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30 rows where experiment.library_selection = "unspecified", experiment.platform = "ILLUMINA" and tissue_curation_coarse = "Cardiovascular System"

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tissue_curation 2

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devstage_curation 2

tissue_curation_coarse 1

  • Cardiovascular System · 30 ✖

technology 1

experiment.platform 1

  • ILLUMINA · 30 ✖

experiment.library_source 1

experiment.library_selection 1

  • unspecified · 30 ✖
Link rowid ▼ run.accession experiment.accession sample.accession study.accession bioproject study.title study.alias study.type study.abstract study.attributes study.PMIDs sample.description sample.title sample.alias sample.centername sample.attributes GEOsample.title GEOsample.dataprocessing GEOsample.source GEOsample.treatmentprotocol GEOsample.extractprotocol GEOsample.growthprotocol GEOsample.characteristics GEOsample.accession experiment.title experiment.alias experiment.library_name experiment.design_description experiment.library_construction_protocol experiment.attributes experiment.library_strategy experiment.library_source experiment.library_selection experiment.library_layout experiment.platform experiment.instrument_model experiment.spot_descriptor experiment.study_ref run.title run.attributes run.filename run.semantic_name run.total_bases run.total_spots run.alias run.read_lengths run.base_counts run.r1_length run.r2_length run.r3_length run.r4_length run.Acount run.Ccount run.Gcount run.Tcount run.Ncount run.experiment run.pool_member submission.accession submission.srasource submission.bioprojectsource seqdetective.n_mates seqdetective.mapping_rate.mate1 seqdetective.mapping_rate.mate2 seqdetective.nofeature_rate.mate1 seqdetective.nofeature_rate.mate2 seqdetective.sparsity.mate1 seqdetective.sparsity.mate2 seqdetective.pos_strand_rate.mate1 seqdetective.pos_strand_rate.mate2 seqdetective.readlen.mate1 seqdetective.readlen.mate2 seqdetective.judgement.mate1 seqdetective.judgement.mate2 seqdetective.judgement.reason platform_family instrument_generation read_bias selection_class prep_kit sc_or_bulk tech_class technology tech_variant submission.bioprojectsource.country earliest_date devstage_curation devstage_curation_coarse tissue_curation tissue_curation_coarse
10056 10056 ERR4691987 ERX4613068 ERS5216074 ERP124560 PRJEB40865 RNA seq of zebrafish adult MCU mutant hearts ena-STUDY-UCLA-16-10-2020-22:30:44:295-390 Other We generated a zebrafish mitochondrial calcium uniporter MCU mutant that is able to survive to maturity but exhibits cardiac function and structure defects. We used RNA seq to help understand the gene expression changes that occur in the adult MCU heart. ENA FIRST PUBLIC:2020 12 10|ENA LAST UPDATE:2020 10 16     zebrafish adult heart RNA SAMEA7457891 UCLA ENA FIRST PUBLIC:2020 12 10T17:06:02Z|ENA LAST UPDATE:2020 10 16T22:30:48Z|External Id:SAMEA7457891|INSDC center name:UCLA|INSDC first public:2020 12 10T17:06:02Z|INSDC last update:2020 10 16T22:30:48Z|INSDC status:public|Submitter Id:mcu mutant 2|common name:zebrafish|dev stage:adult|sample name:mcu mutant 2|scientific name:Danio rerio|tissue type:heart                 Illumina HiSeq 3000 sequencing ena EXPERIMENT UCLA 16 10 2020 22:30:43:819 4 unspecified 1     RNA-Seq TRANSCRIPTOMIC unspecified SINGLE ILLUMINA Illumina HiSeq 3000   ERP124560 Illumina HiSeq 3000 sequencing ENA FIRST PUBLIC:2020 12 10|ENA LAST UPDATE:2020 10 21 MCU_2.fastq.gz fastq 1291626898.0 35072619.0 ena RUN UCLA 16 10 2020 22:30:43:819 4 0:36.83 1:0 A:364596432;C:305716590;G:295397140;T:324498501;N:1418235 36 0     364596432 305716590 295397140 324498501 1418235 ERX4613068 ERS5216074 ERA2987364 European Nucleotide Archive University of California, Los Angeles, USA 1 0.93311   0.08182   0.75852   0.54813   37   B   usable mapping rate illumina hiseq_era unknown unknown unknown bulk unknown unknown   United States 2020-10-16 Adult Adult Heart Cardiovascular System
10057 10057 ERR4691986 ERX4613067 ERS5216073 ERP124560 PRJEB40865 RNA seq of zebrafish adult MCU mutant hearts ena-STUDY-UCLA-16-10-2020-22:30:44:295-390 Other We generated a zebrafish mitochondrial calcium uniporter MCU mutant that is able to survive to maturity but exhibits cardiac function and structure defects. We used RNA seq to help understand the gene expression changes that occur in the adult MCU heart. ENA FIRST PUBLIC:2020 12 10|ENA LAST UPDATE:2020 10 16     zebrafish adult heart RNA SAMEA7457890 UCLA ENA FIRST PUBLIC:2020 12 10T17:06:02Z|ENA LAST UPDATE:2020 10 16T22:30:48Z|External Id:SAMEA7457890|INSDC center name:UCLA|INSDC first public:2020 12 10T17:06:02Z|INSDC last update:2020 10 16T22:30:48Z|INSDC status:public|Submitter Id:mcu mutant 1|common name:zebrafish|dev stage:adult|sample name:mcu mutant 1|scientific name:Danio rerio|tissue type:heart                 Illumina HiSeq 3000 sequencing ena EXPERIMENT UCLA 16 10 2020 22:30:43:819 3 unspecified 1     RNA-Seq TRANSCRIPTOMIC unspecified SINGLE ILLUMINA Illumina HiSeq 3000   ERP124560 Illumina HiSeq 3000 sequencing ENA FIRST PUBLIC:2020 12 10|ENA LAST UPDATE:2020 10 21 MCU_1.fastq.gz fastq 1236033124.0 33559740.0 ena RUN UCLA 16 10 2020 22:30:43:819 3 0:36.83 1:0 A:348518065;C:293502111;G:279181983;T:313506799;N:1324166 36 0     348518065 293502111 279181983 313506799 1324166 ERX4613067 ERS5216073 ERA2987364 European Nucleotide Archive University of California, Los Angeles, USA 1 0.92798   0.07907   0.7697   0.5488   37   B   usable mapping rate illumina hiseq_era unknown unknown unknown bulk unknown unknown   United States 2020-10-16 Adult Adult Heart Cardiovascular System
10058 10058 ERR4691985 ERX4613066 ERS5216072 ERP124560 PRJEB40865 RNA seq of zebrafish adult MCU mutant hearts ena-STUDY-UCLA-16-10-2020-22:30:44:295-390 Other We generated a zebrafish mitochondrial calcium uniporter MCU mutant that is able to survive to maturity but exhibits cardiac function and structure defects. We used RNA seq to help understand the gene expression changes that occur in the adult MCU heart. ENA FIRST PUBLIC:2020 12 10|ENA LAST UPDATE:2020 10 16     zebrafish adult heart RNA SAMEA7457889 UCLA ENA FIRST PUBLIC:2020 12 10T17:06:02Z|ENA LAST UPDATE:2020 10 16T22:30:48Z|External Id:SAMEA7457889|INSDC center name:UCLA|INSDC first public:2020 12 10T17:06:02Z|INSDC last update:2020 10 16T22:30:48Z|INSDC status:public|Submitter Id:wildtype 2|common name:zebrafish|dev stage:adult|sample name:wildtype 2|scientific name:Danio rerio|tissue type:heart                 Illumina HiSeq 3000 sequencing ena EXPERIMENT UCLA 16 10 2020 22:30:43:819 2 unspecified 1     RNA-Seq TRANSCRIPTOMIC unspecified SINGLE ILLUMINA Illumina HiSeq 3000   ERP124560 Illumina HiSeq 3000 sequencing ENA FIRST PUBLIC:2020 12 10|ENA LAST UPDATE:2020 10 21 WT_2.fastq.gz fastq 1180831209.0 32069533.0 ena RUN UCLA 16 10 2020 22:30:43:819 2 0:36.82 1:0 A:328604642;C:281065336;G:278743466;T:291039015;N:1378750 36 0     328604642 281065336 278743466 291039015 1378750 ERX4613066 ERS5216072 ERA2987364 European Nucleotide Archive University of California, Los Angeles, USA 1 0.92319   0.08946   0.75706   0.49996   37   B   usable mapping rate illumina hiseq_era unknown unknown unknown bulk unknown unknown   United States 2020-10-16 Adult Adult Heart Cardiovascular System
10059 10059 ERR4691984 ERX4613065 ERS5216071 ERP124560 PRJEB40865 RNA seq of zebrafish adult MCU mutant hearts ena-STUDY-UCLA-16-10-2020-22:30:44:295-390 Other We generated a zebrafish mitochondrial calcium uniporter MCU mutant that is able to survive to maturity but exhibits cardiac function and structure defects. We used RNA seq to help understand the gene expression changes that occur in the adult MCU heart. ENA FIRST PUBLIC:2020 12 10|ENA LAST UPDATE:2020 10 16     zebrafish adult heart RNA SAMEA7457888 UCLA ENA FIRST PUBLIC:2020 12 10T17:06:02Z|ENA LAST UPDATE:2020 10 16T22:30:48Z|External Id:SAMEA7457888|INSDC center name:UCLA|INSDC first public:2020 12 10T17:06:02Z|INSDC last update:2020 10 16T22:30:48Z|INSDC status:public|Submitter Id:wildtype 1|common name:zebrafish|dev stage:adult|sample name:wildtype 1|scientific name:Danio rerio|tissue type:heart                 Illumina HiSeq 3000 sequencing ena EXPERIMENT UCLA 16 10 2020 22:30:43:819 1 unspecified 1     RNA-Seq TRANSCRIPTOMIC unspecified SINGLE ILLUMINA Illumina HiSeq 3000   ERP124560 Illumina HiSeq 3000 sequencing ENA FIRST PUBLIC:2020 12 10|ENA LAST UPDATE:2020 10 21 WT_1.fastq.gz fastq 1428414407.0 38793098.0 ena RUN UCLA 16 10 2020 22:30:43:819 1 0:36.82 1:0 A:398925739;C:338731211;G:333527196;T:355553981;N:1676280 36 0     398925739 338731211 333527196 355553981 1676280 ERX4613065 ERS5216071 ERA2987364 European Nucleotide Archive University of California, Los Angeles, USA 1 0.92407   0.08758   0.75726   0.4969   37   B   usable mapping rate illumina hiseq_era unknown unknown unknown bulk unknown unknown   United States 2020-10-16 Adult Adult Heart Cardiovascular System
37923 37923 SRR1554489 SRX685394 SRS686642 SRP039502 PRJNA240316 Danio rerio strain:AB Transcriptome or Gene expression PRJNA240316 Transcriptome Analysis Quantifying expression levels of smallRNAs between tissues in Danio Rerio strain AB.   pubmed:24835514     ZF2Heart1   strain:AB|age:Reproductive Adult|biomaterial provider:Postlethwait Lab Institute of Neuroscience 1254 University of Oregon 222 Huestis Hall Eugene OR 97408|sex:male|tissue:Heart|birth location:University of Oregon Fish Facility|collected by:Thomas Desvignes|collection date:2013 10 07|BioSampleModel:Model organism or animal                 Zebrafish Heart2 ZF2Heart2 1 Tissue specific sequencing libraries were prepped and barcoded using the BiooScientific NEXTflex smallRNA Sequencing Kit which uses a 3’ adenylated adapter that ligates onto miRs and other small RNAs with a 3’ hydroxyl group.     miRNA-Seq TRANSCRIPTOMIC unspecified SINGLE ILLUMINA Illumina HiSeq 2500 <SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>101</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR> SRP039502     ZF2_Heart_3.fq.gz fastq 1302765670.0 12898670.0 Heart2 Run3 0:101 A:397689061;C:312745449;G:268626802;T:323141419;N:562939 101       397689061 312745449 268626802 323141419 562939 SRX685394 SRS686642 SRA142461 University of Oregon|JHP-Lab University of Oregon 1 3e-05   2e-05   0.99997   1.0   101   T   under 1.2% mapping rate illumina hiseq_era unknown small_rna unknown bulk unknown unknown   United States 2014-08-22 Adult Adult Heart Cardiovascular System
37927 37927 SRR1554477 SRX685389 SRS566618 SRP039502 PRJNA240316 Danio rerio strain:AB Transcriptome or Gene expression PRJNA240316 Transcriptome Analysis Quantifying expression levels of smallRNAs between tissues in Danio Rerio strain AB.   pubmed:24835514     ZF1Heart1   strain:AB|age:Reproductive Adult|biomaterial provider:Postlethwait Lab Institute of Neuroscience 1254 University of Oregon 222 Huestis Hall Eugene OR 97404|sex:male|tissue:Heart|birth location:University of Oregon Fish Facility|collected by:Thomas Desvignes|collection date:2013 10 07|BioSampleModel:Model organism or animal                 Zebrafish individual 1 heart ZF1Heart2 1 Tissue specific sequencing libraries were prepped and barcoded using the BiooScientific NEXTflex smallRNA Sequencing Kit which uses a 3’ adenylated adapter that ligates onto miRs and other small RNAs with a 3’ hydroxyl group.     miRNA-Seq TRANSCRIPTOMIC unspecified SINGLE ILLUMINA Illumina HiSeq 2500 <SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>101</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR> SRP039502     ZF1_Heart_3.fq.gz fastq 1561371524.0 15459124.0 Heart1 Run3 0:101 A:454757966;C:391143691;G:334715236;T:380114024;N:640607 101       454757966 391143691 334715236 380114024 640607 SRX685389 SRS566618 SRA142461 University of Oregon|JHP-Lab University of Oregon 1 3e-05   2e-05   0.99997   1.0   101   T   under 1.2% mapping rate illumina hiseq_era unknown small_rna unknown bulk unknown unknown   United States 2014-08-22 Adult Adult Heart Cardiovascular System
37933 37933 SRR1554487 SRX683351 SRS686642 SRP039502 PRJNA240316 Danio rerio strain:AB Transcriptome or Gene expression PRJNA240316 Transcriptome Analysis Quantifying expression levels of smallRNAs between tissues in Danio Rerio strain AB.   pubmed:24835514     ZF2Heart1   strain:AB|age:Reproductive Adult|biomaterial provider:Postlethwait Lab Institute of Neuroscience 1254 University of Oregon 222 Huestis Hall Eugene OR 97408|sex:male|tissue:Heart|birth location:University of Oregon Fish Facility|collected by:Thomas Desvignes|collection date:2013 10 07|BioSampleModel:Model organism or animal                 Zebrafish Heart2 ZF2Heart1 1 Tissue specific sequencing libraries were prepped and barcoded using the BiooScientific NEXTflex smallRNA Sequencing Kit which uses a 3’ adenylated adapter that ligates onto miRs and other small RNAs with a 3’ hydroxyl group.     miRNA-Seq TRANSCRIPTOMIC unspecified SINGLE ILLUMINA Illumina HiSeq 2500 <SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>51</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> SRP039502     ZF2_Heart_1.fq.gz fastq 767836212.0 15055612.0 Heart2 Run1 0:51 A:192620363;C:202013249;G:191038597;T:181862075;N:301928 51       192620363 202013249 191038597 181862075 301928 SRX683351 SRS686642 SRA142461 University of Oregon|JHP-Lab University of Oregon 1 5e-05   3e-05   0.99995   1.0   51   T   under 1.2% mapping rate illumina hiseq_era unknown small_rna unknown bulk unknown unknown   United States 2014-08-22 Adult Adult Heart Cardiovascular System
37934 37934 SRR1554488 SRX683351 SRS686642 SRP039502 PRJNA240316 Danio rerio strain:AB Transcriptome or Gene expression PRJNA240316 Transcriptome Analysis Quantifying expression levels of smallRNAs between tissues in Danio Rerio strain AB.   pubmed:24835514     ZF2Heart1   strain:AB|age:Reproductive Adult|biomaterial provider:Postlethwait Lab Institute of Neuroscience 1254 University of Oregon 222 Huestis Hall Eugene OR 97408|sex:male|tissue:Heart|birth location:University of Oregon Fish Facility|collected by:Thomas Desvignes|collection date:2013 10 07|BioSampleModel:Model organism or animal                 Zebrafish Heart2 ZF2Heart1 1 Tissue specific sequencing libraries were prepped and barcoded using the BiooScientific NEXTflex smallRNA Sequencing Kit which uses a 3’ adenylated adapter that ligates onto miRs and other small RNAs with a 3’ hydroxyl group.     miRNA-Seq TRANSCRIPTOMIC unspecified SINGLE ILLUMINA Illumina HiSeq 2500 <SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>51</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> SRP039502     ZF2_Heart_2.fq.gz fastq 979886205.0 19213455.0 Heart2 Run2 0:51 A:246169086;C:264387065;G:236377487;T:227289693;N:5662874 51       246169086 264387065 236377487 227289693 5662874 SRX683351 SRS686642 SRA142461 University of Oregon|JHP-Lab University of Oregon 1 2e-05   0.0   1.0       51   T   under 1.2% mapping rate illumina hiseq_era unknown small_rna unknown bulk unknown unknown   United States 2014-08-22 Adult Adult Heart Cardiovascular System
37941 37941 SRR1554475 SRX482035 SRS566618 SRP039502 PRJNA240316 Danio rerio strain:AB Transcriptome or Gene expression PRJNA240316 Transcriptome Analysis Quantifying expression levels of smallRNAs between tissues in Danio Rerio strain AB.   pubmed:24835514     ZF1Heart1   strain:AB|age:Reproductive Adult|biomaterial provider:Postlethwait Lab Institute of Neuroscience 1254 University of Oregon 222 Huestis Hall Eugene OR 97404|sex:male|tissue:Heart|birth location:University of Oregon Fish Facility|collected by:Thomas Desvignes|collection date:2013 10 07|BioSampleModel:Model organism or animal                 Zebrafish individual 1 heart ZF1Heart1 1 Tissue specific sequencing libraries were prepped and barcoded using the BiooScientific NEXTflex smallRNA Sequencing Kit which uses a 3’ adenylated adapter that ligates onto miRs and other small RNAs with a 3’ hydroxyl group.     miRNA-Seq TRANSCRIPTOMIC unspecified SINGLE ILLUMINA Illumina HiSeq 2500 <SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>51</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> SRP039502     ZF1_Heart_1.fq.gz fastq 810162642.0 15885542.0 Heart1 Run1 0:51 A:199665102;C:213941735;G:204361738;T:191870055;N:324012 51       199665102 213941735 204361738 191870055 324012 SRX482035 SRS566618 SRA142461 University of Oregon|JHP-Lab University of Oregon 1 6e-05   1e-05   0.99989   0.8   51   T   under 1.2% mapping rate illumina hiseq_era unknown small_rna unknown bulk unknown unknown   United States 2014-08-22 Adult Adult Heart Cardiovascular System
37942 37942 SRR1554476 SRX482035 SRS566618 SRP039502 PRJNA240316 Danio rerio strain:AB Transcriptome or Gene expression PRJNA240316 Transcriptome Analysis Quantifying expression levels of smallRNAs between tissues in Danio Rerio strain AB.   pubmed:24835514     ZF1Heart1   strain:AB|age:Reproductive Adult|biomaterial provider:Postlethwait Lab Institute of Neuroscience 1254 University of Oregon 222 Huestis Hall Eugene OR 97404|sex:male|tissue:Heart|birth location:University of Oregon Fish Facility|collected by:Thomas Desvignes|collection date:2013 10 07|BioSampleModel:Model organism or animal                 Zebrafish individual 1 heart ZF1Heart1 1 Tissue specific sequencing libraries were prepped and barcoded using the BiooScientific NEXTflex smallRNA Sequencing Kit which uses a 3’ adenylated adapter that ligates onto miRs and other small RNAs with a 3’ hydroxyl group.     miRNA-Seq TRANSCRIPTOMIC unspecified SINGLE ILLUMINA Illumina HiSeq 2500 <SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>51</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> SRP039502     ZF1_Heart_2.fq.gz fastq 1013563698.0 19873798.0 Heart1 Run2 0:51 A:249913434;C:275453651;G:247166233;T:235034199;N:5996181 51       249913434 275453651 247166233 235034199 5996181 SRX482035 SRS566618 SRA142461 University of Oregon|JHP-Lab University of Oregon 1 4e-05   2e-05   0.99997   0.0   51   T   under 1.2% mapping rate illumina hiseq_era unknown small_rna unknown bulk unknown unknown   United States 2014-08-22 Adult Adult Heart Cardiovascular System
39824 39824 SRR2168748 SRX1153634 SRS1036568 SRP062468 PRJNA293022 Danio rerio heart chamber specific transcriptome PRJNA293022 Whole Genome Sequencing Chamber specific transcriptome of zebrafish namely atrium ventricle and bulbus arteriosus         ASWT Heart chamber transcriptome   breed:ASWT|age:2 years|dev stage:Adult|sex:not applicable|tissue:Heart Chambers|BioSampleModel:Model organism or animal                 Zebrafish ASWT heart bulbus arteriosus transcriptome Zebrafish bulbus arteriosus Bulbus arteriosus 1     RNA-Seq TRANSCRIPTOMIC unspecified PAIRED ILLUMINA Illumina HiSeq 2500 <SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>202</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>102</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR> SRP062468     ZFBulbouse_cat_R1.fastq.gz ZFBulbouse_cat_R2.fastq.gz fastq fastq 31137941450.0 154148225.0 Zebrafish bulbus arteriosus 0:101 1:101 A:8841038901;C:6663109706;G:6831238323;T:8799856408;N:2698112 101 101     8841038901 6663109706 6831238323 8799856408 2698112 SRX1153634 SRS1036568 SRA289351 CSIR-IGIB CSIR- Institute of Genomics and Integrative Biology 2 0.81876 0.77794 0.54672 0.51003 0.7162 0.72752 0.54114 0.5421 101 101 B B biological fallback assumption illumina hiseq_era unknown unknown unknown bulk unknown unknown   India 2016-03-01 Adult Adult Heart Cardiovascular System
39825 39825 SRR2168740 SRX1153633 SRS1036568 SRP062468 PRJNA293022 Danio rerio heart chamber specific transcriptome PRJNA293022 Whole Genome Sequencing Chamber specific transcriptome of zebrafish namely atrium ventricle and bulbus arteriosus         ASWT Heart chamber transcriptome   breed:ASWT|age:2 years|dev stage:Adult|sex:not applicable|tissue:Heart Chambers|BioSampleModel:Model organism or animal                 Zebrafish ASWT atrium specific transcriptome Zebrafish Atrium Atrium 1     RNA-Seq TRANSCRIPTOMIC unspecified PAIRED ILLUMINA Illumina HiSeq 2500 <SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>202</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>102</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR> SRP062468     ZFAtrium_GTGAAA_L006_cat_R2.fastq.gz ZFAtrium_GTGAAA_L006_cat_R1.fastq.gz fastq fastq 28208507150.0 139646075.0 Zebrafish Atrium 0:101 1:101 A:8151737615;C:5894384726;G:6027846905;T:8129189369;N:5348535 101 101     8151737615 5894384726 6027846905 8129189369 5348535 SRX1153633 SRS1036568 SRA289351 CSIR-IGIB CSIR- Institute of Genomics and Integrative Biology 2 0.83701 0.79433 0.58576 0.54496 0.72486 0.73766 0.55105 0.54713 101 101 B B biological fallback assumption illumina hiseq_era unknown unknown unknown bulk unknown unknown   India 2015-09-08 Adult Adult Heart Cardiovascular System
39826 39826 SRR2168750 SRX1153632 SRS1036568 SRP062468 PRJNA293022 Danio rerio heart chamber specific transcriptome PRJNA293022 Whole Genome Sequencing Chamber specific transcriptome of zebrafish namely atrium ventricle and bulbus arteriosus         ASWT Heart chamber transcriptome   breed:ASWT|age:2 years|dev stage:Adult|sex:not applicable|tissue:Heart Chambers|BioSampleModel:Model organism or animal                 Zebrafish Ventricle chamber specific transcriptome Zebrafish Ventricle chamber specific transcriptome Ventricle 1     RNA-Seq TRANSCRIPTOMIC unspecified PAIRED ILLUMINA Illumina HiSeq 2500 <SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>202</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>102</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR> SRP062468     ZFVentricle_cat_R2.fastq.gz ZFVentricle_cat_R1.fastq.gz fastq fastq 30913187362.0 153035581.0 Zebrafish Ventricle chamber specific transcriptome 0:101 1:101 A:8230747947;C:7230918780;G:7381253230;T:8066864305;N:3403100 101 101     8230747947 7230918780 7381253230 8066864305 3403100 SRX1153632 SRS1036568 SRA289351 CSIR-IGIB CSIR- Institute of Genomics and Integrative Biology 2 0.92213 0.91404 0.22257 0.21715 0.76761 0.77193 0.54625 0.54332 101 101 B B biological fallback assumption illumina hiseq_era unknown unknown unknown bulk unknown unknown   India 2016-03-01 Adult Adult Heart Cardiovascular System
41827 41827 SRR5251446 SRX2557171 SRS1974564 SRP099466 PRJNA374579 microRNAs Establish Uniform Traits during the Architecture of Vertebrate Embryos PRJNA374579 Other Proper functioning of an organism requires cells and tissues to behave in uniform well organized ways. How this optimum of phenotypes is achieved during the development of vertebrates is unclear. Here we carried out a multifaceted and single cell resolution screen of zebrafish embryonic blood vessels upon mutagenesis of single and multi gene miRNA families. We found that embryos lacking particular miRNA dependent signaling pathways develop a vascular trait similar to wild type but with a profound increase in phenotypic heterogeneity. Aberrant trait variance in miRNA mutant embryos uniquely sensitizes their vascular system to environmental perturbations. We uncovered a previously unrecognized role for specific vertebrate miRNAs to protect tissue development against phenotypic variability. This discovery marks an important advance in our comprehension of how miRNAs function in the development of higher organisms.       QuantSeq mutant miRNAs WT miR139 B1 nicoli mutmir AG01645   strain:TU/AB|age:27.0|sex:pooled male and female|tissue:endothelial cells|molecule:mRNA|condition:miR 139|replicate:1|BioSampleModel:Model organism or animal                 QuantSeq mutant miRNAs WT miR139 B1 AG01645.1 AG01645.1 1     OTHER TRANSCRIPTOMIC unspecified SINGLE ILLUMINA Illumina HiSeq 2000   SRP099466     AG01645.1_R1.fastq.gz fastq 1574284140.0 20714265.0 AG01645.1 R1.fastq.gz 0:76 A:485471345;C:270854124;G:374164721;T:443766613;N:27337 76       485471345 270854124 374164721 443766613 27337 SRX2557171 SRS1974564 SRA537606 Yale University|Genetics Yale University 1 0.82142   0.14068   0.8002   0.5444   76   B   usable mapping rate illumina hiseq_era unknown small_rna lexogen bulk unknown unknown   United States 2017-03-27 Undetermined Embryo Endothelium Cardiovascular System
41828 41828 SRR5251445 SRX2557170 SRS1974563 SRP099466 PRJNA374579 microRNAs Establish Uniform Traits during the Architecture of Vertebrate Embryos PRJNA374579 Other Proper functioning of an organism requires cells and tissues to behave in uniform well organized ways. How this optimum of phenotypes is achieved during the development of vertebrates is unclear. Here we carried out a multifaceted and single cell resolution screen of zebrafish embryonic blood vessels upon mutagenesis of single and multi gene miRNA families. We found that embryos lacking particular miRNA dependent signaling pathways develop a vascular trait similar to wild type but with a profound increase in phenotypic heterogeneity. Aberrant trait variance in miRNA mutant embryos uniquely sensitizes their vascular system to environmental perturbations. We uncovered a previously unrecognized role for specific vertebrate miRNAs to protect tissue development against phenotypic variability. This discovery marks an important advance in our comprehension of how miRNAs function in the development of higher organisms.       QuantSeq mutant miRNAs WT miR139 B2 nicoli mutmir AG01646   strain:TU/AB|age:27.0|sex:pooled male and female|tissue:endothelial cells|molecule:mRNA|condition:miR 139|replicate:2|BioSampleModel:Model organism or animal                 QuantSeq mutant miRNAs WT miR139 B2 AG01646.1 AG01646.1 1     OTHER TRANSCRIPTOMIC unspecified SINGLE ILLUMINA Illumina HiSeq 2000   SRP099466     AG01646.1_R1.fastq.gz fastq 1484740104.0 19536054.0 AG01646.1 R1.fastq.gz 0:76 A:453388316;C:246477203;G:365031959;T:419816346;N:26280 76       453388316 246477203 365031959 419816346 26280 SRX2557170 SRS1974563 SRA537606 Yale University|Genetics Yale University 1 0.82649   0.1897   0.79862   0.52759   76   B   usable mapping rate illumina hiseq_era unknown small_rna lexogen bulk unknown unknown   United States 2017-03-28 Undetermined Embryo Endothelium Cardiovascular System
41829 41829 SRR5251444 SRX2557169 SRS1974562 SRP099466 PRJNA374579 microRNAs Establish Uniform Traits during the Architecture of Vertebrate Embryos PRJNA374579 Other Proper functioning of an organism requires cells and tissues to behave in uniform well organized ways. How this optimum of phenotypes is achieved during the development of vertebrates is unclear. Here we carried out a multifaceted and single cell resolution screen of zebrafish embryonic blood vessels upon mutagenesis of single and multi gene miRNA families. We found that embryos lacking particular miRNA dependent signaling pathways develop a vascular trait similar to wild type but with a profound increase in phenotypic heterogeneity. Aberrant trait variance in miRNA mutant embryos uniquely sensitizes their vascular system to environmental perturbations. We uncovered a previously unrecognized role for specific vertebrate miRNAs to protect tissue development against phenotypic variability. This discovery marks an important advance in our comprehension of how miRNAs function in the development of higher organisms.       QuantSeq mutant miRNAs WT miR139 B3 nicoli mutmir AG01647   strain:TU/AB|age:27.0|sex:pooled male and female|tissue:endothelial cells|molecule:mRNA|condition:miR 139|replicate:3|BioSampleModel:Model organism or animal                 QuantSeq mutant miRNAs WT miR139 B3 AG01647.1 AG01647.1 1     OTHER TRANSCRIPTOMIC unspecified SINGLE ILLUMINA Illumina HiSeq 2000   SRP099466     AG01647.1_R1.fastq.gz fastq 881298660.0 11596035.0 AG01647.1 R1.fastq.gz 0:76 A:270675838;C:160127586;G:228157662;T:222301246;N:36328 76       270675838 160127586 228157662 222301246 36328 SRX2557169 SRS1974562 SRA537606 Yale University|Genetics Yale University 1 0.76133   0.15034   0.83341   0.56596   76   B   usable mapping rate illumina hiseq_era unknown small_rna lexogen bulk unknown unknown   United States 2017-03-28 Undetermined Embryo Endothelium Cardiovascular System
41830 41830 SRR5251443 SRX2557168 SRS1974561 SRP099466 PRJNA374579 microRNAs Establish Uniform Traits during the Architecture of Vertebrate Embryos PRJNA374579 Other Proper functioning of an organism requires cells and tissues to behave in uniform well organized ways. How this optimum of phenotypes is achieved during the development of vertebrates is unclear. Here we carried out a multifaceted and single cell resolution screen of zebrafish embryonic blood vessels upon mutagenesis of single and multi gene miRNA families. We found that embryos lacking particular miRNA dependent signaling pathways develop a vascular trait similar to wild type but with a profound increase in phenotypic heterogeneity. Aberrant trait variance in miRNA mutant embryos uniquely sensitizes their vascular system to environmental perturbations. We uncovered a previously unrecognized role for specific vertebrate miRNAs to protect tissue development against phenotypic variability. This discovery marks an important advance in our comprehension of how miRNAs function in the development of higher organisms.       QuantSeq mutant miRNAs Mut miR139 B1 nicoli mutmir AG01648   strain:TU/AB|age:27.0|sex:pooled male and female|tissue:endothelial cells|genotype:miR 139 ya302/ya302|molecule:mRNA|condition:miR 139|replicate:1|BioSampleModel:Model organism or animal                 QuantSeq mutant miRNAs Mut miR139 B1 AG01648.1 AG01648.1 1     OTHER TRANSCRIPTOMIC unspecified SINGLE ILLUMINA Illumina HiSeq 2000   SRP099466     AG01648.1_R1.fastq.gz fastq 637896880.0 8393380.0 AG01648.1 R1.fastq.gz 0:76 A:192829278;C:112701153;G:153321271;T:179019095;N:26083 76       192829278 112701153 153321271 179019095 26083 SRX2557168 SRS1974561 SRA537606 Yale University|Genetics Yale University 1 0.75971   0.1181   0.82171   0.56797   76   B   usable mapping rate illumina hiseq_era unknown small_rna lexogen bulk unknown unknown   United States 2017-03-28 Undetermined Embryo Endothelium Cardiovascular System
41831 41831 SRR5251442 SRX2557167 SRS1974560 SRP099466 PRJNA374579 microRNAs Establish Uniform Traits during the Architecture of Vertebrate Embryos PRJNA374579 Other Proper functioning of an organism requires cells and tissues to behave in uniform well organized ways. How this optimum of phenotypes is achieved during the development of vertebrates is unclear. Here we carried out a multifaceted and single cell resolution screen of zebrafish embryonic blood vessels upon mutagenesis of single and multi gene miRNA families. We found that embryos lacking particular miRNA dependent signaling pathways develop a vascular trait similar to wild type but with a profound increase in phenotypic heterogeneity. Aberrant trait variance in miRNA mutant embryos uniquely sensitizes their vascular system to environmental perturbations. We uncovered a previously unrecognized role for specific vertebrate miRNAs to protect tissue development against phenotypic variability. This discovery marks an important advance in our comprehension of how miRNAs function in the development of higher organisms.       QuantSeq mutant miRNAs Mut miR139 B2 nicoli mutmir AG01649   strain:TU/AB|age:27.0|sex:pooled male and female|tissue:endothelial cells|genotype:miR 139 ya302/ya302|molecule:mRNA|condition:miR 139|replicate:2|BioSampleModel:Model organism or animal                 QuantSeq mutant miRNAs Mut miR139 B2 AG01649.1 AG01649.1 1     OTHER TRANSCRIPTOMIC unspecified SINGLE ILLUMINA Illumina HiSeq 2000   SRP099466     AG01649.1_R1.fastq.gz fastq 849868328.0 11182478.0 AG01649.1 R1.fastq.gz 0:76 A:258225905;C:148467172;G:205165181;T:237974100;N:35970 76       258225905 148467172 205165181 237974100 35970 SRX2557167 SRS1974560 SRA537606 Yale University|Genetics Yale University 1 0.75096   0.14506   0.81507   0.5545   76   B   usable mapping rate illumina hiseq_era unknown small_rna lexogen bulk unknown unknown   United States 2017-03-28 Undetermined Embryo Endothelium Cardiovascular System
41832 41832 SRR5251441 SRX2557166 SRS1974559 SRP099466 PRJNA374579 microRNAs Establish Uniform Traits during the Architecture of Vertebrate Embryos PRJNA374579 Other Proper functioning of an organism requires cells and tissues to behave in uniform well organized ways. How this optimum of phenotypes is achieved during the development of vertebrates is unclear. Here we carried out a multifaceted and single cell resolution screen of zebrafish embryonic blood vessels upon mutagenesis of single and multi gene miRNA families. We found that embryos lacking particular miRNA dependent signaling pathways develop a vascular trait similar to wild type but with a profound increase in phenotypic heterogeneity. Aberrant trait variance in miRNA mutant embryos uniquely sensitizes their vascular system to environmental perturbations. We uncovered a previously unrecognized role for specific vertebrate miRNAs to protect tissue development against phenotypic variability. This discovery marks an important advance in our comprehension of how miRNAs function in the development of higher organisms.       QuantSeq mutant miRNAs Mut miR139 B3 nicoli mutmir AG01650   strain:TU/AB|age:27.0|sex:pooled male and female|tissue:endothelial cells|genotype:miR 139 ya302/ya302|molecule:mRNA|condition:miR 139|replicate:3|BioSampleModel:Model organism or animal                 QuantSeq mutant miRNAs Mut miR139 B3 AG01650.1 AG01650.1 1     OTHER TRANSCRIPTOMIC unspecified SINGLE ILLUMINA Illumina HiSeq 2000   SRP099466     AG01650.1_R1.fastq.gz fastq 998464668.0 13137693.0 AG01650.1 R1.fastq.gz 0:76 A:311526420;C:176545041;G:251852786;T:258497630;N:42791 76       311526420 176545041 251852786 258497630 42791 SRX2557166 SRS1974559 SRA537606 Yale University|Genetics Yale University 1 0.76479   0.11192   0.82674   0.54621   76   B   usable mapping rate illumina hiseq_era unknown small_rna lexogen bulk unknown unknown   United States 2017-03-28 Undetermined Embryo Endothelium Cardiovascular System
41833 41833 SRR5251440 SRX2557165 SRS1974558 SRP099466 PRJNA374579 microRNAs Establish Uniform Traits during the Architecture of Vertebrate Embryos PRJNA374579 Other Proper functioning of an organism requires cells and tissues to behave in uniform well organized ways. How this optimum of phenotypes is achieved during the development of vertebrates is unclear. Here we carried out a multifaceted and single cell resolution screen of zebrafish embryonic blood vessels upon mutagenesis of single and multi gene miRNA families. We found that embryos lacking particular miRNA dependent signaling pathways develop a vascular trait similar to wild type but with a profound increase in phenotypic heterogeneity. Aberrant trait variance in miRNA mutant embryos uniquely sensitizes their vascular system to environmental perturbations. We uncovered a previously unrecognized role for specific vertebrate miRNAs to protect tissue development against phenotypic variability. This discovery marks an important advance in our comprehension of how miRNAs function in the development of higher organisms.       QuantSeq mutant miRNAs WT miR24 B1 nicoli mutmir AG01651   strain:TU/AB|age:51.0|sex:pooled male and female|tissue:endothelial cells|molecule:mRNA|condition:miR 24|replicate:1|BioSampleModel:Model organism or animal                 QuantSeq mutant miRNAs WT miR24 B1 AG01651.1 AG01651.1 1     OTHER TRANSCRIPTOMIC unspecified SINGLE ILLUMINA Illumina HiSeq 2000   SRP099466     AG01651.1_R1.fastq.gz fastq 570492252.0 7506477.0 AG01651.1 R1.fastq.gz 0:76 A:162512811;C:104071716;G:135730697;T:168149427;N:27601 76       162512811 104071716 135730697 168149427 27601 SRX2557165 SRS1974558 SRA537606 Yale University|Genetics Yale University 1 0.73988   0.10157   0.86647   0.54252   76   B   usable mapping rate illumina hiseq_era unknown small_rna lexogen bulk unknown unknown   United States 2017-03-28 Undetermined Embryo Endothelium Cardiovascular System
41834 41834 SRR5251439 SRX2557164 SRS1974557 SRP099466 PRJNA374579 microRNAs Establish Uniform Traits during the Architecture of Vertebrate Embryos PRJNA374579 Other Proper functioning of an organism requires cells and tissues to behave in uniform well organized ways. How this optimum of phenotypes is achieved during the development of vertebrates is unclear. Here we carried out a multifaceted and single cell resolution screen of zebrafish embryonic blood vessels upon mutagenesis of single and multi gene miRNA families. We found that embryos lacking particular miRNA dependent signaling pathways develop a vascular trait similar to wild type but with a profound increase in phenotypic heterogeneity. Aberrant trait variance in miRNA mutant embryos uniquely sensitizes their vascular system to environmental perturbations. We uncovered a previously unrecognized role for specific vertebrate miRNAs to protect tissue development against phenotypic variability. This discovery marks an important advance in our comprehension of how miRNAs function in the development of higher organisms.       QuantSeq mutant miRNAs WT miR24 B2 nicoli mutmir AG01652   strain:TU/AB|age:51.0|sex:pooled male and female|tissue:endothelial cells|molecule:mRNA|condition:miR 24|replicate:2|BioSampleModel:Model organism or animal                 QuantSeq mutant miRNAs WT miR24 B2 AG01652.1 AG01652.1 1     OTHER TRANSCRIPTOMIC unspecified SINGLE ILLUMINA Illumina HiSeq 2000   SRP099466     AG01652.1_R1.fastq.gz fastq 1072886148.0 14116923.0 AG01652.1 R1.fastq.gz 0:76 A:338399596;C:192703439;G:242960887;T:298769761;N:52465 76       338399596 192703439 242960887 298769761 52465 SRX2557164 SRS1974557 SRA537606 Yale University|Genetics Yale University 1 0.76456   0.11024   0.89197   0.59214   76   B   usable mapping rate illumina hiseq_era unknown small_rna lexogen bulk unknown unknown   United States 2017-03-28 Undetermined Embryo Endothelium Cardiovascular System
41835 41835 SRR5251438 SRX2557163 SRS1974556 SRP099466 PRJNA374579 microRNAs Establish Uniform Traits during the Architecture of Vertebrate Embryos PRJNA374579 Other Proper functioning of an organism requires cells and tissues to behave in uniform well organized ways. How this optimum of phenotypes is achieved during the development of vertebrates is unclear. Here we carried out a multifaceted and single cell resolution screen of zebrafish embryonic blood vessels upon mutagenesis of single and multi gene miRNA families. We found that embryos lacking particular miRNA dependent signaling pathways develop a vascular trait similar to wild type but with a profound increase in phenotypic heterogeneity. Aberrant trait variance in miRNA mutant embryos uniquely sensitizes their vascular system to environmental perturbations. We uncovered a previously unrecognized role for specific vertebrate miRNAs to protect tissue development against phenotypic variability. This discovery marks an important advance in our comprehension of how miRNAs function in the development of higher organisms.       QuantSeq mutant miRNAs WT miR24 B3 nicoli mutmir AG01653   strain:TU/AB|age:51.0|sex:pooled male and female|tissue:endothelial cells|molecule:mRNA|condition:miR 24|replicate:3|BioSampleModel:Model organism or animal                 QuantSeq mutant miRNAs WT miR24 B3 AG01653.1 AG01653.1 1     OTHER TRANSCRIPTOMIC unspecified SINGLE ILLUMINA Illumina HiSeq 2000   SRP099466     AG01653.1_R1.fastq.gz fastq 1016374144.0 13373344.0 AG01653.1 R1.fastq.gz 0:76 A:310958343;C:168702106;G:223420046;T:313241363;N:52286 76       310958343 168702106 223420046 313241363 52286 SRX2557163 SRS1974556 SRA537606 Yale University|Genetics Yale University 1 0.75735   0.12224   0.79756   0.55136   76   B   usable mapping rate illumina hiseq_era unknown small_rna lexogen bulk unknown unknown   United States 2017-02-13 Undetermined Embryo Endothelium Cardiovascular System
41836 41836 SRR5251437 SRX2557162 SRS1974555 SRP099466 PRJNA374579 microRNAs Establish Uniform Traits during the Architecture of Vertebrate Embryos PRJNA374579 Other Proper functioning of an organism requires cells and tissues to behave in uniform well organized ways. How this optimum of phenotypes is achieved during the development of vertebrates is unclear. Here we carried out a multifaceted and single cell resolution screen of zebrafish embryonic blood vessels upon mutagenesis of single and multi gene miRNA families. We found that embryos lacking particular miRNA dependent signaling pathways develop a vascular trait similar to wild type but with a profound increase in phenotypic heterogeneity. Aberrant trait variance in miRNA mutant embryos uniquely sensitizes their vascular system to environmental perturbations. We uncovered a previously unrecognized role for specific vertebrate miRNAs to protect tissue development against phenotypic variability. This discovery marks an important advance in our comprehension of how miRNAs function in the development of higher organisms.       QuantSeq mutant miRNAs Mut miR24 B1 nicoli mutmir AG01654   strain:TU/AB|age:51.0|sex:pooled male and female|tissue:endothelial cells|genotype:miR 24 ya324/? ya325/? ya326/? ya327/?|molecule:mRNA|condition:miR 24|replicate:1|BioSampleModel:Model organism or animal                 QuantSeq mutant miRNAs Mut miR24 B1 AG01654.1 AG01654.1 1     OTHER TRANSCRIPTOMIC unspecified SINGLE ILLUMINA Illumina HiSeq 2000   SRP099466     AG01654.1_R1.fastq.gz fastq 782170112.0 10291712.0 AG01654.1 R1.fastq.gz 0:76 A:238316720;C:132163709;G:179301544;T:232350598;N:37541 76       238316720 132163709 179301544 232350598 37541 SRX2557162 SRS1974555 SRA537606 Yale University|Genetics Yale University 1 0.7683   0.10712   0.80034   0.55804   76   B   usable mapping rate illumina hiseq_era unknown small_rna lexogen bulk unknown unknown   United States 2017-03-28 Undetermined Embryo Endothelium Cardiovascular System
41837 41837 SRR5251436 SRX2557161 SRS1974554 SRP099466 PRJNA374579 microRNAs Establish Uniform Traits during the Architecture of Vertebrate Embryos PRJNA374579 Other Proper functioning of an organism requires cells and tissues to behave in uniform well organized ways. How this optimum of phenotypes is achieved during the development of vertebrates is unclear. Here we carried out a multifaceted and single cell resolution screen of zebrafish embryonic blood vessels upon mutagenesis of single and multi gene miRNA families. We found that embryos lacking particular miRNA dependent signaling pathways develop a vascular trait similar to wild type but with a profound increase in phenotypic heterogeneity. Aberrant trait variance in miRNA mutant embryos uniquely sensitizes their vascular system to environmental perturbations. We uncovered a previously unrecognized role for specific vertebrate miRNAs to protect tissue development against phenotypic variability. This discovery marks an important advance in our comprehension of how miRNAs function in the development of higher organisms.       QuantSeq mutant miRNAs Mut miR24 B2 nicoli mutmir AG01655   strain:TU/AB|age:51.0|sex:pooled male and female|tissue:endothelial cells|genotype:miR 24 ya324/? ya325/? ya326/? ya327/?|molecule:mRNA|condition:miR 24|replicate:2|BioSampleModel:Model organism or animal                 QuantSeq mutant miRNAs Mut miR24 B2 AG01655.1 AG01655.1 1     OTHER TRANSCRIPTOMIC unspecified SINGLE ILLUMINA Illumina HiSeq 2000   SRP099466     AG01655.1_R1.fastq.gz fastq 1053946340.0 13867715.0 AG01655.1 R1.fastq.gz 0:76 A:318351311;C:191163031;G:240348413;T:304030367;N:53218 76       318351311 191163031 240348413 304030367 53218 SRX2557161 SRS1974554 SRA537606 Yale University|Genetics Yale University 1 0.77588   0.07983   0.83934   0.56228   76   B   usable mapping rate illumina hiseq_era unknown small_rna lexogen bulk unknown unknown   United States 2017-03-28 Undetermined Embryo Endothelium Cardiovascular System
41838 41838 SRR5251435 SRX2557160 SRS1974553 SRP099466 PRJNA374579 microRNAs Establish Uniform Traits during the Architecture of Vertebrate Embryos PRJNA374579 Other Proper functioning of an organism requires cells and tissues to behave in uniform well organized ways. How this optimum of phenotypes is achieved during the development of vertebrates is unclear. Here we carried out a multifaceted and single cell resolution screen of zebrafish embryonic blood vessels upon mutagenesis of single and multi gene miRNA families. We found that embryos lacking particular miRNA dependent signaling pathways develop a vascular trait similar to wild type but with a profound increase in phenotypic heterogeneity. Aberrant trait variance in miRNA mutant embryos uniquely sensitizes their vascular system to environmental perturbations. We uncovered a previously unrecognized role for specific vertebrate miRNAs to protect tissue development against phenotypic variability. This discovery marks an important advance in our comprehension of how miRNAs function in the development of higher organisms.       QuantSeq mutant miRNAs Mut miR24 B3 nicoli mutmir AG01656   strain:TU/AB|age:51.0|sex:pooled male and female|tissue:endothelial cells|genotype:miR 24 ya324/? ya325/? ya326/? ya327/?|molecule:mRNA|condition:miR 24|replicate:3|BioSampleModel:Model organism or animal                 QuantSeq mutant miRNAs Mut miR24 B3 AG01656.1 AG01656.1 1     OTHER TRANSCRIPTOMIC unspecified SINGLE ILLUMINA Illumina HiSeq 2000   SRP099466     AG01656.1_R1.fastq.gz fastq 1182467736.0 15558786.0 AG01656.1 R1.fastq.gz 0:76 A:344465226;C:204677242;G:269228338;T:364036735;N:60195 76       344465226 204677242 269228338 364036735 60195 SRX2557160 SRS1974553 SRA537606 Yale University|Genetics Yale University 1 0.78956   0.13495   0.81517   0.56342   76   B   usable mapping rate illumina hiseq_era unknown small_rna lexogen bulk unknown unknown   United States 2017-02-13 Undetermined Embryo Endothelium Cardiovascular System
41839 41839 SRR5251434 SRX2557159 SRS1974552 SRP099466 PRJNA374579 microRNAs Establish Uniform Traits during the Architecture of Vertebrate Embryos PRJNA374579 Other Proper functioning of an organism requires cells and tissues to behave in uniform well organized ways. How this optimum of phenotypes is achieved during the development of vertebrates is unclear. Here we carried out a multifaceted and single cell resolution screen of zebrafish embryonic blood vessels upon mutagenesis of single and multi gene miRNA families. We found that embryos lacking particular miRNA dependent signaling pathways develop a vascular trait similar to wild type but with a profound increase in phenotypic heterogeneity. Aberrant trait variance in miRNA mutant embryos uniquely sensitizes their vascular system to environmental perturbations. We uncovered a previously unrecognized role for specific vertebrate miRNAs to protect tissue development against phenotypic variability. This discovery marks an important advance in our comprehension of how miRNAs function in the development of higher organisms.       QuantSeq mutant miRNAs WT miR223 B1 nicoli mutmir AG01657   strain:TU/AB|age:27.0|sex:pooled male and female|tissue:endothelial cells|molecule:mRNA|condition:miR 223|replicate:1|BioSampleModel:Model organism or animal                 QuantSeq mutant miRNAs WT miR223 B1 AG01657.1 AG01657.1 1     OTHER TRANSCRIPTOMIC unspecified SINGLE ILLUMINA Illumina HiSeq 2000   SRP099466     AG01657.1_R1.fastq.gz fastq 536336712.0 7057062.0 AG01657.1 R1.fastq.gz 0:76 A:158301607;C:93070120;G:121382262;T:163555487;N:27236 76       158301607 93070120 121382262 163555487 27236 SRX2557159 SRS1974552 SRA537606 Yale University|Genetics Yale University 1 0.76425   0.1278   0.84222   0.55305   76   B   usable mapping rate illumina hiseq_era unknown small_rna lexogen bulk unknown unknown   United States 2017-02-13 Undetermined Embryo Endothelium Cardiovascular System
41840 41840 SRR5251433 SRX2557158 SRS1974551 SRP099466 PRJNA374579 microRNAs Establish Uniform Traits during the Architecture of Vertebrate Embryos PRJNA374579 Other Proper functioning of an organism requires cells and tissues to behave in uniform well organized ways. How this optimum of phenotypes is achieved during the development of vertebrates is unclear. Here we carried out a multifaceted and single cell resolution screen of zebrafish embryonic blood vessels upon mutagenesis of single and multi gene miRNA families. We found that embryos lacking particular miRNA dependent signaling pathways develop a vascular trait similar to wild type but with a profound increase in phenotypic heterogeneity. Aberrant trait variance in miRNA mutant embryos uniquely sensitizes their vascular system to environmental perturbations. We uncovered a previously unrecognized role for specific vertebrate miRNAs to protect tissue development against phenotypic variability. This discovery marks an important advance in our comprehension of how miRNAs function in the development of higher organisms.       QuantSeq mutant miRNAs WT miR223 B2 nicoli mutmir AG01658   strain:TU/AB|age:27.0|sex:pooled male and female|tissue:endothelial cells|molecule:mRNA|condition:miR 223|replicate:2|BioSampleModel:Model organism or animal                 QuantSeq mutant miRNAs WT miR223 B2 AG01658.1 AG01658.1 1     OTHER TRANSCRIPTOMIC unspecified SINGLE ILLUMINA Illumina HiSeq 2000   SRP099466     AG01658.1_R1.fastq.gz fastq 798581856.0 10507656.0 AG01658.1 R1.fastq.gz 0:76 A:241352089;C:134327379;G:183394123;T:239469845;N:38420 76       241352089 134327379 183394123 239469845 38420 SRX2557158 SRS1974551 SRA537606 Yale University|Genetics Yale University 1 0.76221   0.13398   0.82459   0.55228   76   B   usable mapping rate illumina hiseq_era unknown small_rna lexogen bulk unknown unknown   United States 2017-03-28 Undetermined Embryo Endothelium Cardiovascular System
41841 41841 SRR5251432 SRX2557157 SRS1974550 SRP099466 PRJNA374579 microRNAs Establish Uniform Traits during the Architecture of Vertebrate Embryos PRJNA374579 Other Proper functioning of an organism requires cells and tissues to behave in uniform well organized ways. How this optimum of phenotypes is achieved during the development of vertebrates is unclear. Here we carried out a multifaceted and single cell resolution screen of zebrafish embryonic blood vessels upon mutagenesis of single and multi gene miRNA families. We found that embryos lacking particular miRNA dependent signaling pathways develop a vascular trait similar to wild type but with a profound increase in phenotypic heterogeneity. Aberrant trait variance in miRNA mutant embryos uniquely sensitizes their vascular system to environmental perturbations. We uncovered a previously unrecognized role for specific vertebrate miRNAs to protect tissue development against phenotypic variability. This discovery marks an important advance in our comprehension of how miRNAs function in the development of higher organisms.       QuantSeq mutant miRNAs WT miR223 B3 nicoli mutmir AG01659   strain:TU/AB|age:27.0|sex:pooled male and female|tissue:endothelial cells|molecule:mRNA|condition:miR 223|replicate:3|BioSampleModel:Model organism or animal                 QuantSeq mutant miRNAs WT miR223 B3 AG01659.1 AG01659.1 1     OTHER TRANSCRIPTOMIC unspecified SINGLE ILLUMINA Illumina HiSeq 2000   SRP099466     AG01659.1_R1.fastq.gz fastq 1093998948.0 14394723.0 AG01659.1 R1.fastq.gz 0:76 A:330741822;C:186325335;G:249557623;T:327320449;N:53719 76       330741822 186325335 249557623 327320449 53719 SRX2557157 SRS1974550 SRA537606 Yale University|Genetics Yale University 1 0.77108   0.14674   0.80955   0.55819   76   B   usable mapping rate illumina hiseq_era unknown small_rna lexogen bulk unknown unknown   United States 2017-03-28 Undetermined Embryo Endothelium Cardiovascular System
41842 41842 SRR5251431 SRX2557156 SRS1974549 SRP099466 PRJNA374579 microRNAs Establish Uniform Traits during the Architecture of Vertebrate Embryos PRJNA374579 Other Proper functioning of an organism requires cells and tissues to behave in uniform well organized ways. How this optimum of phenotypes is achieved during the development of vertebrates is unclear. Here we carried out a multifaceted and single cell resolution screen of zebrafish embryonic blood vessels upon mutagenesis of single and multi gene miRNA families. We found that embryos lacking particular miRNA dependent signaling pathways develop a vascular trait similar to wild type but with a profound increase in phenotypic heterogeneity. Aberrant trait variance in miRNA mutant embryos uniquely sensitizes their vascular system to environmental perturbations. We uncovered a previously unrecognized role for specific vertebrate miRNAs to protect tissue development against phenotypic variability. This discovery marks an important advance in our comprehension of how miRNAs function in the development of higher organisms.       QuantSeq mutant miRNAs Mut miR223 B1 nicoli mutmir AG01660   strain:TU/AB|age:27.0|sex:pooled male and female|tissue:endothelial cells|genotype:miR 223 ya304/ya304|molecule:mRNA|condition:miR 223|replicate:1|BioSampleModel:Model organism or animal                 QuantSeq mutant miRNAs Mut miR223 B1 AG01660.1 AG01660.1 1     OTHER TRANSCRIPTOMIC unspecified SINGLE ILLUMINA Illumina HiSeq 2000   SRP099466     AG01660.1_R1.fastq.gz fastq 849905492.0 11182967.0 AG01660.1 R1.fastq.gz 0:76 A:250953875;C:146191904;G:190040699;T:262674911;N:44103 76       250953875 146191904 190040699 262674911 44103 SRX2557156 SRS1974549 SRA537606 Yale University|Genetics Yale University 1 0.7687   0.14192   0.82842   0.5344   76   B   usable mapping rate illumina hiseq_era unknown small_rna lexogen bulk unknown unknown   United States 2017-02-13 Undetermined Embryo Endothelium Cardiovascular System
41843 41843 SRR5251430 SRX2557155 SRS1974548 SRP099466 PRJNA374579 microRNAs Establish Uniform Traits during the Architecture of Vertebrate Embryos PRJNA374579 Other Proper functioning of an organism requires cells and tissues to behave in uniform well organized ways. How this optimum of phenotypes is achieved during the development of vertebrates is unclear. Here we carried out a multifaceted and single cell resolution screen of zebrafish embryonic blood vessels upon mutagenesis of single and multi gene miRNA families. We found that embryos lacking particular miRNA dependent signaling pathways develop a vascular trait similar to wild type but with a profound increase in phenotypic heterogeneity. Aberrant trait variance in miRNA mutant embryos uniquely sensitizes their vascular system to environmental perturbations. We uncovered a previously unrecognized role for specific vertebrate miRNAs to protect tissue development against phenotypic variability. This discovery marks an important advance in our comprehension of how miRNAs function in the development of higher organisms.       QuantSeq mutant miRNAs Mut miR223 B2 nicoli mutmir AG01661   strain:TU/AB|age:27.0|sex:pooled male and female|tissue:endothelial cells|genotype:miR 223 ya304/ya304|molecule:mRNA|condition:miR 223|replicate:2|BioSampleModel:Model organism or animal                 QuantSeq mutant miRNAs Mut miR223 B2 AG01661.1 AG01661.1 1     OTHER TRANSCRIPTOMIC unspecified SINGLE ILLUMINA Illumina HiSeq 2000   SRP099466     AG01661.1_R1.fastq.gz fastq 840115400.0 11054150.0 AG01661.1 R1.fastq.gz 0:76 A:257057495;C:141775085;G:188281166;T:252960590;N:41064 76       257057495 141775085 188281166 252960590 41064 SRX2557155 SRS1974548 SRA537606 Yale University|Genetics Yale University 1 0.74292   0.10759   0.83615   0.55136   76   B   usable mapping rate illumina hiseq_era unknown small_rna lexogen bulk unknown unknown   United States 2017-03-28 Undetermined Embryo Endothelium Cardiovascular System

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