run_metadata: 59094

This data as json

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
59094	SRR11590437	SRX8157786	SRS6519796	SRP257942	PRJNA627467	Fli1+ cells transcriptional analysis reveals LMO2 PRDM16 axis in angiogenesis	GSE149152	Transcriptome Analysis	Different GFP+ cell population were isolated from Tgfli1:EGFP zebrafish embryos. Novel roles of epigenetic modifiers in endothelial differentiation were identified. Overall design: Each sample has been run in duplicate with 2 files per each run		pubmed:34330825		High Fli1+ rep1	GSM4491075		tissue:High Fli1+\|cell population:High Fli1+\|genotype:Tgfli1:EGFP	High Fli1+ rep1	Illumina Illumina Hi Seq 2500 software used for basecalling. Sequenced reads were trimmed for adaptor sequence and masked for low complexity or low quality sequence then mapped to dr10 whole genome Fragments Per Kilobase of exon per Megabase of library size FPKM were calculated. Genome build: danio rerio10 Supplementary files format and content: Text files with FPKM values for each sample were grouped in a single excel file	High Fli1+		100 ng of total RNA was subjected to library synthesis Total RNA was enriched for the Poly A mRNA and reverse transcribed to double stranded cDNA.		cell population:High Fli1+\|genotype:Tgfli1:EGFP	GSM4491075	GSM4491075: High Fli1+ rep1; Danio rerio; RNA Seq	GSM4491075		1	100 ng of total RNA was subjected to library synthesis Total RNA was enriched for the Poly A mRNA and reverse transcribed to double stranded cDNA.	GEO Accession:GSM4491075	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED	ILLUMINA	Illumina HiSeq 2500		SRP257942			CI5705_ACTTGA_L005_R1_001.fastq.gz CI5705_ACTTGA_L005_R2_001.fastq.gz	fastq fastq	8541050000.0	42705250.0	GSM4491075 r1	0:100 1:100	A:1667536155;C:2542273851;G:2600174460;T:1724878449;N:6187085	100	100			1667536155	2542273851	2600174460	1724878449	6187085	SRX8157786	SRS6519796	SRA1068019	GEO	University of Edinburgh	2	0.92757	0.93319	0.14438	0.14609	0.78867	0.79346	0.72736	0.71784	100	100	B	B	biological fallback assumption	illumina	hiseq_era	unknown	poly_a	unknown	bulk	bulk	bulk		United Kingdom	2020-04-22	Undetermined	Embryo	Undetermined	Embryo Imprecise