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run_metadata

88 rows where experiment.library_selection = "other", experiment.library_strategy = "RNA-Seq" and tissue_curation = "Heart"

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devstage_curation_coarse 3

devstage_curation 3

technology 2

tissue_curation_coarse 1

tissue_curation 1

  • Heart · 88 ✖

experiment.platform 1

experiment.library_strategy 1

  • RNA-Seq · 88 ✖

experiment.library_source 1

experiment.library_selection 1

  • other · 88 ✖

experiment.library_layout 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
42936 42936 SRR5855244 SRX3024526 SRS2373779 SRP113255 PRJNA395216 mRNA sequencing of larval zebrafish heart tissue PRJNA395216 Other Heart tissue was enriched from 48hpf zebrafish larvae from different experimental conditions. Approximately 200 hearts were collected for each sample. The goals of the study were to profile transcriptional outputs in the cardiac tissue which affects heart development between two different experimental conditions.       Zebrafish 48hpf heart mRNA sequencing bbs6 over expression bbs6 over expression 4   strain:WT|dev stage:48 hpf determined|tissue:heart|BioSampleModel:Model organism or animal                 zebrafish mRNA seq of heart tissue bbs6 over expression bbs6 overexpression 4 bbs6 overexpression 4 hearts encriched from whole animal tissue and mRNA isolated     RNA-Seq TRANSCRIPTOMIC other PAIRED ILLUMINA Illumina HiSeq 2500   SRP113255     12_lane5_20161102000_S92_L005_R2_001.fastq.gz 12_lane5_20161102000_S92_L005_R1_001.fastq.gz fastq fastq 4734224072.0 31146211.0 12 lane5 20161102000 S92 L005 R2 001.fastq.gz 0:76 1:76 A:1191205496;C:1178247460;G:1168255635;T:1196060624;N:454857 76 76     1191205496 1178247460 1168255635 1196060624 454857 SRX3024526 SRS2373779 SRA589703 University of Iowa|Biology University of Iowa 2 0.95177 0.95131 0.0383 0.03726 0.72243 0.72243 0.42289 0.42266 76 76 B B biological fallback assumption illumina hiseq_era unknown other unknown bulk unknown unknown   United States 2017-07-20 Hatching Embryo Heart Cardiovascular System
42937 42937 SRR5855245 SRX3024525 SRS2373778 SRP113255 PRJNA395216 mRNA sequencing of larval zebrafish heart tissue PRJNA395216 Other Heart tissue was enriched from 48hpf zebrafish larvae from different experimental conditions. Approximately 200 hearts were collected for each sample. The goals of the study were to profile transcriptional outputs in the cardiac tissue which affects heart development between two different experimental conditions.       Zebrafish 48hpf heart mRNA sequencing bbs6 over expression bbs6 over expression 2   strain:WT|dev stage:48 hpf determined|tissue:heart|BioSampleModel:Model organism or animal                 zebrafish mRNA seq of heart tissue bbs6 over expression bbs6 overexpression 3 bbs6 overexpression 3 hearts encriched from whole animal tissue and mRNA isolated     RNA-Seq TRANSCRIPTOMIC other PAIRED ILLUMINA Illumina HiSeq 2500   SRP113255     11_lane5_20161102000_S91_L005_R1_001.fastq.gz 11_lane5_20161102000_S91_L005_R2_001.fastq.gz fastq fastq 5015265232.0 32995166.0 11 lane5 20161102000 S91 L005 R1 001.fastq.gz 0:76 1:76 A:1267139647;C:1242816272;G:1232034679;T:1272800227;N:474407 76 76     1267139647 1242816272 1232034679 1272800227 474407 SRX3024525 SRS2373778 SRA589703 University of Iowa|Biology University of Iowa 2 0.95103 0.95218 0.04923 0.04847 0.69402 0.69518 0.45437 0.44772 76 76 B B biological fallback assumption illumina hiseq_era unknown other unknown bulk unknown unknown   United States 2017-07-20 Hatching Embryo Heart Cardiovascular System
42938 42938 SRR5855246 SRX3024524 SRS2373777 SRP113255 PRJNA395216 mRNA sequencing of larval zebrafish heart tissue PRJNA395216 Other Heart tissue was enriched from 48hpf zebrafish larvae from different experimental conditions. Approximately 200 hearts were collected for each sample. The goals of the study were to profile transcriptional outputs in the cardiac tissue which affects heart development between two different experimental conditions.       Zebrafish 48hpf heart mRNA sequencing smarcc1a knockdown smarcc1a knockdown 3   strain:WT|dev stage:48 hpf determined|tissue:heart|BioSampleModel:Model organism or animal                 zebrafish mRNA seq of heart tissue smarcc1a knockdown smarcc1a knockdown 4 smarcc1a knockdown 4 hearts encriched from whole animal tissue and mRNA isolated     RNA-Seq TRANSCRIPTOMIC other PAIRED ILLUMINA Illumina HiSeq 2500   SRP113255     8_lane5_20161102000_S88_L005_R1_001.fastq.gz 8_lane5_20161102000_S88_L005_R2_001.fastq.gz fastq fastq 4324972280.0 28453765.0 8 lane5 20161102000 S88 L005 R2 001.fastq.gz 0:76 1:76 A:1070408444;C:1094152744;G:1085295832;T:1074702140;N:413120 76 76     1070408444 1094152744 1085295832 1074702140 413120 SRX3024524 SRS2373777 SRA589703 University of Iowa|Biology University of Iowa 2 0.95733 0.95767 0.03174 0.0306 0.72028 0.72072 0.44362 0.45159 76 76 B B biological fallback assumption illumina hiseq_era unknown other unknown bulk unknown unknown   United States 2017-07-20 Hatching Embryo Heart Cardiovascular System
42939 42939 SRR5855247 SRX3024523 SRS2373776 SRP113255 PRJNA395216 mRNA sequencing of larval zebrafish heart tissue PRJNA395216 Other Heart tissue was enriched from 48hpf zebrafish larvae from different experimental conditions. Approximately 200 hearts were collected for each sample. The goals of the study were to profile transcriptional outputs in the cardiac tissue which affects heart development between two different experimental conditions.       Zebrafish 48hpf heart mRNA sequencing smarcc1a knockdown smarcc1a knockdown 4   strain:WT|dev stage:48 hpf determined|tissue:heart|BioSampleModel:Model organism or animal                 zebrafish mRNA seq of heart tissue smarcc1a knockdown smarcc1a knockdown 3 smarcc1a knockdown 3 hearts encriched from whole animal tissue and mRNA isolated     RNA-Seq TRANSCRIPTOMIC other PAIRED ILLUMINA Illumina HiSeq 2500   SRP113255     7_lane5_20161102000_S87_L005_R1_001.fastq.gz 7_lane5_20161102000_S87_L005_R2_001.fastq.gz fastq fastq 4491938656.0 29552228.0 7 lane5 20161102000 S87 L005 R1 001.fastq.gz 0:76 1:76 A:1116707304;C:1130163592;G:1126483942;T:1118152345;N:431473 76 76     1116707304 1130163592 1126483942 1118152345 431473 SRX3024523 SRS2373776 SRA589703 University of Iowa|Biology University of Iowa 2 0.95348 0.95449 0.03796 0.03772 0.72529 0.72618 0.46052 0.46096 76 76 B B biological fallback assumption illumina hiseq_era unknown other unknown bulk unknown unknown   United States 2017-07-20 Hatching Embryo Heart Cardiovascular System
42940 42940 SRR5855248 SRX3024522 SRS2373775 SRP113255 PRJNA395216 mRNA sequencing of larval zebrafish heart tissue PRJNA395216 Other Heart tissue was enriched from 48hpf zebrafish larvae from different experimental conditions. Approximately 200 hearts were collected for each sample. The goals of the study were to profile transcriptional outputs in the cardiac tissue which affects heart development between two different experimental conditions.       Zebrafish 48hpf heart mRNA sequencing smarcc1a knockdown smarcc1a knockdown 2   strain:WT|dev stage:48 hpf determined|tissue:heart|BioSampleModel:Model organism or animal                 zebrafish mRNA seq of heart tissue smarcc1a knockdown smarcc1a knockdown 2 smarcc1a knockdown 2 hearts encriched from whole animal tissue and mRNA isolated     RNA-Seq TRANSCRIPTOMIC other PAIRED ILLUMINA Illumina HiSeq 2500   SRP113255     6_lane5_20161102000_S86_L005_R1_001.fastq.gz 6_lane5_20161102000_S86_L005_R2_001.fastq.gz fastq fastq 4303477960.0 28312355.0 6 lane5 20161102000 S86 L005 R1 001.fastq.gz 0:76 1:76 A:1060357621;C:1096114267;G:1081075677;T:1065519253;N:411142 76 76     1060357621 1096114267 1081075677 1065519253 411142 SRX3024522 SRS2373775 SRA589703 University of Iowa|Biology University of Iowa 2 0.95716 0.95787 0.03128 0.03077 0.7304 0.73097 0.43343 0.4406 76 76 B B biological fallback assumption illumina hiseq_era unknown other unknown bulk unknown unknown   United States 2017-07-20 Hatching Embryo Heart Cardiovascular System
42941 42941 SRR5855249 SRX3024521 SRS2373774 SRP113255 PRJNA395216 mRNA sequencing of larval zebrafish heart tissue PRJNA395216 Other Heart tissue was enriched from 48hpf zebrafish larvae from different experimental conditions. Approximately 200 hearts were collected for each sample. The goals of the study were to profile transcriptional outputs in the cardiac tissue which affects heart development between two different experimental conditions.       Zebrafish 48hpf heart mRNA sequencing smarcc1a knockdown smarcc1a knockdown 1   strain:WT|dev stage:48 hpf determined|tissue:heart|BioSampleModel:Model organism or animal                 zebrafish mRNA seq of heart tissue smarcc1a knockdown smarcc1a knockdown 1 smarcc1a knockdown 1 hearts encriched from whole animal tissue and mRNA isolated     RNA-Seq TRANSCRIPTOMIC other PAIRED ILLUMINA Illumina HiSeq 2500   SRP113255     5_lane5_20161102000_S85_L005_R1_001.fastq.gz 5_lane5_20161102000_S85_L005_R2_001.fastq.gz fastq fastq 4299406944.0 28285572.0 5 lane5 20161102000 S85 L005 R2 001.fastq.gz 0:76 1:76 A:1055648741;C:1094443792;G:1091483902;T:1057416779;N:413730 76 76     1055648741 1094443792 1091483902 1057416779 413730 SRX3024521 SRS2373774 SRA589703 University of Iowa|Biology University of Iowa 2 0.95809 0.95937 0.02908 0.02878 0.732 0.7321 0.44577 0.44584 76 76 B B biological fallback assumption illumina hiseq_era unknown other unknown bulk unknown unknown   United States 2017-07-20 Hatching Embryo Heart Cardiovascular System
42942 42942 SRR5855250 SRX3024520 SRS2373773 SRP113255 PRJNA395216 mRNA sequencing of larval zebrafish heart tissue PRJNA395216 Other Heart tissue was enriched from 48hpf zebrafish larvae from different experimental conditions. Approximately 200 hearts were collected for each sample. The goals of the study were to profile transcriptional outputs in the cardiac tissue which affects heart development between two different experimental conditions.       Zebrafish 48hpf heart mRNA sequencing control wildtype control 4   strain:WT|dev stage:48 hpf determined|tissue:heart|BioSampleModel:Model organism or animal                 zebrafish mRNA seq of heart tissue control wildtype control 4 wildtype control 4 hearts encriched from whole animal tissue and mRNA isolated     RNA-Seq TRANSCRIPTOMIC other PAIRED ILLUMINA Illumina HiSeq 2500   SRP113255     4_lane5_20161102000_S84_L005_R1_001.fastq.gz 4_lane5_20161102000_S84_L005_R2_001.fastq.gz fastq fastq 4018059352.0 26434601.0 4 lane5 20161102000 S84 L005 R2 001.fastq.gz 0:76 1:76 A:1008156233;C:1001737182;G:997296042;T:1010483320;N:386575 76 76     1008156233 1001737182 997296042 1010483320 386575 SRX3024520 SRS2373773 SRA589703 University of Iowa|Biology University of Iowa 2 0.95095 0.95159 0.04934 0.04855 0.6858 0.68676 0.47468 0.47043 76 76 B B biological fallback assumption illumina hiseq_era unknown other unknown bulk unknown unknown   United States 2017-07-20 Hatching Embryo Heart Cardiovascular System
42943 42943 SRR5855251 SRX3024519 SRS2373772 SRP113255 PRJNA395216 mRNA sequencing of larval zebrafish heart tissue PRJNA395216 Other Heart tissue was enriched from 48hpf zebrafish larvae from different experimental conditions. Approximately 200 hearts were collected for each sample. The goals of the study were to profile transcriptional outputs in the cardiac tissue which affects heart development between two different experimental conditions.       Zebrafish 48hpf heart mRNA sequencing control wildtype control 3   strain:WT|dev stage:48 hpf determined|tissue:heart|BioSampleModel:Model organism or animal                 zebrafish mRNA seq of heart tissue control wildtype control 3 wildtype control 3 hearts encriched from whole animal tissue and mRNA isolated     RNA-Seq TRANSCRIPTOMIC other PAIRED ILLUMINA Illumina HiSeq 2500   SRP113255     3_lane5_20161102000_S83_L005_R2_001.fastq.gz 3_lane5_20161102000_S83_L005_R1_001.fastq.gz fastq fastq 4233495032.0 27851941.0 3 lane5 20161102000 S83 L005 R1 001.fastq.gz 0:76 1:76 A:1061234768;C:1061677848;G:1044744764;T:1065439420;N:398232 76 76     1061234768 1061677848 1044744764 1065439420 398232 SRX3024519 SRS2373772 SRA589703 University of Iowa|Biology University of Iowa 2 0.95404 0.95547 0.04316 0.04198 0.70741 0.70717 0.43949 0.44585 76 76 B B biological fallback assumption illumina hiseq_era unknown other unknown bulk unknown unknown   United States 2017-07-20 Hatching Embryo Heart Cardiovascular System
42944 42944 SRR5855252 SRX3024518 SRS2373771 SRP113255 PRJNA395216 mRNA sequencing of larval zebrafish heart tissue PRJNA395216 Other Heart tissue was enriched from 48hpf zebrafish larvae from different experimental conditions. Approximately 200 hearts were collected for each sample. The goals of the study were to profile transcriptional outputs in the cardiac tissue which affects heart development between two different experimental conditions.       Zebrafish 48hpf heart mRNA sequencing control wildtype control 2   strain:WT|dev stage:48 hpf determined|tissue:heart|BioSampleModel:Model organism or animal                 zebrafish mRNA seq of heart tissue control wildtype control 2 wildtype control 2 hearts encriched from whole animal tissue and mRNA isolated     RNA-Seq TRANSCRIPTOMIC other PAIRED ILLUMINA Illumina HiSeq 2500   SRP113255     2_lane5_20161102000_S82_L005_R1_001.fastq.gz 2_lane5_20161102000_S82_L005_R2_001.fastq.gz fastq fastq 4865250352.0 32008226.0 2 lane5 20161102000 S82 L005 R2 001.fastq.gz 0:76 1:76 A:1217698162;C:1217336292;G:1210023632;T:1219728654;N:463612 76 76     1217698162 1217336292 1210023632 1219728654 463612 SRX3024518 SRS2373771 SRA589703 University of Iowa|Biology University of Iowa 2 0.95521 0.95457 0.03943 0.0382 0.70285 0.7037 0.45131 0.45255 76 76 B B biological fallback assumption illumina hiseq_era unknown other unknown bulk unknown unknown   United States 2017-07-20 Hatching Embryo Heart Cardiovascular System
42945 42945 SRR5855253 SRX3024517 SRS2373769 SRP113255 PRJNA395216 mRNA sequencing of larval zebrafish heart tissue PRJNA395216 Other Heart tissue was enriched from 48hpf zebrafish larvae from different experimental conditions. Approximately 200 hearts were collected for each sample. The goals of the study were to profile transcriptional outputs in the cardiac tissue which affects heart development between two different experimental conditions.       Zebrafish 48hpf heart mRNA sequencing control wildtype control 1   strain:WT|dev stage:48 hpf determined|tissue:heart|BioSampleModel:Model organism or animal                 zebrafish mRNA seq of heart tissue control wildtype control 1 wildtype control 1 hearts encriched from whole animal tissue and mRNA isolated     RNA-Seq TRANSCRIPTOMIC other PAIRED ILLUMINA Illumina HiSeq 2500   SRP113255     1_lane5_20161102000_S81_L005_R1_001.fastq.gz 1_lane5_20161102000_S81_L005_R2_001.fastq.gz fastq fastq 3946454432.0 25963516.0 1 lane5 20161102000 S81 L005 R2 001.fastq.gz 0:76 1:76 A:991404923;C:986313010;G:975620653;T:992743977;N:371869 76 76     991404923 986313010 975620653 992743977 371869 SRX3024517 SRS2373769 SRA589703 University of Iowa|Biology University of Iowa 2 0.95282 0.95458 0.05035 0.04915 0.69702 0.6967 0.4678 0.46722 76 76 B B biological fallback assumption illumina hiseq_era unknown other unknown bulk unknown unknown   United States 2017-07-20 Hatching Embryo Heart Cardiovascular System
42946 42946 SRR5855254 SRX3024516 SRS2373770 SRP113255 PRJNA395216 mRNA sequencing of larval zebrafish heart tissue PRJNA395216 Other Heart tissue was enriched from 48hpf zebrafish larvae from different experimental conditions. Approximately 200 hearts were collected for each sample. The goals of the study were to profile transcriptional outputs in the cardiac tissue which affects heart development between two different experimental conditions.       Zebrafish 48hpf heart mRNA sequencing bbs6 over expression bbs6 over expression 3   strain:WT|dev stage:48 hpf determined|tissue:heart|BioSampleModel:Model organism or animal                 zebrafish mRNA seq of heart tissue bbs6 over expression bbs6 overexpression 2 bbs6 overexpression 2 hearts encriched from whole animal tissue and mRNA isolated     RNA-Seq TRANSCRIPTOMIC other PAIRED ILLUMINA Illumina HiSeq 2500   SRP113255     10_lane5_20161102000_S90_L005_R1_001.fastq.gz 10_lane5_20161102000_S90_L005_R2_001.fastq.gz fastq fastq 4315321344.0 28390272.0 10 lane5 20161102000 S90 L005 R2 001.fastq.gz 0:76 1:76 A:1086545039;C:1075002584;G:1059308862;T:1094053688;N:411171 76 76     1086545039 1075002584 1059308862 1094053688 411171 SRX3024516 SRS2373770 SRA589703 University of Iowa|Biology University of Iowa 2 0.95328 0.95349 0.04449 0.04409 0.69546 0.69641 0.44932 0.44783 76 76 B B biological fallback assumption illumina hiseq_era unknown other unknown bulk unknown unknown   United States 2017-07-20 Hatching Embryo Heart Cardiovascular System
42947 42947 SRR5855255 SRX3024515 SRS2373768 SRP113255 PRJNA395216 mRNA sequencing of larval zebrafish heart tissue PRJNA395216 Other Heart tissue was enriched from 48hpf zebrafish larvae from different experimental conditions. Approximately 200 hearts were collected for each sample. The goals of the study were to profile transcriptional outputs in the cardiac tissue which affects heart development between two different experimental conditions.       Zebrafish 48hpf heart mRNA sequencing bbs6 over expression bbs6 over expression 1   strain:WT|dev stage:48 hpf determined|tissue:heart|BioSampleModel:Model organism or animal                 zebrafish mRNA seq of heart tissue bbs6 over expression bbs6 overexpression 1 bbs6 overexpression 1 hearts encriched from whole animal tissue and mRNA isolated     RNA-Seq TRANSCRIPTOMIC other PAIRED ILLUMINA Illumina HiSeq 2500   SRP113255     9_lane5_20161102000_S89_L005_R1_001.fastq.gz 9_lane5_20161102000_S89_L005_R2_001.fastq.gz fastq fastq 3745789808.0 24643354.0 9 lane5 20161102000 S89 L005 R2 001.fastq.gz 0:76 1:76 A:935401240;C:938927873;G:932061106;T:939042073;N:357516 76 76     935401240 938927873 932061106 939042073 357516 SRX3024515 SRS2373768 SRA589703 University of Iowa|Biology University of Iowa 2 0.95454 0.955 0.03772 0.03653 0.71001 0.71052 0.43385 0.43347 76 76 B B biological fallback assumption illumina hiseq_era unknown other unknown bulk unknown unknown   United States 2017-07-20 Hatching Embryo Heart Cardiovascular System
50802 50802 SRR8298668 SRX5113214 SRS4122013 SRP173044 PRJNA509429 Delineating the transcriptomic response during Zebrafish heart regeneration PRJNA509429 Other Sequencing data of both mRNA and microRNA were obtained to study the transcriptomic response during zebrafish heart regeneration. Samples were utilised in triplicates for each time point up to 160 xxx post injury. Furthermore mRNA and miRNA were obtained from the same biological samples to allow correlation analysis.   pubmed:30597924 Replicate 3   4dpi#3   breed:zebrafish|age:220 days|sex:missing|tissue:whole heart|time point:4 dpi|time replicate:4dpi#3|BioSampleModel:Model organism or animal                 4dpi rep3 5940 5940 RNA was extracted using RNeasy Mini Kit Qiagen #74104 and 200 nanogram were used for library preparation with TruSeq Stranded Total RNA Library Prep Illumina #20020597     RNA-Seq TRANSCRIPTOMIC other PAIRED ILLUMINA Illumina HiSeq 2000   SRP173044     SID5940_S30_L006_R1_001.fastq.gz SID5940_S30_L006_R2_001.fastq.gz fastq fastq 5188299450.0 34588663.0 SID5940 S30 L006 R1 001.fastq.gz 0:75 1:75 A:1444454822;C:1145256079;G:1148548307;T:1446499267;N:3540975 75 75     1444454822 1145256079 1148548307 1446499267 3540975 SRX5113214 SRS4122013 SRA821074 University of Freiburg|Institute of Molecular Medicine and Cell Research University of Freiburg DeCaRe 2 0.92184 0.92415 0.30116 0.30149 0.73592 0.7399 0.54201 0.38073 75 75 B B biological fallback assumption illumina hiseq_era unknown small_rna trueseq bulk bulk bulk   Germany 2019-04-30 Adult Adult Heart Cardiovascular System
50803 50803 SRR8298669 SRX5113213 SRS4122012 SRP173044 PRJNA509429 Delineating the transcriptomic response during Zebrafish heart regeneration PRJNA509429 Other Sequencing data of both mRNA and microRNA were obtained to study the transcriptomic response during zebrafish heart regeneration. Samples were utilised in triplicates for each time point up to 160 xxx post injury. Furthermore mRNA and miRNA were obtained from the same biological samples to allow correlation analysis.   pubmed:30597924 Replicate 1   7dpi#1   breed:zebrafish|age:273 days|sex:missing|tissue:whole heart|time point:7 dpi|time replicate:7dpi#1|BioSampleModel:Model organism or animal                 7dpi rep1 5941 5941 RNA was extracted using RNeasy Mini Kit Qiagen #74104 and 200 nanogram were used for library preparation with TruSeq Stranded Total RNA Library Prep Illumina #20020597     RNA-Seq TRANSCRIPTOMIC other PAIRED ILLUMINA Illumina HiSeq 2000   SRP173044     SID5941_S29_L006_R1_001.fastq.gz SID5941_S29_L006_R2_001.fastq.gz fastq fastq 5015554500.0 33437030.0 SID5941 S29 L006 R1 001.fastq.gz 0:75 1:75 A:1408835824;C:1099569560;G:1095191795;T:1408578266;N:3379055 75 75     1408835824 1099569560 1095191795 1408578266 3379055 SRX5113213 SRS4122012 SRA821074 University of Freiburg|Institute of Molecular Medicine and Cell Research University of Freiburg DeCaRe 2 0.92786 0.93052 0.26842 0.26815 0.76881 0.77061 0.57369 0.57478 75 75 B B biological fallback assumption illumina hiseq_era unknown small_rna trueseq bulk bulk bulk   Germany 2019-04-30 Adult Adult Heart Cardiovascular System
50804 50804 SRR8298670 SRX5113212 SRS4122011 SRP173044 PRJNA509429 Delineating the transcriptomic response during Zebrafish heart regeneration PRJNA509429 Other Sequencing data of both mRNA and microRNA were obtained to study the transcriptomic response during zebrafish heart regeneration. Samples were utilised in triplicates for each time point up to 160 xxx post injury. Furthermore mRNA and miRNA were obtained from the same biological samples to allow correlation analysis.   pubmed:30597924 Replicate 1   4dpi#1   breed:zebrafish|age:220 days|sex:missing|tissue:whole heart|time point:4 dpi|time replicate:4dpi#1|BioSampleModel:Model organism or animal                 4dpi rep1 5938 5938 RNA was extracted using RNeasy Mini Kit Qiagen #74104 and 200 nanogram were used for library preparation with TruSeq Stranded Total RNA Library Prep Illumina #20020597     RNA-Seq TRANSCRIPTOMIC other PAIRED ILLUMINA Illumina HiSeq 2000   SRP173044     SID5938_S31_L006_R1_001.fastq.gz SID5938_S31_L006_R2_001.fastq.gz fastq fastq 4100604750.0 27337365.0 SID5938 S31 L006 R1 001.fastq.gz 0:75 1:75 A:1149519787;C:899546129;G:898736633;T:1150023754;N:2778447 75 75     1149519787 899546129 898736633 1150023754 2778447 SRX5113212 SRS4122011 SRA821074 University of Freiburg|Institute of Molecular Medicine and Cell Research University of Freiburg DeCaRe 2 0.92416 0.92519 0.28682 0.28584 0.74237 0.74592 0.56445 0.56447 75 75 B B biological fallback assumption illumina hiseq_era unknown small_rna trueseq bulk bulk bulk   Germany 2019-04-30 Adult Adult Heart Cardiovascular System
50805 50805 SRR8298671 SRX5113211 SRS4122010 SRP173044 PRJNA509429 Delineating the transcriptomic response during Zebrafish heart regeneration PRJNA509429 Other Sequencing data of both mRNA and microRNA were obtained to study the transcriptomic response during zebrafish heart regeneration. Samples were utilised in triplicates for each time point up to 160 xxx post injury. Furthermore mRNA and miRNA were obtained from the same biological samples to allow correlation analysis.   pubmed:30597924 Replicate 2   4dpi#2   breed:zebrafish|age:220 days|sex:missing|tissue:whole heart|time point:4 dpi|time replicate:4dpi#2|BioSampleModel:Model organism or animal                 4dpi rep2 5939 5939 RNA was extracted using RNeasy Mini Kit Qiagen #74104 and 200 nanogram were used for library preparation with TruSeq Stranded Total RNA Library Prep Illumina #20020597     RNA-Seq TRANSCRIPTOMIC other PAIRED ILLUMINA Illumina HiSeq 2000   SRP173044     SID5939_S32_L006_R1_001.fastq.gz SID5939_S32_L006_R2_001.fastq.gz fastq fastq 4921234500.0 32808230.0 SID5939 S32 L006 R1 001.fastq.gz 0:75 1:75 A:1378004009;C:1080255504;G:1081677671;T:1377977314;N:3320002 75 75     1378004009 1080255504 1081677671 1377977314 3320002 SRX5113211 SRS4122010 SRA821074 University of Freiburg|Institute of Molecular Medicine and Cell Research University of Freiburg DeCaRe 2 0.91946 0.92276 0.29123 0.29112 0.74182 0.74539 0.54354 0.53724 75 75 B B biological fallback assumption illumina hiseq_era unknown small_rna trueseq bulk bulk bulk   Germany 2019-04-30 Adult Adult Heart Cardiovascular System
50806 50806 SRR8298672 SRX5113210 SRS4122009 SRP173044 PRJNA509429 Delineating the transcriptomic response during Zebrafish heart regeneration PRJNA509429 Other Sequencing data of both mRNA and microRNA were obtained to study the transcriptomic response during zebrafish heart regeneration. Samples were utilised in triplicates for each time point up to 160 xxx post injury. Furthermore mRNA and miRNA were obtained from the same biological samples to allow correlation analysis.   pubmed:30597924 Replicate 2   1dpi#2   breed:zebrafish|age:319 days|sex:missing|tissue:whole heart|time point:1 dpi|time replicate:1dpi#2|BioSampleModel:Model organism or animal                 1dpi rep2 5936 5936 RNA was extracted using RNeasy Mini Kit Qiagen #74104 and 200 nanogram were used for library preparation with TruSeq Stranded Total RNA Library Prep Illumina #20020597     RNA-Seq TRANSCRIPTOMIC other PAIRED ILLUMINA Illumina HiSeq 2000   SRP173044     SID5936_S21_L005_R2_001.fastq.gz SID5936_S21_L005_R1_001.fastq.gz fastq fastq 5881601400.0 39210676.0 SID5936 S21 L005 R1 001.fastq.gz 0:75 1:75 A:1644521714;C:1296876199;G:1294933688;T:1641742109;N:3527690 75 75     1644521714 1296876199 1294933688 1641742109 3527690 SRX5113210 SRS4122009 SRA821074 University of Freiburg|Institute of Molecular Medicine and Cell Research University of Freiburg DeCaRe 2 0.92098 0.92581 0.27799 0.27825 0.76181 0.76402 0.57268 0.5784 75 75 B B biological fallback assumption illumina hiseq_era unknown small_rna trueseq bulk bulk bulk   Germany 2018-12-11 Adult Adult Heart Cardiovascular System
50807 50807 SRR8298673 SRX5113209 SRS4122008 SRP173044 PRJNA509429 Delineating the transcriptomic response during Zebrafish heart regeneration PRJNA509429 Other Sequencing data of both mRNA and microRNA were obtained to study the transcriptomic response during zebrafish heart regeneration. Samples were utilised in triplicates for each time point up to 160 xxx post injury. Furthermore mRNA and miRNA were obtained from the same biological samples to allow correlation analysis.   pubmed:30597924 Replicate 3   1dpi#3   breed:zebrafish|age:319 days|sex:missing|tissue:whole heart|time point:1 dpi|time replicate:1dpi#3|BioSampleModel:Model organism or animal                 1dpi rep3 5937 5937 RNA was extracted using RNeasy Mini Kit Qiagen #74104 and 200 nanogram were used for library preparation with TruSeq Stranded Total RNA Library Prep Illumina #20020597     RNA-Seq TRANSCRIPTOMIC other PAIRED ILLUMINA Illumina HiSeq 2000   SRP173044     SID5937_S22_L005_R2_001.fastq.gz SID5937_S22_L005_R1_001.fastq.gz fastq fastq 3621605550.0 24144037.0 SID5937 S22 L005 R1 001.fastq.gz 0:75 1:75 A:1010499889;C:803727762;G:812481024;T:992740068;N:2156807 75 75     1010499889 803727762 812481024 992740068 2156807 SRX5113209 SRS4122008 SRA821074 University of Freiburg|Institute of Molecular Medicine and Cell Research University of Freiburg DeCaRe 2 0.91363 0.91424 0.24399 0.24106 0.76006 0.76684 0.59983 0.58985 75 75 B B biological fallback assumption illumina hiseq_era unknown small_rna trueseq bulk bulk bulk   Germany 2018-12-11 Adult Adult Heart Cardiovascular System
50808 50808 SRR8298674 SRX5113208 SRS4122007 SRP173044 PRJNA509429 Delineating the transcriptomic response during Zebrafish heart regeneration PRJNA509429 Other Sequencing data of both mRNA and microRNA were obtained to study the transcriptomic response during zebrafish heart regeneration. Samples were utilised in triplicates for each time point up to 160 xxx post injury. Furthermore mRNA and miRNA were obtained from the same biological samples to allow correlation analysis.   pubmed:30597924 Replicate 3   sham#3   breed:zebrafish|age:288 days|sex:missing|tissue:whole heart|time point:sham|time replicate:sham#3|BioSampleModel:Model organism or animal                 sham rep3 5934 5934 RNA was extracted using RNeasy Mini Kit Qiagen #74104 and 200 nanogram were used for library preparation with TruSeq Stranded Total RNA Library Prep Illumina #20020597     RNA-Seq TRANSCRIPTOMIC other PAIRED ILLUMINA Illumina HiSeq 2000   SRP173044     SID5934_S24_L005_R1_001.fastq.gz SID5934_S24_L005_R2_001.fastq.gz fastq fastq 3509520600.0 23396804.0 SID5934 S24 L005 R1 001.fastq.gz 0:75 1:75 A:983495990;C:772289722;G:772021702;T:979606291;N:2106895 75 75     983495990 772289722 772021702 979606291 2106895 SRX5113208 SRS4122007 SRA821074 University of Freiburg|Institute of Molecular Medicine and Cell Research University of Freiburg DeCaRe 2 0.92688 0.92939 0.27458 0.27381 0.78309 0.78723 0.56919 0.57178 75 75 B B biological fallback assumption illumina hiseq_era unknown small_rna trueseq bulk bulk bulk   Germany 2019-04-30 Adult Adult Heart Cardiovascular System
50809 50809 SRR8298675 SRX5113207 SRS4122006 SRP173044 PRJNA509429 Delineating the transcriptomic response during Zebrafish heart regeneration PRJNA509429 Other Sequencing data of both mRNA and microRNA were obtained to study the transcriptomic response during zebrafish heart regeneration. Samples were utilised in triplicates for each time point up to 160 xxx post injury. Furthermore mRNA and miRNA were obtained from the same biological samples to allow correlation analysis.   pubmed:30597924 Replicate 1   1dpi#1   breed:zebrafish|age:319 days|sex:missing|tissue:whole heart|time point:1 dpi|time replicate:1dpi#1|BioSampleModel:Model organism or animal                 1dpi rep1 5935 5935 RNA was extracted using RNeasy Mini Kit Qiagen #74104 and 200 nanogram were used for library preparation with TruSeq Stranded Total RNA Library Prep Illumina #20020597     RNA-Seq TRANSCRIPTOMIC other PAIRED ILLUMINA Illumina HiSeq 2000   SRP173044     SID5935_S23_L005_R1_001.fastq.gz SID5935_S23_L005_R2_001.fastq.gz fastq fastq 5314974300.0 35433162.0 SID5935 S23 L005 R1 001.fastq.gz 0:75 1:75 A:1507510407;C:1155668287;G:1144742973;T:1503897494;N:3155139 75 75     1507510407 1155668287 1144742973 1503897494 3155139 SRX5113207 SRS4122006 SRA821074 University of Freiburg|Institute of Molecular Medicine and Cell Research University of Freiburg DeCaRe 2 0.91872 0.92108 0.26295 0.26278 0.78508 0.78835 0.77063 0.77073 75 75 B B biological fallback assumption illumina hiseq_era unknown small_rna trueseq bulk bulk bulk   Germany 2019-04-30 Adult Adult Heart Cardiovascular System
50810 50810 SRR8298676 SRX5113206 SRS4122005 SRP173044 PRJNA509429 Delineating the transcriptomic response during Zebrafish heart regeneration PRJNA509429 Other Sequencing data of both mRNA and microRNA were obtained to study the transcriptomic response during zebrafish heart regeneration. Samples were utilised in triplicates for each time point up to 160 xxx post injury. Furthermore mRNA and miRNA were obtained from the same biological samples to allow correlation analysis.   pubmed:30597924 Replicate 1   sham#1   breed:zebrafish|age:288 days|sex:missing|tissue:whole heart|time point:sham|time replicate:sham#1|BioSampleModel:Model organism or animal                 sham rep1 5932 5932 RNA was extracted using RNeasy Mini Kit Qiagen #74104 and 200 nanogram were used for library preparation with TruSeq Stranded Total RNA Library Prep Illumina #20020597     RNA-Seq TRANSCRIPTOMIC other PAIRED ILLUMINA Illumina HiSeq 2000   SRP173044     SID5932_S25_L005_R1_001.fastq.gz SID5932_S25_L005_R2_001.fastq.gz fastq fastq 5425627650.0 36170851.0 SID5932 S25 L005 R1 001.fastq.gz 0:75 1:75 A:1521456861;C:1194916965;G:1177157390;T:1528831524;N:3264910 75 75     1521456861 1194916965 1177157390 1528831524 3264910 SRX5113206 SRS4122005 SRA821074 University of Freiburg|Institute of Molecular Medicine and Cell Research University of Freiburg DeCaRe 2 0.92306 0.92597 0.26707 0.26536 0.80677 0.80971 0.57418 0.57898 75 75 B B biological fallback assumption illumina hiseq_era unknown small_rna trueseq bulk bulk bulk   Germany 2019-04-30 Adult Adult Heart Cardiovascular System
50811 50811 SRR8298677 SRX5113205 SRS4122004 SRP173044 PRJNA509429 Delineating the transcriptomic response during Zebrafish heart regeneration PRJNA509429 Other Sequencing data of both mRNA and microRNA were obtained to study the transcriptomic response during zebrafish heart regeneration. Samples were utilised in triplicates for each time point up to 160 xxx post injury. Furthermore mRNA and miRNA were obtained from the same biological samples to allow correlation analysis.   pubmed:30597924 Replicate 2   sham#2   breed:zebrafish|age:288 days|sex:missing|tissue:whole heart|time point:sham|time replicate:sham#2|BioSampleModel:Model organism or animal                 sham rep2 5933 5933 RNA was extracted using RNeasy Mini Kit Qiagen #74104 and 200 nanogram were used for library preparation with TruSeq Stranded Total RNA Library Prep Illumina #20020597     RNA-Seq TRANSCRIPTOMIC other PAIRED ILLUMINA Illumina HiSeq 2000   SRP173044     SID5933_S26_L005_R1_001.fastq.gz SID5933_S26_L005_R2_001.fastq.gz fastq fastq 5773503750.0 38490025.0 SID5933 S26 L005 R1 001.fastq.gz 0:75 1:75 A:1615221347;C:1273042064;G:1255074373;T:1626681961;N:3484005 75 75     1615221347 1273042064 1255074373 1626681961 3484005 SRX5113205 SRS4122004 SRA821074 University of Freiburg|Institute of Molecular Medicine and Cell Research University of Freiburg DeCaRe 2 0.92587 0.92714 0.27509 0.27353 0.79855 0.80006 0.57301 0.57575 75 75 B B biological fallback assumption illumina hiseq_era unknown small_rna trueseq bulk bulk bulk   Germany 2019-04-30 Adult Adult Heart Cardiovascular System
50812 50812 SRR8298678 SRX5113204 SRS4122003 SRP173044 PRJNA509429 Delineating the transcriptomic response during Zebrafish heart regeneration PRJNA509429 Other Sequencing data of both mRNA and microRNA were obtained to study the transcriptomic response during zebrafish heart regeneration. Samples were utilised in triplicates for each time point up to 160 xxx post injury. Furthermore mRNA and miRNA were obtained from the same biological samples to allow correlation analysis.   pubmed:30597924 Replicate 3   AgeCtr120dpi#3   breed:zebrafish|age:378 days|sex:missing|tissue:whole heart|time point:AgeMatchHealthy120dpi|time replicate:AgeCtr120dpi#3|BioSampleModel:Model organism or animal                 AgeMatchCtr120dpi rep3 8900 8900 RNA was extracted using RNeasy Mini Kit Qiagen #74104 and 200 nanogram were used for library preparation with TruSeq Stranded Total RNA Library Prep Illumina #20020597     RNA-Seq TRANSCRIPTOMIC other PAIRED ILLUMINA Illumina HiSeq 2000   SRP173044     SID8900_S6_L001_R1_001.fastq.gz SID8900_S6_L001_R2_001.fastq.gz fastq fastq 4707897000.0 31385980.0 SID8900 S6 L001 R1 001.fastq.gz 0:75 1:75 A:1337630387;C:1014865394;G:1014074014;T:1340631407;N:695798 75 75     1337630387 1014865394 1014074014 1340631407 695798 SRX5113204 SRS4122003 SRA821074 University of Freiburg|Institute of Molecular Medicine and Cell Research University of Freiburg DeCaRe 2 0.93145 0.93312 0.28428 0.28539 0.77666 0.77958 0.61824 0.61733 75 75 B B biological fallback assumption illumina hiseq_era unknown small_rna trueseq bulk bulk bulk   Germany 2019-04-30 Adult Adult Heart Cardiovascular System
50813 50813 SRR8298679 SRX5113203 SRS4122001 SRP173044 PRJNA509429 Delineating the transcriptomic response during Zebrafish heart regeneration PRJNA509429 Other Sequencing data of both mRNA and microRNA were obtained to study the transcriptomic response during zebrafish heart regeneration. Samples were utilised in triplicates for each time point up to 160 xxx post injury. Furthermore mRNA and miRNA were obtained from the same biological samples to allow correlation analysis.   pubmed:30597924 Replicate 1   AgeCtr45dpi#1   breed:zebrafish|age:302 days|sex:missing|tissue:whole heart|time point:AgeMatchHealthy45dpi|time replicate:AgeCtr45dpi#1|BioSampleModel:Model organism or animal                 AgeMatchCtr45dpi rep1 8901 8901 RNA was extracted using RNeasy Mini Kit Qiagen #74104 and 200 nanogram were used for library preparation with TruSeq Stranded Total RNA Library Prep Illumina #20020597     RNA-Seq TRANSCRIPTOMIC other PAIRED ILLUMINA Illumina HiSeq 2000   SRP173044     SID8901_S7_L002_R1_001.fastq.gz SID8901_S7_L002_R2_001.fastq.gz fastq fastq 3952220100.0 26348134.0 SID8901 S7 L002 R1 001.fastq.gz 0:75 1:75 A:1117201923;C:857412505;G:861138833;T:1115890129;N:576710 75 75     1117201923 857412505 861138833 1115890129 576710 SRX5113203 SRS4122001 SRA821074 University of Freiburg|Institute of Molecular Medicine and Cell Research University of Freiburg DeCaRe 2 0.93193 0.93451 0.28235 0.28132 0.77064 0.77246 0.60098 0.60153 75 75 B B biological fallback assumption illumina hiseq_era unknown small_rna trueseq bulk bulk bulk   Germany 2019-04-30 Adult Adult Heart Cardiovascular System
50814 50814 SRR8298680 SRX5113202 SRS4122002 SRP173044 PRJNA509429 Delineating the transcriptomic response during Zebrafish heart regeneration PRJNA509429 Other Sequencing data of both mRNA and microRNA were obtained to study the transcriptomic response during zebrafish heart regeneration. Samples were utilised in triplicates for each time point up to 160 xxx post injury. Furthermore mRNA and miRNA were obtained from the same biological samples to allow correlation analysis.   pubmed:30597924 Replicate 2   21dpi#2   breed:zebrafish|age:267 days|sex:missing|tissue:whole heart|time point:21 dpi|time replicate:21dpi#2|BioSampleModel:Model organism or animal                 21dpi rep2 5948 5948 RNA was extracted using RNeasy Mini Kit Qiagen #74104 and 200 nanogram were used for library preparation with TruSeq Stranded Total RNA Library Prep Illumina #20020597     RNA-Seq TRANSCRIPTOMIC other PAIRED ILLUMINA Illumina HiSeq 2000   SRP173044     SID5948_S37_L007_R1_001.fastq.gz SID5948_S37_L007_R2_001.fastq.gz fastq fastq 5483888850.0 36559259.0 SID5948 S37 L007 R1 001.fastq.gz 0:75 1:75 A:1539988374;C:1201795186;G:1199710952;T:1539542582;N:2851756 75 75     1539988374 1201795186 1199710952 1539542582 2851756 SRX5113202 SRS4122002 SRA821074 University of Freiburg|Institute of Molecular Medicine and Cell Research University of Freiburg DeCaRe 2 0.92071 0.92596 0.28014 0.27952 0.77078 0.77283 0.59179 0.59946 75 75 B B biological fallback assumption illumina hiseq_era unknown small_rna trueseq bulk bulk bulk   Germany 2019-04-30 Adult Adult Heart Cardiovascular System
50815 50815 SRR8298681 SRX5113201 SRS4122000 SRP173044 PRJNA509429 Delineating the transcriptomic response during Zebrafish heart regeneration PRJNA509429 Other Sequencing data of both mRNA and microRNA were obtained to study the transcriptomic response during zebrafish heart regeneration. Samples were utilised in triplicates for each time point up to 160 xxx post injury. Furthermore mRNA and miRNA were obtained from the same biological samples to allow correlation analysis.   pubmed:30597924 Replicate 3   21dpi#3   breed:zebrafish|age:267 days|sex:missing|tissue:whole heart|time point:21 dpi|time replicate:21dpi#3|BioSampleModel:Model organism or animal                 21dpi rep3 5949 5949 RNA was extracted using RNeasy Mini Kit Qiagen #74104 and 200 nanogram were used for library preparation with TruSeq Stranded Total RNA Library Prep Illumina #20020597     RNA-Seq TRANSCRIPTOMIC other PAIRED ILLUMINA Illumina HiSeq 2000   SRP173044     SID5949_S38_L007_R1_001.fastq.gz SID5949_S38_L007_R2_001.fastq.gz fastq fastq 4819312650.0 32128751.0 SID5949 S38 L007 R1 001.fastq.gz 0:75 1:75 A:1361991024;C:1048571509;G:1043232390;T:1363001014;N:2516713 75 75     1361991024 1048571509 1043232390 1363001014 2516713 SRX5113201 SRS4122000 SRA821074 University of Freiburg|Institute of Molecular Medicine and Cell Research University of Freiburg DeCaRe 2 0.90783 0.91107 0.27083 0.26934 0.77167 0.77516 0.61614 0.61731 75 75 B B biological fallback assumption illumina hiseq_era unknown small_rna trueseq bulk bulk bulk   Germany 2019-04-30 Adult Adult Heart Cardiovascular System
50816 50816 SRR8298682 SRX5113200 SRS4121998 SRP173044 PRJNA509429 Delineating the transcriptomic response during Zebrafish heart regeneration PRJNA509429 Other Sequencing data of both mRNA and microRNA were obtained to study the transcriptomic response during zebrafish heart regeneration. Samples were utilised in triplicates for each time point up to 160 xxx post injury. Furthermore mRNA and miRNA were obtained from the same biological samples to allow correlation analysis.   pubmed:30597924 Replicate 3   14dpi#3   breed:zebrafish|age:NA|sex:missing|tissue:whole heart|time point:14 dpi|time replicate:14dpi#3|BioSampleModel:Model organism or animal                 14dpi rep3 5946 5946 RNA was extracted using RNeasy Mini Kit Qiagen #74104 and 200 nanogram were used for library preparation with TruSeq Stranded Total RNA Library Prep Illumina #20020597     RNA-Seq TRANSCRIPTOMIC other PAIRED ILLUMINA Illumina HiSeq 2000   SRP173044     SID5946_S35_L007_R1_001.fastq.gz SID5946_S35_L007_R2_001.fastq.gz fastq fastq 4648725300.0 30991502.0 SID5946 S35 L007 R1 001.fastq.gz 0:75 1:75 A:1303485934;C:1019161225;G:1015495862;T:1308163547;N:2418732 75 75     1303485934 1019161225 1015495862 1308163547 2418732 SRX5113200 SRS4121998 SRA821074 University of Freiburg|Institute of Molecular Medicine and Cell Research University of Freiburg DeCaRe 2 0.92153 0.92446 0.28679 0.28712 0.77792 0.78042 0.57131 0.56895 75 75 B B biological fallback assumption illumina hiseq_era unknown small_rna trueseq bulk bulk bulk   Germany 2019-04-30 Undetermined Undetermined Heart Cardiovascular System
50817 50817 SRR8298683 SRX5113199 SRS4121999 SRP173044 PRJNA509429 Delineating the transcriptomic response during Zebrafish heart regeneration PRJNA509429 Other Sequencing data of both mRNA and microRNA were obtained to study the transcriptomic response during zebrafish heart regeneration. Samples were utilised in triplicates for each time point up to 160 xxx post injury. Furthermore mRNA and miRNA were obtained from the same biological samples to allow correlation analysis.   pubmed:30597924 Replicate 1   21dpi#1   breed:zebrafish|age:267 days|sex:missing|tissue:whole heart|time point:21 dpi|time replicate:21dpi#1|BioSampleModel:Model organism or animal                 21dpi rep1 5947 5947 RNA was extracted using RNeasy Mini Kit Qiagen #74104 and 200 nanogram were used for library preparation with TruSeq Stranded Total RNA Library Prep Illumina #20020597     RNA-Seq TRANSCRIPTOMIC other PAIRED ILLUMINA Illumina HiSeq 2000   SRP173044     SID5947_S36_L007_R2_001.fastq.gz SID5947_S36_L007_R1_001.fastq.gz fastq fastq 5219275350.0 34795169.0 SID5947 S36 L007 R1 001.fastq.gz 0:75 1:75 A:1469045456;C:1139906507;G:1137109871;T:1470492666;N:2720850 75 75     1469045456 1139906507 1137109871 1470492666 2720850 SRX5113199 SRS4121999 SRA821074 University of Freiburg|Institute of Molecular Medicine and Cell Research University of Freiburg DeCaRe 2 0.90788 0.91129 0.28166 0.28101 0.7624 0.76712 0.57412 0.60264 75 75 B B biological fallback assumption illumina hiseq_era unknown small_rna trueseq bulk bulk bulk   Germany 2018-12-11 Adult Adult Heart Cardiovascular System
50818 50818 SRR8298684 SRX5113198 SRS4121997 SRP173044 PRJNA509429 Delineating the transcriptomic response during Zebrafish heart regeneration PRJNA509429 Other Sequencing data of both mRNA and microRNA were obtained to study the transcriptomic response during zebrafish heart regeneration. Samples were utilised in triplicates for each time point up to 160 xxx post injury. Furthermore mRNA and miRNA were obtained from the same biological samples to allow correlation analysis.   pubmed:30597924 Replicate 1   14dpi#1   breed:zebrafish|age:NA|sex:missing|tissue:whole heart|time point:14 dpi|time replicate:14dpi#1|BioSampleModel:Model organism or animal                 14dpi rep1 5944 5944 RNA was extracted using RNeasy Mini Kit Qiagen #74104 and 200 nanogram were used for library preparation with TruSeq Stranded Total RNA Library Prep Illumina #20020597     RNA-Seq TRANSCRIPTOMIC other PAIRED ILLUMINA Illumina HiSeq 2000   SRP173044     SID5944_S33_L007_R1_001.fastq.gz SID5944_S33_L007_R2_001.fastq.gz fastq fastq 4880230050.0 32534867.0 SID5944 S33 L007 R1 001.fastq.gz 0:75 1:75 A:1375786208;C:1064869277;G:1049678552;T:1387347217;N:2548796 75 75     1375786208 1064869277 1049678552 1387347217 2548796 SRX5113198 SRS4121997 SRA821074 University of Freiburg|Institute of Molecular Medicine and Cell Research University of Freiburg DeCaRe 2 0.92418 0.92876 0.27259 0.27339 0.78526 0.78888 0.57372 0.57769 75 75 B B biological fallback assumption illumina hiseq_era unknown small_rna trueseq bulk bulk bulk   Germany 2019-04-30 Undetermined Undetermined Heart Cardiovascular System
50819 50819 SRR8298685 SRX5113197 SRS4121996 SRP173044 PRJNA509429 Delineating the transcriptomic response during Zebrafish heart regeneration PRJNA509429 Other Sequencing data of both mRNA and microRNA were obtained to study the transcriptomic response during zebrafish heart regeneration. Samples were utilised in triplicates for each time point up to 160 xxx post injury. Furthermore mRNA and miRNA were obtained from the same biological samples to allow correlation analysis.   pubmed:30597924 Replicate 2   14dpi#2   breed:zebrafish|age:NA|sex:missing|tissue:whole heart|time point:14 dpi|time replicate:14dpi#2|BioSampleModel:Model organism or animal                 14dpi rep2 5945 5945 RNA was extracted using RNeasy Mini Kit Qiagen #74104 and 200 nanogram were used for library preparation with TruSeq Stranded Total RNA Library Prep Illumina #20020597     RNA-Seq TRANSCRIPTOMIC other PAIRED ILLUMINA Illumina HiSeq 2000   SRP173044     SID5945_S34_L007_R1_001.fastq.gz SID5945_S34_L007_R2_001.fastq.gz fastq fastq 4722657450.0 31484383.0 SID5945 S34 L007 R1 001.fastq.gz 0:75 1:75 A:1318733900;C:1041426176;G:1033500671;T:1326546335;N:2450368 75 75     1318733900 1041426176 1033500671 1326546335 2450368 SRX5113197 SRS4121996 SRA821074 University of Freiburg|Institute of Molecular Medicine and Cell Research University of Freiburg DeCaRe 2 0.92723 0.92976 0.27077 0.27133 0.76232 0.76451 0.57825 0.57723 75 75 B B biological fallback assumption illumina hiseq_era unknown small_rna trueseq bulk bulk bulk   Germany 2019-04-30 Undetermined Undetermined Heart Cardiovascular System
50820 50820 SRR8298686 SRX5113196 SRS4121995 SRP173044 PRJNA509429 Delineating the transcriptomic response during Zebrafish heart regeneration PRJNA509429 Other Sequencing data of both mRNA and microRNA were obtained to study the transcriptomic response during zebrafish heart regeneration. Samples were utilised in triplicates for each time point up to 160 xxx post injury. Furthermore mRNA and miRNA were obtained from the same biological samples to allow correlation analysis.   pubmed:30597924 Replicate 2   7dpi#2   breed:zebrafish|age:273 days|sex:missing|tissue:whole heart|time point:7 dpi|time replicate:7dpi#2|BioSampleModel:Model organism or animal                 7dpi rep2 5942 5942 RNA was extracted using RNeasy Mini Kit Qiagen #74104 and 200 nanogram were used for library preparation with TruSeq Stranded Total RNA Library Prep Illumina #20020597     RNA-Seq TRANSCRIPTOMIC other PAIRED ILLUMINA Illumina HiSeq 2000   SRP173044     SID5942_S28_L006_R1_001.fastq.gz SID5942_S28_L006_R2_001.fastq.gz fastq fastq 5171801700.0 34478678.0 SID5942 S28 L006 R1 001.fastq.gz 0:75 1:75 A:1457147640;C:1127485743;G:1124661741;T:1459005403;N:3501173 75 75     1457147640 1127485743 1124661741 1459005403 3501173 SRX5113196 SRS4121995 SRA821074 University of Freiburg|Institute of Molecular Medicine and Cell Research University of Freiburg DeCaRe 2 0.92102 0.92337 0.28961 0.28865 0.75004 0.75209 0.55117 0.55117 75 75 B B biological fallback assumption illumina hiseq_era unknown small_rna trueseq bulk bulk bulk   Germany 2019-04-30 Adult Adult Heart Cardiovascular System
50821 50821 SRR8298687 SRX5113195 SRS4121994 SRP173044 PRJNA509429 Delineating the transcriptomic response during Zebrafish heart regeneration PRJNA509429 Other Sequencing data of both mRNA and microRNA were obtained to study the transcriptomic response during zebrafish heart regeneration. Samples were utilised in triplicates for each time point up to 160 xxx post injury. Furthermore mRNA and miRNA were obtained from the same biological samples to allow correlation analysis.   pubmed:30597924 Replicate 3   7dpi#3   breed:zebrafish|age:273 days|sex:missing|tissue:whole heart|time point:7 dpi|time replicate:7dpi#3|BioSampleModel:Model organism or animal                 7dpi rep3 5943 5943 RNA was extracted using RNeasy Mini Kit Qiagen #74104 and 200 nanogram were used for library preparation with TruSeq Stranded Total RNA Library Prep Illumina #20020597     RNA-Seq TRANSCRIPTOMIC other PAIRED ILLUMINA Illumina HiSeq 2000   SRP173044     SID5943_S27_L006_R1_001.fastq.gz SID5943_S27_L006_R2_001.fastq.gz fastq fastq 4517033100.0 30113554.0 SID5943 S27 L006 R1 001.fastq.gz 0:75 1:75 A:1291269833;C:967425221;G:965208852;T:1290075691;N:3053503 75 75     1291269833 967425221 965208852 1290075691 3053503 SRX5113195 SRS4121994 SRA821074 University of Freiburg|Institute of Molecular Medicine and Cell Research University of Freiburg DeCaRe 2 0.91466 0.91949 0.29572 0.2961 0.7487 0.75558 0.55326 0.5641 75 75 B B biological fallback assumption illumina hiseq_era unknown small_rna trueseq bulk bulk bulk   Germany 2019-04-30 Adult Adult Heart Cardiovascular System
50822 50822 SRR8298688 SRX5113194 SRS4121992 SRP173044 PRJNA509429 Delineating the transcriptomic response during Zebrafish heart regeneration PRJNA509429 Other Sequencing data of both mRNA and microRNA were obtained to study the transcriptomic response during zebrafish heart regeneration. Samples were utilised in triplicates for each time point up to 160 xxx post injury. Furthermore mRNA and miRNA were obtained from the same biological samples to allow correlation analysis.   pubmed:30597924 Replicate 1   160dpi#1   breed:zebrafish|age:463 days|sex:missing|tissue:whole heart|time point:160 dpi|time replicate:160dpi#1|BioSampleModel:Model organism or animal                 160dpi rep1 7275 7275 RNA was extracted using RNeasy Mini Kit Qiagen #74104 and 200 nanogram were used for library preparation with TruSeq Stranded Total RNA Library Prep Illumina #20020597     RNA-Seq TRANSCRIPTOMIC other PAIRED ILLUMINA Illumina HiSeq 2000   SRP173044     SID7275_S22_L004_R1_001.fastq.gz SID7275_S22_L004_R2_001.fastq.gz fastq fastq 4181854650.0 27879031.0 SID7275 S22 L004 R1 001.fastq.gz 0:75 1:75 A:1181005942;C:906846060;G:899205780;T:1194204939;N:591929 75 75     1181005942 906846060 899205780 1194204939 591929 SRX5113194 SRS4121992 SRA821074 University of Freiburg|Institute of Molecular Medicine and Cell Research University of Freiburg DeCaRe 2 0.90318 0.9002 0.32768 0.32822 0.77102 0.77384 0.56468 0.56558 75 75 B B biological fallback assumption illumina hiseq_era unknown small_rna trueseq bulk bulk bulk   Germany 2019-04-30 Adult Adult Heart Cardiovascular System
50823 50823 SRR8298689 SRX5113193 SRS4121991 SRP173044 PRJNA509429 Delineating the transcriptomic response during Zebrafish heart regeneration PRJNA509429 Other Sequencing data of both mRNA and microRNA were obtained to study the transcriptomic response during zebrafish heart regeneration. Samples were utilised in triplicates for each time point up to 160 xxx post injury. Furthermore mRNA and miRNA were obtained from the same biological samples to allow correlation analysis.   pubmed:30597924 Replicate 2   160dpi#2   breed:zebrafish|age:463 days|sex:missing|tissue:whole heart|time point:160 dpi|time replicate:160dpi#2|BioSampleModel:Model organism or animal                 160dpi rep2 7276 7276 RNA was extracted using RNeasy Mini Kit Qiagen #74104 and 200 nanogram were used for library preparation with TruSeq Stranded Total RNA Library Prep Illumina #20020597     RNA-Seq TRANSCRIPTOMIC other PAIRED ILLUMINA Illumina HiSeq 2000   SRP173044     SID7276_S23_L004_R2_001.fastq.gz SID7276_S23_L004_R1_001.fastq.gz fastq fastq 4146332250.0 27642215.0 SID7276 S23 L004 R1 001.fastq.gz 0:75 1:75 A:1159957610;C:910352523;G:906687072;T:1168748952;N:586093 75 75     1159957610 910352523 906687072 1168748952 586093 SRX5113193 SRS4121991 SRA821074 University of Freiburg|Institute of Molecular Medicine and Cell Research University of Freiburg DeCaRe 2 0.90536 0.90276 0.29293 0.29449 0.77849 0.77895 0.58534 0.34898 75 75 B B biological fallback assumption illumina hiseq_era unknown small_rna trueseq bulk bulk bulk   Germany 2019-04-30 Adult Adult Heart Cardiovascular System
50824 50824 SRR8298690 SRX5113192 SRS4121990 SRP173044 PRJNA509429 Delineating the transcriptomic response during Zebrafish heart regeneration PRJNA509429 Other Sequencing data of both mRNA and microRNA were obtained to study the transcriptomic response during zebrafish heart regeneration. Samples were utilised in triplicates for each time point up to 160 xxx post injury. Furthermore mRNA and miRNA were obtained from the same biological samples to allow correlation analysis.   pubmed:30597924 Replicate 3   160dpi#3   breed:zebrafish|age:463 days|sex:missing|tissue:whole heart|time point:160 dpi|time replicate:160dpi#3|BioSampleModel:Model organism or animal                 160dpi rep3 7277 7277 RNA was extracted using RNeasy Mini Kit Qiagen #74104 and 200 nanogram were used for library preparation with TruSeq Stranded Total RNA Library Prep Illumina #20020597     RNA-Seq TRANSCRIPTOMIC other PAIRED ILLUMINA Illumina HiSeq 2000   SRP173044     SID7277_S24_L004_R1_001.fastq.gz SID7277_S24_L004_R2_001.fastq.gz fastq fastq 5472079650.0 36480531.0 SID7277 S24 L004 R1 001.fastq.gz 0:75 1:75 A:1470665608;C:1262401410;G:1252027798;T:1486219756;N:765078 75 75     1470665608 1262401410 1252027798 1486219756 765078 SRX5113192 SRS4121990 SRA821074 University of Freiburg|Institute of Molecular Medicine and Cell Research University of Freiburg DeCaRe 2 0.85132 0.83282 0.25703 0.25354 0.80099 0.80142 0.59842 0.60563 75 75 B B biological fallback assumption illumina hiseq_era unknown small_rna trueseq bulk bulk bulk   Germany 2019-04-30 Adult Adult Heart Cardiovascular System
50825 50825 SRR8298691 SRX5113191 SRS4121993 SRP173044 PRJNA509429 Delineating the transcriptomic response during Zebrafish heart regeneration PRJNA509429 Other Sequencing data of both mRNA and microRNA were obtained to study the transcriptomic response during zebrafish heart regeneration. Samples were utilised in triplicates for each time point up to 160 xxx post injury. Furthermore mRNA and miRNA were obtained from the same biological samples to allow correlation analysis.   pubmed:30597924 Replicate 1   AgeCtr160dpi#1   breed:zebrafish|age:463 days|sex:missing|tissue:whole heart|time point:AgeMatchHealthy160dpi|time replicate:AgeCtr160dpi#1|BioSampleModel:Model organism or animal                 AgeMatchCtr160dpi rep1 8895 8895 RNA was extracted using RNeasy Mini Kit Qiagen #74104 and 200 nanogram were used for library preparation with TruSeq Stranded Total RNA Library Prep Illumina #20020597     RNA-Seq TRANSCRIPTOMIC other PAIRED ILLUMINA Illumina HiSeq 2000   SRP173044     SID8895_S1_L001_R2_001.fastq.gz SID8895_S1_L001_R1_001.fastq.gz fastq fastq 3296071950.0 21973813.0 SID8895 S1 L001 R1 001.fastq.gz 0:75 1:75 A:933363384;C:712077172;G:711836031;T:938304378;N:490985 75 75     933363384 712077172 711836031 938304378 490985 SRX5113191 SRS4121993 SRA821074 University of Freiburg|Institute of Molecular Medicine and Cell Research University of Freiburg DeCaRe 2 0.91566 0.91751 0.29657 0.29659 0.76035 0.76169 0.56344 0.56992 75 75 B B biological fallback assumption illumina hiseq_era unknown small_rna trueseq bulk bulk bulk   Germany 2018-12-11 Adult Adult Heart Cardiovascular System
50826 50826 SRR8298692 SRX5113190 SRS4121989 SRP173044 PRJNA509429 Delineating the transcriptomic response during Zebrafish heart regeneration PRJNA509429 Other Sequencing data of both mRNA and microRNA were obtained to study the transcriptomic response during zebrafish heart regeneration. Samples were utilised in triplicates for each time point up to 160 xxx post injury. Furthermore mRNA and miRNA were obtained from the same biological samples to allow correlation analysis.   pubmed:30597924 Replicate 2   AgeCtr160dpi#2   breed:zebrafish|age:463 days|sex:missing|tissue:whole heart|time point:AgeMatchHealthy160dpi|time replicate:AgeCtr160dpi#2|BioSampleModel:Model organism or animal                 AgeMatchCtr160dpi rep2 8896 8896 RNA was extracted using RNeasy Mini Kit Qiagen #74104 and 200 nanogram were used for library preparation with TruSeq Stranded Total RNA Library Prep Illumina #20020597     RNA-Seq TRANSCRIPTOMIC other PAIRED ILLUMINA Illumina HiSeq 2000   SRP173044     SID8896_S2_L001_R2_001.fastq.gz SID8896_S2_L001_R1_001.fastq.gz fastq fastq 4254029250.0 28360195.0 SID8896 S2 L001 R1 001.fastq.gz 0:75 1:75 A:1194195307;C:929727401;G:930645393;T:1198825951;N:635198 75 75     1194195307 929727401 930645393 1198825951 635198 SRX5113190 SRS4121989 SRA821074 University of Freiburg|Institute of Molecular Medicine and Cell Research University of Freiburg DeCaRe 2 0.92113 0.92615 0.29452 0.29383 0.7656 0.76755 0.5517 0.5473 75 75 B B biological fallback assumption illumina hiseq_era unknown small_rna trueseq bulk bulk bulk   Germany 2018-12-11 Adult Adult Heart Cardiovascular System
50827 50827 SRR8298693 SRX5113189 SRS4121987 SRP173044 PRJNA509429 Delineating the transcriptomic response during Zebrafish heart regeneration PRJNA509429 Other Sequencing data of both mRNA and microRNA were obtained to study the transcriptomic response during zebrafish heart regeneration. Samples were utilised in triplicates for each time point up to 160 xxx post injury. Furthermore mRNA and miRNA were obtained from the same biological samples to allow correlation analysis.   pubmed:30597924 Replicate 3   AgeCtr160dpi#3   breed:zebrafish|age:463 days|sex:missing|tissue:whole heart|time point:AgeMatchHealthy160dpi|time replicate:AgeCtr160dpi#3|BioSampleModel:Model organism or animal                 AgeMatchCtr160dpi rep3 8897 8897 RNA was extracted using RNeasy Mini Kit Qiagen #74104 and 200 nanogram were used for library preparation with TruSeq Stranded Total RNA Library Prep Illumina #20020597     RNA-Seq TRANSCRIPTOMIC other PAIRED ILLUMINA Illumina HiSeq 2000   SRP173044     SID8897_S3_L001_R1_001.fastq.gz SID8897_S3_L001_R2_001.fastq.gz fastq fastq 4650028050.0 31000187.0 SID8897 S3 L001 R1 001.fastq.gz 0:75 1:75 A:1302193981;C:1017446128;G:1021800760;T:1307902725;N:684456 75 75     1302193981 1017446128 1021800760 1307902725 684456 SRX5113189 SRS4121987 SRA821074 University of Freiburg|Institute of Molecular Medicine and Cell Research University of Freiburg DeCaRe 2 0.91652 0.92167 0.29435 0.29352 0.77285 0.77453 0.33726 0.55364 75 75 B B biological fallback assumption illumina hiseq_era unknown small_rna trueseq bulk bulk bulk   Germany 2019-04-30 Adult Adult Heart Cardiovascular System
50828 50828 SRR8298694 SRX5113188 SRS4121988 SRP173044 PRJNA509429 Delineating the transcriptomic response during Zebrafish heart regeneration PRJNA509429 Other Sequencing data of both mRNA and microRNA were obtained to study the transcriptomic response during zebrafish heart regeneration. Samples were utilised in triplicates for each time point up to 160 xxx post injury. Furthermore mRNA and miRNA were obtained from the same biological samples to allow correlation analysis.   pubmed:30597924 Replicate 1   30dpi#1   breed:zebrafish|age:241 days|sex:missing|tissue:whole heart|time point:30 dpi|time replicate:30dpi#1|BioSampleModel:Model organism or animal                 30dpi rep1 5950 5950 RNA was extracted using RNeasy Mini Kit Qiagen #74104 and 200 nanogram were used for library preparation with TruSeq Stranded Total RNA Library Prep Illumina #20020597     RNA-Seq TRANSCRIPTOMIC other PAIRED ILLUMINA Illumina HiSeq 2000   SRP173044     SID5950_S39_L008_R1_001.fastq.gz SID5950_S39_L008_R2_001.fastq.gz fastq fastq 4901662650.0 32677751.0 SID5950 S39 L008 R1 001.fastq.gz 0:75 1:75 A:1373803321;C:1078052071;G:1069535429;T:1377378449;N:2893380 75 75     1373803321 1078052071 1069535429 1377378449 2893380 SRX5113188 SRS4121988 SRA821074 University of Freiburg|Institute of Molecular Medicine and Cell Research University of Freiburg DeCaRe 2 0.92534 0.92914 0.24374 0.24303 0.78798 0.79105 0.59734 0.59932 75 75 B B biological fallback assumption illumina hiseq_era unknown small_rna trueseq bulk bulk bulk   Germany 2019-04-30 Adult Adult Heart Cardiovascular System
50829 50829 SRR8298695 SRX5113187 SRS4121986 SRP173044 PRJNA509429 Delineating the transcriptomic response during Zebrafish heart regeneration PRJNA509429 Other Sequencing data of both mRNA and microRNA were obtained to study the transcriptomic response during zebrafish heart regeneration. Samples were utilised in triplicates for each time point up to 160 xxx post injury. Furthermore mRNA and miRNA were obtained from the same biological samples to allow correlation analysis.   pubmed:30597924 Replicate 2   30dpi#2   breed:zebrafish|age:241 days|sex:missing|tissue:whole heart|time point:30 dpi|time replicate:30dpi#2|BioSampleModel:Model organism or animal                 30dpi rep2 5951 5951 RNA was extracted using RNeasy Mini Kit Qiagen #74104 and 200 nanogram were used for library preparation with TruSeq Stranded Total RNA Library Prep Illumina #20020597     RNA-Seq TRANSCRIPTOMIC other PAIRED ILLUMINA Illumina HiSeq 2000   SRP173044     SID5951_S40_L008_R1_001.fastq.gz SID5951_S40_L008_R2_001.fastq.gz fastq fastq 6092510850.0 40616739.0 SID5951 S40 L008 R1 001.fastq.gz 0:75 1:75 A:1688206071;C:1354066100;G:1339632797;T:1707023610;N:3582272 75 75     1688206071 1354066100 1339632797 1707023610 3582272 SRX5113187 SRS4121986 SRA821074 University of Freiburg|Institute of Molecular Medicine and Cell Research University of Freiburg DeCaRe 2 0.91475 0.91646 0.25976 0.25918 0.76784 0.77066 0.59373 0.36414 75 75 B B biological fallback assumption illumina hiseq_era unknown small_rna trueseq bulk bulk bulk   Germany 2019-04-30 Adult Adult Heart Cardiovascular System
50830 50830 SRR8298696 SRX5113186 SRS4121985 SRP173044 PRJNA509429 Delineating the transcriptomic response during Zebrafish heart regeneration PRJNA509429 Other Sequencing data of both mRNA and microRNA were obtained to study the transcriptomic response during zebrafish heart regeneration. Samples were utilised in triplicates for each time point up to 160 xxx post injury. Furthermore mRNA and miRNA were obtained from the same biological samples to allow correlation analysis.   pubmed:30597924 Replicate 1   AgeCtr120dpi#1   breed:zebrafish|age:378 days|sex:missing|tissue:whole heart|time point:AgeMatchHealthy120dpi|time replicate:AgeCtr120dpi#1|BioSampleModel:Model organism or animal                 AgeMatchCtr120dpi rep1 8898 8898 RNA was extracted using RNeasy Mini Kit Qiagen #74104 and 200 nanogram were used for library preparation with TruSeq Stranded Total RNA Library Prep Illumina #20020597     RNA-Seq TRANSCRIPTOMIC other PAIRED ILLUMINA Illumina HiSeq 2000   SRP173044     SID8898_S4_L001_R2_001.fastq.gz SID8898_S4_L001_R1_001.fastq.gz fastq fastq 4483909800.0 29892732.0 SID8898 S4 L001 R1 001.fastq.gz 0:75 1:75 A:1256860639;C:980027180;G:982979324;T:1263389080;N:653577 75 75     1256860639 980027180 982979324 1263389080 653577 SRX5113186 SRS4121985 SRA821074 University of Freiburg|Institute of Molecular Medicine and Cell Research University of Freiburg DeCaRe 2 0.92353 0.92518 0.29749 0.29809 0.76623 0.76735 0.58605 0.58637 75 75 B B biological fallback assumption illumina hiseq_era unknown small_rna trueseq bulk bulk bulk   Germany 2019-04-30 Adult Adult Heart Cardiovascular System
50831 50831 SRR8298697 SRX5113185 SRS4121984 SRP173044 PRJNA509429 Delineating the transcriptomic response during Zebrafish heart regeneration PRJNA509429 Other Sequencing data of both mRNA and microRNA were obtained to study the transcriptomic response during zebrafish heart regeneration. Samples were utilised in triplicates for each time point up to 160 xxx post injury. Furthermore mRNA and miRNA were obtained from the same biological samples to allow correlation analysis.   pubmed:30597924 Replicate 2   AgeCtr120dpi#2   breed:zebrafish|age:378 days|sex:missing|tissue:whole heart|time point:AgeMatchHealthy120dpi|time replicate:AgeCtr120dpi#2|BioSampleModel:Model organism or animal                 AgeMatchCtr120dpi rep2 8899 8899 RNA was extracted using RNeasy Mini Kit Qiagen #74104 and 200 nanogram were used for library preparation with TruSeq Stranded Total RNA Library Prep Illumina #20020597     RNA-Seq TRANSCRIPTOMIC other PAIRED ILLUMINA Illumina HiSeq 2000   SRP173044     SID8899_S5_L001_R2_001.fastq.gz SID8899_S5_L001_R1_001.fastq.gz fastq fastq 3236079750.0 21573865.0 SID8899 S5 L001 R1 001.fastq.gz 0:75 1:75 A:924324675;C:694412856;G:683305315;T:933556442;N:480462 75 75     924324675 694412856 683305315 933556442 480462 SRX5113185 SRS4121984 SRA821074 University of Freiburg|Institute of Molecular Medicine and Cell Research University of Freiburg DeCaRe 2 0.93623 0.93903 0.27394 0.27249 0.78305 0.79397 0.61872 0.62189 75 75 B B biological fallback assumption illumina hiseq_era unknown small_rna trueseq bulk bulk bulk   Germany 2018-12-11 Adult Adult Heart Cardiovascular System
50832 50832 SRR8298698 SRX5113184 SRS4121982 SRP173044 PRJNA509429 Delineating the transcriptomic response during Zebrafish heart regeneration PRJNA509429 Other Sequencing data of both mRNA and microRNA were obtained to study the transcriptomic response during zebrafish heart regeneration. Samples were utilised in triplicates for each time point up to 160 xxx post injury. Furthermore mRNA and miRNA were obtained from the same biological samples to allow correlation analysis.   pubmed:30597924 Replicate 3   AgeCtr45dpi#3   breed:zebrafish|age:302 days|sex:missing|tissue:whole heart|time point:AgeMatchHealthy45dpi|time replicate:AgeCtr45dpi#3|BioSampleModel:Model organism or animal                 AgeMatchCtr45dpi rep3 8903 8903 RNA was extracted using RNeasy Mini Kit Qiagen #74104 and 200 nanogram were used for library preparation with TruSeq Stranded Total RNA Library Prep Illumina #20020597     RNA-Seq TRANSCRIPTOMIC other PAIRED ILLUMINA Illumina HiSeq 2000   SRP173044     SID8903_S9_L002_R1_001.fastq.gz SID8903_S9_L002_R2_001.fastq.gz fastq fastq 5771819400.0 38478796.0 SID8903 S9 L002 R1 001.fastq.gz 0:75 1:75 A:1626618253;C:1259436307;G:1254406150;T:1630506429;N:852261 75 75     1626618253 1259436307 1254406150 1630506429 852261 SRX5113184 SRS4121982 SRA821074 University of Freiburg|Institute of Molecular Medicine and Cell Research University of Freiburg DeCaRe 2 0.93387 0.93606 0.26533 0.26623 0.7791 0.78184 0.60837 0.6089 75 75 B B biological fallback assumption illumina hiseq_era unknown small_rna trueseq bulk bulk bulk   Germany 2019-04-30 Adult Adult Heart Cardiovascular System
50833 50833 SRR8298699 SRX5113183 SRS4121983 SRP173044 PRJNA509429 Delineating the transcriptomic response during Zebrafish heart regeneration PRJNA509429 Other Sequencing data of both mRNA and microRNA were obtained to study the transcriptomic response during zebrafish heart regeneration. Samples were utilised in triplicates for each time point up to 160 xxx post injury. Furthermore mRNA and miRNA were obtained from the same biological samples to allow correlation analysis.   pubmed:30597924 Replicate 2   AgeCtr45dpi#2   breed:zebrafish|age:302 days|sex:missing|tissue:whole heart|time point:AgeMatchHealthy45dpi|time replicate:AgeCtr45dpi#2|BioSampleModel:Model organism or animal                 AgeMatchCtr45dpi rep2 8902 8902 RNA was extracted using RNeasy Mini Kit Qiagen #74104 and 200 nanogram were used for library preparation with TruSeq Stranded Total RNA Library Prep Illumina #20020597     RNA-Seq TRANSCRIPTOMIC other PAIRED ILLUMINA Illumina HiSeq 2000   SRP173044     SID8902_S8_L002_R1_001.fastq.gz SID8902_S8_L002_R2_001.fastq.gz fastq fastq 4306880850.0 28712539.0 SID8902 S8 L002 R1 001.fastq.gz 0:75 1:75 A:1215412508;C:936746871;G:932596782;T:1221491491;N:633198 75 75     1215412508 936746871 932596782 1221491491 633198 SRX5113183 SRS4121983 SRA821074 University of Freiburg|Institute of Molecular Medicine and Cell Research University of Freiburg DeCaRe 2 0.92781 0.93331 0.28874 0.28876 0.78001 0.78346 0.60164 0.59332 75 75 B B biological fallback assumption illumina hiseq_era unknown small_rna trueseq bulk bulk bulk   Germany 2019-04-30 Adult Adult Heart Cardiovascular System
50834 50834 SRR8298700 SRX5113182 SRS4121981 SRP173044 PRJNA509429 Delineating the transcriptomic response during Zebrafish heart regeneration PRJNA509429 Other Sequencing data of both mRNA and microRNA were obtained to study the transcriptomic response during zebrafish heart regeneration. Samples were utilised in triplicates for each time point up to 160 xxx post injury. Furthermore mRNA and miRNA were obtained from the same biological samples to allow correlation analysis.   pubmed:30597924 Replicate 2   AgeCtr5Month#2   breed:zebrafish|age:154 days|sex:missing|tissue:whole heart|time point:Healthy5months|time replicate:AgeCtr5Month#2|BioSampleModel:Model organism or animal                 Healthy 5months rep2 8905 8905 RNA was extracted using RNeasy Mini Kit Qiagen #74104 and 200 nanogram were used for library preparation with TruSeq Stranded Total RNA Library Prep Illumina #20020597     RNA-Seq TRANSCRIPTOMIC other PAIRED ILLUMINA Illumina HiSeq 2000   SRP173044     SID8905_S11_L002_R2_001.fastq.gz SID8905_S11_L002_R1_001.fastq.gz fastq fastq 4929348150.0 32862321.0 SID8905 S11 L002 R1 001.fastq.gz 0:75 1:75 A:1391170271;C:1071161977;G:1070299973;T:1395997848;N:718081 75 75     1391170271 1071161977 1070299973 1395997848 718081 SRX5113182 SRS4121981 SRA821074 University of Freiburg|Institute of Molecular Medicine and Cell Research University of Freiburg DeCaRe 2 0.93773 0.93948 0.26268 0.26236 0.77362 0.77506 0.57569 0.57708 75 75 B B biological fallback assumption illumina hiseq_era unknown small_rna trueseq bulk bulk bulk   Germany 2018-12-11 Adult Adult Heart Cardiovascular System
50835 50835 SRR8298701 SRX5113181 SRS4121980 SRP173044 PRJNA509429 Delineating the transcriptomic response during Zebrafish heart regeneration PRJNA509429 Other Sequencing data of both mRNA and microRNA were obtained to study the transcriptomic response during zebrafish heart regeneration. Samples were utilised in triplicates for each time point up to 160 xxx post injury. Furthermore mRNA and miRNA were obtained from the same biological samples to allow correlation analysis.   pubmed:30597924 Replicate 1   AgeCtr5Month#1   breed:zebrafish|age:154 days|sex:missing|tissue:whole heart|time point:Healthy5months|time replicate:AgeCtr5Month#1|BioSampleModel:Model organism or animal                 Healthy 5months rep1 8904 8904 RNA was extracted using RNeasy Mini Kit Qiagen #74104 and 200 nanogram were used for library preparation with TruSeq Stranded Total RNA Library Prep Illumina #20020597     RNA-Seq TRANSCRIPTOMIC other PAIRED ILLUMINA Illumina HiSeq 2000   SRP173044     SID8904_S10_L002_R1_001.fastq.gz SID8904_S10_L002_R2_001.fastq.gz fastq fastq 4600628100.0 30670854.0 SID8904 S10 L002 R1 001.fastq.gz 0:75 1:75 A:1299953049;C:997112028;G:995317490;T:1307572252;N:673281 75 75     1299953049 997112028 995317490 1307572252 673281 SRX5113181 SRS4121980 SRA821074 University of Freiburg|Institute of Molecular Medicine and Cell Research University of Freiburg DeCaRe 2 0.92985 0.93317 0.27378 0.27505 0.76708 0.76928 0.58583 0.58459 75 75 B B biological fallback assumption illumina hiseq_era unknown small_rna trueseq bulk bulk bulk   Germany 2019-04-30 Adult Adult Heart Cardiovascular System
50836 50836 SRR8298702 SRX5113180 SRS4121979 SRP173044 PRJNA509429 Delineating the transcriptomic response during Zebrafish heart regeneration PRJNA509429 Other Sequencing data of both mRNA and microRNA were obtained to study the transcriptomic response during zebrafish heart regeneration. Samples were utilised in triplicates for each time point up to 160 xxx post injury. Furthermore mRNA and miRNA were obtained from the same biological samples to allow correlation analysis.   pubmed:30597924 Replicate 3   AgeCtr5Month#3   breed:zebrafish|age:154 days|sex:missing|tissue:whole heart|time point:Healthy5months|time replicate:AgeCtr5Month#3|BioSampleModel:Model organism or animal                 Healthy 5months rep3 8906 8906 RNA was extracted using RNeasy Mini Kit Qiagen #74104 and 200 nanogram were used for library preparation with TruSeq Stranded Total RNA Library Prep Illumina #20020597     RNA-Seq TRANSCRIPTOMIC other PAIRED ILLUMINA Illumina HiSeq 2000   SRP173044     SID8906_S12_L002_R1_001.fastq.gz SID8906_S12_L002_R2_001.fastq.gz fastq fastq 4165039500.0 27766930.0 SID8906 S12 L002 R1 001.fastq.gz 0:75 1:75 A:1195051426;C:887781650;G:881955704;T:1199637740;N:612980 75 75     1195051426 887781650 881955704 1199637740 612980 SRX5113180 SRS4121979 SRA821074 University of Freiburg|Institute of Molecular Medicine and Cell Research University of Freiburg DeCaRe 2 0.93095 0.93609 0.27404 0.27418 0.7667 0.77047 0.5912 0.59542 75 75 B B biological fallback assumption illumina hiseq_era unknown small_rna trueseq bulk bulk bulk   Germany 2019-04-30 Adult Adult Heart Cardiovascular System
50837 50837 SRR8298703 SRX5113179 SRS4121978 SRP173044 PRJNA509429 Delineating the transcriptomic response during Zebrafish heart regeneration PRJNA509429 Other Sequencing data of both mRNA and microRNA were obtained to study the transcriptomic response during zebrafish heart regeneration. Samples were utilised in triplicates for each time point up to 160 xxx post injury. Furthermore mRNA and miRNA were obtained from the same biological samples to allow correlation analysis.   pubmed:30597924 Replicate 3   120dpi#3   breed:zebrafish|age:378 days|sex:missing|tissue:whole heart|time point:120 dpi|time replicate:120dpi#3|BioSampleModel:Model organism or animal                 120dpi rep3 5961 5961 RNA was extracted using RNeasy Mini Kit Qiagen #74104 and 200 nanogram were used for library preparation with TruSeq Stranded Total RNA Library Prep Illumina #20020597     RNA-Seq TRANSCRIPTOMIC other PAIRED ILLUMINA Illumina HiSeq 2000   SRP173044     SID5961_S11_L002_R1_001.fastq.gz SID5961_S11_L002_R2_001.fastq.gz fastq fastq 4885501800.0 32570012.0 SID5961 S11 L002 R1 001.fastq.gz 0:75 1:75 A:1373358839;C:1068488355;G:1066801950;T:1372456422;N:4396234 75 75     1373358839 1068488355 1066801950 1372456422 4396234 SRX5113179 SRS4121978 SRA821074 University of Freiburg|Institute of Molecular Medicine and Cell Research University of Freiburg DeCaRe 2 0.9246 0.92659 0.25833 0.25787 0.78127 0.7836 0.60281 0.60025 75 75 B B biological fallback assumption illumina hiseq_era unknown small_rna trueseq bulk bulk bulk   Germany 2019-04-30 Adult Adult Heart Cardiovascular System
50838 50838 SRR8298704 SRX5113178 SRS4121976 SRP173044 PRJNA509429 Delineating the transcriptomic response during Zebrafish heart regeneration PRJNA509429 Other Sequencing data of both mRNA and microRNA were obtained to study the transcriptomic response during zebrafish heart regeneration. Samples were utilised in triplicates for each time point up to 160 xxx post injury. Furthermore mRNA and miRNA were obtained from the same biological samples to allow correlation analysis.   pubmed:30597924 Replicate 2   120dpi#2   breed:zebrafish|age:378 days|sex:missing|tissue:whole heart|time point:120 dpi|time replicate:120dpi#2|BioSampleModel:Model organism or animal                 120dpi rep2 5960 5960 RNA was extracted using RNeasy Mini Kit Qiagen #74104 and 200 nanogram were used for library preparation with TruSeq Stranded Total RNA Library Prep Illumina #20020597     RNA-Seq TRANSCRIPTOMIC other PAIRED ILLUMINA Illumina HiSeq 2000   SRP173044     SID5960_S12_L002_R2_001.fastq.gz SID5960_S12_L002_R1_001.fastq.gz fastq fastq 3898224150.0 25988161.0 SID5960 S12 L002 R1 001.fastq.gz 0:75 1:75 A:1099131779;C:849905857;G:848167931;T:1097528051;N:3490532 75 75     1099131779 849905857 848167931 1097528051 3490532 SRX5113178 SRS4121976 SRA821074 University of Freiburg|Institute of Molecular Medicine and Cell Research University of Freiburg DeCaRe 2 0.92907 0.93449 0.2688 0.26772 0.78261 0.78433 0.60076 0.59902 75 75 B B biological fallback assumption illumina hiseq_era unknown small_rna trueseq bulk bulk bulk   Germany 2018-12-11 Adult Adult Heart Cardiovascular System
50839 50839 SRR8298705 SRX5113177 SRS4121977 SRP173044 PRJNA509429 Delineating the transcriptomic response during Zebrafish heart regeneration PRJNA509429 Other Sequencing data of both mRNA and microRNA were obtained to study the transcriptomic response during zebrafish heart regeneration. Samples were utilised in triplicates for each time point up to 160 xxx post injury. Furthermore mRNA and miRNA were obtained from the same biological samples to allow correlation analysis.   pubmed:30597924 Replicate 1   120dpi#1   breed:zebrafish|age:378 days|sex:missing|tissue:whole heart|time point:120 dpi|time replicate:120dpi#1|BioSampleModel:Model organism or animal                 120dpi rep1 5959 5959 RNA was extracted using RNeasy Mini Kit Qiagen #74104 and 200 nanogram were used for library preparation with TruSeq Stranded Total RNA Library Prep Illumina #20020597     RNA-Seq TRANSCRIPTOMIC other PAIRED ILLUMINA Illumina HiSeq 2000   SRP173044     SID5959_S2_L001_R2_001.fastq.gz SID5959_S2_L001_R1_001.fastq.gz fastq fastq 4162131150.0 27747541.0 SID5959 S2 L001 R1 001.fastq.gz 0:75 1:75 A:1179250180;C:902919196;G:895611442;T:1180890638;N:3459694 75 75     1179250180 902919196 895611442 1180890638 3459694 SRX5113177 SRS4121977 SRA821074 University of Freiburg|Institute of Molecular Medicine and Cell Research University of Freiburg DeCaRe 2 0.92816 0.93221 0.2657 0.26641 0.78835 0.79028 0.57814 0.58497 75 75 B B biological fallback assumption illumina hiseq_era unknown small_rna trueseq bulk bulk bulk   Germany 2019-04-30 Adult Adult Heart Cardiovascular System
50840 50840 SRR8298706 SRX5113176 SRS4121975 SRP173044 PRJNA509429 Delineating the transcriptomic response during Zebrafish heart regeneration PRJNA509429 Other Sequencing data of both mRNA and microRNA were obtained to study the transcriptomic response during zebrafish heart regeneration. Samples were utilised in triplicates for each time point up to 160 xxx post injury. Furthermore mRNA and miRNA were obtained from the same biological samples to allow correlation analysis.   pubmed:30597924 Replicate 3   60dpi#3   breed:zebrafish|age:265 days|sex:missing|tissue:whole heart|time point:60 dpi|time replicate:60dpi#3|BioSampleModel:Model organism or animal                 60dpi rep3 5958 5958 RNA was extracted using RNeasy Mini Kit Qiagen #74104 and 200 nanogram were used for library preparation with TruSeq Stranded Total RNA Library Prep Illumina #20020597     RNA-Seq TRANSCRIPTOMIC other PAIRED ILLUMINA Illumina HiSeq 2000   SRP173044     SID5958_S6_L001_R1_001.fastq.gz SID5958_S6_L001_R2_001.fastq.gz fastq fastq 8199799500.0 54665330.0 SID5958 S6 L001 R1 001.fastq.gz 0:75 1:75 A:2315697517;C:1786954487;G:1776061301;T:2314246361;N:6839834 75 75     2315697517 1786954487 1776061301 2314246361 6839834 SRX5113176 SRS4121975 SRA821074 University of Freiburg|Institute of Molecular Medicine and Cell Research University of Freiburg DeCaRe 2 0.92837 0.92967 0.27166 0.2711 0.79874 0.80064 0.58585 0.58555 75 75 B B biological fallback assumption illumina hiseq_era unknown small_rna trueseq bulk bulk bulk   Germany 2019-04-30 Adult Adult Heart Cardiovascular System
50841 50841 SRR8298707 SRX5113175 SRS4121974 SRP173044 PRJNA509429 Delineating the transcriptomic response during Zebrafish heart regeneration PRJNA509429 Other Sequencing data of both mRNA and microRNA were obtained to study the transcriptomic response during zebrafish heart regeneration. Samples were utilised in triplicates for each time point up to 160 xxx post injury. Furthermore mRNA and miRNA were obtained from the same biological samples to allow correlation analysis.   pubmed:30597924 Replicate 2   60dpi#2   breed:zebrafish|age:265 days|sex:missing|tissue:whole heart|time point:60 dpi|time replicate:60dpi#2|BioSampleModel:Model organism or animal                 60dpi rep2 5957 5957 RNA was extracted using RNeasy Mini Kit Qiagen #74104 and 200 nanogram were used for library preparation with TruSeq Stranded Total RNA Library Prep Illumina #20020597     RNA-Seq TRANSCRIPTOMIC other PAIRED ILLUMINA Illumina HiSeq 2000   SRP173044     SID5957_S1_L001_R2_001.fastq.gz SID5957_S1_L001_R1_001.fastq.gz fastq fastq 5076508950.0 33843393.0 SID5957 S1 L001 R1 001.fastq.gz 0:75 1:75 A:1419284178;C:1119499915;G:1116625755;T:1416893160;N:4205942 75 75     1419284178 1119499915 1116625755 1416893160 4205942 SRX5113175 SRS4121974 SRA821074 University of Freiburg|Institute of Molecular Medicine and Cell Research University of Freiburg DeCaRe 2 0.91675 0.91777 0.24976 0.24835 0.80813 0.80815 0.59245 0.59618 75 75 B B biological fallback assumption illumina hiseq_era unknown small_rna trueseq bulk bulk bulk   Germany 2018-12-11 Adult Adult Heart Cardiovascular System
50842 50842 SRR8298708 SRX5113174 SRS4121973 SRP173044 PRJNA509429 Delineating the transcriptomic response during Zebrafish heart regeneration PRJNA509429 Other Sequencing data of both mRNA and microRNA were obtained to study the transcriptomic response during zebrafish heart regeneration. Samples were utilised in triplicates for each time point up to 160 xxx post injury. Furthermore mRNA and miRNA were obtained from the same biological samples to allow correlation analysis.   pubmed:30597924 Replicate 1   60dpi#1   breed:zebrafish|age:265 days|sex:missing|tissue:whole heart|time point:60 dpi|time replicate:60dpi#1|BioSampleModel:Model organism or animal                 60dpi rep1 5956 5956 RNA was extracted using RNeasy Mini Kit Qiagen #74104 and 200 nanogram were used for library preparation with TruSeq Stranded Total RNA Library Prep Illumina #20020597     RNA-Seq TRANSCRIPTOMIC other PAIRED ILLUMINA Illumina HiSeq 2000   SRP173044     SID5956_S5_L001_R1_001.fastq.gz SID5956_S5_L001_R2_001.fastq.gz fastq fastq 3037760250.0 20251735.0 SID5956 S5 L001 R1 001.fastq.gz 0:75 1:75 A:855319143;C:662784213;G:672270090;T:844860777;N:2526027 75 75     855319143 662784213 672270090 844860777 2526027 SRX5113174 SRS4121973 SRA821074 University of Freiburg|Institute of Molecular Medicine and Cell Research University of Freiburg DeCaRe 2 0.92385 0.92129 0.26517 0.26397 0.80125 0.80545 0.57571 0.34016 75 75 B B biological fallback assumption illumina hiseq_era unknown small_rna trueseq bulk bulk bulk   Germany 2019-04-30 Adult Adult Heart Cardiovascular System
50843 50843 SRR8298709 SRX5113173 SRS4121972 SRP173044 PRJNA509429 Delineating the transcriptomic response during Zebrafish heart regeneration PRJNA509429 Other Sequencing data of both mRNA and microRNA were obtained to study the transcriptomic response during zebrafish heart regeneration. Samples were utilised in triplicates for each time point up to 160 xxx post injury. Furthermore mRNA and miRNA were obtained from the same biological samples to allow correlation analysis.   pubmed:30597924 Replicate 3   45dpi#3   breed:zebrafish|age:302 days|sex:missing|tissue:whole heart|time point:45 dpi|time replicate:45dpi#3|BioSampleModel:Model organism or animal                 45dpi rep3 5955 5955 RNA was extracted using RNeasy Mini Kit Qiagen #74104 and 200 nanogram were used for library preparation with TruSeq Stranded Total RNA Library Prep Illumina #20020597     RNA-Seq TRANSCRIPTOMIC other PAIRED ILLUMINA Illumina HiSeq 2000   SRP173044     SID5955_S4_L001_R1_001.fastq.gz SID5955_S4_L001_R2_001.fastq.gz fastq fastq 4527734100.0 30184894.0 SID5955 S4 L001 R1 001.fastq.gz 0:75 1:75 A:1284400034;C:978356858;G:962329763;T:1298877592;N:3769853 75 75     1284400034 978356858 962329763 1298877592 3769853 SRX5113173 SRS4121972 SRA821074 University of Freiburg|Institute of Molecular Medicine and Cell Research University of Freiburg DeCaRe 2 0.91901 0.9216 0.31343 0.31336 0.76585 0.76749 0.6169 0.61439 75 75 B B biological fallback assumption illumina hiseq_era unknown small_rna trueseq bulk bulk bulk   Germany 2019-04-30 Adult Adult Heart Cardiovascular System
50844 50844 SRR8298710 SRX5113172 SRS4121969 SRP173044 PRJNA509429 Delineating the transcriptomic response during Zebrafish heart regeneration PRJNA509429 Other Sequencing data of both mRNA and microRNA were obtained to study the transcriptomic response during zebrafish heart regeneration. Samples were utilised in triplicates for each time point up to 160 xxx post injury. Furthermore mRNA and miRNA were obtained from the same biological samples to allow correlation analysis.   pubmed:30597924 Replicate 2   45dpi#2   breed:zebrafish|age:302 days|sex:missing|tissue:whole heart|time point:45 dpi|time replicate:45dpi#2|BioSampleModel:Model organism or animal                 45dpi rep2 5954 5954 RNA was extracted using RNeasy Mini Kit Qiagen #74104 and 200 nanogram were used for library preparation with TruSeq Stranded Total RNA Library Prep Illumina #20020597     RNA-Seq TRANSCRIPTOMIC other PAIRED ILLUMINA Illumina HiSeq 2000   SRP173044     SID5954_S3_L001_R1_001.fastq.gz SID5954_S3_L001_R2_001.fastq.gz fastq fastq 4299485250.0 28663235.0 SID5954 S3 L001 R1 001.fastq.gz 0:75 1:75 A:1214156806;C:933962608;G:920087647;T:1227715898;N:3562291 75 75     1214156806 933962608 920087647 1227715898 3562291 SRX5113172 SRS4121969 SRA821074 University of Freiburg|Institute of Molecular Medicine and Cell Research University of Freiburg DeCaRe 2 0.91583 0.91783 0.32439 0.32427 0.76471 0.76678 0.60158 0.60172 75 75 B B biological fallback assumption illumina hiseq_era unknown small_rna trueseq bulk bulk bulk   Germany 2019-04-30 Adult Adult Heart Cardiovascular System
50845 50845 SRR8298711 SRX5113171 SRS4121970 SRP173044 PRJNA509429 Delineating the transcriptomic response during Zebrafish heart regeneration PRJNA509429 Other Sequencing data of both mRNA and microRNA were obtained to study the transcriptomic response during zebrafish heart regeneration. Samples were utilised in triplicates for each time point up to 160 xxx post injury. Furthermore mRNA and miRNA were obtained from the same biological samples to allow correlation analysis.   pubmed:30597924 Replicate 1   45dpi#1   breed:zebrafish|age:302 days|sex:missing|tissue:whole heart|time point:45 dpi|time replicate:45dpi#1|BioSampleModel:Model organism or animal                 45dpi rep1 5953 5953 RNA was extracted using RNeasy Mini Kit Qiagen #74104 and 200 nanogram were used for library preparation with TruSeq Stranded Total RNA Library Prep Illumina #20020597     RNA-Seq TRANSCRIPTOMIC other PAIRED ILLUMINA Illumina HiSeq 2000   SRP173044     SID5953_S44_L008_R1_001.fastq.gz SID5953_S44_L008_R2_001.fastq.gz fastq fastq 5374207650.0 35828051.0 SID5953 S44 L008 R1 001.fastq.gz 0:75 1:75 A:1510807007;C:1174714817;G:1164085803;T:1521456074;N:3143949 75 75     1510807007 1174714817 1164085803 1521456074 3143949 SRX5113171 SRS4121970 SRA821074 University of Freiburg|Institute of Molecular Medicine and Cell Research University of Freiburg DeCaRe 2 0.92029 0.9222 0.3057 0.30508 0.76248 0.76532 0.62394 0.62252 75 75 B B biological fallback assumption illumina hiseq_era unknown small_rna trueseq bulk bulk bulk   Germany 2019-04-30 Adult Adult Heart Cardiovascular System
50846 50846 SRR8298712 SRX5113170 SRS4121971 SRP173044 PRJNA509429 Delineating the transcriptomic response during Zebrafish heart regeneration PRJNA509429 Other Sequencing data of both mRNA and microRNA were obtained to study the transcriptomic response during zebrafish heart regeneration. Samples were utilised in triplicates for each time point up to 160 xxx post injury. Furthermore mRNA and miRNA were obtained from the same biological samples to allow correlation analysis.   pubmed:30597924 Replicate 3   30dpi#3   breed:zebrafish|age:241 days|sex:missing|tissue:whole heart|time point:30 dpi|time replicate:30dpi#3|BioSampleModel:Model organism or animal                 30dpi rep3 5952 5952 RNA was extracted using RNeasy Mini Kit Qiagen #74104 and 200 nanogram were used for library preparation with TruSeq Stranded Total RNA Library Prep Illumina #20020597     RNA-Seq TRANSCRIPTOMIC other PAIRED ILLUMINA Illumina HiSeq 2000   SRP173044     SID5952_S41_L008_R1_001.fastq.gz SID5952_S41_L008_R2_001.fastq.gz fastq fastq 4010530950.0 26736873.0 SID5952 S41 L008 R1 001.fastq.gz 0:75 1:75 A:1111347218;C:892586235;G:885431304;T:1118779431;N:2386762 75 75     1111347218 892586235 885431304 1118779431 2386762 SRX5113170 SRS4121971 SRA821074 University of Freiburg|Institute of Molecular Medicine and Cell Research University of Freiburg DeCaRe 2 0.92226 0.92446 0.2498 0.24953 0.7836 0.78642 0.55934 0.55793 75 75 B B biological fallback assumption illumina hiseq_era unknown small_rna trueseq bulk bulk bulk   Germany 2019-04-30 Adult Adult Heart Cardiovascular System
53320 53320 SRR9849221 SRX6603865 SRS5168914 SRP216556 PRJNA556842 aKlotho regulates age associated vascular calcification and lifespan in zebrafish PRJNA556842 Transcriptome Analysis The hormone aKlotho regulates lifespan in mice as knockouts die early of what appears to be accelerated aging due to hyperphosphatemia and soft tissue calcification. In contrast its overexpression increases lifespan. Given the severe mouse phenotype we generated zebrafish mutants for aklotho as well as its binding partner fibroblast growth factor 23 fgf23. Both mutations cause shortened lifespan in zebrafish with abrupt onset of behavioral and degenerative physical changes at around five months of age. There is calcification of vessels throughout the body most dramatically in the outflow tract of the heart the bulbus arteriosus BA. This calcification is associated with ectopic activation of osteoclast differentiation pathways. These findings suggest that the gradual loss of aKlotho found in normal aging might give rise to ectopic calcification.       αKlotho heart 5 mpf replicate 8 kl 14563 c heart   strain:AB|age:5months|sex:female|tissue:heart|genotype:aKlotho|Replicate:Bilogical replicate 8|BioSampleModel:Model organism or animal                 Klotho heart 5 mpf replicate 8 kl 14563 c heart kl 14563 c heart Tissue collection and dissection: Adult zebrafish were euthanized by exposure to chilled water 0 4C. Gills heart and kidney were collected from 32 individual fish at two time points namely at 3 mpf and 5 mpf for klotho mutants and wildtype sibling controls AB background; 8 fish per genotype per time point 4 males 4 females for a total of 96 samples. Tissues were dissected in cold PBS and immediately stored in RNALater Stabilization Solution ThermoFisher Cat# AM7021. RNALater was removed post an overnight incubation at 4C and samples were stored at 80C until processing. RNA extraction: All tissues were homogenized using the TissueLyser II Qiagen plus Lysis buffer containing mercaptoethanol and stored at 80C. RNA extraction was performed using the automated protocol in the QIAcube workstation utilizing the RNeasy Fibrous Tissue Mini kit Qiagen Cat No./ID: 74704. RNA integrity and quality were assessed by Agilent TapeStation using High Sensitivity RNA ScreenTapes. Samples were normalized and 300ng of RNA was used for library prep for each sample. ERCC RNA Spike in mix was added for quality control. mRNA was captured using poly T oligos attached beads for library selection.     RNA-Seq TRANSCRIPTOMIC other PAIRED ILLUMINA Illumina HiSeq 2500   SRP216556     kl-14563-c-heart_merged_S36-1.fastq.gz kl-14563-c-heart_merged_S36-2.fastq.gz fastq fastq 3484549755.0 23208866.0 kl 14563 c heart merged S36 1.fastq.gz 0:75.09 1:75.05 A:924671520;C:807309313;G:789552239;T:945572474;N:17444209 75 75     924671520 807309313 789552239 945572474 17444209 SRX6603865 SRS5168914 SRA927891 Novartis Institutes for Biomedical Research|Chemical Biology and Therapeutics Novartis Institutes for Biomedical Research 2 0.95316 0.9561 0.1097 0.10826 0.72786 0.72886 0.50722 0.51079 35 35 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   Germany 2019-07-27 Adult Adult Heart Cardiovascular System
53321 53321 SRR9849227 SRX6603864 SRS5168913 SRP216556 PRJNA556842 aKlotho regulates age associated vascular calcification and lifespan in zebrafish PRJNA556842 Transcriptome Analysis The hormone aKlotho regulates lifespan in mice as knockouts die early of what appears to be accelerated aging due to hyperphosphatemia and soft tissue calcification. In contrast its overexpression increases lifespan. Given the severe mouse phenotype we generated zebrafish mutants for aklotho as well as its binding partner fibroblast growth factor 23 fgf23. Both mutations cause shortened lifespan in zebrafish with abrupt onset of behavioral and degenerative physical changes at around five months of age. There is calcification of vessels throughout the body most dramatically in the outflow tract of the heart the bulbus arteriosus BA. This calcification is associated with ectopic activation of osteoclast differentiation pathways. These findings suggest that the gradual loss of aKlotho found in normal aging might give rise to ectopic calcification.       αKlotho heart 5 mpf replicate 1 kl 14562 a heart   strain:AB|age:5months|sex:male|tissue:heart|genotype:aKlotho|Replicate:Bilogical replicate 1|BioSampleModel:Model organism or animal                 Klotho heart 5 mpf replicate 1 kl 14562 a heart kl 14562 a heart Tissue collection and dissection: Adult zebrafish were euthanized by exposure to chilled water 0 4C. Gills heart and kidney were collected from 32 individual fish at two time points namely at 3 mpf and 5 mpf for klotho mutants and wildtype sibling controls AB background; 8 fish per genotype per time point 4 males 4 females for a total of 96 samples. Tissues were dissected in cold PBS and immediately stored in RNALater Stabilization Solution ThermoFisher Cat# AM7021. RNALater was removed post an overnight incubation at 4C and samples were stored at 80C until processing. RNA extraction: All tissues were homogenized using the TissueLyser II Qiagen plus Lysis buffer containing mercaptoethanol and stored at 80C. RNA extraction was performed using the automated protocol in the QIAcube workstation utilizing the RNeasy Fibrous Tissue Mini kit Qiagen Cat No./ID: 74704. RNA integrity and quality were assessed by Agilent TapeStation using High Sensitivity RNA ScreenTapes. Samples were normalized and 300ng of RNA was used for library prep for each sample. ERCC RNA Spike in mix was added for quality control. mRNA was captured using poly T oligos attached beads for library selection.     RNA-Seq TRANSCRIPTOMIC other PAIRED ILLUMINA Illumina HiSeq 2500   SRP216556     kl-14562-a-heart_merged_S55-1.fastq.gz kl-14562-a-heart_merged_S55-2.fastq.gz fastq fastq 7188148279.0 48313250.0 kl 14562 a heart merged S55 1.fastq.gz 0:74.40 1:74.38 A:1845694725;C:1693422439;G:1677581945;T:1878444930;N:93004240 74 74     1845694725 1693422439 1677581945 1878444930 93004240 SRX6603864 SRS5168913 SRA927891 Novartis Institutes for Biomedical Research|Chemical Biology and Therapeutics Novartis Institutes for Biomedical Research 2 0.95593 0.95929 0.07808 0.07747 0.74927 0.75144 0.51784 0.51847 76 76 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   Germany 2019-07-27 Adult Adult Heart Cardiovascular System
53322 53322 SRR9849222 SRX6603863 SRS5168912 SRP216556 PRJNA556842 aKlotho regulates age associated vascular calcification and lifespan in zebrafish PRJNA556842 Transcriptome Analysis The hormone aKlotho regulates lifespan in mice as knockouts die early of what appears to be accelerated aging due to hyperphosphatemia and soft tissue calcification. In contrast its overexpression increases lifespan. Given the severe mouse phenotype we generated zebrafish mutants for aklotho as well as its binding partner fibroblast growth factor 23 fgf23. Both mutations cause shortened lifespan in zebrafish with abrupt onset of behavioral and degenerative physical changes at around five months of age. There is calcification of vessels throughout the body most dramatically in the outflow tract of the heart the bulbus arteriosus BA. This calcification is associated with ectopic activation of osteoclast differentiation pathways. These findings suggest that the gradual loss of aKlotho found in normal aging might give rise to ectopic calcification.       αKlotho heart 3 mpf replicate 8 kl 14744 h heart   strain:AB|age:3months|sex:female|tissue:heart|genotype:aKlotho|Replicate:Bilogical replicate 8|BioSampleModel:Model organism or animal                 Klotho heart 3 mpf replicate 8 kl 14744 h heart kl 14744 h heart Tissue collection and dissection: Adult zebrafish were euthanized by exposure to chilled water 0 4C. Gills heart and kidney were collected from 32 individual fish at two time points namely at 3 mpf and 5 mpf for klotho mutants and wildtype sibling controls AB background; 8 fish per genotype per time point 4 males 4 females for a total of 96 samples. Tissues were dissected in cold PBS and immediately stored in RNALater Stabilization Solution ThermoFisher Cat# AM7021. RNALater was removed post an overnight incubation at 4C and samples were stored at 80C until processing. RNA extraction: All tissues were homogenized using the TissueLyser II Qiagen plus Lysis buffer containing mercaptoethanol and stored at 80C. RNA extraction was performed using the automated protocol in the QIAcube workstation utilizing the RNeasy Fibrous Tissue Mini kit Qiagen Cat No./ID: 74704. RNA integrity and quality were assessed by Agilent TapeStation using High Sensitivity RNA ScreenTapes. Samples were normalized and 300ng of RNA was used for library prep for each sample. ERCC RNA Spike in mix was added for quality control. mRNA was captured using poly T oligos attached beads for library selection.     RNA-Seq TRANSCRIPTOMIC other PAIRED ILLUMINA Illumina HiSeq 2500   SRP216556     kl-14744-h-heart_merged_S96-1.fastq.gz kl-14744-h-heart_merged_S96-2.fastq.gz fastq fastq 2948930586.0 19589224.0 kl 14744 h heart merged S96 1.fastq.gz 0:75.29 1:75.25 A:752138368;C:713690890;G:705069357;T:768410125;N:9621846 75 75     752138368 713690890 705069357 768410125 9621846 SRX6603863 SRS5168912 SRA927891 Novartis Institutes for Biomedical Research|Chemical Biology and Therapeutics Novartis Institutes for Biomedical Research 2 0.96452 0.96759 0.07275 0.0722 0.75459 0.75592 0.49612 0.50924 76 75 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   Germany 2019-07-27 Adult Adult Heart Cardiovascular System
53323 53323 SRR9849226 SRX6603862 SRS5168911 SRP216556 PRJNA556842 aKlotho regulates age associated vascular calcification and lifespan in zebrafish PRJNA556842 Transcriptome Analysis The hormone aKlotho regulates lifespan in mice as knockouts die early of what appears to be accelerated aging due to hyperphosphatemia and soft tissue calcification. In contrast its overexpression increases lifespan. Given the severe mouse phenotype we generated zebrafish mutants for aklotho as well as its binding partner fibroblast growth factor 23 fgf23. Both mutations cause shortened lifespan in zebrafish with abrupt onset of behavioral and degenerative physical changes at around five months of age. There is calcification of vessels throughout the body most dramatically in the outflow tract of the heart the bulbus arteriosus BA. This calcification is associated with ectopic activation of osteoclast differentiation pathways. These findings suggest that the gradual loss of aKlotho found in normal aging might give rise to ectopic calcification.       αKlotho heart 5 mpf replicate 3 kl 14563 a heart   strain:AB|age:5months|sex:male|tissue:heart|genotype:aKlotho|Replicate:Bilogical replicate 3|BioSampleModel:Model organism or animal                 Klotho heart 5 mpf replicate 3 kl 14563 a heart kl 14563 a heart Tissue collection and dissection: Adult zebrafish were euthanized by exposure to chilled water 0 4C. Gills heart and kidney were collected from 32 individual fish at two time points namely at 3 mpf and 5 mpf for klotho mutants and wildtype sibling controls AB background; 8 fish per genotype per time point 4 males 4 females for a total of 96 samples. Tissues were dissected in cold PBS and immediately stored in RNALater Stabilization Solution ThermoFisher Cat# AM7021. RNALater was removed post an overnight incubation at 4C and samples were stored at 80C until processing. RNA extraction: All tissues were homogenized using the TissueLyser II Qiagen plus Lysis buffer containing mercaptoethanol and stored at 80C. RNA extraction was performed using the automated protocol in the QIAcube workstation utilizing the RNeasy Fibrous Tissue Mini kit Qiagen Cat No./ID: 74704. RNA integrity and quality were assessed by Agilent TapeStation using High Sensitivity RNA ScreenTapes. Samples were normalized and 300ng of RNA was used for library prep for each sample. ERCC RNA Spike in mix was added for quality control. mRNA was captured using poly T oligos attached beads for library selection.     RNA-Seq TRANSCRIPTOMIC other PAIRED ILLUMINA Illumina HiSeq 2500   SRP216556     kl-14563-a-heart_merged_S12-1.fastq.gz kl-14563-a-heart_merged_S12-2.fastq.gz fastq fastq 4174574842.0 27849324.0 kl 14563 a heart merged S12 1.fastq.gz 0:74.96 1:74.94 A:1111195469;C:959898477;G:940737440;T:1134734399;N:28009057 74 74     1111195469 959898477 940737440 1134734399 28009057 SRX6603862 SRS5168911 SRA927891 Novartis Institutes for Biomedical Research|Chemical Biology and Therapeutics Novartis Institutes for Biomedical Research 2 0.95038 0.95424 0.0948 0.09308 0.74235 0.74369 0.53273 0.52178 76 75 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   Germany 2019-07-27 Adult Adult Heart Cardiovascular System
53324 53324 SRR9849223 SRX6603861 SRS5168910 SRP216556 PRJNA556842 aKlotho regulates age associated vascular calcification and lifespan in zebrafish PRJNA556842 Transcriptome Analysis The hormone aKlotho regulates lifespan in mice as knockouts die early of what appears to be accelerated aging due to hyperphosphatemia and soft tissue calcification. In contrast its overexpression increases lifespan. Given the severe mouse phenotype we generated zebrafish mutants for aklotho as well as its binding partner fibroblast growth factor 23 fgf23. Both mutations cause shortened lifespan in zebrafish with abrupt onset of behavioral and degenerative physical changes at around five months of age. There is calcification of vessels throughout the body most dramatically in the outflow tract of the heart the bulbus arteriosus BA. This calcification is associated with ectopic activation of osteoclast differentiation pathways. These findings suggest that the gradual loss of aKlotho found in normal aging might give rise to ectopic calcification.       αKlotho heart 5 mpf replicate 2 kl 14562 c heart   strain:AB|age:5months|sex:male|tissue:heart|genotype:aKlotho|Replicate:Bilogical replicate 2|BioSampleModel:Model organism or animal                 Klotho heart 5 mpf replicate 2 kl 14562 c heart kl 14562 c heart Tissue collection and dissection: Adult zebrafish were euthanized by exposure to chilled water 0 4C. Gills heart and kidney were collected from 32 individual fish at two time points namely at 3 mpf and 5 mpf for klotho mutants and wildtype sibling controls AB background; 8 fish per genotype per time point 4 males 4 females for a total of 96 samples. Tissues were dissected in cold PBS and immediately stored in RNALater Stabilization Solution ThermoFisher Cat# AM7021. RNALater was removed post an overnight incubation at 4C and samples were stored at 80C until processing. RNA extraction: All tissues were homogenized using the TissueLyser II Qiagen plus Lysis buffer containing mercaptoethanol and stored at 80C. RNA extraction was performed using the automated protocol in the QIAcube workstation utilizing the RNeasy Fibrous Tissue Mini kit Qiagen Cat No./ID: 74704. RNA integrity and quality were assessed by Agilent TapeStation using High Sensitivity RNA ScreenTapes. Samples were normalized and 300ng of RNA was used for library prep for each sample. ERCC RNA Spike in mix was added for quality control. mRNA was captured using poly T oligos attached beads for library selection.     RNA-Seq TRANSCRIPTOMIC other PAIRED ILLUMINA Illumina HiSeq 2500   SRP216556     kl-14562-c-heart_merged_S79-1.fastq.gz kl-14562-c-heart_merged_S79-2.fastq.gz fastq fastq 3807500089.0 25496314.0 kl 14562 c heart merged S79 1.fastq.gz 0:74.67 1:74.67 A:986671917;C:891161687;G:886993245;T:1005458597;N:37214643 74 74     986671917 891161687 886993245 1005458597 37214643 SRX6603861 SRS5168910 SRA927891 Novartis Institutes for Biomedical Research|Chemical Biology and Therapeutics Novartis Institutes for Biomedical Research 2 0.95818 0.96101 0.09155 0.09076 0.73174 0.73381 0.51055 0.50802 75 74 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   Germany 2019-07-27 Adult Adult Heart Cardiovascular System
53325 53325 SRR9849224 SRX6603860 SRS5168909 SRP216556 PRJNA556842 aKlotho regulates age associated vascular calcification and lifespan in zebrafish PRJNA556842 Transcriptome Analysis The hormone aKlotho regulates lifespan in mice as knockouts die early of what appears to be accelerated aging due to hyperphosphatemia and soft tissue calcification. In contrast its overexpression increases lifespan. Given the severe mouse phenotype we generated zebrafish mutants for aklotho as well as its binding partner fibroblast growth factor 23 fgf23. Both mutations cause shortened lifespan in zebrafish with abrupt onset of behavioral and degenerative physical changes at around five months of age. There is calcification of vessels throughout the body most dramatically in the outflow tract of the heart the bulbus arteriosus BA. This calcification is associated with ectopic activation of osteoclast differentiation pathways. These findings suggest that the gradual loss of aKlotho found in normal aging might give rise to ectopic calcification.       αKlotho heart 5 mpf replicate 4 kl 14563 d heart   strain:AB|age:5months|sex:male|tissue:heart|genotype:aKlotho|Replicate:Bilogical replicate 4|BioSampleModel:Model organism or animal                 Klotho heart 5 mpf replicate 4 kl 14563 d heart kl 14563 d heart Tissue collection and dissection: Adult zebrafish were euthanized by exposure to chilled water 0 4C. Gills heart and kidney were collected from 32 individual fish at two time points namely at 3 mpf and 5 mpf for klotho mutants and wildtype sibling controls AB background; 8 fish per genotype per time point 4 males 4 females for a total of 96 samples. Tissues were dissected in cold PBS and immediately stored in RNALater Stabilization Solution ThermoFisher Cat# AM7021. RNALater was removed post an overnight incubation at 4C and samples were stored at 80C until processing. RNA extraction: All tissues were homogenized using the TissueLyser II Qiagen plus Lysis buffer containing mercaptoethanol and stored at 80C. RNA extraction was performed using the automated protocol in the QIAcube workstation utilizing the RNeasy Fibrous Tissue Mini kit Qiagen Cat No./ID: 74704. RNA integrity and quality were assessed by Agilent TapeStation using High Sensitivity RNA ScreenTapes. Samples were normalized and 300ng of RNA was used for library prep for each sample. ERCC RNA Spike in mix was added for quality control. mRNA was captured using poly T oligos attached beads for library selection.     RNA-Seq TRANSCRIPTOMIC other PAIRED ILLUMINA Illumina HiSeq 2500   SRP216556     kl-14563-d-heart_merged_S48-1.fastq.gz kl-14563-d-heart_merged_S48-2.fastq.gz fastq fastq 3565488406.0 23781482.0 kl 14563 d heart merged S48 1.fastq.gz 0:74.98 1:74.94 A:924116942;C:845047716;G:828030532;T:947308558;N:20984658 74 74     924116942 845047716 828030532 947308558 20984658 SRX6603860 SRS5168909 SRA927891 Novartis Institutes for Biomedical Research|Chemical Biology and Therapeutics Novartis Institutes for Biomedical Research 2 0.96161 0.96383 0.08328 0.08248 0.73943 0.74054 0.49984 0.50196 76 75 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   Germany 2019-07-27 Adult Adult Heart Cardiovascular System
53326 53326 SRR9849225 SRX6603859 SRS5168908 SRP216556 PRJNA556842 aKlotho regulates age associated vascular calcification and lifespan in zebrafish PRJNA556842 Transcriptome Analysis The hormone aKlotho regulates lifespan in mice as knockouts die early of what appears to be accelerated aging due to hyperphosphatemia and soft tissue calcification. In contrast its overexpression increases lifespan. Given the severe mouse phenotype we generated zebrafish mutants for aklotho as well as its binding partner fibroblast growth factor 23 fgf23. Both mutations cause shortened lifespan in zebrafish with abrupt onset of behavioral and degenerative physical changes at around five months of age. There is calcification of vessels throughout the body most dramatically in the outflow tract of the heart the bulbus arteriosus BA. This calcification is associated with ectopic activation of osteoclast differentiation pathways. These findings suggest that the gradual loss of aKlotho found in normal aging might give rise to ectopic calcification.       αKlotho heart 5 mpf replicate 5 kl 14562 b heart   strain:AB|age:5months|sex:female|tissue:heart|genotype:aKlotho|Replicate:Bilogical replicate 5|BioSampleModel:Model organism or animal                 Klotho heart 5 mpf replicate 5 kl 14562 b heart kl 14562 b heart Tissue collection and dissection: Adult zebrafish were euthanized by exposure to chilled water 0 4C. Gills heart and kidney were collected from 32 individual fish at two time points namely at 3 mpf and 5 mpf for klotho mutants and wildtype sibling controls AB background; 8 fish per genotype per time point 4 males 4 females for a total of 96 samples. Tissues were dissected in cold PBS and immediately stored in RNALater Stabilization Solution ThermoFisher Cat# AM7021. RNALater was removed post an overnight incubation at 4C and samples were stored at 80C until processing. RNA extraction: All tissues were homogenized using the TissueLyser II Qiagen plus Lysis buffer containing mercaptoethanol and stored at 80C. RNA extraction was performed using the automated protocol in the QIAcube workstation utilizing the RNeasy Fibrous Tissue Mini kit Qiagen Cat No./ID: 74704. RNA integrity and quality were assessed by Agilent TapeStation using High Sensitivity RNA ScreenTapes. Samples were normalized and 300ng of RNA was used for library prep for each sample. ERCC RNA Spike in mix was added for quality control. mRNA was captured using poly T oligos attached beads for library selection.     RNA-Seq TRANSCRIPTOMIC other PAIRED ILLUMINA Illumina HiSeq 2500   SRP216556     kl-14562-b-heart_merged_S67-1.fastq.gz kl-14562-b-heart_merged_S67-2.fastq.gz fastq fastq 3494210690.0 23514321.0 kl 14562 b heart merged S67 1.fastq.gz 0:74.31 1:74.29 A:872291878;C:844948319;G:835740987;T:891698266;N:49531240 74 74     872291878 844948319 835740987 891698266 49531240 SRX6603859 SRS5168908 SRA927891 Novartis Institutes for Biomedical Research|Chemical Biology and Therapeutics Novartis Institutes for Biomedical Research 2 0.96469 0.96712 0.07563 0.07592 0.74521 0.7457 0.48945 0.48033 76 75 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   Germany 2019-07-27 Adult Adult Heart Cardiovascular System
53327 53327 SRR9849228 SRX6603858 SRS5168907 SRP216556 PRJNA556842 aKlotho regulates age associated vascular calcification and lifespan in zebrafish PRJNA556842 Transcriptome Analysis The hormone aKlotho regulates lifespan in mice as knockouts die early of what appears to be accelerated aging due to hyperphosphatemia and soft tissue calcification. In contrast its overexpression increases lifespan. Given the severe mouse phenotype we generated zebrafish mutants for aklotho as well as its binding partner fibroblast growth factor 23 fgf23. Both mutations cause shortened lifespan in zebrafish with abrupt onset of behavioral and degenerative physical changes at around five months of age. There is calcification of vessels throughout the body most dramatically in the outflow tract of the heart the bulbus arteriosus BA. This calcification is associated with ectopic activation of osteoclast differentiation pathways. These findings suggest that the gradual loss of aKlotho found in normal aging might give rise to ectopic calcification.       αKlotho heart 5 mpf replicate 7 kl 14563 b heart   strain:AB|age:5months|sex:female|tissue:heart|genotype:aKlotho|Replicate:Bilogical replicate 7|BioSampleModel:Model organism or animal                 Klotho heart 5 mpf replicate 7 kl 14563 b heart kl 14563 b heart Tissue collection and dissection: Adult zebrafish were euthanized by exposure to chilled water 0 4C. Gills heart and kidney were collected from 32 individual fish at two time points namely at 3 mpf and 5 mpf for klotho mutants and wildtype sibling controls AB background; 8 fish per genotype per time point 4 males 4 females for a total of 96 samples. Tissues were dissected in cold PBS and immediately stored in RNALater Stabilization Solution ThermoFisher Cat# AM7021. RNALater was removed post an overnight incubation at 4C and samples were stored at 80C until processing. RNA extraction: All tissues were homogenized using the TissueLyser II Qiagen plus Lysis buffer containing mercaptoethanol and stored at 80C. RNA extraction was performed using the automated protocol in the QIAcube workstation utilizing the RNeasy Fibrous Tissue Mini kit Qiagen Cat No./ID: 74704. RNA integrity and quality were assessed by Agilent TapeStation using High Sensitivity RNA ScreenTapes. Samples were normalized and 300ng of RNA was used for library prep for each sample. ERCC RNA Spike in mix was added for quality control. mRNA was captured using poly T oligos attached beads for library selection.     RNA-Seq TRANSCRIPTOMIC other PAIRED ILLUMINA Illumina HiSeq 2500   SRP216556     kl-14563-b-heart_merged_S24-1.fastq.gz kl-14563-b-heart_merged_S24-2.fastq.gz fastq fastq 3805571196.0 25275707.0 kl 14563 b heart merged S24 1.fastq.gz 0:75.30 1:75.26 A:1002256150;C:892394010;G:874908513;T:1024507030;N:11505493 75 75     1002256150 892394010 874908513 1024507030 11505493 SRX6603858 SRS5168907 SRA927891 Novartis Institutes for Biomedical Research|Chemical Biology and Therapeutics Novartis Institutes for Biomedical Research 2 0.95648 0.95968 0.10173 0.10052 0.73549 0.73699 0.50896 0.51063 75 76 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   Germany 2019-07-27 Adult Adult Heart Cardiovascular System
53328 53328 SRR9849234 SRX6603857 SRS5168906 SRP216556 PRJNA556842 aKlotho regulates age associated vascular calcification and lifespan in zebrafish PRJNA556842 Transcriptome Analysis The hormone aKlotho regulates lifespan in mice as knockouts die early of what appears to be accelerated aging due to hyperphosphatemia and soft tissue calcification. In contrast its overexpression increases lifespan. Given the severe mouse phenotype we generated zebrafish mutants for aklotho as well as its binding partner fibroblast growth factor 23 fgf23. Both mutations cause shortened lifespan in zebrafish with abrupt onset of behavioral and degenerative physical changes at around five months of age. There is calcification of vessels throughout the body most dramatically in the outflow tract of the heart the bulbus arteriosus BA. This calcification is associated with ectopic activation of osteoclast differentiation pathways. These findings suggest that the gradual loss of aKlotho found in normal aging might give rise to ectopic calcification.       αKlotho heart 5 mpf replicate 6 kl 14562 d heart   strain:AB|age:5months|sex:female|tissue:heart|genotype:aKlotho|Replicate:Bilogical replicate 6|BioSampleModel:Model organism or animal                 Klotho heart 5 mpf replicate 6 kl 14562 d heart kl 14562 d heart Tissue collection and dissection: Adult zebrafish were euthanized by exposure to chilled water 0 4C. Gills heart and kidney were collected from 32 individual fish at two time points namely at 3 mpf and 5 mpf for klotho mutants and wildtype sibling controls AB background; 8 fish per genotype per time point 4 males 4 females for a total of 96 samples. Tissues were dissected in cold PBS and immediately stored in RNALater Stabilization Solution ThermoFisher Cat# AM7021. RNALater was removed post an overnight incubation at 4C and samples were stored at 80C until processing. RNA extraction: All tissues were homogenized using the TissueLyser II Qiagen plus Lysis buffer containing mercaptoethanol and stored at 80C. RNA extraction was performed using the automated protocol in the QIAcube workstation utilizing the RNeasy Fibrous Tissue Mini kit Qiagen Cat No./ID: 74704. RNA integrity and quality were assessed by Agilent TapeStation using High Sensitivity RNA ScreenTapes. Samples were normalized and 300ng of RNA was used for library prep for each sample. ERCC RNA Spike in mix was added for quality control. mRNA was captured using poly T oligos attached beads for library selection.     RNA-Seq TRANSCRIPTOMIC other PAIRED ILLUMINA Illumina HiSeq 2500   SRP216556     kl-14562-d-heart_merged_S91-1.fastq.gz kl-14562-d-heart_merged_S91-2.fastq.gz fastq fastq 3116608518.0 21084798.0 kl 14562 d heart merged S91 1.fastq.gz 0:73.90 1:73.91 A:793322502;C:728914631;G:726534298;T:809789154;N:58047933 73 73     793322502 728914631 726534298 809789154 58047933 SRX6603857 SRS5168906 SRA927891 Novartis Institutes for Biomedical Research|Chemical Biology and Therapeutics Novartis Institutes for Biomedical Research 2 0.95985 0.96279 0.0952 0.09445 0.74738 0.74949 0.50624 0.5089 73 76 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   Germany 2019-07-27 Adult Adult Heart Cardiovascular System
53329 53329 SRR9849229 SRX6603856 SRS5168905 SRP216556 PRJNA556842 aKlotho regulates age associated vascular calcification and lifespan in zebrafish PRJNA556842 Transcriptome Analysis The hormone aKlotho regulates lifespan in mice as knockouts die early of what appears to be accelerated aging due to hyperphosphatemia and soft tissue calcification. In contrast its overexpression increases lifespan. Given the severe mouse phenotype we generated zebrafish mutants for aklotho as well as its binding partner fibroblast growth factor 23 fgf23. Both mutations cause shortened lifespan in zebrafish with abrupt onset of behavioral and degenerative physical changes at around five months of age. There is calcification of vessels throughout the body most dramatically in the outflow tract of the heart the bulbus arteriosus BA. This calcification is associated with ectopic activation of osteoclast differentiation pathways. These findings suggest that the gradual loss of aKlotho found in normal aging might give rise to ectopic calcification.       wildtype heart 5 mpf replicate 5 wt 14560 b heart   strain:AB|age:5months|sex:female|tissue:heart|genotype:wildtype|Replicate:Bilogical replicate 5|BioSampleModel:Model organism or animal                 wildtype heart 5 mpf replicate 5 wt 14560 b heart wt 14560 b heart Tissue collection and dissection: Adult zebrafish were euthanized by exposure to chilled water 0 4C. Gills heart and kidney were collected from 32 individual fish at two time points namely at 3 mpf and 5 mpf for klotho mutants and wildtype sibling controls AB background; 8 fish per genotype per time point 4 males 4 females for a total of 96 samples. Tissues were dissected in cold PBS and immediately stored in RNALater Stabilization Solution ThermoFisher Cat# AM7021. RNALater was removed post an overnight incubation at 4C and samples were stored at 80C until processing. RNA extraction: All tissues were homogenized using the TissueLyser II Qiagen plus Lysis buffer containing mercaptoethanol and stored at 80C. RNA extraction was performed using the automated protocol in the QIAcube workstation utilizing the RNeasy Fibrous Tissue Mini kit Qiagen Cat No./ID: 74704. RNA integrity and quality were assessed by Agilent TapeStation using High Sensitivity RNA ScreenTapes. Samples were normalized and 300ng of RNA was used for library prep for each sample. ERCC RNA Spike in mix was added for quality control. mRNA was captured using poly T oligos attached beads for library selection.     RNA-Seq TRANSCRIPTOMIC other PAIRED ILLUMINA Illumina HiSeq 2500   SRP216556     wt-14560-b-heart_merged_S66-1.fastq.gz wt-14560-b-heart_merged_S66-2.fastq.gz fastq fastq 4495488210.0 32039449.0 wt 14560 b heart merged S66 1.fastq.gz 0:70.09 1:70.23 A:1055649108;C:1035665028;G:1029334826;T:1077458184;N:297381064 70 70     1055649108 1035665028 1029334826 1077458184 297381064 SRX6603856 SRS5168905 SRA927891 Novartis Institutes for Biomedical Research|Chemical Biology and Therapeutics Novartis Institutes for Biomedical Research 2 0.96349 0.96637 0.14962 0.14675 0.77236 0.77273 0.5167 0.53228 75 76 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   Germany 2019-07-27 Adult Adult Heart Cardiovascular System
53330 53330 SRR9849233 SRX6603855 SRS5168904 SRP216556 PRJNA556842 aKlotho regulates age associated vascular calcification and lifespan in zebrafish PRJNA556842 Transcriptome Analysis The hormone aKlotho regulates lifespan in mice as knockouts die early of what appears to be accelerated aging due to hyperphosphatemia and soft tissue calcification. In contrast its overexpression increases lifespan. Given the severe mouse phenotype we generated zebrafish mutants for aklotho as well as its binding partner fibroblast growth factor 23 fgf23. Both mutations cause shortened lifespan in zebrafish with abrupt onset of behavioral and degenerative physical changes at around five months of age. There is calcification of vessels throughout the body most dramatically in the outflow tract of the heart the bulbus arteriosus BA. This calcification is associated with ectopic activation of osteoclast differentiation pathways. These findings suggest that the gradual loss of aKlotho found in normal aging might give rise to ectopic calcification.       wildtype heart 5 mpf replicate 4 wt 14560 g heart   strain:AB|age:5months|sex:male|tissue:heart|genotype:wildtype|Replicate:Bilogical replicate 4|BioSampleModel:Model organism or animal                 wildtype heart 5 mpf replicate 4 wt 14560 g heart wt 14560 g heart Tissue collection and dissection: Adult zebrafish were euthanized by exposure to chilled water 0 4C. Gills heart and kidney were collected from 32 individual fish at two time points namely at 3 mpf and 5 mpf for klotho mutants and wildtype sibling controls AB background; 8 fish per genotype per time point 4 males 4 females for a total of 96 samples. Tissues were dissected in cold PBS and immediately stored in RNALater Stabilization Solution ThermoFisher Cat# AM7021. RNALater was removed post an overnight incubation at 4C and samples were stored at 80C until processing. RNA extraction: All tissues were homogenized using the TissueLyser II Qiagen plus Lysis buffer containing mercaptoethanol and stored at 80C. RNA extraction was performed using the automated protocol in the QIAcube workstation utilizing the RNeasy Fibrous Tissue Mini kit Qiagen Cat No./ID: 74704. RNA integrity and quality were assessed by Agilent TapeStation using High Sensitivity RNA ScreenTapes. Samples were normalized and 300ng of RNA was used for library prep for each sample. ERCC RNA Spike in mix was added for quality control. mRNA was captured using poly T oligos attached beads for library selection.     RNA-Seq TRANSCRIPTOMIC other PAIRED ILLUMINA Illumina HiSeq 2500   SRP216556     wt-14560-g-heart_merged_S31-1.fastq.gz wt-14560-g-heart_merged_S31-2.fastq.gz fastq fastq 2770103843.0 18429505.0 wt 14560 g heart merged S31 1.fastq.gz 0:75.18 1:75.13 A:717713206;C:657217069;G:649769484;T:733132978;N:12271106 75 75     717713206 657217069 649769484 733132978 12271106 SRX6603855 SRS5168904 SRA927891 Novartis Institutes for Biomedical Research|Chemical Biology and Therapeutics Novartis Institutes for Biomedical Research 2 0.96355 0.96493 0.08764 0.08639 0.7558 0.75647 0.50753 0.50997 76 76 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   Germany 2019-07-27 Adult Adult Heart Cardiovascular System
53331 53331 SRR9849230 SRX6603854 SRS5168903 SRP216556 PRJNA556842 aKlotho regulates age associated vascular calcification and lifespan in zebrafish PRJNA556842 Transcriptome Analysis The hormone aKlotho regulates lifespan in mice as knockouts die early of what appears to be accelerated aging due to hyperphosphatemia and soft tissue calcification. In contrast its overexpression increases lifespan. Given the severe mouse phenotype we generated zebrafish mutants for aklotho as well as its binding partner fibroblast growth factor 23 fgf23. Both mutations cause shortened lifespan in zebrafish with abrupt onset of behavioral and degenerative physical changes at around five months of age. There is calcification of vessels throughout the body most dramatically in the outflow tract of the heart the bulbus arteriosus BA. This calcification is associated with ectopic activation of osteoclast differentiation pathways. These findings suggest that the gradual loss of aKlotho found in normal aging might give rise to ectopic calcification.       wildtype heart 5 mpf replicate 3 wt 14560 e heart   strain:AB|age:5months|sex:male|tissue:heart|genotype:wildtype|Replicate:Bilogical replicate 3|BioSampleModel:Model organism or animal                 wildtype heart 5 mpf replicate 3 wt 14560 e heart wt 14560 e heart Tissue collection and dissection: Adult zebrafish were euthanized by exposure to chilled water 0 4C. Gills heart and kidney were collected from 32 individual fish at two time points namely at 3 mpf and 5 mpf for klotho mutants and wildtype sibling controls AB background; 8 fish per genotype per time point 4 males 4 females for a total of 96 samples. Tissues were dissected in cold PBS and immediately stored in RNALater Stabilization Solution ThermoFisher Cat# AM7021. RNALater was removed post an overnight incubation at 4C and samples were stored at 80C until processing. RNA extraction: All tissues were homogenized using the TissueLyser II Qiagen plus Lysis buffer containing mercaptoethanol and stored at 80C. RNA extraction was performed using the automated protocol in the QIAcube workstation utilizing the RNeasy Fibrous Tissue Mini kit Qiagen Cat No./ID: 74704. RNA integrity and quality were assessed by Agilent TapeStation using High Sensitivity RNA ScreenTapes. Samples were normalized and 300ng of RNA was used for library prep for each sample. ERCC RNA Spike in mix was added for quality control. mRNA was captured using poly T oligos attached beads for library selection.     RNA-Seq TRANSCRIPTOMIC other PAIRED ILLUMINA Illumina HiSeq 2500   SRP216556     wt-14560-e-heart_merged_S7-1.fastq.gz wt-14560-e-heart_merged_S7-2.fastq.gz fastq fastq 3947140495.0 26797503.0 wt 14560 e heart merged S7 1.fastq.gz 0:73.64 1:73.65 A:1035188359;C:891143174;G:884162881;T:1054180812;N:82465269 73 73     1035188359 891143174 884162881 1054180812 82465269 SRX6603854 SRS5168903 SRA927891 Novartis Institutes for Biomedical Research|Chemical Biology and Therapeutics Novartis Institutes for Biomedical Research 2 0.95627 0.95872 0.09213 0.09075 0.76248 0.76398 0.51962 0.51914 75 76 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   Germany 2019-07-27 Adult Adult Heart Cardiovascular System
53332 53332 SRR9849231 SRX6603853 SRS5168902 SRP216556 PRJNA556842 aKlotho regulates age associated vascular calcification and lifespan in zebrafish PRJNA556842 Transcriptome Analysis The hormone aKlotho regulates lifespan in mice as knockouts die early of what appears to be accelerated aging due to hyperphosphatemia and soft tissue calcification. In contrast its overexpression increases lifespan. Given the severe mouse phenotype we generated zebrafish mutants for aklotho as well as its binding partner fibroblast growth factor 23 fgf23. Both mutations cause shortened lifespan in zebrafish with abrupt onset of behavioral and degenerative physical changes at around five months of age. There is calcification of vessels throughout the body most dramatically in the outflow tract of the heart the bulbus arteriosus BA. This calcification is associated with ectopic activation of osteoclast differentiation pathways. These findings suggest that the gradual loss of aKlotho found in normal aging might give rise to ectopic calcification.       wildtype heart 5 mpf replicate 1 wt 14560 a heart   strain:AB|age:5months|sex:male|tissue:heart|genotype:wildtype|Replicate:Bilogical replicate 1|BioSampleModel:Model organism or animal                 wildtype heart 5 mpf replicate 1 wt 14560 a heart wt 14560 a heart Tissue collection and dissection: Adult zebrafish were euthanized by exposure to chilled water 0 4C. Gills heart and kidney were collected from 32 individual fish at two time points namely at 3 mpf and 5 mpf for klotho mutants and wildtype sibling controls AB background; 8 fish per genotype per time point 4 males 4 females for a total of 96 samples. Tissues were dissected in cold PBS and immediately stored in RNALater Stabilization Solution ThermoFisher Cat# AM7021. RNALater was removed post an overnight incubation at 4C and samples were stored at 80C until processing. RNA extraction: All tissues were homogenized using the TissueLyser II Qiagen plus Lysis buffer containing mercaptoethanol and stored at 80C. RNA extraction was performed using the automated protocol in the QIAcube workstation utilizing the RNeasy Fibrous Tissue Mini kit Qiagen Cat No./ID: 74704. RNA integrity and quality were assessed by Agilent TapeStation using High Sensitivity RNA ScreenTapes. Samples were normalized and 300ng of RNA was used for library prep for each sample. ERCC RNA Spike in mix was added for quality control. mRNA was captured using poly T oligos attached beads for library selection.     RNA-Seq TRANSCRIPTOMIC other PAIRED ILLUMINA Illumina HiSeq 2500   SRP216556     wt-14560-a-heart_merged_S54-1.fastq.gz wt-14560-a-heart_merged_S54-2.fastq.gz fastq fastq 3469500486.0 23411073.0 wt 14560 a heart merged S54 1.fastq.gz 0:74.09 1:74.11 A:881714831;C:818795732;G:817326984;T:896495167;N:55167772 74 74     881714831 818795732 817326984 896495167 55167772 SRX6603853 SRS5168902 SRA927891 Novartis Institutes for Biomedical Research|Chemical Biology and Therapeutics Novartis Institutes for Biomedical Research 2 0.96207 0.96572 0.08318 0.08198 0.77378 0.77486 0.50718 0.51312 76 76 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   Germany 2019-07-27 Adult Adult Heart Cardiovascular System
53333 53333 SRR9849232 SRX6603852 SRS5168901 SRP216556 PRJNA556842 aKlotho regulates age associated vascular calcification and lifespan in zebrafish PRJNA556842 Transcriptome Analysis The hormone aKlotho regulates lifespan in mice as knockouts die early of what appears to be accelerated aging due to hyperphosphatemia and soft tissue calcification. In contrast its overexpression increases lifespan. Given the severe mouse phenotype we generated zebrafish mutants for aklotho as well as its binding partner fibroblast growth factor 23 fgf23. Both mutations cause shortened lifespan in zebrafish with abrupt onset of behavioral and degenerative physical changes at around five months of age. There is calcification of vessels throughout the body most dramatically in the outflow tract of the heart the bulbus arteriosus BA. This calcification is associated with ectopic activation of osteoclast differentiation pathways. These findings suggest that the gradual loss of aKlotho found in normal aging might give rise to ectopic calcification.       wildtype heart 5 mpf replicate 2 wt 14560 c heart   strain:AB|age:5months|sex:male|tissue:heart|genotype:wildtype|Replicate:Bilogical replicate 2|BioSampleModel:Model organism or animal                 wildtype heart 5 mpf replicate 2 wt 14560 c heart wt 14560 c heart Tissue collection and dissection: Adult zebrafish were euthanized by exposure to chilled water 0 4C. Gills heart and kidney were collected from 32 individual fish at two time points namely at 3 mpf and 5 mpf for klotho mutants and wildtype sibling controls AB background; 8 fish per genotype per time point 4 males 4 females for a total of 96 samples. Tissues were dissected in cold PBS and immediately stored in RNALater Stabilization Solution ThermoFisher Cat# AM7021. RNALater was removed post an overnight incubation at 4C and samples were stored at 80C until processing. RNA extraction: All tissues were homogenized using the TissueLyser II Qiagen plus Lysis buffer containing mercaptoethanol and stored at 80C. RNA extraction was performed using the automated protocol in the QIAcube workstation utilizing the RNeasy Fibrous Tissue Mini kit Qiagen Cat No./ID: 74704. RNA integrity and quality were assessed by Agilent TapeStation using High Sensitivity RNA ScreenTapes. Samples were normalized and 300ng of RNA was used for library prep for each sample. ERCC RNA Spike in mix was added for quality control. mRNA was captured using poly T oligos attached beads for library selection.     RNA-Seq TRANSCRIPTOMIC other PAIRED ILLUMINA Illumina HiSeq 2500   SRP216556     wt-14560-c-heart_merged_S78-1.fastq.gz wt-14560-c-heart_merged_S78-2.fastq.gz fastq fastq 4298598351.0 29642103.0 wt 14560 c heart merged S78 1.fastq.gz 0:72.50 1:72.51 A:1086735134;C:980746934;G:973700643;T:1104285179;N:153130461 72 72     1086735134 980746934 973700643 1104285179 153130461 SRX6603852 SRS5168901 SRA927891 Novartis Institutes for Biomedical Research|Chemical Biology and Therapeutics Novartis Institutes for Biomedical Research 2 0.96307 0.96577 0.07926 0.07761 0.78019 0.78094 0.52817 0.52579 75 76 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   Germany 2019-07-27 Adult Adult Heart Cardiovascular System
53334 53334 SRR9849235 SRX6603851 SRS5168900 SRP216556 PRJNA556842 aKlotho regulates age associated vascular calcification and lifespan in zebrafish PRJNA556842 Transcriptome Analysis The hormone aKlotho regulates lifespan in mice as knockouts die early of what appears to be accelerated aging due to hyperphosphatemia and soft tissue calcification. In contrast its overexpression increases lifespan. Given the severe mouse phenotype we generated zebrafish mutants for aklotho as well as its binding partner fibroblast growth factor 23 fgf23. Both mutations cause shortened lifespan in zebrafish with abrupt onset of behavioral and degenerative physical changes at around five months of age. There is calcification of vessels throughout the body most dramatically in the outflow tract of the heart the bulbus arteriosus BA. This calcification is associated with ectopic activation of osteoclast differentiation pathways. These findings suggest that the gradual loss of aKlotho found in normal aging might give rise to ectopic calcification.       wildtype heart 3 mpf replicate 7 wt 14746 i heart   strain:AB|age:3months|sex:female|tissue:heart|genotype:wildtype|Replicate:Bilogical replicate 7|BioSampleModel:Model organism or animal                 wildtype heart 3 mpf replicate 7 wt 14746 i heart wt 14746 i heart Tissue collection and dissection: Adult zebrafish were euthanized by exposure to chilled water 0 4C. Gills heart and kidney were collected from 32 individual fish at two time points namely at 3 mpf and 5 mpf for klotho mutants and wildtype sibling controls AB background; 8 fish per genotype per time point 4 males 4 females for a total of 96 samples. Tissues were dissected in cold PBS and immediately stored in RNALater Stabilization Solution ThermoFisher Cat# AM7021. RNALater was removed post an overnight incubation at 4C and samples were stored at 80C until processing. RNA extraction: All tissues were homogenized using the TissueLyser II Qiagen plus Lysis buffer containing mercaptoethanol and stored at 80C. RNA extraction was performed using the automated protocol in the QIAcube workstation utilizing the RNeasy Fibrous Tissue Mini kit Qiagen Cat No./ID: 74704. RNA integrity and quality were assessed by Agilent TapeStation using High Sensitivity RNA ScreenTapes. Samples were normalized and 300ng of RNA was used for library prep for each sample. ERCC RNA Spike in mix was added for quality control. mRNA was captured using poly T oligos attached beads for library selection.     RNA-Seq TRANSCRIPTOMIC other PAIRED ILLUMINA Illumina HiSeq 2500   SRP216556     wt-14746-i-heart_merged_S92-1.fastq.gz wt-14746-i-heart_merged_S92-2.fastq.gz fastq fastq 3296753298.0 22530992.0 wt 14746 i heart merged S92 1.fastq.gz 0:73.16 1:73.16 A:826200854;C:771612246;G:764380026;T:843367292;N:91192880 73 73     826200854 771612246 764380026 843367292 91192880 SRX6603851 SRS5168900 SRA927891 Novartis Institutes for Biomedical Research|Chemical Biology and Therapeutics Novartis Institutes for Biomedical Research 2 0.96787 0.96891 0.07707 0.07649 0.77364 0.77516 0.48618 0.50244 76 75 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   Germany 2019-07-27 Adult Adult Heart Cardiovascular System
53335 53335 SRR9849241 SRX6603850 SRS5168899 SRP216556 PRJNA556842 aKlotho regulates age associated vascular calcification and lifespan in zebrafish PRJNA556842 Transcriptome Analysis The hormone aKlotho regulates lifespan in mice as knockouts die early of what appears to be accelerated aging due to hyperphosphatemia and soft tissue calcification. In contrast its overexpression increases lifespan. Given the severe mouse phenotype we generated zebrafish mutants for aklotho as well as its binding partner fibroblast growth factor 23 fgf23. Both mutations cause shortened lifespan in zebrafish with abrupt onset of behavioral and degenerative physical changes at around five months of age. There is calcification of vessels throughout the body most dramatically in the outflow tract of the heart the bulbus arteriosus BA. This calcification is associated with ectopic activation of osteoclast differentiation pathways. These findings suggest that the gradual loss of aKlotho found in normal aging might give rise to ectopic calcification.       wildtype heart 3 mpf replicate 6 wt 14746 g heart   strain:AB|age:3months|sex:female|tissue:heart|genotype:wildtype|Replicate:Bilogical replicate 6|BioSampleModel:Model organism or animal                 wildtype heart 3 mpf replicate 6 wt 14746 g heart wt 14746 g heart Tissue collection and dissection: Adult zebrafish were euthanized by exposure to chilled water 0 4C. Gills heart and kidney were collected from 32 individual fish at two time points namely at 3 mpf and 5 mpf for klotho mutants and wildtype sibling controls AB background; 8 fish per genotype per time point 4 males 4 females for a total of 96 samples. Tissues were dissected in cold PBS and immediately stored in RNALater Stabilization Solution ThermoFisher Cat# AM7021. RNALater was removed post an overnight incubation at 4C and samples were stored at 80C until processing. RNA extraction: All tissues were homogenized using the TissueLyser II Qiagen plus Lysis buffer containing mercaptoethanol and stored at 80C. RNA extraction was performed using the automated protocol in the QIAcube workstation utilizing the RNeasy Fibrous Tissue Mini kit Qiagen Cat No./ID: 74704. RNA integrity and quality were assessed by Agilent TapeStation using High Sensitivity RNA ScreenTapes. Samples were normalized and 300ng of RNA was used for library prep for each sample. ERCC RNA Spike in mix was added for quality control. mRNA was captured using poly T oligos attached beads for library selection.     RNA-Seq TRANSCRIPTOMIC other PAIRED ILLUMINA Illumina HiSeq 2500   SRP216556     wt-14746-g-heart_merged_S68-1.fastq.gz wt-14746-g-heart_merged_S68-2.fastq.gz fastq fastq 3478252335.0 23298779.0 wt 14746 g heart merged S68 1.fastq.gz 0:74.65 1:74.64 A:896856946;C:819773438;G:815285022;T:913617280;N:32719649 74 74     896856946 819773438 815285022 913617280 32719649 SRX6603850 SRS5168899 SRA927891 Novartis Institutes for Biomedical Research|Chemical Biology and Therapeutics Novartis Institutes for Biomedical Research 2 0.96468 0.96619 0.07171 0.07095 0.76471 0.76666 0.51351 0.51529 76 76 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   Germany 2019-07-27 Adult Adult Heart Cardiovascular System
53336 53336 SRR9849236 SRX6603849 SRS5168898 SRP216556 PRJNA556842 aKlotho regulates age associated vascular calcification and lifespan in zebrafish PRJNA556842 Transcriptome Analysis The hormone aKlotho regulates lifespan in mice as knockouts die early of what appears to be accelerated aging due to hyperphosphatemia and soft tissue calcification. In contrast its overexpression increases lifespan. Given the severe mouse phenotype we generated zebrafish mutants for aklotho as well as its binding partner fibroblast growth factor 23 fgf23. Both mutations cause shortened lifespan in zebrafish with abrupt onset of behavioral and degenerative physical changes at around five months of age. There is calcification of vessels throughout the body most dramatically in the outflow tract of the heart the bulbus arteriosus BA. This calcification is associated with ectopic activation of osteoclast differentiation pathways. These findings suggest that the gradual loss of aKlotho found in normal aging might give rise to ectopic calcification.       wildtype heart 3 mpf replicate 5 wt 14746 b heart   strain:AB|age:3months|sex:female|tissue:heart|genotype:wildtype|Replicate:Bilogical replicate 5|BioSampleModel:Model organism or animal                 wildtype heart 3 mpf replicate 5 wt 14746 b heart wt 14746 b heart Tissue collection and dissection: Adult zebrafish were euthanized by exposure to chilled water 0 4C. Gills heart and kidney were collected from 32 individual fish at two time points namely at 3 mpf and 5 mpf for klotho mutants and wildtype sibling controls AB background; 8 fish per genotype per time point 4 males 4 females for a total of 96 samples. Tissues were dissected in cold PBS and immediately stored in RNALater Stabilization Solution ThermoFisher Cat# AM7021. RNALater was removed post an overnight incubation at 4C and samples were stored at 80C until processing. RNA extraction: All tissues were homogenized using the TissueLyser II Qiagen plus Lysis buffer containing mercaptoethanol and stored at 80C. RNA extraction was performed using the automated protocol in the QIAcube workstation utilizing the RNeasy Fibrous Tissue Mini kit Qiagen Cat No./ID: 74704. RNA integrity and quality were assessed by Agilent TapeStation using High Sensitivity RNA ScreenTapes. Samples were normalized and 300ng of RNA was used for library prep for each sample. ERCC RNA Spike in mix was added for quality control. mRNA was captured using poly T oligos attached beads for library selection.     RNA-Seq TRANSCRIPTOMIC other PAIRED ILLUMINA Illumina HiSeq 2500   SRP216556     wt-14746-b-heart_merged_S8-1.fastq.gz wt-14746-b-heart_merged_S8-2.fastq.gz fastq fastq 4563618848.0 30604616.0 wt 14746 b heart merged S8 1.fastq.gz 0:74.56 1:74.56 A:1199338490;C:1051367009;G:1048563030;T:1218156313;N:46194006 74 74     1199338490 1051367009 1048563030 1218156313 46194006 SRX6603849 SRS5168898 SRA927891 Novartis Institutes for Biomedical Research|Chemical Biology and Therapeutics Novartis Institutes for Biomedical Research 2 0.95736 0.96073 0.08035 0.07987 0.7769 0.7778 0.52656 0.53048 76 75 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   Germany 2019-07-27 Adult Adult Heart Cardiovascular System
53337 53337 SRR9849240 SRX6603848 SRS5168897 SRP216556 PRJNA556842 aKlotho regulates age associated vascular calcification and lifespan in zebrafish PRJNA556842 Transcriptome Analysis The hormone aKlotho regulates lifespan in mice as knockouts die early of what appears to be accelerated aging due to hyperphosphatemia and soft tissue calcification. In contrast its overexpression increases lifespan. Given the severe mouse phenotype we generated zebrafish mutants for aklotho as well as its binding partner fibroblast growth factor 23 fgf23. Both mutations cause shortened lifespan in zebrafish with abrupt onset of behavioral and degenerative physical changes at around five months of age. There is calcification of vessels throughout the body most dramatically in the outflow tract of the heart the bulbus arteriosus BA. This calcification is associated with ectopic activation of osteoclast differentiation pathways. These findings suggest that the gradual loss of aKlotho found in normal aging might give rise to ectopic calcification.       wildtype heart 3 mpf replicate 4 wt 14746 h heart   strain:AB|age:3months|sex:male|tissue:heart|genotype:wildtype|Replicate:Bilogical replicate 4|BioSampleModel:Model organism or animal                 wildtype heart 3 mpf replicate 4 wt 14746 h heart wt 14746 h heart Tissue collection and dissection: Adult zebrafish were euthanized by exposure to chilled water 0 4C. Gills heart and kidney were collected from 32 individual fish at two time points namely at 3 mpf and 5 mpf for klotho mutants and wildtype sibling controls AB background; 8 fish per genotype per time point 4 males 4 females for a total of 96 samples. Tissues were dissected in cold PBS and immediately stored in RNALater Stabilization Solution ThermoFisher Cat# AM7021. RNALater was removed post an overnight incubation at 4C and samples were stored at 80C until processing. RNA extraction: All tissues were homogenized using the TissueLyser II Qiagen plus Lysis buffer containing mercaptoethanol and stored at 80C. RNA extraction was performed using the automated protocol in the QIAcube workstation utilizing the RNeasy Fibrous Tissue Mini kit Qiagen Cat No./ID: 74704. RNA integrity and quality were assessed by Agilent TapeStation using High Sensitivity RNA ScreenTapes. Samples were normalized and 300ng of RNA was used for library prep for each sample. ERCC RNA Spike in mix was added for quality control. mRNA was captured using poly T oligos attached beads for library selection.     RNA-Seq TRANSCRIPTOMIC other PAIRED ILLUMINA Illumina HiSeq 2500   SRP216556     wt-14746-h-heart_merged_S80-1.fastq.gz wt-14746-h-heart_merged_S80-2.fastq.gz fastq fastq 3057548489.0 20709835.0 wt 14746 h heart merged S80 1.fastq.gz 0:73.80 1:73.84 A:792327423;C:700186862;G:697562151;T:806783392;N:60688661 73 73     792327423 700186862 697562151 806783392 60688661 SRX6603848 SRS5168897 SRA927891 Novartis Institutes for Biomedical Research|Chemical Biology and Therapeutics Novartis Institutes for Biomedical Research 2 0.95923 0.96299 0.08174 0.08132 0.7727 0.77463 0.52679 0.5311 76 76 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   Germany 2019-07-27 Adult Adult Heart Cardiovascular System
53338 53338 SRR9849237 SRX6603847 SRS5168896 SRP216556 PRJNA556842 aKlotho regulates age associated vascular calcification and lifespan in zebrafish PRJNA556842 Transcriptome Analysis The hormone aKlotho regulates lifespan in mice as knockouts die early of what appears to be accelerated aging due to hyperphosphatemia and soft tissue calcification. In contrast its overexpression increases lifespan. Given the severe mouse phenotype we generated zebrafish mutants for aklotho as well as its binding partner fibroblast growth factor 23 fgf23. Both mutations cause shortened lifespan in zebrafish with abrupt onset of behavioral and degenerative physical changes at around five months of age. There is calcification of vessels throughout the body most dramatically in the outflow tract of the heart the bulbus arteriosus BA. This calcification is associated with ectopic activation of osteoclast differentiation pathways. These findings suggest that the gradual loss of aKlotho found in normal aging might give rise to ectopic calcification.       wildtype heart 3 mpf replicate 3 wt 14746 f heart   strain:AB|age:3months|sex:male|tissue:heart|genotype:wildtype|Replicate:Bilogical replicate 3|BioSampleModel:Model organism or animal                 wildtype heart 3 mpf replicate 3 wt 14746 f heart wt 14746 f heart Tissue collection and dissection: Adult zebrafish were euthanized by exposure to chilled water 0 4C. Gills heart and kidney were collected from 32 individual fish at two time points namely at 3 mpf and 5 mpf for klotho mutants and wildtype sibling controls AB background; 8 fish per genotype per time point 4 males 4 females for a total of 96 samples. Tissues were dissected in cold PBS and immediately stored in RNALater Stabilization Solution ThermoFisher Cat# AM7021. RNALater was removed post an overnight incubation at 4C and samples were stored at 80C until processing. RNA extraction: All tissues were homogenized using the TissueLyser II Qiagen plus Lysis buffer containing mercaptoethanol and stored at 80C. RNA extraction was performed using the automated protocol in the QIAcube workstation utilizing the RNeasy Fibrous Tissue Mini kit Qiagen Cat No./ID: 74704. RNA integrity and quality were assessed by Agilent TapeStation using High Sensitivity RNA ScreenTapes. Samples were normalized and 300ng of RNA was used for library prep for each sample. ERCC RNA Spike in mix was added for quality control. mRNA was captured using poly T oligos attached beads for library selection.     RNA-Seq TRANSCRIPTOMIC other PAIRED ILLUMINA Illumina HiSeq 2500   SRP216556     wt-14746-f-heart_merged_S56-1.fastq.gz wt-14746-f-heart_merged_S56-2.fastq.gz fastq fastq 3541634571.0 24450465.0 wt 14746 f heart merged S56 1.fastq.gz 0:72.41 1:72.44 A:887833556;C:811812942;G:811061582;T:900852621;N:130073870 72 72     887833556 811812942 811061582 900852621 130073870 SRX6603847 SRS5168896 SRA927891 Novartis Institutes for Biomedical Research|Chemical Biology and Therapeutics Novartis Institutes for Biomedical Research 2 0.95834 0.96183 0.07795 0.07697 0.77822 0.77932 0.52277 0.52252 35 35 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   Germany 2019-07-27 Adult Adult Heart Cardiovascular System
53339 53339 SRR9849238 SRX6603846 SRS5168895 SRP216556 PRJNA556842 aKlotho regulates age associated vascular calcification and lifespan in zebrafish PRJNA556842 Transcriptome Analysis The hormone aKlotho regulates lifespan in mice as knockouts die early of what appears to be accelerated aging due to hyperphosphatemia and soft tissue calcification. In contrast its overexpression increases lifespan. Given the severe mouse phenotype we generated zebrafish mutants for aklotho as well as its binding partner fibroblast growth factor 23 fgf23. Both mutations cause shortened lifespan in zebrafish with abrupt onset of behavioral and degenerative physical changes at around five months of age. There is calcification of vessels throughout the body most dramatically in the outflow tract of the heart the bulbus arteriosus BA. This calcification is associated with ectopic activation of osteoclast differentiation pathways. These findings suggest that the gradual loss of aKlotho found in normal aging might give rise to ectopic calcification.       αKlotho heart 3 mpf replicate 7 kl 14744 f heart   strain:AB|age:3months|sex:female|tissue:heart|genotype:aKlotho|Replicate:Bilogical replicate 7|BioSampleModel:Model organism or animal                 Klotho heart 3 mpf replicate 7 kl 14744 f heart kl 14744 f heart Tissue collection and dissection: Adult zebrafish were euthanized by exposure to chilled water 0 4C. Gills heart and kidney were collected from 32 individual fish at two time points namely at 3 mpf and 5 mpf for klotho mutants and wildtype sibling controls AB background; 8 fish per genotype per time point 4 males 4 females for a total of 96 samples. Tissues were dissected in cold PBS and immediately stored in RNALater Stabilization Solution ThermoFisher Cat# AM7021. RNALater was removed post an overnight incubation at 4C and samples were stored at 80C until processing. RNA extraction: All tissues were homogenized using the TissueLyser II Qiagen plus Lysis buffer containing mercaptoethanol and stored at 80C. RNA extraction was performed using the automated protocol in the QIAcube workstation utilizing the RNeasy Fibrous Tissue Mini kit Qiagen Cat No./ID: 74704. RNA integrity and quality were assessed by Agilent TapeStation using High Sensitivity RNA ScreenTapes. Samples were normalized and 300ng of RNA was used for library prep for each sample. ERCC RNA Spike in mix was added for quality control. mRNA was captured using poly T oligos attached beads for library selection.     RNA-Seq TRANSCRIPTOMIC other PAIRED ILLUMINA Illumina HiSeq 2500   SRP216556     kl-14744-f-heart_merged_S72-1.fastq.gz kl-14744-f-heart_merged_S72-2.fastq.gz fastq fastq 3241045921.0 21588283.0 kl 14744 f heart merged S72 1.fastq.gz 0:75.08 1:75.05 A:851286193;C:759660776;G:740803191;T:873270627;N:16025134 75 75     851286193 759660776 740803191 873270627 16025134 SRX6603846 SRS5168895 SRA927891 Novartis Institutes for Biomedical Research|Chemical Biology and Therapeutics Novartis Institutes for Biomedical Research 2 0.9591 0.96262 0.08647 0.08644 0.75532 0.75572 0.50749 0.51189 76 75 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   Germany 2019-07-27 Adult Adult Heart Cardiovascular System
53340 53340 SRR9849239 SRX6603845 SRS5168894 SRP216556 PRJNA556842 aKlotho regulates age associated vascular calcification and lifespan in zebrafish PRJNA556842 Transcriptome Analysis The hormone aKlotho regulates lifespan in mice as knockouts die early of what appears to be accelerated aging due to hyperphosphatemia and soft tissue calcification. In contrast its overexpression increases lifespan. Given the severe mouse phenotype we generated zebrafish mutants for aklotho as well as its binding partner fibroblast growth factor 23 fgf23. Both mutations cause shortened lifespan in zebrafish with abrupt onset of behavioral and degenerative physical changes at around five months of age. There is calcification of vessels throughout the body most dramatically in the outflow tract of the heart the bulbus arteriosus BA. This calcification is associated with ectopic activation of osteoclast differentiation pathways. These findings suggest that the gradual loss of aKlotho found in normal aging might give rise to ectopic calcification.       αKlotho heart 3 mpf replicate 6 kl 14744 d heart   strain:AB|age:3months|sex:female|tissue:heart|genotype:aKlotho|Replicate:Bilogical replicate 6|BioSampleModel:Model organism or animal                 Klotho heart 3 mpf replicate 6 kl 14744 d heart kl 14744 d heart Tissue collection and dissection: Adult zebrafish were euthanized by exposure to chilled water 0 4C. Gills heart and kidney were collected from 32 individual fish at two time points namely at 3 mpf and 5 mpf for klotho mutants and wildtype sibling controls AB background; 8 fish per genotype per time point 4 males 4 females for a total of 96 samples. Tissues were dissected in cold PBS and immediately stored in RNALater Stabilization Solution ThermoFisher Cat# AM7021. RNALater was removed post an overnight incubation at 4C and samples were stored at 80C until processing. RNA extraction: All tissues were homogenized using the TissueLyser II Qiagen plus Lysis buffer containing mercaptoethanol and stored at 80C. RNA extraction was performed using the automated protocol in the QIAcube workstation utilizing the RNeasy Fibrous Tissue Mini kit Qiagen Cat No./ID: 74704. RNA integrity and quality were assessed by Agilent TapeStation using High Sensitivity RNA ScreenTapes. Samples were normalized and 300ng of RNA was used for library prep for each sample. ERCC RNA Spike in mix was added for quality control. mRNA was captured using poly T oligos attached beads for library selection.     RNA-Seq TRANSCRIPTOMIC other PAIRED ILLUMINA Illumina HiSeq 2500   SRP216556     kl-14744-d-heart_merged_S45-1.fastq.gz kl-14744-d-heart_merged_S45-2.fastq.gz fastq fastq 2961030455.0 20480198.0 kl 14744 d heart merged S45 1.fastq.gz 0:72.27 1:72.31 A:707753147;C:711986596;G:707367952;T:722085345;N:111837415 72 72     707753147 711986596 707367952 722085345 111837415 SRX6603845 SRS5168894 SRA927891 Novartis Institutes for Biomedical Research|Chemical Biology and Therapeutics Novartis Institutes for Biomedical Research 2 0.96031 0.96482 0.07725 0.07644 0.77891 0.78003 0.50344 0.48323 76 75 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   Germany 2019-07-27 Adult Adult Heart Cardiovascular System
53341 53341 SRR9849242 SRX6603844 SRS5168893 SRP216556 PRJNA556842 aKlotho regulates age associated vascular calcification and lifespan in zebrafish PRJNA556842 Transcriptome Analysis The hormone aKlotho regulates lifespan in mice as knockouts die early of what appears to be accelerated aging due to hyperphosphatemia and soft tissue calcification. In contrast its overexpression increases lifespan. Given the severe mouse phenotype we generated zebrafish mutants for aklotho as well as its binding partner fibroblast growth factor 23 fgf23. Both mutations cause shortened lifespan in zebrafish with abrupt onset of behavioral and degenerative physical changes at around five months of age. There is calcification of vessels throughout the body most dramatically in the outflow tract of the heart the bulbus arteriosus BA. This calcification is associated with ectopic activation of osteoclast differentiation pathways. These findings suggest that the gradual loss of aKlotho found in normal aging might give rise to ectopic calcification.       wildtype heart 5 mpf replicate 8 wt 14560 h heart   strain:AB|age:5months|sex:female|tissue:heart|genotype:wildtype|Replicate:Bilogical replicate 8|BioSampleModel:Model organism or animal                 wildtype heart 5 mpf replicate 8 wt 14560 h heart wt 14560 h heart Tissue collection and dissection: Adult zebrafish were euthanized by exposure to chilled water 0 4C. Gills heart and kidney were collected from 32 individual fish at two time points namely at 3 mpf and 5 mpf for klotho mutants and wildtype sibling controls AB background; 8 fish per genotype per time point 4 males 4 females for a total of 96 samples. Tissues were dissected in cold PBS and immediately stored in RNALater Stabilization Solution ThermoFisher Cat# AM7021. RNALater was removed post an overnight incubation at 4C and samples were stored at 80C until processing. RNA extraction: All tissues were homogenized using the TissueLyser II Qiagen plus Lysis buffer containing mercaptoethanol and stored at 80C. RNA extraction was performed using the automated protocol in the QIAcube workstation utilizing the RNeasy Fibrous Tissue Mini kit Qiagen Cat No./ID: 74704. RNA integrity and quality were assessed by Agilent TapeStation using High Sensitivity RNA ScreenTapes. Samples were normalized and 300ng of RNA was used for library prep for each sample. ERCC RNA Spike in mix was added for quality control. mRNA was captured using poly T oligos attached beads for library selection.     RNA-Seq TRANSCRIPTOMIC other PAIRED ILLUMINA Illumina HiSeq 2500   SRP216556     wt-14560-h-heart_merged_S43-1.fastq.gz wt-14560-h-heart_merged_S43-2.fastq.gz fastq fastq 3230515742.0 21927179.0 wt 14560 h heart merged S43 1.fastq.gz 0:73.68 1:73.64 A:767087752;C:808285631;G:802389048;T:783460820;N:69292491 73 73     767087752 808285631 802389048 783460820 69292491 SRX6603844 SRS5168893 SRA927891 Novartis Institutes for Biomedical Research|Chemical Biology and Therapeutics Novartis Institutes for Biomedical Research 2 0.97283 0.97361 0.06602 0.06512 0.76374 0.76514 0.46053 0.4544 75 76 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   Germany 2019-07-27 Adult Adult Heart Cardiovascular System
53342 53342 SRR9849249 SRX6603843 SRS5168892 SRP216556 PRJNA556842 aKlotho regulates age associated vascular calcification and lifespan in zebrafish PRJNA556842 Transcriptome Analysis The hormone aKlotho regulates lifespan in mice as knockouts die early of what appears to be accelerated aging due to hyperphosphatemia and soft tissue calcification. In contrast its overexpression increases lifespan. Given the severe mouse phenotype we generated zebrafish mutants for aklotho as well as its binding partner fibroblast growth factor 23 fgf23. Both mutations cause shortened lifespan in zebrafish with abrupt onset of behavioral and degenerative physical changes at around five months of age. There is calcification of vessels throughout the body most dramatically in the outflow tract of the heart the bulbus arteriosus BA. This calcification is associated with ectopic activation of osteoclast differentiation pathways. These findings suggest that the gradual loss of aKlotho found in normal aging might give rise to ectopic calcification.       αKlotho heart 3 mpf replicate 1 kl 14744 a heart   strain:AB|age:3months|sex:male|tissue:heart|genotype:aKlotho|Replicate:Bilogical replicate 1|BioSampleModel:Model organism or animal                 Klotho heart 3 mpf replicate 1 kl 14744 a heart kl 14744 a heart Tissue collection and dissection: Adult zebrafish were euthanized by exposure to chilled water 0 4C. Gills heart and kidney were collected from 32 individual fish at two time points namely at 3 mpf and 5 mpf for klotho mutants and wildtype sibling controls AB background; 8 fish per genotype per time point 4 males 4 females for a total of 96 samples. Tissues were dissected in cold PBS and immediately stored in RNALater Stabilization Solution ThermoFisher Cat# AM7021. RNALater was removed post an overnight incubation at 4C and samples were stored at 80C until processing. RNA extraction: All tissues were homogenized using the TissueLyser II Qiagen plus Lysis buffer containing mercaptoethanol and stored at 80C. RNA extraction was performed using the automated protocol in the QIAcube workstation utilizing the RNeasy Fibrous Tissue Mini kit Qiagen Cat No./ID: 74704. RNA integrity and quality were assessed by Agilent TapeStation using High Sensitivity RNA ScreenTapes. Samples were normalized and 300ng of RNA was used for library prep for each sample. ERCC RNA Spike in mix was added for quality control. mRNA was captured using poly T oligos attached beads for library selection.     RNA-Seq TRANSCRIPTOMIC other PAIRED ILLUMINA Illumina HiSeq 2500   SRP216556     kl-14744-a-heart_merged_S9-1.fastq.gz kl-14744-a-heart_merged_S9-2.fastq.gz fastq fastq 3477898690.0 24143307.0 kl 14744 a heart merged S9 1.fastq.gz 0:71.99 1:72.06 A:899507123;C:762680155;G:757521264;T:916259604;N:141930544 71 72     899507123 762680155 757521264 916259604 141930544 SRX6603843 SRS5168892 SRA927891 Novartis Institutes for Biomedical Research|Chemical Biology and Therapeutics Novartis Institutes for Biomedical Research 2 0.95885 0.96166 0.09821 0.09764 0.78533 0.78662 0.54745 0.54687 73 73 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   Germany 2019-07-27 Adult Adult Heart Cardiovascular System
53343 53343 SRR9849243 SRX6603842 SRS5168891 SRP216556 PRJNA556842 aKlotho regulates age associated vascular calcification and lifespan in zebrafish PRJNA556842 Transcriptome Analysis The hormone aKlotho regulates lifespan in mice as knockouts die early of what appears to be accelerated aging due to hyperphosphatemia and soft tissue calcification. In contrast its overexpression increases lifespan. Given the severe mouse phenotype we generated zebrafish mutants for aklotho as well as its binding partner fibroblast growth factor 23 fgf23. Both mutations cause shortened lifespan in zebrafish with abrupt onset of behavioral and degenerative physical changes at around five months of age. There is calcification of vessels throughout the body most dramatically in the outflow tract of the heart the bulbus arteriosus BA. This calcification is associated with ectopic activation of osteoclast differentiation pathways. These findings suggest that the gradual loss of aKlotho found in normal aging might give rise to ectopic calcification.       wildtype heart 5 mpf replicate 6 wt 14560 d heart   strain:AB|age:5months|sex:female|tissue:heart|genotype:wildtype|Replicate:Bilogical replicate 6|BioSampleModel:Model organism or animal                 wildtype heart 5 mpf replicate 6 wt 14560 d heart wt 14560 d heart Tissue collection and dissection: Adult zebrafish were euthanized by exposure to chilled water 0 4C. Gills heart and kidney were collected from 32 individual fish at two time points namely at 3 mpf and 5 mpf for klotho mutants and wildtype sibling controls AB background; 8 fish per genotype per time point 4 males 4 females for a total of 96 samples. Tissues were dissected in cold PBS and immediately stored in RNALater Stabilization Solution ThermoFisher Cat# AM7021. RNALater was removed post an overnight incubation at 4C and samples were stored at 80C until processing. RNA extraction: All tissues were homogenized using the TissueLyser II Qiagen plus Lysis buffer containing mercaptoethanol and stored at 80C. RNA extraction was performed using the automated protocol in the QIAcube workstation utilizing the RNeasy Fibrous Tissue Mini kit Qiagen Cat No./ID: 74704. RNA integrity and quality were assessed by Agilent TapeStation using High Sensitivity RNA ScreenTapes. Samples were normalized and 300ng of RNA was used for library prep for each sample. ERCC RNA Spike in mix was added for quality control. mRNA was captured using poly T oligos attached beads for library selection.     RNA-Seq TRANSCRIPTOMIC other PAIRED ILLUMINA Illumina HiSeq 2500   SRP216556     wt-14560-d-heart_merged_S90-1.fastq.gz wt-14560-d-heart_merged_S90-2.fastq.gz fastq fastq 3246728037.0 21837136.0 wt 14560 d heart merged S90 1.fastq.gz 0:74.35 1:74.33 A:821380972;C:772948382;G:769742900;T:838147097;N:44508686 74 74     821380972 772948382 769742900 838147097 44508686 SRX6603842 SRS5168891 SRA927891 Novartis Institutes for Biomedical Research|Chemical Biology and Therapeutics Novartis Institutes for Biomedical Research 2 0.96269 0.96529 0.08913 0.08797 0.75704 0.75846 0.46105 0.47184 76 76 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   Germany 2019-07-27 Adult Adult Heart Cardiovascular System
53344 53344 SRR9849248 SRX6603841 SRS5168890 SRP216556 PRJNA556842 aKlotho regulates age associated vascular calcification and lifespan in zebrafish PRJNA556842 Transcriptome Analysis The hormone aKlotho regulates lifespan in mice as knockouts die early of what appears to be accelerated aging due to hyperphosphatemia and soft tissue calcification. In contrast its overexpression increases lifespan. Given the severe mouse phenotype we generated zebrafish mutants for aklotho as well as its binding partner fibroblast growth factor 23 fgf23. Both mutations cause shortened lifespan in zebrafish with abrupt onset of behavioral and degenerative physical changes at around five months of age. There is calcification of vessels throughout the body most dramatically in the outflow tract of the heart the bulbus arteriosus BA. This calcification is associated with ectopic activation of osteoclast differentiation pathways. These findings suggest that the gradual loss of aKlotho found in normal aging might give rise to ectopic calcification.       wildtype heart 5 mpf replicate 7 wt 14560 f heart   strain:AB|age:5months|sex:female|tissue:heart|genotype:wildtype|Replicate:Bilogical replicate 7|BioSampleModel:Model organism or animal                 wildtype heart 5 mpf replicate 7 wt 14560 f heart wt 14560 f heart Tissue collection and dissection: Adult zebrafish were euthanized by exposure to chilled water 0 4C. Gills heart and kidney were collected from 32 individual fish at two time points namely at 3 mpf and 5 mpf for klotho mutants and wildtype sibling controls AB background; 8 fish per genotype per time point 4 males 4 females for a total of 96 samples. Tissues were dissected in cold PBS and immediately stored in RNALater Stabilization Solution ThermoFisher Cat# AM7021. RNALater was removed post an overnight incubation at 4C and samples were stored at 80C until processing. RNA extraction: All tissues were homogenized using the TissueLyser II Qiagen plus Lysis buffer containing mercaptoethanol and stored at 80C. RNA extraction was performed using the automated protocol in the QIAcube workstation utilizing the RNeasy Fibrous Tissue Mini kit Qiagen Cat No./ID: 74704. RNA integrity and quality were assessed by Agilent TapeStation using High Sensitivity RNA ScreenTapes. Samples were normalized and 300ng of RNA was used for library prep for each sample. ERCC RNA Spike in mix was added for quality control. mRNA was captured using poly T oligos attached beads for library selection.     RNA-Seq TRANSCRIPTOMIC other PAIRED ILLUMINA Illumina HiSeq 2500   SRP216556     wt-14560-f-heart_merged_S19-1.fastq.gz wt-14560-f-heart_merged_S19-2.fastq.gz fastq fastq 3292061588.0 22129723.0 wt 14560 f heart merged S19 1.fastq.gz 0:74.38 1:74.38 A:827218052;C:789821745;G:785831096;T:844311946;N:44878749 74 74     827218052 789821745 785831096 844311946 44878749 SRX6603841 SRS5168890 SRA927891 Novartis Institutes for Biomedical Research|Chemical Biology and Therapeutics Novartis Institutes for Biomedical Research 2 0.96543 0.96784 0.07594 0.07548 0.75751 0.76025 0.48336 0.47356 73 76 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   Germany 2019-07-27 Adult Adult Heart Cardiovascular System
53345 53345 SRR9849244 SRX6603840 SRS5168889 SRP216556 PRJNA556842 aKlotho regulates age associated vascular calcification and lifespan in zebrafish PRJNA556842 Transcriptome Analysis The hormone aKlotho regulates lifespan in mice as knockouts die early of what appears to be accelerated aging due to hyperphosphatemia and soft tissue calcification. In contrast its overexpression increases lifespan. Given the severe mouse phenotype we generated zebrafish mutants for aklotho as well as its binding partner fibroblast growth factor 23 fgf23. Both mutations cause shortened lifespan in zebrafish with abrupt onset of behavioral and degenerative physical changes at around five months of age. There is calcification of vessels throughout the body most dramatically in the outflow tract of the heart the bulbus arteriosus BA. This calcification is associated with ectopic activation of osteoclast differentiation pathways. These findings suggest that the gradual loss of aKlotho found in normal aging might give rise to ectopic calcification.       αKlotho heart 3 mpf replicate 4 kl 14744 g heart   strain:AB|age:3months|sex:male|tissue:heart|genotype:aKlotho|Replicate:Bilogical replicate 4|BioSampleModel:Model organism or animal                 Klotho heart 3 mpf replicate 4 kl 14744 g heart kl 14744 g heart Tissue collection and dissection: Adult zebrafish were euthanized by exposure to chilled water 0 4C. Gills heart and kidney were collected from 32 individual fish at two time points namely at 3 mpf and 5 mpf for klotho mutants and wildtype sibling controls AB background; 8 fish per genotype per time point 4 males 4 females for a total of 96 samples. Tissues were dissected in cold PBS and immediately stored in RNALater Stabilization Solution ThermoFisher Cat# AM7021. RNALater was removed post an overnight incubation at 4C and samples were stored at 80C until processing. RNA extraction: All tissues were homogenized using the TissueLyser II Qiagen plus Lysis buffer containing mercaptoethanol and stored at 80C. RNA extraction was performed using the automated protocol in the QIAcube workstation utilizing the RNeasy Fibrous Tissue Mini kit Qiagen Cat No./ID: 74704. RNA integrity and quality were assessed by Agilent TapeStation using High Sensitivity RNA ScreenTapes. Samples were normalized and 300ng of RNA was used for library prep for each sample. ERCC RNA Spike in mix was added for quality control. mRNA was captured using poly T oligos attached beads for library selection.     RNA-Seq TRANSCRIPTOMIC other PAIRED ILLUMINA Illumina HiSeq 2500   SRP216556     kl-14744-g-heart_merged_S84-1.fastq.gz kl-14744-g-heart_merged_S84-2.fastq.gz fastq fastq 3849360894.0 25663693.0 kl 14744 g heart merged S84 1.fastq.gz 0:75.00 1:74.99 A:1023026096;C:887744611;G:871797115;T:1043637197;N:23155875 75 74     1023026096 887744611 871797115 1043637197 23155875 SRX6603840 SRS5168889 SRA927891 Novartis Institutes for Biomedical Research|Chemical Biology and Therapeutics Novartis Institutes for Biomedical Research 2 0.95017 0.95706 0.08667 0.08489 0.76895 0.7713 0.54197 0.48618 76 75 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   Germany 2019-07-27 Adult Adult Heart Cardiovascular System
53346 53346 SRR9849245 SRX6603839 SRS5168888 SRP216556 PRJNA556842 aKlotho regulates age associated vascular calcification and lifespan in zebrafish PRJNA556842 Transcriptome Analysis The hormone aKlotho regulates lifespan in mice as knockouts die early of what appears to be accelerated aging due to hyperphosphatemia and soft tissue calcification. In contrast its overexpression increases lifespan. Given the severe mouse phenotype we generated zebrafish mutants for aklotho as well as its binding partner fibroblast growth factor 23 fgf23. Both mutations cause shortened lifespan in zebrafish with abrupt onset of behavioral and degenerative physical changes at around five months of age. There is calcification of vessels throughout the body most dramatically in the outflow tract of the heart the bulbus arteriosus BA. This calcification is associated with ectopic activation of osteoclast differentiation pathways. These findings suggest that the gradual loss of aKlotho found in normal aging might give rise to ectopic calcification.       wildtype heart 3 mpf replicate 1 wt 14746 c heart   strain:AB|age:3months|sex:male|tissue:heart|genotype:wildtype|Replicate:Bilogical replicate 1|BioSampleModel:Model organism or animal                 wildtype heart 3 mpf replicate 1 wt 14746 c heart wt 14746 c heart Tissue collection and dissection: Adult zebrafish were euthanized by exposure to chilled water 0 4C. Gills heart and kidney were collected from 32 individual fish at two time points namely at 3 mpf and 5 mpf for klotho mutants and wildtype sibling controls AB background; 8 fish per genotype per time point 4 males 4 females for a total of 96 samples. Tissues were dissected in cold PBS and immediately stored in RNALater Stabilization Solution ThermoFisher Cat# AM7021. RNALater was removed post an overnight incubation at 4C and samples were stored at 80C until processing. RNA extraction: All tissues were homogenized using the TissueLyser II Qiagen plus Lysis buffer containing mercaptoethanol and stored at 80C. RNA extraction was performed using the automated protocol in the QIAcube workstation utilizing the RNeasy Fibrous Tissue Mini kit Qiagen Cat No./ID: 74704. RNA integrity and quality were assessed by Agilent TapeStation using High Sensitivity RNA ScreenTapes. Samples were normalized and 300ng of RNA was used for library prep for each sample. ERCC RNA Spike in mix was added for quality control. mRNA was captured using poly T oligos attached beads for library selection.     RNA-Seq TRANSCRIPTOMIC other PAIRED ILLUMINA Illumina HiSeq 2500   SRP216556     wt-14746-c-heart_merged_S20-1.fastq.gz wt-14746-c-heart_merged_S20-2.fastq.gz fastq fastq 5374842582.0 36012942.0 wt 14746 c heart merged S20 1.fastq.gz 0:74.63 1:74.62 A:1377779907;C:1274733689;G:1265701335;T:1401994934;N:54632717 74 74     1377779907 1274733689 1265701335 1401994934 54632717 SRX6603839 SRS5168888 SRA927891 Novartis Institutes for Biomedical Research|Chemical Biology and Therapeutics Novartis Institutes for Biomedical Research 2 0.96288 0.96606 0.06062 0.06058 0.78344 0.78462 0.53603 0.52828 74 75 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   Germany 2019-07-27 Adult Adult Heart Cardiovascular System
53347 53347 SRR9849247 SRX6603838 SRS5168887 SRP216556 PRJNA556842 aKlotho regulates age associated vascular calcification and lifespan in zebrafish PRJNA556842 Transcriptome Analysis The hormone aKlotho regulates lifespan in mice as knockouts die early of what appears to be accelerated aging due to hyperphosphatemia and soft tissue calcification. In contrast its overexpression increases lifespan. Given the severe mouse phenotype we generated zebrafish mutants for aklotho as well as its binding partner fibroblast growth factor 23 fgf23. Both mutations cause shortened lifespan in zebrafish with abrupt onset of behavioral and degenerative physical changes at around five months of age. There is calcification of vessels throughout the body most dramatically in the outflow tract of the heart the bulbus arteriosus BA. This calcification is associated with ectopic activation of osteoclast differentiation pathways. These findings suggest that the gradual loss of aKlotho found in normal aging might give rise to ectopic calcification.       αKlotho heart 3 mpf replicate 5 kl 14744 b heart   strain:AB|age:3months|sex:female|tissue:heart|genotype:aKlotho|Replicate:Bilogical replicate 5|BioSampleModel:Model organism or animal                 Klotho heart 3 mpf replicate 5 kl 14744 b heart kl 14744 b heart Tissue collection and dissection: Adult zebrafish were euthanized by exposure to chilled water 0 4C. Gills heart and kidney were collected from 32 individual fish at two time points namely at 3 mpf and 5 mpf for klotho mutants and wildtype sibling controls AB background; 8 fish per genotype per time point 4 males 4 females for a total of 96 samples. Tissues were dissected in cold PBS and immediately stored in RNALater Stabilization Solution ThermoFisher Cat# AM7021. RNALater was removed post an overnight incubation at 4C and samples were stored at 80C until processing. RNA extraction: All tissues were homogenized using the TissueLyser II Qiagen plus Lysis buffer containing mercaptoethanol and stored at 80C. RNA extraction was performed using the automated protocol in the QIAcube workstation utilizing the RNeasy Fibrous Tissue Mini kit Qiagen Cat No./ID: 74704. RNA integrity and quality were assessed by Agilent TapeStation using High Sensitivity RNA ScreenTapes. Samples were normalized and 300ng of RNA was used for library prep for each sample. ERCC RNA Spike in mix was added for quality control. mRNA was captured using poly T oligos attached beads for library selection.     RNA-Seq TRANSCRIPTOMIC other PAIRED ILLUMINA Illumina HiSeq 2500   SRP216556     kl-14744-b-heart_merged_S21-1.fastq.gz kl-14744-b-heart_merged_S21-2.fastq.gz fastq fastq 4284695995.0 28823996.0 kl 14744 b heart merged S21 1.fastq.gz 0:74.33 1:74.32 A:1077245721;C:1027565211;G:1023292184;T:1096332467;N:60260412 74 74     1077245721 1027565211 1023292184 1096332467 60260412 SRX6603838 SRS5168887 SRA927891 Novartis Institutes for Biomedical Research|Chemical Biology and Therapeutics Novartis Institutes for Biomedical Research 2 0.95778 0.9629 0.07033 0.0699 0.76102 0.76337 0.49204 0.48736 76 76 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   Germany 2019-07-27 Adult Adult Heart Cardiovascular System
53348 53348 SRR9849250 SRX6603837 SRS5168886 SRP216556 PRJNA556842 aKlotho regulates age associated vascular calcification and lifespan in zebrafish PRJNA556842 Transcriptome Analysis The hormone aKlotho regulates lifespan in mice as knockouts die early of what appears to be accelerated aging due to hyperphosphatemia and soft tissue calcification. In contrast its overexpression increases lifespan. Given the severe mouse phenotype we generated zebrafish mutants for aklotho as well as its binding partner fibroblast growth factor 23 fgf23. Both mutations cause shortened lifespan in zebrafish with abrupt onset of behavioral and degenerative physical changes at around five months of age. There is calcification of vessels throughout the body most dramatically in the outflow tract of the heart the bulbus arteriosus BA. This calcification is associated with ectopic activation of osteoclast differentiation pathways. These findings suggest that the gradual loss of aKlotho found in normal aging might give rise to ectopic calcification.       wildtype heart 3 mpf replicate 2 wt 14746 e heart   strain:AB|age:3months|sex:male|tissue:heart|genotype:wildtype|Replicate:Bilogical replicate 2|BioSampleModel:Model organism or animal                 wildtype heart 3 mpf replicate 2 wt 14746 e heart wt 14746 e heart Tissue collection and dissection: Adult zebrafish were euthanized by exposure to chilled water 0 4C. Gills heart and kidney were collected from 32 individual fish at two time points namely at 3 mpf and 5 mpf for klotho mutants and wildtype sibling controls AB background; 8 fish per genotype per time point 4 males 4 females for a total of 96 samples. Tissues were dissected in cold PBS and immediately stored in RNALater Stabilization Solution ThermoFisher Cat# AM7021. RNALater was removed post an overnight incubation at 4C and samples were stored at 80C until processing. RNA extraction: All tissues were homogenized using the TissueLyser II Qiagen plus Lysis buffer containing mercaptoethanol and stored at 80C. RNA extraction was performed using the automated protocol in the QIAcube workstation utilizing the RNeasy Fibrous Tissue Mini kit Qiagen Cat No./ID: 74704. RNA integrity and quality were assessed by Agilent TapeStation using High Sensitivity RNA ScreenTapes. Samples were normalized and 300ng of RNA was used for library prep for each sample. ERCC RNA Spike in mix was added for quality control. mRNA was captured using poly T oligos attached beads for library selection.     RNA-Seq TRANSCRIPTOMIC other PAIRED ILLUMINA Illumina HiSeq 2500   SRP216556     wt-14746-e-heart_merged_S44-1.fastq.gz wt-14746-e-heart_merged_S44-2.fastq.gz fastq fastq 3569364987.0 23837565.0 wt 14746 e heart merged S44 1.fastq.gz 0:74.88 1:74.86 A:896705588;C:866686705;G:869478875;T:909818321;N:26675498 74 74     896705588 866686705 869478875 909818321 26675498 SRX6603837 SRS5168886 SRA927891 Novartis Institutes for Biomedical Research|Chemical Biology and Therapeutics Novartis Institutes for Biomedical Research 2 0.97048 0.97239 0.05951 0.05868 0.78129 0.78267 0.48503 0.51179 75 76 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   Germany 2019-07-27 Adult Adult Heart Cardiovascular System
53379 53379 SRR9849246 SRX6603806 SRS5168855 SRP216556 PRJNA556842 aKlotho regulates age associated vascular calcification and lifespan in zebrafish PRJNA556842 Transcriptome Analysis The hormone aKlotho regulates lifespan in mice as knockouts die early of what appears to be accelerated aging due to hyperphosphatemia and soft tissue calcification. In contrast its overexpression increases lifespan. Given the severe mouse phenotype we generated zebrafish mutants for aklotho as well as its binding partner fibroblast growth factor 23 fgf23. Both mutations cause shortened lifespan in zebrafish with abrupt onset of behavioral and degenerative physical changes at around five months of age. There is calcification of vessels throughout the body most dramatically in the outflow tract of the heart the bulbus arteriosus BA. This calcification is associated with ectopic activation of osteoclast differentiation pathways. These findings suggest that the gradual loss of aKlotho found in normal aging might give rise to ectopic calcification.       αKlotho heart 3 mpf replicate 2 kl 14744 c heart   strain:AB|age:3months|sex:male|tissue:heart|genotype:aKlotho|Replicate:Bilogical replicate 2|BioSampleModel:Model organism or animal                 Klotho heart 3 mpf replicate 2 kl 14744 c heart kl 14744 c heart Tissue collection and dissection: Adult zebrafish were euthanized by exposure to chilled water 0 4C. Gills heart and kidney were collected from 32 individual fish at two time points namely at 3 mpf and 5 mpf for klotho mutants and wildtype sibling controls AB background; 8 fish per genotype per time point 4 males 4 females for a total of 96 samples. Tissues were dissected in cold PBS and immediately stored in RNALater Stabilization Solution ThermoFisher Cat# AM7021. RNALater was removed post an overnight incubation at 4C and samples were stored at 80C until processing. RNA extraction: All tissues were homogenized using the TissueLyser II Qiagen plus Lysis buffer containing mercaptoethanol and stored at 80C. RNA extraction was performed using the automated protocol in the QIAcube workstation utilizing the RNeasy Fibrous Tissue Mini kit Qiagen Cat No./ID: 74704. RNA integrity and quality were assessed by Agilent TapeStation using High Sensitivity RNA ScreenTapes. Samples were normalized and 300ng of RNA was used for library prep for each sample. ERCC RNA Spike in mix was added for quality control. mRNA was captured using poly T oligos attached beads for library selection.     RNA-Seq TRANSCRIPTOMIC other PAIRED ILLUMINA Illumina HiSeq 2500   SRP216556     kl-14744-c-heart_merged_S33-1.fastq.gz kl-14744-c-heart_merged_S33-2.fastq.gz fastq fastq 3091279473.0 20685573.0 kl 14744 c heart merged S33 1.fastq.gz 0:74.73 1:74.71 A:802142098;C:724215424;G:721129200;T:815727173;N:28065578 74 74     802142098 724215424 721129200 815727173 28065578 SRX6603806 SRS5168855 SRA927891 Novartis Institutes for Biomedical Research|Chemical Biology and Therapeutics Novartis Institutes for Biomedical Research 2 0.95923 0.96425 0.07871 0.0781 0.77768 0.77824 0.54613 0.54571 74 75 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   Germany 2019-07-27 Adult Adult Heart Cardiovascular System
53380 53380 SRR9849282 SRX6603805 SRS5168854 SRP216556 PRJNA556842 aKlotho regulates age associated vascular calcification and lifespan in zebrafish PRJNA556842 Transcriptome Analysis The hormone aKlotho regulates lifespan in mice as knockouts die early of what appears to be accelerated aging due to hyperphosphatemia and soft tissue calcification. In contrast its overexpression increases lifespan. Given the severe mouse phenotype we generated zebrafish mutants for aklotho as well as its binding partner fibroblast growth factor 23 fgf23. Both mutations cause shortened lifespan in zebrafish with abrupt onset of behavioral and degenerative physical changes at around five months of age. There is calcification of vessels throughout the body most dramatically in the outflow tract of the heart the bulbus arteriosus BA. This calcification is associated with ectopic activation of osteoclast differentiation pathways. These findings suggest that the gradual loss of aKlotho found in normal aging might give rise to ectopic calcification.       αKlotho heart 3 mpf replicate 3 kl 14744 e heart   strain:AB|age:3months|sex:male|tissue:heart|genotype:aKlotho|Replicate:Bilogical replicate 3|BioSampleModel:Model organism or animal                 Klotho heart 3 mpf replicate 3 kl 14744 e heart kl 14744 e heart Tissue collection and dissection: Adult zebrafish were euthanized by exposure to chilled water 0 4C. Gills heart and kidney were collected from 32 individual fish at two time points namely at 3 mpf and 5 mpf for klotho mutants and wildtype sibling controls AB background; 8 fish per genotype per time point 4 males 4 females for a total of 96 samples. Tissues were dissected in cold PBS and immediately stored in RNALater Stabilization Solution ThermoFisher Cat# AM7021. RNALater was removed post an overnight incubation at 4C and samples were stored at 80C until processing. RNA extraction: All tissues were homogenized using the TissueLyser II Qiagen plus Lysis buffer containing mercaptoethanol and stored at 80C. RNA extraction was performed using the automated protocol in the QIAcube workstation utilizing the RNeasy Fibrous Tissue Mini kit Qiagen Cat No./ID: 74704. RNA integrity and quality were assessed by Agilent TapeStation using High Sensitivity RNA ScreenTapes. Samples were normalized and 300ng of RNA was used for library prep for each sample. ERCC RNA Spike in mix was added for quality control. mRNA was captured using poly T oligos attached beads for library selection.     RNA-Seq TRANSCRIPTOMIC other PAIRED ILLUMINA Illumina HiSeq 2500   SRP216556     kl-14744-e-heart_merged_S60-1.fastq.gz kl-14744-e-heart_merged_S60-2.fastq.gz fastq fastq 2874916237.0 19584844.0 kl 14744 e heart merged S60 1.fastq.gz 0:73.39 1:73.40 A:744282215;C:656310514;G:644483090;T:758359538;N:71480880 73 73     744282215 656310514 644483090 758359538 71480880 SRX6603805 SRS5168854 SRA927891 Novartis Institutes for Biomedical Research|Chemical Biology and Therapeutics Novartis Institutes for Biomedical Research 2 0.95932 0.96423 0.06524 0.06406 0.78965 0.79066 0.53254 0.53354 76 76 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   Germany 2019-07-27 Adult Adult Heart 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");;