run_metadata: 61628

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
61628	SRR12892306	SRX9357448	SRS7580776	SRP288490	PRJNA671699	DN MAML dependent regulation of zebrafish Muller glial cell gene expression	GSE160051	Transcriptome Analysis	In this work we identify genes differentially expressed in Muller glia from uninjured retina in zebrafish treated with and without xxx MAML for 1 day. Overall design: Triplicate samples from control heat shock treated gfap:GFP transgenic zebrafish and heat shock treated gfap:GFP;hsp70:DN MAML transgenic zebrafish.	parent bioproject:PRJNA672149	pubmed:34415582		uninj HS MG3	GSM4859287		tissue:Mueller glia cells\|genotype/variation:gfap:GFP transgenic	uninj HS MG3	Alignment with STAR v2.6.1b Count estimates with RSEM v1.3.1 Genome build: danRer11 Supplementary files format and content: tab delimited text of raw counts	Mueller glia cells	Fish received a 1 hour heat shock at 37 degrees centrigrade every 6 hours for a 24 hour period.	One day post treatment retinas were isolated dissociated and GFP+ Muller glia purified by FACS. RNA was isolated with Trizol. RNA libraries prepared using standard Illumina protocols	Zebrafish were maintained in aquaria at 28 degrees centrigrade	genotype/variation:gfap:GFP transgenic	GSM4859287	GSM4859287: uninj HS MG3; Danio rerio; RNA Seq	GSM4859287		1	One day post treatment retinas were isolated dissociated and GFP+ Muller glia purified by FACS. RNA was isolated with Trizol. RNA libraries prepared using standard Illumina protocols	GEO Accession:GSM4859287	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED	ILLUMINA	Illumina NovaSeq 6000		SRP288490			128295_ATGGCATG-AAGGTACC_S92_R1_001.fastq.gz 128295_ATGGCATG-AAGGTACC_S92_R2_001.fastq.gz	fastq fastq	15027240780.0	147325890.0	GSM4859287 r1	0:51 1:51	A:4223415769;C:3311166178;G:3302916926;T:4189645819;N:96088	51	51			4223415769	3311166178	3302916926	4189645819	96088	SRX9357448	SRS7580776	SRA1147632	GEO	University of Michigan	2	0.93194	0.92948	0.21634	0.21516	0.71303	0.71607	0.46322	0.46154	51	51	B	B	biological fallback assumption	illumina	novaseq_era	unknown	cdna_unspecified	unknown	bulk	unknown	unknown		United States	2020-10-25	Undetermined	Undetermined	Eye	Sensory System