run_metadata: 60134

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
60134	SRR13674719	SRX10064162	SRS8226292	SRP270158	PRJNA644214	Danio rerio Transcriptome under lethal cold stress	PRJNA644214	Transcriptome Analysis	The transcriptional regulations of fish upon a lethal cold stress and during the following rewarming are not well known. The purpose of this study is to characterize the gene expression dynamics of zebrafish larvae exposed to lethal cold stress and subsequent rewarming. Our data defined the survival and death pathways determining the survival of fish from the cold induced cellular or tissue damage. Modulating the activities of these pathways may enhance cold tolerance of the cold sensitive farmed fishes.			The larvae at 96hpf were treated with 0.5 μM AS1842856 for 12h at normal temperature replicate #3	28C AS 3	28C AS 3		strain:AB\|dev stage:Larvae\|sex:not applicable\|tissue:Whole body\|biomaterial provider:Zongbin Cui No. 7 Donghu South Road Wuchang District Wuhan Hubei Province China\|treatment:Zebrafish larvae treated with 0.5 μM AS1842856 at normal temperature\|replicate:biological replicate 3\|BioSampleModel:Model organism or animal									28C AS#3	28C AS#3	28C AS#3	The RNA sample was sent to Biomarker Technologies http://www.biomarker.com.cn for library construction and RNA sequencing. Briefly mRNA molecules were enriched using Oligo dT magnetic beads and randomly fragmented. First strand cDNA synthesis was performed using random hexamers. Second strand cDNAs were synthesized by adding dNTPs RNase and DNA polymerase. The double stranded cDNAs were purified using AMPure XP beads. post end filling A tailing and sequencing adaptor ligation cDNA fragments of desired size were selected using AMPure XP beads. Finally the sequencing library was generated by PCR amplification. Library quantification was performed using a Qubit 2.0 and the insert size of library was analyzed by an Agilent 2102 Bioanalyzer system.			RNA-Seq	TRANSCRIPTOMIC	PCR	PAIRED	ILLUMINA	Illumina NovaSeq 6000		SRP270158			a28C-AS-3_L1_2.fq.gz a28C-AS-3_L1_1.fq.gz 28C-AS-3_L3_2.fq.gz 28C-AS-3_L3_1.fq.gz	fastq fastq fastq fastq	6808865100.0	22696217.0	28C AS 3 L3 1.fq.gz	0:150 1:150	A:1771098634;C:1630525561;G:1661862192;T:1745324102;N:54611	150	150			1771098634	1630525561	1661862192	1745324102	54611	SRX10064162	SRS8226292	SRA1194325	Chinese Academy of Sciences\|Institute of Hydrobiology	Chinese Academy of Sciences	2	0.93377	0.934	0.06494	0.06526	0.66705	0.6664	0.48432	0.48396	150	150	B	B	biological fallback assumption	illumina	novaseq_era	unknown	random_priming	unknown	bulk	unknown	unknown		China	2021-02-10	Larval	Larval	Trunk	Surface Structure