RNAquarium Metadata Server
Institute Website Terms of Use Privacy Policy

run_metadata

13 rows where experiment.library_selection = "unspecified", tissue_curation = "Heart" and tissue_curation_coarse = "Cardiovascular System"

✎ View and edit SQL

This data as json, CSV (advanced)

experiment.library_strategy 2

experiment.library_layout 2

tissue_curation_coarse 1

  • Cardiovascular System · 13 ✖

tissue_curation 1

  • Heart · 13 ✖

technology 1

experiment.platform 1

experiment.library_source 1

experiment.library_selection 1

  • unspecified · 13 ✖

devstage_curation_coarse 1

devstage_curation 1

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

Advanced export

JSON shape: default, array, newline-delimited

CSV options: 

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");;