an average yield of 25.1 million reads per sample. The base calling was performed using Illumina’s CASAVA version 1.8.2 software.,,,RNA-Seq,TRANSCRIPTOMIC,RANDOM,SINGLE,ILLUMINA,Illumina HiSeq 2000,<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>50</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>,SRP062493,,,10329X16_130822_SN141_0719_AD2CK5ACXX_6.txt.gz,fastq,985942500.0,19718850.0,48hpf.normoxia.3.10329X16,0:50,A:251856100;C:223081125;G:216430606;T:294554748;N:19921,50,,,,251856100,223081125,216430606,294554748,19921,SRX1321832,SRS1109643,SRA289450,University of Utah|Bonkowsky,University of Utah,1,0.94791,,0.26704,,0.68708,,0.54445,,50,,B,,usable mapping rate,illumina,hiseq_era,unknown,random_priming,trueseq,bulk,unknown,unknown,,United States,2015-10-10,Hatching,Embryo,Brain,Nervous System
39829,SRR2434699,SRX1321831,SRS1109642,SRP062493,PRJNA293106,Danio rerio Raw sequence reads,PRJNA293106,Metagenomics,Zebrafish Hypoxia RNAseq,,,RNAseq at 24hpf following hypoxia,,24hpf hypoxia,,strain:TU|age:24hpf|sex:not determined|tissue:brain|treatment:hypoxia|BioSampleModel:Model organism or animal,,,,,,,,,Zebrafish Embryonic Development Hypoxia Versus Normoxia RNAseq: Sample       24hpf hypoxia,24hpf.hypoxia.2.10329X11,24hpf.hypoxia.2.10329X11,We collected whole RNA from zebrafish at five different embryonic developmental stages with experimental triplicates for each stage time point and experimental condition.  For hypoxia  we placed developing embryos in pre conditioned media in a sealed plexiglass chamber set to a reduced oxygen concentration for 12 hour periods. Immediately following hypoxia or normoxia embryos were sacrificed and RNA collected.  We used 1% pO2 for ages up to 48 hpf and 4% pO2 for older ages.  At the time point for collection embryos were dissected and only head tissue was used for subsequent RNA preparation.  RNA was prepared with a miRNeasy kit Qiagen. Quality of total RNAs was checked using a NanoDrop 2000 Spectrometer and an Agilent 2100 Bioanalyzer.  The sequencing libraries were created using the Illumina TruSeq Stranded Total RNA Sample Preparation Kit with Ribo Zero. These libraries were sequenced on an Illumina HiSeq2000 sequencer for 50 cycles ie. 50 nucleotides  single end  stranded using Illumina’s version 3 chemistry. 6 samples were multiplexed together in each lane of the sequencer  providing an average yield of 25.1 million reads per sample. The base calling was performed using Illumina’s CASAVA version 1.8.2 software.,,,RNA-Seq,TRANSCRIPTOMIC,RANDOM,SINGLE,ILLUMINA,Illumina HiSeq 2000,<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>50</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>,SRP062493,,,10329X11_130822_SN141_0719_AD2CK5ACXX_5.txt.gz,fastq,1227682750.0,24553655.0,24hpf.hypoxia.2.10329X11,0:50,A:299759613;C:292757497;G:281904026;T:353193075;N:68539,50,,,,299759613,292757497,281904026,353193075,68539,SRX1321831,SRS1109642,SRA289450,University of Utah|Bonkowsky,University of Utah,1,0.94855,,0.27579,,0.73298,,0.58307,,50,,B,,usable mapping rate,illumina,hiseq_era,unknown,random_priming,trueseq,bulk,unknown,unknown,,United States,2015-10-07,Pharyngula,Embryo,Brain,Nervous System
39830,SRR2433795,SRX1321830,SRS1109644,SRP062493,PRJNA293106,Danio rerio Raw sequence reads,PRJNA293106,Metagenomics,Zebrafish Hypoxia RNAseq,,,RNAseq at 60hpf following normoxia,,60hpf Normoxia,,strain:TU|age:60hpf|sex:not determined|tissue:brain|treatment:normoxia|BioSampleModel:Model organism or animal,,,,,,,,,Zebrafish Embryonic Development Hypoxia Versus Normoxia RNAseq: Sample       60hpf Normoxia,60hpf.normoxia.3.,60hpf.normoxia.3.,We collected whole RNA from zebrafish at five different embryonic developmental stages with experimental triplicates for each stage time point and experimental condition.  For hypoxia  we placed developing embryos in pre conditioned media in a sealed plexiglass chamber set to a reduced oxygen concentration for 12 hour periods. Immediately following hypoxia or normoxia embryos were sacrificed and RNA collected.  We used 1% pO2 for ages up to 48 hpf and 4% pO2 for older ages.  At the time point for collection embryos were dissected and only head tissue was used for subsequent RNA preparation.  RNA was prepared with a miRNeasy kit Qiagen. Quality of total RNAs was checked using a NanoDrop 2000 Spectrometer and an Agilent 2100 Bioanalyzer.  The sequencing libraries were created using the Illumina TruSeq Stranded Total RNA Sample Preparation Kit with Ribo Zero. These libraries were sequenced on an Illumina HiSeq2000 sequencer for 50 cycles ie. 50 nucleotides  single end  stranded using Illumina’s version 3 chemistry. 6 samples were multiplexed together in each lane of the sequencer  providing an average yield of 25.1 million reads per sample. The base calling was performed using Illumina’s CASAVA version 1.8.2 software.,,,RNA-Seq,TRANSCRIPTOMIC,RANDOM,SINGLE,ILLUMINA,Illumina HiSeq 2000,<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>50</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>,SRP062493,,,10329X8_130822_SN141_0719_AD2CK5ACXX_5.txt.gz,fastq,1112799950.0,22255999.0,60hpf.normoxia.3.,0:50,A:294304558;C:248234752;G:238088577;T:332109252;N:62811,50,,,,294304558,248234752,238088577,332109252,62811,SRX1321830,SRS1109644,SRA289450,University of Utah|Bonkowsky,University of Utah,1,0.94922,,0.34314,,0.67838,,0.51455,,50,,B,,usable mapping rate,illumina,hiseq_era,unknown,random_priming,trueseq,bulk,unknown,unknown,,United States,2015-10-10,Hatching,Embryo,Brain,Nervous System
39831,SRR2426760,SRX1321829,SRS1109645,SRP062493,PRJNA293106,Danio rerio Raw sequence reads,PRJNA293106,Metagenomics,Zebrafish Hypoxia RNAseq,,,RNAseq at 36hpf following hypoxia,,36hpf hypoxia,,strain:TU|age:36hpf|sex:not determined|tissue:brain|treatment:hypoxia|BioSampleModel:Model organism or animal,,,,,,,,,Zebrafish Embryonic Development Hypoxia Versus Normoxia RNAseq: Sample       36hpf hypoxia,36hpf.hypoxia.1.10329X4,36hpf.hypoxia.1.10329X4,We collected whole RNA from zebrafish at five different embryonic developmental stages with experimental triplicates for each stage time point and experimental condition.  For hypoxia  we placed developing embryos in pre conditioned media in a sealed plexiglass chamber set to a reduced oxygen concentration for 12 hour periods. Immediately following hypoxia or normoxia embryos were sacrificed and RNA collected.  We used 1% pO2 for ages up to 48 hpf and 4% pO2 for older ages.  At the time point for collection embryos were dissected and only head tissue was used for subsequent RNA preparation.  RNA was prepared with a miRNeasy kit Qiagen. Quality of total RNAs was checked using a NanoDrop 2000 Spectrometer and an Agilent 2100 Bioanalyzer.  The sequencing libraries were created using the Illumina TruSeq Stranded Total RNA Sample Preparation Kit with Ribo Zero. These libraries were sequenced on an Illumina HiSeq2000 sequencer for 50 cycles ie. 50 nucleotides  single end  stranded using Illumina’s version 3 chemistry. 6 samples were multiplexed together in each lane of the sequencer  providing an average yield of 25.1 million reads per sample. The base calling was performed using Illumina’s CASAVA version 1.8.2 software.,,,RNA-Seq,TRANSCRIPTOMIC,RANDOM,SINGLE,ILLUMINA,Illumina HiSeq 2000,<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>50</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>,SRP062493,,,10329X4_130822_SN141_0719_AD2CK5ACXX_4.txt.gz,fastq,1604107450.0,32082149.0,36hpf.hypoxia.1.10329X4,0:50,A:395786409;C:358263833;G:358391489;T:491601452;N:64267,50,,,,395786409,358263833,358391489,491601452,64267,SRX1321829,SRS1109645,SRA289450,University of Utah|Bonkowsky,University of Utah,1,0.95408,,0.28965,,0.69593,,0.54826,,50,,B,,usable mapping rate,illumina,hiseq_era,unknown,random_priming,trueseq,bulk,unknown,unknown,,United States,2015-10-10,Pharyngula,Embryo,Brain,Nervous System
39832,SRR2417497,SRX1321828,SRS1109646,SRP062493,PRJNA293106,Danio rerio Raw sequence reads,PRJNA293106,Metagenomics,Zebrafish Hypoxia RNAseq,,,RNAseq at 48hpf following hypoxia,,48hpf hypoxia,,strain:TU|age:48hpf|sex:not determined|tissue:brain|treatment:hypoxia|BioSampleModel:Model organism or animal,,,,,,,,,Zebrafish Embryonic Development Hypoxia Versus Normoxia RNAseq: Sample       48hpf hypoxia,48hpf.hypoxia.3.10329X25,48hpf.hypoxia.3.10329X25,We collected whole RNA from zebrafish at five different embryonic developmental stages with experimental triplicates for each stage time point and experimental condition.  For hypoxia  we placed developing embryos in pre conditioned media in a sealed plexiglass chamber set to a reduced oxygen concentration for 12 hour periods. Immediately following hypoxia or normoxia embryos were sacrificed and RNA collected.  We used 1% pO2 for ages up to 48 hpf and 4% pO2 for older ages.  At the time point for collection embryos were dissected and only head tissue was used for subsequent RNA preparation.  RNA was prepared with a miRNeasy kit Qiagen. Quality of total RNAs was checked using a NanoDrop 2000 Spectrometer and an Agilent 2100 Bioanalyzer.  The sequencing libraries were created using the Illumina TruSeq Stranded Total RNA Sample Preparation Kit with Ribo Zero. These libraries were sequenced on an Illumina HiSeq2000 sequencer for 50 cycles ie. 50 nucleotides  single end  stranded using Illumina’s version 3 chemistry. 6 samples were multiplexed together in each lane of the sequencer  providing an average yield of 25.1 million reads per sample. The base calling was performed using Illumina’s CASAVA version 1.8.2 software.,,,RNA-Seq,TRANSCRIPTOMIC,RANDOM,SINGLE,ILLUMINA,Illumina HiSeq 2000,<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>50</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>,SRP062493,,,10329X25_130822_SN141_0719_AD2CK5ACXX_8.txt.gz,fastq,1234710500.0,24694210.0,48hpf.hypoxia.3.10329X25,0:50,A:309392529;C:284311489;G:275471070;T:365515358;N:20054,50,,,,309392529,284311489,275471070,365515358,20054,SRX1321828,SRS1109646,SRA289450,University of Utah|Bonkowsky,University of Utah,1,0.94675,,0.25877,,0.71453,,0.5239,,50,,B,,usable mapping rate,illumina,hiseq_era,unknown,random_priming,trueseq,bulk,unknown,unknown,,United States,2015-09-16,Hatching,Embryo,Brain,Nervous System
39833,SRR2417496,SRX1321827,SRS1109644,SRP062493,PRJNA293106,Danio rerio Raw sequence reads,PRJNA293106,Metagenomics,Zebrafish Hypoxia RNAseq,,,RNAseq at 60hpf following normoxia,,60hpf Normoxia,,strain:TU|age:60hpf|sex:not determined|tissue:brain|treatment:normoxia|BioSampleModel:Model organism or animal,,,,,,,,,Zebrafish Embryonic Development Hypoxia Versus Normoxia RNAseq: Sample       60hpf Normoxia,60hpf.normoxia.2.10329X28,60hpf.normoxia.2.10329X28,We collected whole RNA from zebrafish at five different embryonic developmental stages with experimental triplicates for each stage time point and experimental condition.  For hypoxia  we placed developing embryos in pre conditioned media in a sealed plexiglass chamber set to a reduced oxygen concentration for 12 hour periods. Immediately following hypoxia or normoxia embryos were sacrificed and RNA collected.  We used 1% pO2 for ages up to 48 hpf and 4% pO2 for older ages.  At the time point for collection embryos were dissected and only head tissue was used for subsequent RNA preparation.  RNA was prepared with a miRNeasy kit Qiagen. Quality of total RNAs was checked using a NanoDrop 2000 Spectrometer and an Agilent 2100 Bioanalyzer.  The sequencing libraries were created using the Illumina TruSeq Stranded Total RNA Sample Preparation Kit with Ribo Zero. These libraries were sequenced on an Illumina HiSeq2000 sequencer for 50 cycles ie. 50 nucleotides  single end  stranded using Illumina’s version 3 chemistry. 6 samples were multiplexed together in each lane of the sequencer  providing an average yield of 25.1 million reads per sample. The base calling was performed using Illumina’s CASAVA version 1.8.2 software.,,,RNA-Seq,TRANSCRIPTOMIC,RANDOM,SINGLE,ILLUMINA,Illumina HiSeq 2000,<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>50</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>,SRP062493,,,10329X28_130822_SN141_0719_AD2CK5ACXX_8.txt.gz,fastq,1015786750.0,20315735.0,60hpf.normoxia.2.10329X28,0:50,A:259102784;C:230364456;G:226008843;T:300294199;N:16468,50,,,,259102784,230364456,226008843,300294199,16468,SRX1321827,SRS1109644,SRA289450,University of Utah|Bonkowsky,University of Utah,1,0.95197,,0.30503,,0.68333,,0.52243,,50,,B,,usable mapping rate,illumina,hiseq_era,unknown,random_priming,trueseq,bulk,unknown,unknown,,United States,2015-09-16,Hatching,Embryo,Brain,Nervous System
39834,SRR2400601,SRX1321826,SRS1109642,SRP062493,PRJNA293106,Danio rerio Raw sequence reads,PRJNA293106,Metagenomics,Zebrafish Hypoxia RNAseq,,,RNAseq at 24hpf following hypoxia,,24hpf hypoxia,,strain:TU|age:24hpf|sex:not determined|tissue:brain|treatment:hypoxia|BioSampleModel:Model organism or animal,,,,,,,,,Zebrafish Embryonic Development Hypoxia Versus Normoxia RNAseq: Sample       24hpf hypoxia,24hpf.hypoxia.1.10329X2,24hpf.hypoxia.1.10329X2,We collected whole RNA from zebrafish at five different embryonic developmental stages with experimental triplicates for each stage time point and experimental condition.  For hypoxia  we placed developing embryos in pre conditioned media in a sealed plexiglass chamber set to a reduced oxygen concentration for 12 hour periods. Immediately following hypoxia or normoxia embryos were sacrificed and RNA collected.  We used 1% pO2 for ages up to 48 hpf and 4% pO2 for older ages.  At the time point for collection embryos were dissected and only head tissue was used for subsequent RNA preparation.  RNA was prepared with a miRNeasy kit Qiagen. Quality of total RNAs was checked using a NanoDrop 2000 Spectrometer and an Agilent 2100 Bioanalyzer.  The sequencing libraries were created using the Illumina TruSeq Stranded Total RNA Sample Preparation Kit with Ribo Zero. These libraries were sequenced on an Illumina HiSeq2000 sequencer for 50 cycles ie. 50 nucleotides  single end  stranded using Illumina’s version 3 chemistry. 6 samples were multiplexed together in each lane of the sequencer  providing an average yield of 25.1 million reads per sample. The base calling was performed using Illumina’s CASAVA version 1.8.2 software.,,,RNA-Seq,TRANSCRIPTOMIC,RANDOM,SINGLE,ILLUMINA,Illumina HiSeq 2000,<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>50</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>,SRP062493,,,10329X2_130822_SN141_0719_AD2CK5ACXX_4.txt.gz,fastq,1249046350.0,24980927.0,24hpf.hypoxia.1.10329X2,0:50,A:309098695;C:281875016;G:278706888;T:379315616;N:50135,50,,,,309098695,281875016,278706888,379315616,50135,SRX1321826,SRS1109642,SRA289450,University of Utah|Bonkowsky,University of Utah,1,0.95443,,0.27405,,0.69747,,0.40987,,50,,B,,usable mapping rate,illumina,hiseq_era,unknown,random_priming,trueseq,bulk,unknown,unknown,,United States,2015-10-10,Pharyngula,Embryo,Brain,Nervous System
39835,SRR2382596,SRX1321825,SRS1109647,SRP062493,PRJNA293106,Danio rerio Raw sequence reads,PRJNA293106,Metagenomics,Zebrafish Hypoxia RNAseq,,,RNAseq at 72hpf following normoxia,,72hpf normoxia,,strain:TU|age:72hpf|sex:not determined|tissue:brain|treatment:normoxia|BioSampleModel:Model organism or animal,,,,,,,,,Zebrafish Embryonic Development Hypoxia Versus Normoxia RNAseq: Sample       72hpf normoxia,72hpf.normoxia.3.10329X30,72hpf.normoxia.3.10329X30,We collected whole RNA from zebrafish at five different embryonic developmental stages with experimental triplicates for each stage time point and experimental condition.  For hypoxia  we placed developing embryos in pre conditioned media in a sealed plexiglass chamber set to a reduced oxygen concentration for 12 hour periods. Immediately following hypoxia or normoxia embryos were sacrificed and RNA collected.  We used 1% pO2 for ages up to 48 hpf and 4% pO2 for older ages.  At the time point for collection embryos were dissected and only head tissue was used for subsequent RNA preparation.  RNA was prepared with a miRNeasy kit Qiagen. Quality of total RNAs was checked using a NanoDrop 2000 Spectrometer and an Agilent 2100 Bioanalyzer.  The sequencing libraries were created using the Illumina TruSeq Stranded Total RNA Sample Preparation Kit with Ribo Zero. These libraries were sequenced on an Illumina HiSeq2000 sequencer for 50 cycles ie. 50 nucleotides  single end  stranded using Illumina’s version 3 chemistry. 6 samples were multiplexed together in each lane of the sequencer  providing an average yield of 25.1 million reads per sample. The base calling was performed using Illumina’s CASAVA version 1.8.2 software.,,,RNA-Seq,TRANSCRIPTOMIC,RANDOM,SINGLE,ILLUMINA,Illumina HiSeq 2000,<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>50</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>,SRP062493,,,10329X30_130822_SN141_0719_AD2CK5ACXX_8.txt.gz,fastq,1202543000.0,24050860.0,72hpf.normoxia.3.10329X30,0:50,A:317814132;C:265339479;G:263354488;T:356015292;N:19609,50,,,,317814132,265339479,263354488,356015292,19609,SRX1321825,SRS1109647,SRA289450,University of Utah|Bonkowsky,University of Utah,1,0.94396,,0.39792,,0.68592,,0.51696,,50,,B,,usable mapping rate,illumina,hiseq_era,unknown,random_priming,trueseq,bulk,unknown,unknown,,United States,2015-10-10,Larval,Larval,Brain,Nervous System
39836,SRR2346975,SRX1321824,SRS1109649,SRP062493,PRJNA293106,Danio rerio Raw sequence reads,PRJNA293106,Metagenomics,Zebrafish Hypoxia RNAseq,,,RNAseq at 72hpf following hypoxia,,72hpf hypoxia,,strain:TU|age:72hpf|sex:not determined|tissue:brain|treatment:hypoxia|BioSampleModel:Model organism or animal,,,,,,,,,Zebrafish Embryonic Development Hypoxia Versus Normoxia RNAseq: Sample       72hpf hypoxia,72hpf.hypoxia.3.10329X29,72hpf.hypoxia.3.10329X29,We collected whole RNA from zebrafish at five different embryonic developmental stages with experimental triplicates for each stage time point and experimental condition.  For hypoxia  we placed developing embryos in pre conditioned media in a sealed plexiglass chamber set to a reduced oxygen concentration for 12 hour periods. Immediately following hypoxia or normoxia embryos were sacrificed and RNA collected.  We used 1% pO2 for ages up to 48 hpf and 4% pO2 for older ages.  At the time point for collection embryos were dissected and only head tissue was used for subsequent RNA preparation.  RNA was prepared with a miRNeasy kit Qiagen. Quality of total RNAs was checked using a NanoDrop 2000 Spectrometer and an Agilent 2100 Bioanalyzer.  The sequencing libraries were created using the Illumina TruSeq Stranded Total RNA Sample Preparation Kit with Ribo Zero. These libraries were sequenced on an Illumina HiSeq2000 sequencer for 50 cycles ie. 50 nucleotides  single end  stranded using Illumina’s version 3 chemistry. 6 samples were multiplexed together in each lane of the sequencer  providing an average yield of 25.1 million reads per sample. The base calling was performed using Illumina’s CASAVA version 1.8.2 software.,,,RNA-Seq,TRANSCRIPTOMIC,RANDOM,SINGLE,ILLUMINA,Illumina HiSeq 2000,<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>50</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>,SRP062493,,,10329X29_130822_SN141_0719_AD2CK5ACXX_8.txt.gz,fastq,977694000.0,19553880.0,72hpf.hypoxia.3.10329X29,0:50,A:252845467;C:218082615;G:213237499;T:293512810;N:15609,50,,,,252845467,218082615,213237499,293512810,15609,SRX1321824,SRS1109649,SRA289450,University of Utah|Bonkowsky,University of Utah,1,0.94858,,0.35206,,0.68889,,0.53177,,50,,B,,usable mapping rate,illumina,hiseq_era,unknown,random_priming,trueseq,bulk,unknown,unknown,,United States,2015-09-10,Larval,Larval,Brain,Nervous System
39837,SRR2342161,SRX1321823,SRS1109648,SRP062493,PRJNA293106,Danio rerio Raw sequence reads,PRJNA293106,Metagenomics,Zebrafish Hypoxia RNAseq,,,RNAseq at 60hpf following hypoxia,,60hpf hypoxia,,strain:TU|age:60hpf|sex:not determined|tissue:brain|treatment:hypoxia|BioSampleModel:Model organism or animal,,,,,,,,,Zebrafish Embryonic Development Hypoxia Versus Normoxia RNAseq: Sample       60hpf hypoxia,60hpf.hypoxia.3.10329X27,60hpf.hypoxia.3.10329X27,We collected whole RNA from zebrafish at five different embryonic developmental stages with experimental triplicates for each stage time point and experimental condition.  For hypoxia  we placed developing embryos in pre conditioned media in a sealed plexiglass chamber set to a reduced oxygen concentration for 12 hour periods. Immediately following hypoxia or normoxia embryos were sacrificed and RNA collected.  We used 1% pO2 for ages up to 48 hpf and 4% pO2 for older ages.  At the time point for collection embryos were dissected and only head tissue was used for subsequent RNA preparation.  RNA was prepared with a miRNeasy kit Qiagen. Quality of total RNAs was checked using a NanoDrop 2000 Spectrometer and an Agilent 2100 Bioanalyzer.  The sequencing libraries were created using the Illumina TruSeq Stranded Total RNA Sample Preparation Kit with Ribo Zero. These libraries were sequenced on an Illumina HiSeq2000 sequencer for 50 cycles ie. 50 nucleotides  single end  stranded using Illumina’s version 3 chemistry. 6 samples were multiplexed together in each lane of the sequencer  providing an average yield of 25.1 million reads per sample. The base calling was performed using Illumina’s CASAVA version 1.8.2 software.,,,RNA-Seq,TRANSCRIPTOMIC,RANDOM,SINGLE,ILLUMINA,Illumina HiSeq 2000,<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>50</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>,SRP062493,,,10329X27_130822_SN141_0719_AD2CK5ACXX_8.txt.gz,fastq,1073269500.0,21465390.0,60hpf.hypoxia.3.10329X27,0:50,A:280500644;C:237758835;G:234061287;T:320931292;N:17442,50,,,,280500644,237758835,234061287,320931292,17442,SRX1321823,SRS1109648,SRA289450,University of Utah|Bonkowsky,University of Utah,1,0.94774,,0.36354,,0.70065,,0.51075,,50,,B,,usable mapping rate,illumina,hiseq_era,unknown,random_priming,trueseq,bulk,unknown,unknown,,United States,2015-10-10,Hatching,Embryo,Brain,Nervous System
39838,SRR2341509,SRX1321822,SRS1109643,SRP062493,PRJNA293106,Danio rerio Raw sequence reads,PRJNA293106,Metagenomics,Zebrafish Hypoxia RNAseq,,,RNAseq at 48hpf following normoxia,,48hpf normoxia,,strain:TU|age:48hpf|sex:not determined|tissue:brain|treatment:normoxia|BioSampleModel:Model organism or animal,,,,,,,,,Zebrafish Embryonic Development Hypoxia Versus Normoxia RNAseq: Sample       48hpf normoxia,48hpf.normoxia.210329X26,48hpf.normoxia.210329X26,We collected whole RNA from zebrafish at five different embryonic developmental stages with experimental triplicates for each stage time point and experimental condition.  For hypoxia  we placed developing embryos in pre conditioned media in a sealed plexiglass chamber set to a reduced oxygen concentration for 12 hour periods. Immediately following hypoxia or normoxia embryos were sacrificed and RNA collected.  We used 1% pO2 for ages up to 48 hpf and 4% pO2 for older ages.  At the time point for collection embryos were dissected and only head tissue was used for subsequent RNA preparation.  RNA was prepared with a miRNeasy kit Qiagen. Quality of total RNAs was checked using a NanoDrop 2000 Spectrometer and an Agilent 2100 Bioanalyzer.  The sequencing libraries were created using the Illumina TruSeq Stranded Total RNA Sample Preparation Kit with Ribo Zero. These libraries were sequenced on an Illumina HiSeq2000 sequencer for 50 cycles ie. 50 nucleotides  single end  stranded using Illumina’s version 3 chemistry. 6 samples were multiplexed together in each lane of the sequencer  providing an average yield of 25.1 million reads per sample. The base calling was performed using Illumina’s CASAVA version 1.8.2 software.,,,RNA-Seq,TRANSCRIPTOMIC,RANDOM,SINGLE,ILLUMINA,Illumina HiSeq 2000,<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>50</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>,SRP062493,,,10329X26_130822_SN141_0719_AD2CK5ACXX_8.txt.gz,fastq,1075868850.0,21517377.0,48hpf.normoxia.210329X26,0:50,A:271795722;C:246789566;G:240496674;T:316769688;N:17200,50,,,,271795722,246789566,240496674,316769688,17200,SRX1321822,SRS1109643,SRA289450,University of Utah|Bonkowsky,University of Utah,1,0.94644,,0.26805,,0.68745,,0.53833,,50,,B,,usable mapping rate,illumina,hiseq_era,unknown,random_priming,trueseq,bulk,unknown,unknown,,United States,2015-10-10,Hatching,Embryo,Brain,Nervous System
39839,SRR2340149,SRX1321821,SRS1109650,SRP062493,PRJNA293106,Danio rerio Raw sequence reads,PRJNA293106,Metagenomics,Zebrafish Hypoxia RNAseq,,,RNAseq at 36hpf following normoxia,,36hpf normoxia,,strain:TU|age:36hpf|sex:not determined|tissue:brain|treatment:normoxia|BioSampleModel:Model organism or animal,,,,,,,,,Zebrafish Embryonic Development Hypoxia Versus Normoxia RNAseq: Sample       36hpf normoxia,36hpf.normoxia.3.10329X24,36hpf.normoxia.3.10329X24,We collected whole RNA from zebrafish at five different embryonic developmental stages with experimental triplicates for each stage time point and experimental condition.  For hypoxia  we placed developing embryos in pre conditioned media in a sealed plexiglass chamber set to a reduced oxygen concentration for 12 hour periods. Immediately following hypoxia or normoxia embryos were sacrificed and RNA collected.  We used 1% pO2 for ages up to 48 hpf and 4% pO2 for older ages.  At the time point for collection embryos were dissected and only head tissue was used for subsequent RNA preparation.  RNA was prepared with a miRNeasy kit Qiagen. Quality of total RNAs was checked using a NanoDrop 2000 Spectrometer and an Agilent 2100 Bioanalyzer.  The sequencing libraries were created using the Illumina TruSeq Stranded Total RNA Sample Preparation Kit with Ribo Zero. These libraries were sequenced on an Illumina HiSeq2000 sequencer for 50 cycles ie. 50 nucleotides  single end  stranded using Illumina’s version 3 chemistry. 6 samples were multiplexed together in each lane of the sequencer  providing an average yield of 25.1 million reads per sample. The base calling was performed using Illumina’s CASAVA version 1.8.2 software.,,,RNA-Seq,TRANSCRIPTOMIC,RANDOM,SINGLE,ILLUMINA,Illumina HiSeq 2000,<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>50</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>,SRP062493,,,10329X24_130822_SN141_0719_AD2CK5ACXX_7.txt.gz,fastq,1588630750.0,31772615.0,36hpf.normoxia.3.10329X24,0:50,A:404319446;C:349459823;G:346545846;T:468209953;N:20095682,50,,,,404319446,349459823,346545846,468209953,20095682,SRX1321821,SRS1109650,SRA289450,University of Utah|Bonkowsky,University of Utah,1,0.8739,,0.32489,,0.71701,,0.51646,,50,,B,,usable mapping rate,illumina,hiseq_era,unknown,random_priming,trueseq,bulk,unknown,unknown,,United States,2015-10-10,Pharyngula,Embryo,Brain,Nervous System
39840,SRR2245887,SRX1321820,SRS1109645,SRP062493,PRJNA293106,Danio rerio Raw sequence reads,PRJNA293106,Metagenomics,Zebrafish Hypoxia RNAseq,,,RNAseq at 36hpf following hypoxia,,36hpf hypoxia,,strain:TU|age:36hpf|sex:not determined|tissue:brain|treatment:hypoxia|BioSampleModel:Model organism or animal,,,,,,,,,Zebrafish Embryonic Development Hypoxia Versus Normoxia RNAseq: Sample       36hpf hypoxia,36hpf.hypoxia.3.10329X23,36hpf.hypoxia.3.10329X23,We collected whole RNA from zebrafish at five different embryonic developmental stages with experimental triplicates for each stage time point and experimental condition.  For hypoxia  we placed developing embryos in pre conditioned media in a sealed plexiglass chamber set to a reduced oxygen concentration for 12 hour periods. Immediately following hypoxia or normoxia embryos were sacrificed and RNA collected.  We used 1% pO2 for ages up to 48 hpf and 4% pO2 for older ages.  At the time point for collection embryos were dissected and only head tissue was used for subsequent RNA preparation.  RNA was prepared with a miRNeasy kit Qiagen. Quality of total RNAs was checked using a NanoDrop 2000 Spectrometer and an Agilent 2100 Bioanalyzer.  The sequencing libraries were created using the Illumina TruSeq Stranded Total RNA Sample Preparation Kit with Ribo Zero. These libraries were sequenced on an Illumina HiSeq2000 sequencer for 50 cycles ie. 50 nucleotides  single end  stranded using Illumina’s version 3 chemistry. 6 samples were multiplexed together in each lane of the sequencer  providing an average yield of 25.1 million reads per sample. The base calling was performed using Illumina’s CASAVA version 1.8.2 software.,,,RNA-Seq,TRANSCRIPTOMIC,RANDOM,SINGLE,ILLUMINA,Illumina HiSeq 2000,<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>50</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>,SRP062493,,,10329X23_130822_SN141_0719_AD2CK5ACXX_7.txt.gz,fastq,1207331350.0,24146627.0,36hpf.hypoxia.3.10329X23,0:50,A:305628501;C:266059461;G:259888045;T:360487730;N:15267613,50,,,,305628501,266059461,259888045,360487730,15267613,SRX1321820,SRS1109645,SRA289450,University of Utah|Bonkowsky,University of Utah,1,0.87814,,0.27249,,0.72853,,0.53527,,50,,B,,usable mapping rate,illumina,hiseq_era,unknown,random_priming,trueseq,bulk,unknown,unknown,,United States,2015-10-10,Pharyngula,Embryo,Brain,Nervous System
39841,SRR2245257,SRX1321819,SRS1109651,SRP062493,PRJNA293106,Danio rerio Raw sequence reads,PRJNA293106,Metagenomics,Zebrafish Hypoxia RNAseq,,,RNAseq at 24hpf following normoxia,,24hpf normoxia,,strain:TU|age:24hpf|sex:not determined|tissue:brain|treatment:normoxia|BioSampleModel:Model organism or animal,,,,,,,,,Zebrafish Embryonic Development Hypoxia Versus Normoxia RNAseq: Sample       24hpf normoxia,24hpf.normoxia.3.10329X22,24hpf.normoxia.3.10329X22,We collected whole RNA from zebrafish at five different embryonic developmental stages with experimental triplicates for each stage time point and experimental condition.  For hypoxia  we placed developing embryos in pre conditioned media in a sealed plexiglass chamber set to a reduced oxygen concentration for 12 hour periods. Immediately following hypoxia or normoxia embryos were sacrificed and RNA collected.  We used 1% pO2 for ages up to 48 hpf and 4% pO2 for older ages.  At the time point for collection embryos were dissected and only head tissue was used for subsequent RNA preparation.  RNA was prepared with a miRNeasy kit Qiagen. Quality of total RNAs was checked using a NanoDrop 2000 Spectrometer and an Agilent 2100 Bioanalyzer.  The sequencing libraries were created using the Illumina TruSeq Stranded Total RNA Sample Preparation Kit with Ribo Zero. These libraries were sequenced on an Illumina HiSeq2000 sequencer for 50 cycles ie. 50 nucleotides  single end  stranded using Illumina’s version 3 chemistry. 6 samples were multiplexed together in each lane of the sequencer  providing an average yield of 25.1 million reads per sample. The base calling was performed using Illumina’s CASAVA version 1.8.2 software.,,,RNA-Seq,TRANSCRIPTOMIC,RANDOM,SINGLE,ILLUMINA,Illumina HiSeq 2000,<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>50</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>,SRP062493,,,10329X22_130822_SN141_0719_AD2CK5ACXX_7.txt.gz,fastq,1257159050.0,25143181.0,24hpf.normoxia.3.10329X22,0:50,A:320558638;C:275312235;G:271710647;T:373637690;N:15939840,50,,,,320558638,275312235,271710647,373637690,15939840,SRX1321819,SRS1109651,SRA289450,University of Utah|Bonkowsky,University of Utah,1,0.87634,,0.30298,,0.71356,,0.54673,,50,,B,,usable mapping rate,illumina,hiseq_era,unknown,random_priming,trueseq,bulk,unknown,unknown,,United States,2015-10-10,Pharyngula,Embryo,Brain,Nervous System
39842,SRR2243358,SRX1321818,SRS1109647,SRP062493,PRJNA293106,Danio rerio Raw sequence reads,PRJNA293106,Metagenomics,Zebrafish Hypoxia RNAseq,,,RNAseq at 72hpf following normoxia,,72hpf normoxia,,strain:TU|age:72hpf|sex:not determined|tissue:brain|treatment:normoxia|BioSampleModel:Model organism or animal,,,,,,,,,Zebrafish Embryonic Development Hypoxia Versus Normoxia RNAseq: Sample       72hpf normoxia,72hpf.normoxia.2.10329X20,72hpf.normoxia.2.10329X20,We collected whole RNA from zebrafish at five different embryonic developmental stages with experimental triplicates for each stage time point and experimental condition.  For hypoxia  we placed developing embryos in pre conditioned media in a sealed plexiglass chamber set to a reduced oxygen concentration for 12 hour periods. Immediately following hypoxia or normoxia embryos were sacrificed and RNA collected.  We used 1% pO2 for ages up to 48 hpf and 4% pO2 for older ages.  At the time point for collection embryos were dissected and only head tissue was used for subsequent RNA preparation.  RNA was prepared with a miRNeasy kit Qiagen. Quality of total RNAs was checked using a NanoDrop 2000 Spectrometer and an Agilent 2100 Bioanalyzer.  The sequencing libraries were created using the Illumina TruSeq Stranded Total RNA Sample Preparation Kit with Ribo Zero. These libraries were sequenced on an Illumina HiSeq2000 sequencer for 50 cycles ie. 50 nucleotides  single end  stranded using Illumina’s version 3 chemistry. 6 samples were multiplexed together in each lane of the sequencer  providing an average yield of 25.1 million reads per sample. The base calling was performed using Illumina’s CASAVA version 1.8.2 software.,,,RNA-Seq,TRANSCRIPTOMIC,RANDOM,SINGLE,ILLUMINA,Illumina HiSeq 2000,<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>50</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>,SRP062493,,,10329X20_130822_SN141_0719_AD2CK5ACXX_7.txt.gz,fastq,1530276050.0,30605521.0,72hpf.normoxia.2.10329X20,0:50,A:387360143;C:340062704;G:324515181;T:458965961;N:19372061,50,,,,387360143,340062704,324515181,458965961,19372061,SRX1321818,SRS1109647,SRA289450,University of Utah|Bonkowsky,University of Utah,1,0.8774,,0.25469,,0.68799,,0.52777,,50,,B,,usable mapping rate,illumina,hiseq_era,unknown,random_priming,trueseq,bulk,unknown,unknown,,United States,2015-10-10,Larval,Larval,Brain,Nervous System
39843,SRR2243161,SRX1321817,SRS1109649,SRP062493,PRJNA293106,Danio rerio Raw sequence reads,PRJNA293106,Metagenomics,Zebrafish Hypoxia RNAseq,,,RNAseq at 72hpf following hypoxia,,72hpf hypoxia,,strain:TU|age:72hpf|sex:not determined|tissue:brain|treatment:hypoxia|BioSampleModel:Model organism or animal,,,,,,,,,Zebrafish Embryonic Development Hypoxia Versus Normoxia RNAseq: Sample       72hpf hypoxia,72hpf.hypoxia.2.10329X19,72hpf.hypoxia.2.10329X19,We collected whole RNA from zebrafish at five different embryonic developmental stages with experimental triplicates for each stage time point and experimental condition.  For hypoxia  we placed developing embryos in pre conditioned media in a sealed plexiglass chamber set to a reduced oxygen concentration for 12 hour periods. Immediately following hypoxia or normoxia embryos were sacrificed and RNA collected.  We used 1% pO2 for ages up to 48 hpf and 4% pO2 for older ages.  At the time point for collection embryos were dissected and only head tissue was used for subsequent RNA preparation.  RNA was prepared with a miRNeasy kit Qiagen. Quality of total RNAs was checked using a NanoDrop 2000 Spectrometer and an Agilent 2100 Bioanalyzer.  The sequencing libraries were created using the Illumina TruSeq Stranded Total RNA Sample Preparation Kit with Ribo Zero. These libraries were sequenced on an Illumina HiSeq2000 sequencer for 50 cycles ie. 50 nucleotides  single end  stranded using Illumina’s version 3 chemistry. 6 samples were multiplexed together in each lane of the sequencer  providing an average yield of 25.1 million reads per sample. The base calling was performed using Illumina’s CASAVA version 1.8.2 software.,,,RNA-Seq,TRANSCRIPTOMIC,RANDOM,SINGLE,ILLUMINA,Illumina HiSeq 2000,<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>50</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>,SRP062493,,,10329X19_130822_SN141_0719_AD2CK5ACXX_7.txt.gz,fastq,1866619850.0,37332397.0,72hpf.hypoxia.2.10329X19,0:50,A:465524152;C:423400277;G:418937882;T:535202326;N:23555213,50,,,,465524152,423400277,418937882,535202326,23555213,SRX1321817,SRS1109649,SRA289450,University of Utah|Bonkowsky,University of Utah,1,0.85514,,0.26828,,0.7041,,0.54006,,50,,B,,usable mapping rate,illumina,hiseq_era,unknown,random_priming,trueseq,bulk,unknown,unknown,,United States,2015-10-10,Larval,Larval,Brain,Nervous System
39844,SRR2241311,SRX1321816,SRS1109644,SRP062493,PRJNA293106,Danio rerio Raw sequence reads,PRJNA293106,Metagenomics,Zebrafish Hypoxia RNAseq,,,RNAseq at 60hpf following normoxia,,60hpf Normoxia,,strain:TU|age:60hpf|sex:not determined|tissue:brain|treatment:normoxia|BioSampleModel:Model organism or animal,,,,,,,,,Zebrafish Embryonic Development Hypoxia Versus Normoxia RNAseq: Sample       60hpf Normoxia,60hpf.normoxia.1.10329X18,60hpf.normoxia.1.10329X18,We collected whole RNA from zebrafish at five different embryonic developmental stages with experimental triplicates for each stage time point and experimental condition.  For hypoxia  we placed developing embryos in pre conditioned media in a sealed plexiglass chamber set to a reduced oxygen concentration for 12 hour periods. Immediately following hypoxia or normoxia embryos were sacrificed and RNA collected.  We used 1% pO2 for ages up to 48 hpf and 4% pO2 for older ages.  At the time point for collection embryos were dissected and only head tissue was used for subsequent RNA preparation.  RNA was prepared with a miRNeasy kit Qiagen. Quality of total RNAs was checked using a NanoDrop 2000 Spectrometer and an Agilent 2100 Bioanalyzer.  The sequencing libraries were created using the Illumina TruSeq Stranded Total RNA Sample Preparation Kit with Ribo Zero. These libraries were sequenced on an Illumina HiSeq2000 sequencer for 50 cycles ie. 50 nucleotides  single end  stranded using Illumina’s version 3 chemistry. 6 samples were multiplexed together in each lane of the sequencer  providing an average yield of 25.1 million reads per sample. The base calling was performed using Illumina’s CASAVA version 1.8.2 software.,,,RNA-Seq,TRANSCRIPTOMIC,RANDOM,SINGLE,ILLUMINA,Illumina HiSeq 2000,<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>50</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>,SRP062493,,,10329X18_130822_SN141_0719_AD2CK5ACXX_6.txt.gz,fastq,1118115050.0,22362301.0,60hpf.normoxia.1.10329X18,0:50,A:287072563;C:255244675;G:248573701;T:327203388;N:20723,50,,,,287072563,255244675,248573701,327203388,20723,SRX1321816,SRS1109644,SRA289450,University of Utah|Bonkowsky,University of Utah,1,0.93238,,0.30064,,0.68574,,0.51934,,50,,B,,usable mapping rate,illumina,hiseq_era,unknown,random_priming,trueseq,bulk,unknown,unknown,,United States,2015-10-10,Hatching,Embryo,Brain,Nervous System
39845,SRR2240748,SRX1321815,SRS1109648,SRP062493,PRJNA293106,Danio rerio Raw sequence reads,PRJNA293106,Metagenomics,Zebrafish Hypoxia RNAseq,,,RNAseq at 60hpf following hypoxia,,60hpf hypoxia,,strain:TU|age:60hpf|sex:not determined|tissue:brain|treatment:hypoxia|BioSampleModel:Model organism or animal,,,,,,,,,Zebrafish Embryonic Development Hypoxia Versus Normoxia RNAseq: Sample       60hpf hypoxia,60hpf.hypoxia.2.10329X17,60hpf.hypoxia.2.10329X17,We collected whole RNA from zebrafish at five different embryonic developmental stages with experimental triplicates for each stage time point and experimental condition.  For hypoxia  we placed developing embryos in pre conditioned media in a sealed plexiglass chamber set to a reduced oxygen concentration for 12 hour periods. Immediately following hypoxia or normoxia embryos were sacrificed and RNA collected.  We used 1% pO2 for ages up to 48 hpf and 4% pO2 for older ages.  At the time point for collection embryos were dissected and only head tissue was used for subsequent RNA preparation.  RNA was prepared with a miRNeasy kit Qiagen. Quality of total RNAs was checked using a NanoDrop 2000 Spectrometer and an Agilent 2100 Bioanalyzer.  The sequencing libraries were created using the Illumina TruSeq Stranded Total RNA Sample Preparation Kit with Ribo Zero. These libraries were sequenced on an Illumina HiSeq2000 sequencer for 50 cycles ie. 50 nucleotides  single end  stranded using Illumina’s version 3 chemistry. 6 samples were multiplexed together in each lane of the sequencer  providing an average yield of 25.1 million reads per sample. The base calling was performed using Illumina’s CASAVA version 1.8.2 software.,,,RNA-Seq,TRANSCRIPTOMIC,RANDOM,SINGLE,ILLUMINA,Illumina HiSeq 2000,<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>50</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>,SRP062493,,,10329X17_130822_SN141_0719_AD2CK5ACXX_6.txt.gz,fastq,1074686900.0,21493738.0,60hpf.hypoxia.2.10329X17,0:50,A:276432361;C:244039609;G:234638386;T:319556004;N:20540,50,,,,276432361,244039609,234638386,319556004,20540,SRX1321815,SRS1109648,SRA289450,University of Utah|Bonkowsky,University of Utah,1,0.9502,,0.3077,,0.6899,,0.50645,,50,,B,,usable mapping rate,illumina,hiseq_era,unknown,random_priming,trueseq,bulk,unknown,unknown,,United States,2015-09-03,Hatching,Embryo,Brain,Nervous System
39846,SRR2239869,SRX1321814,SRS1109646,SRP062493,PRJNA293106,Danio rerio Raw sequence reads,PRJNA293106,Metagenomics,Zebrafish Hypoxia RNAseq,,,RNAseq at 48hpf following hypoxia,,48hpf hypoxia,,strain:TU|age:48hpf|sex:not determined|tissue:brain|treatment:hypoxia|BioSampleModel:Model organism or animal,,,,,,,,,Zebrafish Embryonic Development Hypoxia Versus Normoxia RNAseq: Sample       48hpf hypoxia,48hpf.hypoxia.2.10329X15,48hpf.hypoxia.2.10329X15,We collected whole RNA from zebrafish at five different embryonic developmental stages with experimental triplicates for each stage time point and experimental condition.  For hypoxia  we placed developing embryos in pre conditioned media in a sealed plexiglass chamber set to a reduced oxygen concentration for 12 hour periods. Immediately following hypoxia or normoxia embryos were sacrificed and RNA collected.  We used 1% pO2 for ages up to 48 hpf and 4% pO2 for older ages.  At the time point for collection embryos were dissected and only head tissue was used for subsequent RNA preparation.  RNA was prepared with a miRNeasy kit Qiagen. Quality of total RNAs was checked using a NanoDrop 2000 Spectrometer and an Agilent 2100 Bioanalyzer.  The sequencing libraries were created using the Illumina TruSeq Stranded Total RNA Sample Preparation Kit with Ribo Zero. These libraries were sequenced on an Illumina HiSeq2000 sequencer for 50 cycles ie. 50 nucleotides  single end  stranded using Illumina’s version 3 chemistry. 6 samples were multiplexed together in each lane of the sequencer  providing an average yield of 25.1 million reads per sample. The base calling was performed using Illumina’s CASAVA version 1.8.2 software.,,,RNA-Seq,TRANSCRIPTOMIC,RANDOM,SINGLE,ILLUMINA,Illumina HiSeq 2000,<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>50</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>,SRP062493,,,10329X15_130822_SN141_0719_AD2CK5ACXX_6.txt.gz,fastq,1111913550.0,22238271.0,48hpf.hypoxia.2.10329X15,0:50,A:288023952;C:248947169;G:243195362;T:331723738;N:23329,50,,,,288023952,248947169,243195362,331723738,23329,SRX1321814,SRS1109646,SRA289450,University of Utah|Bonkowsky,University of Utah,1,0.93753,,0.34521,,0.70246,,0.51535,,50,,B,,usable mapping rate,illumina,hiseq_era,unknown,random_priming,trueseq,bulk,unknown,unknown,,United States,2015-10-10,Hatching,Embryo,Brain,Nervous System
39847,SRR2239772,SRX1321813,SRS1109650,SRP062493,PRJNA293106,Danio rerio Raw sequence reads,PRJNA293106,Metagenomics,Zebrafish Hypoxia RNAseq,,,RNAseq at 36hpf following normoxia,,36hpf normoxia,,strain:TU|age:36hpf|sex:not determined|tissue:brain|treatment:normoxia|BioSampleModel:Model organism or animal,,,,,,,,,Zebrafish Embryonic Development Hypoxia Versus Normoxia RNAseq: Sample       36hpf normoxia,36hpf.normoxia.2.10329X14,36hpf.normoxia.2.10329X14,We collected whole RNA from zebrafish at five different embryonic developmental stages with experimental triplicates for each stage time point and experimental condition.  For hypoxia  we placed developing embryos in pre conditioned media in a sealed plexiglass chamber set to a reduced oxygen concentration for 12 hour periods. Immediately following hypoxia or normoxia embryos were sacrificed and RNA collected.  We used 1% pO2 for ages up to 48 hpf and 4% pO2 for older ages.  At the time point for collection embryos were dissected and only head tissue was used for subsequent RNA preparation.  RNA was prepared with a miRNeasy kit Qiagen. Quality of total RNAs was checked using a NanoDrop 2000 Spectrometer and an Agilent 2100 Bioanalyzer.  The sequencing libraries were created using the Illumina TruSeq Stranded Total RNA Sample Preparation Kit with Ribo Zero. These libraries were sequenced on an Illumina HiSeq2000 sequencer for 50 cycles ie. 50 nucleotides  single end  stranded using Illumina’s version 3 chemistry. 6 samples were multiplexed together in each lane of the sequencer  providing an average yield of 25.1 million reads per sample. The base calling was performed using Illumina’s CASAVA version 1.8.2 software.,,,RNA-Seq,TRANSCRIPTOMIC,RANDOM,SINGLE,ILLUMINA,Illumina HiSeq 2000,<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>50</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>,SRP062493,,,10329X14_130822_SN141_0719_AD2CK5ACXX_6.txt.gz,fastq,1533885200.0,30677704.0,36hpf.normoxia.2.10329X14,0:50,A:392813056;C:354469675;G:348871622;T:437692730;N:38117,50,,,,392813056,354469675,348871622,437692730,38117,SRX1321813,SRS1109650,SRA289450,University of Utah|Bonkowsky,University of Utah,1,0.91439,,0.31812,,0.70863,,0.51667,,50,,B,,usable mapping rate,illumina,hiseq_era,unknown,random_priming,trueseq,bulk,unknown,unknown,,United States,2015-10-10,Pharyngula,Embryo,Brain,Nervous System
39848,SRR2232685,SRX1321812,SRS1109645,SRP062493,PRJNA293106,Danio rerio Raw sequence reads,PRJNA293106,Metagenomics,Zebrafish Hypoxia RNAseq,,,RNAseq at 36hpf following hypoxia,,36hpf hypoxia,,strain:TU|age:36hpf|sex:not determined|tissue:brain|treatment:hypoxia|BioSampleModel:Model organism or animal,,,,,,,,,Zebrafish Embryonic Development Hypoxia Versus Normoxia RNAseq: Sample       36hpf hypoxia,36hpf.hypoxia.2.10329X13,36hpf.hypoxia.2.10329X13,We collected whole RNA from zebrafish at five different embryonic developmental stages with experimental triplicates for each stage time point and experimental condition.  For hypoxia  we placed developing embryos in pre conditioned media in a sealed plexiglass chamber set to a reduced oxygen concentration for 12 hour periods. Immediately following hypoxia or normoxia embryos were sacrificed and RNA collected.  We used 1% pO2 for ages up to 48 hpf and 4% pO2 for older ages.  At the time point for collection embryos were dissected and only head tissue was used for subsequent RNA preparation.  RNA was prepared with a miRNeasy kit Qiagen. Quality of total RNAs was checked using a NanoDrop 2000 Spectrometer and an Agilent 2100 Bioanalyzer.  The sequencing libraries were created using the Illumina TruSeq Stranded Total RNA Sample Preparation Kit with Ribo Zero. These libraries were sequenced on an Illumina HiSeq2000 sequencer for 50 cycles ie. 50 nucleotides  single end  stranded using Illumina’s version 3 chemistry. 6 samples were multiplexed together in each lane of the sequencer  providing an average yield of 25.1 million reads per sample. The base calling was performed using Illumina’s CASAVA version 1.8.2 software.,,,RNA-Seq,TRANSCRIPTOMIC,RANDOM,SINGLE,ILLUMINA,Illumina HiSeq 2000,<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>50</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>,SRP062493,,,10329X13_130822_SN141_0719_AD2CK5ACXX_6.txt.gz,fastq,1112846200.0,22256924.0,36hpf.hypoxia.2.10329X13,0:50,A:279147206;C:259582122;G:249642505;T:324452965;N:21402,50,,,,279147206,259582122,249642505,324452965,21402,SRX1321812,SRS1109645,SRA289450,University of Utah|Bonkowsky,University of Utah,1,0.94469,,0.25952,,0.72243,,0.52701,,50,,B,,usable mapping rate,illumina,hiseq_era,unknown,random_priming,trueseq,bulk,unknown,unknown,,United States,2015-10-10,Pharyngula,Embryo,Brain,Nervous System
39849,SRR2227658,SRX1321811,SRS1109651,SRP062493,PRJNA293106,Danio rerio Raw sequence reads,PRJNA293106,Metagenomics,Zebrafish Hypoxia RNAseq,,,RNAseq at 24hpf following normoxia,,24hpf normoxia,,strain:TU|age:24hpf|sex:not determined|tissue:brain|treatment:normoxia|BioSampleModel:Model organism or animal,,,,,,,,,Zebrafish Embryonic Development Hypoxia Versus Normoxia RNAseq: Sample       24hpf normoxia,24hpf.normoxia.2.10329X12,24hpf.normoxia.2.10329X12,We collected whole RNA from zebrafish at five different embryonic developmental stages with experimental triplicates for each stage time point and experimental condition.  For hypoxia  we placed developing embryos in pre conditioned media in a sealed plexiglass chamber set to a reduced oxygen concentration for 12 hour periods. Immediately following hypoxia or normoxia embryos were sacrificed and RNA collected.  We used 1% pO2 for ages up to 48 hpf and 4% pO2 for older ages.  At the time point for collection embryos were dissected and only head tissue was used for subsequent RNA preparation.  RNA was prepared with a miRNeasy kit Qiagen. Quality of total RNAs was checked using a NanoDrop 2000 Spectrometer and an Agilent 2100 Bioanalyzer.  The sequencing libraries were created using the Illumina TruSeq Stranded Total RNA Sample Preparation Kit with Ribo Zero. These libraries were sequenced on an Illumina HiSeq2000 sequencer for 50 cycles ie. 50 nucleotides  single end  stranded using Illumina’s version 3 chemistry. 6 samples were multiplexed together in each lane of the sequencer  providing an average yield of 25.1 million reads per sample. The base calling was performed using Illumina’s CASAVA version 1.8.2 software.,,,RNA-Seq,TRANSCRIPTOMIC,RANDOM,SINGLE,ILLUMINA,Illumina HiSeq 2000,<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>50</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>,SRP062493,,,10329X12_130822_SN141_0719_AD2CK5ACXX_5.txt.gz,fastq,1243623750.0,24872475.0,24hpf.normoxia.2.10329X12,0:50,A:317179221;C:285081899;G:274648790;T:366643275;N:70565,50,,,,317179221,285081899,274648790,366643275,70565,SRX1321811,SRS1109651,SRA289450,University of Utah|Bonkowsky,University of Utah,1,0.95045,,0.27525,,0.69688,,0.53555,,50,,B,,usable mapping rate,illumina,hiseq_era,unknown,random_priming,trueseq,bulk,unknown,unknown,,United States,2015-09-01,Pharyngula,Embryo,Brain,Nervous System
39850,SRR2227378,SRX1321810,SRS1109647,SRP062493,PRJNA293106,Danio rerio Raw sequence reads,PRJNA293106,Metagenomics,Zebrafish Hypoxia RNAseq,,,RNAseq at 72hpf following normoxia,,72hpf normoxia,,strain:TU|age:72hpf|sex:not determined|tissue:brain|treatment:normoxia|BioSampleModel:Model organism or animal,,,,,,,,,Zebrafish Embryonic Development Hypoxia Versus Normoxia RNAseq: Sample       72hpf normoxia,72hpf.normoxia.1.10329X10,72hpf.normoxia.1.10329X10,We collected whole RNA from zebrafish at five different embryonic developmental stages with experimental triplicates for each stage time point and experimental condition.  For hypoxia  we placed developing embryos in pre conditioned media in a sealed plexiglass chamber set to a reduced oxygen concentration for 12 hour periods. Immediately following hypoxia or normoxia embryos were sacrificed and RNA collected.  We used 1% pO2 for ages up to 48 hpf and 4% pO2 for older ages.  At the time point for collection embryos were dissected and only head tissue was used for subsequent RNA preparation.  RNA was prepared with a miRNeasy kit Qiagen. Quality of total RNAs was checked using a NanoDrop 2000 Spectrometer and an Agilent 2100 Bioanalyzer.  The sequencing libraries were created using the Illumina TruSeq Stranded Total RNA Sample Preparation Kit with Ribo Zero. These libraries were sequenced on an Illumina HiSeq2000 sequencer for 50 cycles ie. 50 nucleotides  single end  stranded using Illumina’s version 3 chemistry. 6 samples were multiplexed together in each lane of the sequencer  providing an average yield of 25.1 million reads per sample. The base calling was performed using Illumina’s CASAVA version 1.8.2 software.,,,RNA-Seq,TRANSCRIPTOMIC,RANDOM,SINGLE,ILLUMINA,Illumina HiSeq 2000,<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>50</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>,SRP062493,,,10329X10_130822_SN141_0719_AD2CK5ACXX_5.txt.gz,fastq,1268552500.0,25371050.0,72hpf.normoxia.1.10329X10,0:50,A:334230065;C:286785060;G:271795849;T:375668734;N:72792,50,,,,334230065,286785060,271795849,375668734,72792,SRX1321810,SRS1109647,SRA289450,University of Utah|Bonkowsky,University of Utah,1,0.94017,,0.34471,,0.67109,,0.5244,,50,,B,,usable mapping rate,illumina,hiseq_era,unknown,random_priming,trueseq,bulk,unknown,unknown,,United States,2015-09-18,Larval,Larval,Brain,Nervous System
39851,SRR2226742,SRX1321809,SRS1109649,SRP062493,PRJNA293106,Danio rerio Raw sequence reads,PRJNA293106,Metagenomics,Zebrafish Hypoxia RNAseq,,,RNAseq at 72hpf following hypoxia,,72hpf hypoxia,,strain:TU|age:72hpf|sex:not determined|tissue:brain|treatment:hypoxia|BioSampleModel:Model organism or animal,,,,,,,,,Zebrafish Embryonic Development Hypoxia Versus Normoxia RNAseq: Sample       72hpf hypoxia,72hpf.hypoxia.1.10329X9,72hpf.hypoxia.1.10329X9,We collected whole RNA from zebrafish at five different embryonic developmental stages with experimental triplicates for each stage time point and experimental condition.  For hypoxia  we placed developing embryos in pre conditioned media in a sealed plexiglass chamber set to a reduced oxygen concentration for 12 hour periods. Immediately following hypoxia or normoxia embryos were sacrificed and RNA collected.  We used 1% pO2 for ages up to 48 hpf and 4% pO2 for older ages.  At the time point for collection embryos were dissected and only head tissue was used for subsequent RNA preparation.  RNA was prepared with a miRNeasy kit Qiagen. Quality of total RNAs was checked using a NanoDrop 2000 Spectrometer and an Agilent 2100 Bioanalyzer.  The sequencing libraries were created using the Illumina TruSeq Stranded Total RNA Sample Preparation Kit with Ribo Zero. These libraries were sequenced on an Illumina HiSeq2000 sequencer for 50 cycles ie. 50 nucleotides  single end  stranded using Illumina’s version 3 chemistry. 6 samples were multiplexed together in each lane of the sequencer  providing an average yield of 25.1 million reads per sample. The base calling was performed using Illumina’s CASAVA version 1.8.2 software.,,,RNA-Seq,TRANSCRIPTOMIC,RANDOM,SINGLE,ILLUMINA,Illumina HiSeq 2000,<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>50</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>,SRP062493,,,10329X9_130822_SN141_0719_AD2CK5ACXX_5.txt.gz,fastq,1625518100.0,32510362.0,72hpf.hypoxia.1.10329X9,0:50,A:428393257;C:366720934;G:349089971;T:481221434;N:92504,50,,,,428393257,366720934,349089971,481221434,92504,SRX1321809,SRS1109649,SRA289450,University of Utah|Bonkowsky,University of Utah,1,0.9444,,0.36232,,0.67503,,0.53278,,50,,B,,usable mapping rate,illumina,hiseq_era,unknown,random_priming,trueseq,bulk,unknown,unknown,,United States,2015-10-10,Larval,Larval,Brain,Nervous System
39852,SRR2225888,SRX1321808,SRS1109648,SRP062493,PRJNA293106,Danio rerio Raw sequence reads,PRJNA293106,Metagenomics,Zebrafish Hypoxia RNAseq,,,RNAseq at 60hpf following hypoxia,,60hpf hypoxia,,strain:TU|age:60hpf|sex:not determined|tissue:brain|treatment:hypoxia|BioSampleModel:Model organism or animal,,,,,,,,,Zebrafish Embryonic Development Hypoxia Versus Normoxia RNAseq: Sample       60hpf hypoxia,60hpf.hypoxia.1.10329X7,60hpf.hypoxia.1.10329X7,We collected whole RNA from zebrafish at five different embryonic developmental stages with experimental triplicates for each stage time point and experimental condition.  For hypoxia  we placed developing embryos in pre conditioned media in a sealed plexiglass chamber set to a reduced oxygen concentration for 12 hour periods. Immediately following hypoxia or normoxia embryos were sacrificed and RNA collected.  We used 1% pO2 for ages up to 48 hpf and 4% pO2 for older ages.  At the time point for collection embryos were dissected and only head tissue was used for subsequent RNA preparation.  RNA was prepared with a miRNeasy kit Qiagen. Quality of total RNAs was checked using a NanoDrop 2000 Spectrometer and an Agilent 2100 Bioanalyzer.  The sequencing libraries were created using the Illumina TruSeq Stranded Total RNA Sample Preparation Kit with Ribo Zero. These libraries were sequenced on an Illumina HiSeq2000 sequencer for 50 cycles ie. 50 nucleotides  single end  stranded using Illumina’s version 3 chemistry. 6 samples were multiplexed together in each lane of the sequencer  providing an average yield of 25.1 million reads per sample. The base calling was performed using Illumina’s CASAVA version 1.8.2 software.,,,RNA-Seq,TRANSCRIPTOMIC,RANDOM,SINGLE,ILLUMINA,Illumina HiSeq 2000,<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>50</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>,SRP062493,,,10329X7_130822_SN141_0719_AD2CK5ACXX_5.txt.gz,fastq,1102232350.0,22044647.0,60hpf.hypoxia.1.10329X7,0:50,A:288570352;C:247978180;G:238128703;T:327492563;N:62552,50,,,,288570352,247978180,238128703,327492563,62552,SRX1321808,SRS1109648,SRA289450,University of Utah|Bonkowsky,University of Utah,1,0.94824,,0.31808,,0.69244,,0.51505,,50,,B,,usable mapping rate,illumina,hiseq_era,unknown,random_priming,trueseq,bulk,unknown,unknown,,United States,2015-10-10,Hatching,Embryo,Brain,Nervous System
39853,SRR2225789,SRX1321807,SRS1109646,SRP062493,PRJNA293106,Danio rerio Raw sequence reads,PRJNA293106,Metagenomics,Zebrafish Hypoxia RNAseq,,,RNAseq at 48hpf following hypoxia,,48hpf hypoxia,,strain:TU|age:48hpf|sex:not determined|tissue:brain|treatment:hypoxia|BioSampleModel:Model organism or animal,,,,,,,,,Zebrafish Embryonic Development Hypoxia Versus Normoxia RNAseq: Sample       48hpf hypoxia,48hpf.hypoxia.1.10329X6,48hpf.hypoxia.1.10329X6,We collected whole RNA from zebrafish at five different embryonic developmental stages with experimental triplicates for each stage time point and experimental condition.  For hypoxia  we placed developing embryos in pre conditioned media in a sealed plexiglass chamber set to a reduced oxygen concentration for 12 hour periods. Immediately following hypoxia or normoxia embryos were sacrificed and RNA collected.  We used 1% pO2 for ages up to 48 hpf and 4% pO2 for older ages.  At the time point for collection embryos were dissected and only head tissue was used for subsequent RNA preparation.  RNA was prepared with a miRNeasy kit Qiagen. Quality of total RNAs was checked using a NanoDrop 2000 Spectrometer and an Agilent 2100 Bioanalyzer.  The sequencing libraries were created using the Illumina TruSeq Stranded Total RNA Sample Preparation Kit with Ribo Zero. These libraries were sequenced on an Illumina HiSeq2000 sequencer for 50 cycles ie. 50 nucleotides  single end  stranded using Illumina’s version 3 chemistry. 6 samples were multiplexed together in each lane of the sequencer  providing an average yield of 25.1 million reads per sample. The base calling was performed using Illumina’s CASAVA version 1.8.2 software.,,,RNA-Seq,TRANSCRIPTOMIC,RANDOM,SINGLE,ILLUMINA,Illumina HiSeq 2000,<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>50</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>,SRP062493,,,10329X6_130822_SN141_0719_AD2CK5ACXX_4.txt.gz,fastq,1250042950.0,25000859.0,48hpf.hypoxia.1.10329X6,0:50,A:312511165;C:283310381;G:277279378;T:376891744;N:50282,50,,,,312511165,283310381,277279378,376891744,50282,SRX1321807,SRS1109646,SRA289450,University of Utah|Bonkowsky,University of Utah,1,0.94959,,0.28331,,0.68757,,0.53976,,50,,B,,usable mapping rate,illumina,hiseq_era,unknown,random_priming,trueseq,bulk,unknown,unknown,,United States,2015-09-01,Hatching,Embryo,Brain,Nervous System
39854,SRR2225675,SRX1321806,SRS1109650,SRP062493,PRJNA293106,Danio rerio Raw sequence reads,PRJNA293106,Metagenomics,Zebrafish Hypoxia RNAseq,,,RNAseq at 36hpf following normoxia,,36hpf normoxia,,strain:TU|age:36hpf|sex:not determined|tissue:brain|treatment:normoxia|BioSampleModel:Model organism or animal,,,,,,,,,Zebrafish Embryonic Development Hypoxia Versus Normoxia RNAseq: Sample       36hpf normoxia,36hpf.normoxia.1.10329X5,36hpf.normoxia.1.10329X5,We collected whole RNA from zebrafish at five different embryonic developmental stages with experimental triplicates for each stage time point and experimental condition.  For hypoxia  we placed developing embryos in pre conditioned media in a sealed plexiglass chamber set to a reduced oxygen concentration for 12 hour periods. Immediately following hypoxia or normoxia embryos were sacrificed and RNA collected.  We used 1% pO2 for ages up to 48 hpf and 4% pO2 for older ages.  At the time point for collection embryos were dissected and only head tissue was used for subsequent RNA preparation.  RNA was prepared with a miRNeasy kit Qiagen. Quality of total RNAs was checked using a NanoDrop 2000 Spectrometer and an Agilent 2100 Bioanalyzer.  The sequencing libraries were created using the Illumina TruSeq Stranded Total RNA Sample Preparation Kit with Ribo Zero. These libraries were sequenced on an Illumina HiSeq2000 sequencer for 50 cycles ie. 50 nucleotides  single end  stranded using Illumina’s version 3 chemistry. 6 samples were multiplexed together in each lane of the sequencer  providing an average yield of 25.1 million reads per sample. The base calling was performed using Illumina’s CASAVA version 1.8.2 software.,,,RNA-Seq,TRANSCRIPTOMIC,RANDOM,SINGLE,ILLUMINA,Illumina HiSeq 2000,<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>50</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>,SRP062493,,,10329X5_130822_SN141_0719_AD2CK5ACXX_4.txt.gz,fastq,1244744700.0,24894894.0,36hpf.normoxia.1.10329X5,0:50,A:301597123;C:287750990;G:281194881;T:374152417;N:49289,50,,,,301597123,287750990,281194881,374152417,49289,SRX1321806,SRS1109650,SRA289450,University of Utah|Bonkowsky,University of Utah,1,0.95571,,0.22791,,0.71177,,0.53801,,50,,B,,usable mapping rate,illumina,hiseq_era,unknown,random_priming,trueseq,bulk,unknown,unknown,,United States,2015-10-10,Pharyngula,Embryo,Brain,Nervous System
39855,SRR2225572,SRX1321805,SRS1109651,SRP062493,PRJNA293106,Danio rerio Raw sequence reads,PRJNA293106,Metagenomics,Zebrafish Hypoxia RNAseq,,,RNAseq at 24hpf following normoxia,,24hpf normoxia,,strain:TU|age:24hpf|sex:not determined|tissue:brain|treatment:normoxia|BioSampleModel:Model organism or animal,,,,,,,,,Zebrafish Embryonic Development Hypoxia Versus Normoxia RNAseq: Sample       24hpf normoxia,24hpf.normoxia.1.10329X3,24hpf.normoxia.1.10329X3,We collected whole RNA from zebrafish at five different embryonic developmental stages with experimental triplicates for each stage time point and experimental condition.  For hypoxia  we placed developing embryos in pre conditioned media in a sealed plexiglass chamber set to a reduced oxygen concentration for 12 hour periods. Immediately following hypoxia or normoxia embryos were sacrificed and RNA collected.  We used 1% pO2 for ages up to 48 hpf and 4% pO2 for older ages.  At the time point for collection embryos were dissected and only head tissue was used for subsequent RNA preparation.  RNA was prepared with a miRNeasy kit Qiagen. Quality of total RNAs was checked using a NanoDrop 2000 Spectrometer and an Agilent 2100 Bioanalyzer.  The sequencing libraries were created using the Illumina TruSeq Stranded Total RNA Sample Preparation Kit with Ribo Zero. These libraries were sequenced on an Illumina HiSeq2000 sequencer for 50 cycles ie. 50 nucleotides  single end  stranded using Illumina’s version 3 chemistry. 6 samples were multiplexed together in each lane of the sequencer  providing an average yield of 25.1 million reads per sample. The base calling was performed using Illumina’s CASAVA version 1.8.2 software.,,,RNA-Seq,TRANSCRIPTOMIC,RANDOM,SINGLE,ILLUMINA,Illumina HiSeq 2000,<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>50</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>,SRP062493,,,10329X3_130822_SN141_0719_AD2CK5ACXX_4.txt.gz,fastq,1293605500.0,25872110.0,24hpf.normoxia.1.10329X3,0:50,A:310265067;C:296406990;G:295054246;T:391826687;N:52510,50,,,,310265067,296406990,295054246,391826687,52510,SRX1321805,SRS1109651,SRA289450,University of Utah|Bonkowsky,University of Utah,1,0.95596,,0.21907,,0.71512,,0.39029,,50,,B,,usable mapping rate,illumina,hiseq_era,unknown,random_priming,trueseq,bulk,unknown,unknown,,United States,2015-09-01,Pharyngula,Embryo,Brain,Nervous System
39856,SRR2222835,SRX1321804,SRS1109643,SRP062493,PRJNA293106,Danio rerio Raw sequence reads,PRJNA293106,Metagenomics,Zebrafish Hypoxia RNAseq,,,RNAseq at 48hpf following normoxia,,48hpf normoxia,,strain:TU|age:48hpf|sex:not determined|tissue:brain|treatment:normoxia|BioSampleModel:Model organism or animal,,,,,,,,,Zebrafish Embryonic Development Hypoxia Versus Normoxia RNAseq: Sample       48hpf normoxia,48hpf.1.10329X1,48hpf.1.10329X1,We collected whole RNA from zebrafish at five different embryonic developmental stages with experimental triplicates for each stage time point and experimental condition.  For hypoxia  we placed developing embryos in pre conditioned media in a sealed plexiglass chamber set to a reduced oxygen concentration for 12 hour periods. Immediately following hypoxia or normoxia embryos were sacrificed and RNA collected.  We used 1% pO2 for ages up to 48 hpf and 4% pO2 for older ages.  At the time point for collection embryos were dissected and only head tissue was used for subsequent RNA preparation.  RNA was prepared with a miRNeasy kit Qiagen. Quality of total RNAs was checked using a NanoDrop 2000 Spectrometer and an Agilent 2100 Bioanalyzer.  The sequencing libraries were created using the Illumina TruSeq Stranded Total RNA Sample Preparation Kit with Ribo Zero. These libraries were sequenced on an Illumina HiSeq2000 sequencer for 50 cycles ie. 50 nucleotides  single end  stranded using Illumina’s version 3 chemistry. 6 samples were multiplexed together in each lane of the sequencer  providing an average yield of 25.1 million reads per sample. The base calling was performed using Illumina’s CASAVA version 1.8.2 software.,,,RNA-Seq,TRANSCRIPTOMIC,RANDOM,SINGLE,ILLUMINA,Illumina HiSeq 2000,<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>50</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>,SRP062493,,,10329X1_130822_SN141_0719_AD2CK5ACXX_4.txt.gz,fastq,1215136450.0,24302729.0,48hpf.1.10329X1,0:50,A:291802893;C:276442849;G:277217342;T:369624915;N:48451,50,,,,291802893,276442849,277217342,369624915,48451,SRX1321804,SRS1109643,SRA289450,University of Utah|Bonkowsky,University of Utah,1,0.95575,,0.23021,,0.72679,,0.60296,,50,,B,,usable mapping rate,illumina,hiseq_era,unknown,random_priming,trueseq,bulk,unknown,unknown,,United States,2015-09-01,Hatching,Embryo,Brain,Nervous System