run_metadata: 51252

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
51252	SRR8599813	SRX5399814	SRS4386659	SRP186433	PRJNA523477	The alternative splicing regulator Nova2 constrains vascular Erk signalling to limit specification of the lymphatic lineage	PRJNA523477	Other	The correct assignment of cell fate within fields of multipotent progenitors is essential for accurate tissue diversification. The first lymphatic vessels arise from pre existing veins post venous endothelial cells become specified as lymphatic progenitors. Prox1 specifies lymphatic fate and labels these progenitors however the mechanisms restricting Prox1 expression and limiting the progenitor pool remain unknown. We identified a zebrafish mutant that displayed premature expanded and prolonged lymphatic specification. The gene responsible encodes the regulator of alternative splicing Nova2. In zebrafish and human endothelial cells Nova2 selectively regulates pre mRNA splicing for components of signalling pathways and phosphoproteins. Nova2 deficient endothelial cells display increased Mapk/Erk signalling and Prox1 expression is dynamically controlled by Erk signalling. We identify a mechanism whereby Nova2 regulated splicing constrains Erk signalling thus limiting lymphatic progenitor cell specification. This identifies the capacity of a factor that tunes mRNA splicing to control assignment of cell fate during vascular differentiation.				sib4 S4 R1	sib4 S4 R1		isolate:sib FACS4\|age:N/A\|sex:N/A\|tissue:lymphatic\|BioSampleModel:Model organism or animal									sib4 S4 R1 Danio rerio	sib4 S4 R1	sib4 S4 R1	sib4 S4 R1			RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED	ILLUMINA	NextSeq 500		SRP186433			sib4_S4_R1_001.fastq.gz sib4_S4_R2_001.fastq.gz	fastq fastq	9675337111.0	64177351.0	sib4 S4 R1 001.fastq.gz	0:75.38 1:75.38	A:2488819595;C:2338829695;G:2368389781;T:2472515294;N:6782746	75	75			2488819595	2338829695	2368389781	2472515294	6782746	SRX5399814	SRS4386659	SRA851016	Salk Institute\|Salk	Salk Institute	2	0.9214	0.92359	0.04736	0.04551	0.72563	0.73135	0.46669	0.4723	76	76	B	B	biological fallback assumption	illumina	nextseq	unknown	poly_a	unknown	bulk	unknown	unknown		United States	2019-02-23	Undetermined	Undetermined	Lymphatic System	Cardiovascular System