run_metadata: 75600

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
75600	SRR24709480	SRX20488148	SRS17798895	SRP439167	PRJNA975174	Bulk RNA seq investigating differential gene regulation across gata3 knockdown and rescue	PRJNA975174	Other	Loss of the transcription factor Gata3 associates with the highly variable human birth defects HDR syndrome and microsomia and can lead to disruption of the neural crest derived facial skeleton. RNA was isolated from cranial neural crest cells of zebrafish embryos at 28 hpf in control gata3 knockdown and gata3 overexpression embryos. Goal of the study was to illustrate multiple potential pathways for Gata3 function and demonstrate a systematic unbiased process to identify modifiers of genotype phenotype correlations.			gata3 MO injected fish gata3 overexpression replicate 2	Gata3 rescue embryos replicate 2	HS2		strain:Not collected\|isolate:Not collected\|breed:Not collected\|cultivar:Not collected\|ecotype:Not collected\|age:Not determined\|dev stage:28 hpf\|sex:Not determined\|tissue:Cranial neural crest cells\|treatment:Gata3 Mo OE\|BioSampleModel:Model organism or animal									Gata3 rescue embryos replicate 2	HS2	HS2	28 hpf zebrafish CNCC gata3 MO gata3 OE rep 2			RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED	ILLUMINA	Illumina NovaSeq 6000		SRP439167			hs-2_S43_L004_R1_001.fastq.gz hs-2_S43_L004_R2_001.fastq.gz	fastq fastq	18888379506.0	62544303.0	hs 2 S43 L004 R1 001.fastq.gz	0:151 1:151	A:5096840826;C:4346330631;G:4477598678;T:4966787816;N:821555	151	151			5096840826	4346330631	4477598678	4966787816	821555	SRX20488148	SRS17798895	SRA1643035	University of Texas at Austin\|Department of Molecular Biosciences	University of Texas at Austin	2	0.94359	0.95104	0.10627	0.10498	0.69775	0.69645	0.46042	0.46973	151	151	B	B	biological fallback assumption	illumina	novaseq_era	unknown	cdna_unspecified	unknown	bulk	bulk	bulk		United States	2023-05-23	Pharyngula	Embryo	Brain	Nervous System