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
41564,SRR5044691,SRX2367699,SRS1813797,SRP093723,PRJNA354577,RNA seq of zebrafish melanoma cells post metastatic dissemination,GSE90143,Transcriptome Analysis,We report how the zebrafish melanoma cell line ZMEL1 changes post intravascular injection into 2dpf zebrafish embryos  as compared to the cells growing in vitro. Overall design: Examination of ZMEL1 cells in vitro versus 21 days in vivo in the zebrafish,,pubmed:28181494,,ZMEL1 METASTATIC REP 4,GSM2399713,,tissue:ZMEL1 cells in vivo|cell type:ZMEL1|tissue type:melanoma,ZMEL1 METASTATIC REP 4,GSNAP alignment to Av9 zebrafish reference genome Read counts extracted with HTSeq Differential expression with DeSeq2 Zebrafish genes converted to human orthologs using DIOPT Genome build: Zv9 Supplementary files format and content: XLSX sheet with normalized read counts output from HTSeq,ZMEL1 cells in vivo,n/a,Cells were FACS sorted and total RNA isolated with Zymo kits Illumina TruSeq,in vitro: DMEM/10% FCS/1X glutamax/28.5C     in vivo: growth in the zebrafish from 2 21dpf,cell type:ZMEL1|tissue type:melanoma,GSM2399713,GSM2399713: ZMEL1 METASTATIC REP 4; Danio rerio; RNA Seq,GSM2399713,,1,Cells were FACS sorted and total RNA isolated with Zymo kits Illumina TruSeq,GEO Accession:GSM2399713,RNA-Seq,TRANSCRIPTOMIC,cDNA,SINGLE,ILLUMINA,Illumina HiSeq 2500,,SRP093723,,,DISSEMINATED-A1-ISK-GFP-pos_CTTGTA_AHBENJADXX_L001_001.R1.fastq,fastq,1021688450.0,20433769.0,GSM2399713 r1,0:50,A:263964434;C:226020906;G:246160135;T:285440788;N:102187,50,,,,263964434,226020906,246160135,285440788,102187,SRX2367699,SRS1813797,SRA497524,GEO,"White Lab, Cancer Biology & Genetics, Memorial Sloan Kettering Cancer Center",1,0.86173,,0.35054,,0.78305,,0.63081,,50,,B,,usable mapping rate,illumina,hiseq_era,unknown,cdna_unspecified,trueseq,bulk,unknown,unknown,,United States,2016-11-22,Larval,Larval,Cancer or Tumor,Cancer or Tumor
41565,SRR5044692,SRX2367699,SRS1813797,SRP093723,PRJNA354577,RNA seq of zebrafish melanoma cells post metastatic dissemination,GSE90143,Transcriptome Analysis,We report how the zebrafish melanoma cell line ZMEL1 changes post intravascular injection into 2dpf zebrafish embryos  as compared to the cells growing in vitro. Overall design: Examination of ZMEL1 cells in vitro versus 21 days in vivo in the zebrafish,,pubmed:28181494,,ZMEL1 METASTATIC REP 4,GSM2399713,,tissue:ZMEL1 cells in vivo|cell type:ZMEL1|tissue type:melanoma,ZMEL1 METASTATIC REP 4,GSNAP alignment to Av9 zebrafish reference genome Read counts extracted with HTSeq Differential expression with DeSeq2 Zebrafish genes converted to human orthologs using DIOPT Genome build: Zv9 Supplementary files format and content: XLSX sheet with normalized read counts output from HTSeq,ZMEL1 cells in vivo,n/a,Cells were FACS sorted and total RNA isolated with Zymo kits Illumina TruSeq,in vitro: DMEM/10% FCS/1X glutamax/28.5C     in vivo: growth in the zebrafish from 2 21dpf,cell type:ZMEL1|tissue type:melanoma,GSM2399713,GSM2399713: ZMEL1 METASTATIC REP 4; Danio rerio; RNA Seq,GSM2399713,,1,Cells were FACS sorted and total RNA isolated with Zymo kits Illumina TruSeq,GEO Accession:GSM2399713,RNA-Seq,TRANSCRIPTOMIC,cDNA,SINGLE,ILLUMINA,Illumina HiSeq 2500,,SRP093723,,,DISSEMINATED-A1-ISK-GFP-pos_CTTGTA_AHBENJADXX_L002_001.R1.fastq,fastq,948274550.0,18965491.0,GSM2399713 r2,0:50,A:244756056;C:209496504;G:228095978;T:264427260;N:1498752,50,,,,244756056,209496504,228095978,264427260,1498752,SRX2367699,SRS1813797,SRA497524,GEO,"White Lab, Cancer Biology & Genetics, Memorial Sloan Kettering Cancer Center",1,0.86249,,0.35012,,0.78147,,0.61412,,50,,B,,usable mapping rate,illumina,hiseq_era,unknown,cdna_unspecified,trueseq,bulk,unknown,unknown,,United States,2016-11-22,Larval,Larval,Cancer or Tumor,Cancer or Tumor
41566,SRR5044689,SRX2367698,SRS1813796,SRP093723,PRJNA354577,RNA seq of zebrafish melanoma cells post metastatic dissemination,GSE90143,Transcriptome Analysis,We report how the zebrafish melanoma cell line ZMEL1 changes post intravascular injection into 2dpf zebrafish embryos  as compared to the cells growing in vitro. Overall design: Examination of ZMEL1 cells in vitro versus 21 days in vivo in the zebrafish,,pubmed:28181494,,ZMEL1 METASTATIC REP 3,GSM2399712,,tissue:ZMEL1 cells in vivo|cell type:ZMEL1|tissue type:melanoma,ZMEL1 METASTATIC REP 3,GSNAP alignment to Av9 zebrafish reference genome Read counts extracted with HTSeq Differential expression with DeSeq2 Zebrafish genes converted to human orthologs using DIOPT Genome build: Zv9 Supplementary files format and content: XLSX sheet with normalized read counts output from HTSeq,ZMEL1 cells in vivo,n/a,Cells were FACS sorted and total RNA isolated with Zymo kits Illumina TruSeq,in vitro: DMEM/10% FCS/1X glutamax/28.5C     in vivo: growth in the zebrafish from 2 21dpf,cell type:ZMEL1|tissue type:melanoma,GSM2399712,GSM2399712: ZMEL1 METASTATIC REP 3; Danio rerio; RNA Seq,GSM2399712,,1,Cells were FACS sorted and total RNA isolated with Zymo kits Illumina TruSeq,GEO Accession:GSM2399712,RNA-Seq,TRANSCRIPTOMIC,cDNA,SINGLE,ILLUMINA,Illumina HiSeq 2500,,SRP093723,,,DISSEMINATED-4-GFP-POS_AGTTCC_AHBENJADXX_L001_001.R1.fastq,fastq,547347950.0,10946959.0,GSM2399712 r1,0:50,A:142532772;C:118021475;G:130457816;T:156280877;N:55010,50,,,,142532772,118021475,130457816,156280877,55010,SRX2367698,SRS1813796,SRA497524,GEO,"White Lab, Cancer Biology & Genetics, Memorial Sloan Kettering Cancer Center",1,0.82238,,0.37848,,0.81511,,0.68704,,50,,B,,usable mapping rate,illumina,hiseq_era,unknown,cdna_unspecified,trueseq,bulk,unknown,unknown,,United States,2016-11-22,Larval,Larval,Cancer or Tumor,Cancer or Tumor
41567,SRR5044690,SRX2367698,SRS1813796,SRP093723,PRJNA354577,RNA seq of zebrafish melanoma cells post metastatic dissemination,GSE90143,Transcriptome Analysis,We report how the zebrafish melanoma cell line ZMEL1 changes post intravascular injection into 2dpf zebrafish embryos  as compared to the cells growing in vitro. Overall design: Examination of ZMEL1 cells in vitro versus 21 days in vivo in the zebrafish,,pubmed:28181494,,ZMEL1 METASTATIC REP 3,GSM2399712,,tissue:ZMEL1 cells in vivo|cell type:ZMEL1|tissue type:melanoma,ZMEL1 METASTATIC REP 3,GSNAP alignment to Av9 zebrafish reference genome Read counts extracted with HTSeq Differential expression with DeSeq2 Zebrafish genes converted to human orthologs using DIOPT Genome build: Zv9 Supplementary files format and content: XLSX sheet with normalized read counts output from HTSeq,ZMEL1 cells in vivo,n/a,Cells were FACS sorted and total RNA isolated with Zymo kits Illumina TruSeq,in vitro: DMEM/10% FCS/1X glutamax/28.5C     in vivo: growth in the zebrafish from 2 21dpf,cell type:ZMEL1|tissue type:melanoma,GSM2399712,GSM2399712: ZMEL1 METASTATIC REP 3; Danio rerio; RNA Seq,GSM2399712,,1,Cells were FACS sorted and total RNA isolated with Zymo kits Illumina TruSeq,GEO Accession:GSM2399712,RNA-Seq,TRANSCRIPTOMIC,cDNA,SINGLE,ILLUMINA,Illumina HiSeq 2500,,SRP093723,,,DISSEMINATED-4-GFP-POS_AGTTCC_AHBENJADXX_L002_001.R1.fastq,fastq,507753450.0,10155069.0,GSM2399712 r2,0:50,A:132079203;C:109301536;G:120877231;T:144665731;N:829749,50,,,,132079203,109301536,120877231,144665731,829749,SRX2367698,SRS1813796,SRA497524,GEO,"White Lab, Cancer Biology & Genetics, Memorial Sloan Kettering Cancer Center",1,0.8144,,0.37493,,0.81682,,0.68224,,50,,B,,usable mapping rate,illumina,hiseq_era,unknown,cdna_unspecified,trueseq,bulk,unknown,unknown,,United States,2016-11-22,Larval,Larval,Cancer or Tumor,Cancer or Tumor
41568,SRR5044687,SRX2367697,SRS1813798,SRP093723,PRJNA354577,RNA seq of zebrafish melanoma cells post metastatic dissemination,GSE90143,Transcriptome Analysis,We report how the zebrafish melanoma cell line ZMEL1 changes post intravascular injection into 2dpf zebrafish embryos  as compared to the cells growing in vitro. Overall design: Examination of ZMEL1 cells in vitro versus 21 days in vivo in the zebrafish,,pubmed:28181494,,ZMEL1 METASTATIC REP 2,GSM2399711,,tissue:ZMEL1 cells in vivo|cell type:ZMEL1|tissue type:melanoma,ZMEL1 METASTATIC REP 2,GSNAP alignment to Av9 zebrafish reference genome Read counts extracted with HTSeq Differential expression with DeSeq2 Zebrafish genes converted to human orthologs using DIOPT Genome build: Zv9 Supplementary files format and content: XLSX sheet with normalized read counts output from HTSeq,ZMEL1 cells in vivo,n/a,Cells were FACS sorted and total RNA isolated with Zymo kits Illumina TruSeq,in vitro: DMEM/10% FCS/1X glutamax/28.5C     in vivo: growth in the zebrafish from 2 21dpf,cell type:ZMEL1|tissue type:melanoma,GSM2399711,GSM2399711: ZMEL1 METASTATIC REP 2; Danio rerio; RNA Seq,GSM2399711,,1,Cells were FACS sorted and total RNA isolated with Zymo kits Illumina TruSeq,GEO Accession:GSM2399711,RNA-Seq,TRANSCRIPTOMIC,cDNA,SINGLE,ILLUMINA,Illumina HiSeq 2500,,SRP093723,,,DISSEMINATED-3-GFP-POS_AGTCAA_AHBENJADXX_L001_001.R1.fastq,fastq,487099600.0,9741992.0,GSM2399711 r1,0:50,A:128774562;C:103935704;G:114312614;T:140027704;N:49016,50,,,,128774562,103935704,114312614,140027704,49016,SRX2367697,SRS1813798,SRA497524,GEO,"White Lab, Cancer Biology & Genetics, Memorial Sloan Kettering Cancer Center",1,0.83241,,0.38945,,0.77759,,0.63782,,50,,B,,usable mapping rate,illumina,hiseq_era,unknown,cdna_unspecified,trueseq,bulk,unknown,unknown,,United States,2016-11-22,Larval,Larval,Cancer or Tumor,Cancer or Tumor
41569,SRR5044688,SRX2367697,SRS1813798,SRP093723,PRJNA354577,RNA seq of zebrafish melanoma cells post metastatic dissemination,GSE90143,Transcriptome Analysis,We report how the zebrafish melanoma cell line ZMEL1 changes post intravascular injection into 2dpf zebrafish embryos  as compared to the cells growing in vitro. Overall design: Examination of ZMEL1 cells in vitro versus 21 days in vivo in the zebrafish,,pubmed:28181494,,ZMEL1 METASTATIC REP 2,GSM2399711,,tissue:ZMEL1 cells in vivo|cell type:ZMEL1|tissue type:melanoma,ZMEL1 METASTATIC REP 2,GSNAP alignment to Av9 zebrafish reference genome Read counts extracted with HTSeq Differential expression with DeSeq2 Zebrafish genes converted to human orthologs using DIOPT Genome build: Zv9 Supplementary files format and content: XLSX sheet with normalized read counts output from HTSeq,ZMEL1 cells in vivo,n/a,Cells were FACS sorted and total RNA isolated with Zymo kits Illumina TruSeq,in vitro: DMEM/10% FCS/1X glutamax/28.5C     in vivo: growth in the zebrafish from 2 21dpf,cell type:ZMEL1|tissue type:melanoma,GSM2399711,GSM2399711: ZMEL1 METASTATIC REP 2; Danio rerio; RNA Seq,GSM2399711,,1,Cells were FACS sorted and total RNA isolated with Zymo kits Illumina TruSeq,GEO Accession:GSM2399711,RNA-Seq,TRANSCRIPTOMIC,cDNA,SINGLE,ILLUMINA,Illumina HiSeq 2500,,SRP093723,,,DISSEMINATED-3-GFP-POS_AGTCAA_AHBENJADXX_L002_001.R1.fastq,fastq,452003900.0,9040078.0,GSM2399711 r2,0:50,A:119365829;C:96270497;G:105927958;T:129699772;N:739844,50,,,,119365829,96270497,105927958,129699772,739844,SRX2367697,SRS1813798,SRA497524,GEO,"White Lab, Cancer Biology & Genetics, Memorial Sloan Kettering Cancer Center",1,0.8334,,0.39284,,0.78033,,0.63687,,50,,B,,usable mapping rate,illumina,hiseq_era,unknown,cdna_unspecified,trueseq,bulk,unknown,unknown,,United States,2016-11-22,Larval,Larval,Cancer or Tumor,Cancer or Tumor
41570,SRR5044686,SRX2367696,SRS1813795,SRP093723,PRJNA354577,RNA seq of zebrafish melanoma cells post metastatic dissemination,GSE90143,Transcriptome Analysis,We report how the zebrafish melanoma cell line ZMEL1 changes post intravascular injection into 2dpf zebrafish embryos  as compared to the cells growing in vitro. Overall design: Examination of ZMEL1 cells in vitro versus 21 days in vivo in the zebrafish,,pubmed:28181494,,ZMEL1 METASTATIC REP 1,GSM2399710,,tissue:ZMEL1 cells in vivo|cell type:ZMEL1|tissue type:melanoma,ZMEL1 METASTATIC REP 1,GSNAP alignment to Av9 zebrafish reference genome Read counts extracted with HTSeq Differential expression with DeSeq2 Zebrafish genes converted to human orthologs using DIOPT Genome build: Zv9 Supplementary files format and content: XLSX sheet with normalized read counts output from HTSeq,ZMEL1 cells in vivo,n/a,Cells were FACS sorted and total RNA isolated with Zymo kits Illumina TruSeq,in vitro: DMEM/10% FCS/1X glutamax/28.5C     in vivo: growth in the zebrafish from 2 21dpf,cell type:ZMEL1|tissue type:melanoma,GSM2399710,GSM2399710: ZMEL1 METASTATIC REP 1; Danio rerio; RNA Seq,GSM2399710,,1,Cells were FACS sorted and total RNA isolated with Zymo kits Illumina TruSeq,GEO Accession:GSM2399710,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP093723,,,DISSEMINATED-1-GFP-POS_GGCTAC_AC62F2ANXX_L006_001.R1.fastq DISSEMINATED-1-GFP-POS_GGCTAC_AC62F2ANXX_L006_001.R2.fastq,fastq fastq,1056705000.0,10567050.0,GSM2399710 r1,0:50 1:50,A:276214070;C:230055594;G:254656322;T:295743831;N:35183,50,50,,,276214070,230055594,254656322,295743831,35183,SRX2367696,SRS1813795,SRA497524,GEO,"White Lab, Cancer Biology & Genetics, Memorial Sloan Kettering Cancer Center",2,0.87206,0.87707,0.36,0.36551,0.80661,0.81442,0.67855,0.54025,50,50,B,B,biological fallback assumption,illumina,hiseq_era,unknown,cdna_unspecified,trueseq,bulk,unknown,unknown,,United States,2016-11-22,Larval,Larval,Cancer or Tumor,Cancer or Tumor
41571,SRR5044684,SRX2367695,SRS1813794,SRP093723,PRJNA354577,RNA seq of zebrafish melanoma cells post metastatic dissemination,GSE90143,Transcriptome Analysis,We report how the zebrafish melanoma cell line ZMEL1 changes post intravascular injection into 2dpf zebrafish embryos  as compared to the cells growing in vitro. Overall design: Examination of ZMEL1 cells in vitro versus 21 days in vivo in the zebrafish,,pubmed:28181494,,ZMEL1 IN VITRO REP 2,GSM2399709,,tissue:ZMEL1 cells in vitro|cell type:ZMEL1|tissue type:melanoma,ZMEL1 IN VITRO REP 2,GSNAP alignment to Av9 zebrafish reference genome Read counts extracted with HTSeq Differential expression with DeSeq2 Zebrafish genes converted to human orthologs using DIOPT Genome build: Zv9 Supplementary files format and content: XLSX sheet with normalized read counts output from HTSeq,ZMEL1 cells in vitro,n/a,Cells were FACS sorted and total RNA isolated with Zymo kits Illumina TruSeq,in vitro: DMEM/10% FCS/1X glutamax/28.5C     in vivo: growth in the zebrafish from 2 21dpf,cell type:ZMEL1|tissue type:melanoma,GSM2399709,GSM2399709: ZMEL1 IN VITRO REP 2; Danio rerio; RNA Seq,GSM2399709,,1,Cells were FACS sorted and total RNA isolated with Zymo kits Illumina TruSeq,GEO Accession:GSM2399709,RNA-Seq,TRANSCRIPTOMIC,cDNA,SINGLE,ILLUMINA,Illumina HiSeq 2500,,SRP093723,,,ZMEL3-ISK_CGATGT_AHBENJADXX_L001_001.R1.fastq,fastq,769908950.0,15398179.0,GSM2399709 r1,0:50,A:182817342;C:191713397;G:197387080;T:197914424;N:76707,50,,,,182817342,191713397,197387080,197914424,76707,SRX2367695,SRS1813794,SRA497524,GEO,"White Lab, Cancer Biology & Genetics, Memorial Sloan Kettering Cancer Center",1,0.90333,,0.27932,,0.80894,,0.6691,,50,,B,,usable mapping rate,illumina,hiseq_era,unknown,cdna_unspecified,trueseq,bulk,unknown,unknown,,United States,2016-11-22,Larval,Larval,Cancer or Tumor,Cancer or Tumor
41572,SRR5044685,SRX2367695,SRS1813794,SRP093723,PRJNA354577,RNA seq of zebrafish melanoma cells post metastatic dissemination,GSE90143,Transcriptome Analysis,We report how the zebrafish melanoma cell line ZMEL1 changes post intravascular injection into 2dpf zebrafish embryos  as compared to the cells growing in vitro. Overall design: Examination of ZMEL1 cells in vitro versus 21 days in vivo in the zebrafish,,pubmed:28181494,,ZMEL1 IN VITRO REP 2,GSM2399709,,tissue:ZMEL1 cells in vitro|cell type:ZMEL1|tissue type:melanoma,ZMEL1 IN VITRO REP 2,GSNAP alignment to Av9 zebrafish reference genome Read counts extracted with HTSeq Differential expression with DeSeq2 Zebrafish genes converted to human orthologs using DIOPT Genome build: Zv9 Supplementary files format and content: XLSX sheet with normalized read counts output from HTSeq,ZMEL1 cells in vitro,n/a,Cells were FACS sorted and total RNA isolated with Zymo kits Illumina TruSeq,in vitro: DMEM/10% FCS/1X glutamax/28.5C     in vivo: growth in the zebrafish from 2 21dpf,cell type:ZMEL1|tissue type:melanoma,GSM2399709,GSM2399709: ZMEL1 IN VITRO REP 2; Danio rerio; RNA Seq,GSM2399709,,1,Cells were FACS sorted and total RNA isolated with Zymo kits Illumina TruSeq,GEO Accession:GSM2399709,RNA-Seq,TRANSCRIPTOMIC,cDNA,SINGLE,ILLUMINA,Illumina HiSeq 2500,,SRP093723,,,ZMEL3-ISK_CGATGT_AHBENJADXX_L002_001.R1.fastq,fastq,713052900.0,14261058.0,GSM2399709 r2,0:50,A:169193359;C:177235371;G:182562897;T:182889589;N:1171684,50,,,,169193359,177235371,182562897,182889589,1171684,SRX2367695,SRS1813794,SRA497524,GEO,"White Lab, Cancer Biology & Genetics, Memorial Sloan Kettering Cancer Center",1,0.90483,,0.2787,,0.80892,,0.66955,,50,,B,,usable mapping rate,illumina,hiseq_era,unknown,cdna_unspecified,trueseq,bulk,unknown,unknown,,United States,2016-11-22,Larval,Larval,Cancer or Tumor,Cancer or Tumor
41573,SRR5044682,SRX2367694,SRS1813793,SRP093723,PRJNA354577,RNA seq of zebrafish melanoma cells post metastatic dissemination,GSE90143,Transcriptome Analysis,We report how the zebrafish melanoma cell line ZMEL1 changes post intravascular injection into 2dpf zebrafish embryos  as compared to the cells growing in vitro. Overall design: Examination of ZMEL1 cells in vitro versus 21 days in vivo in the zebrafish,,pubmed:28181494,,ZMEL1 IN VITRO REP 1,GSM2399708,,tissue:ZMEL1 cells in vitro|cell type:ZMEL1|tissue type:melanoma,ZMEL1 IN VITRO REP 1,GSNAP alignment to Av9 zebrafish reference genome Read counts extracted with HTSeq Differential expression with DeSeq2 Zebrafish genes converted to human orthologs using DIOPT Genome build: Zv9 Supplementary files format and content: XLSX sheet with normalized read counts output from HTSeq,ZMEL1 cells in vitro,n/a,Cells were FACS sorted and total RNA isolated with Zymo kits Illumina TruSeq,in vitro: DMEM/10% FCS/1X glutamax/28.5C     in vivo: growth in the zebrafish from 2 21dpf,cell type:ZMEL1|tissue type:melanoma,GSM2399708,GSM2399708: ZMEL1 IN VITRO REP 1; Danio rerio; RNA Seq,GSM2399708,,1,Cells were FACS sorted and total RNA isolated with Zymo kits Illumina TruSeq,GEO Accession:GSM2399708,RNA-Seq,TRANSCRIPTOMIC,cDNA,SINGLE,ILLUMINA,Illumina HiSeq 2500,,SRP093723,,,ZMEL1_ATCACG_AHBENJADXX_L001_001.R1.fastq,fastq,480071700.0,9601434.0,GSM2399708 r1,0:50,A:126381285;C:102596587;G:111718527;T:139327539;N:47762,50,,,,126381285,102596587,111718527,139327539,47762,SRX2367694,SRS1813793,SRA497524,GEO,"White Lab, Cancer Biology & Genetics, Memorial Sloan Kettering Cancer Center",1,0.86224,,0.32994,,0.78106,,0.62148,,50,,B,,usable mapping rate,illumina,hiseq_era,unknown,cdna_unspecified,trueseq,bulk,unknown,unknown,,United States,2016-11-22,Larval,Larval,Cancer or Tumor,Cancer or Tumor
41574,SRR5044683,SRX2367694,SRS1813793,SRP093723,PRJNA354577,RNA seq of zebrafish melanoma cells post metastatic dissemination,GSE90143,Transcriptome Analysis,We report how the zebrafish melanoma cell line ZMEL1 changes post intravascular injection into 2dpf zebrafish embryos  as compared to the cells growing in vitro. Overall design: Examination of ZMEL1 cells in vitro versus 21 days in vivo in the zebrafish,,pubmed:28181494,,ZMEL1 IN VITRO REP 1,GSM2399708,,tissue:ZMEL1 cells in vitro|cell type:ZMEL1|tissue type:melanoma,ZMEL1 IN VITRO REP 1,GSNAP alignment to Av9 zebrafish reference genome Read counts extracted with HTSeq Differential expression with DeSeq2 Zebrafish genes converted to human orthologs using DIOPT Genome build: Zv9 Supplementary files format and content: XLSX sheet with normalized read counts output from HTSeq,ZMEL1 cells in vitro,n/a,Cells were FACS sorted and total RNA isolated with Zymo kits Illumina TruSeq,in vitro: DMEM/10% FCS/1X glutamax/28.5C     in vivo: growth in the zebrafish from 2 21dpf,cell type:ZMEL1|tissue type:melanoma,GSM2399708,GSM2399708: ZMEL1 IN VITRO REP 1; Danio rerio; RNA Seq,GSM2399708,,1,Cells were FACS sorted and total RNA isolated with Zymo kits Illumina TruSeq,GEO Accession:GSM2399708,RNA-Seq,TRANSCRIPTOMIC,cDNA,SINGLE,ILLUMINA,Illumina HiSeq 2500,,SRP093723,,,ZMEL1_ATCACG_AHBENJADXX_L002_001.R1.fastq,fastq,444225800.0,8884516.0,GSM2399708 r2,0:50,A:116866564;C:94744486;G:103253213;T:128645533;N:716004,50,,,,116866564,94744486,103253213,128645533,716004,SRX2367694,SRS1813793,SRA497524,GEO,"White Lab, Cancer Biology & Genetics, Memorial Sloan Kettering Cancer Center",1,0.86139,,0.32876,,0.78259,,0.62694,,50,,B,,usable mapping rate,illumina,hiseq_era,unknown,cdna_unspecified,trueseq,bulk,unknown,unknown,,United States,2016-11-22,Larval,Larval,Cancer or Tumor,Cancer or Tumor