run_metadata: 11176

This data as json

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11176	ERR10180599	ERX9716165	ERS13447541	ERP140949	PRJEB56027	Transcriptional coupling between Nrf2 and aB crystallin in the lens and heart of zebrafish under proteostatic stress	E-MTAB-12172	Transcriptome Analysis	To identify the molecular pathways in the cryaba mutant by Nrf2 deficiency we performed high throughput transcriptome profiling on adult zebrafish lens and heart tissues from the WT cryaba / nrf2fh318/fh318 and cryaba / ;nrf2fh318/fh318 lines.	ENA FIRST PUBLIC:2022 09 24\|ENA LAST UPDATE:2022 09 24		Protocols: adult zebrafish lens tissues were dissected The following mutant and transgenic fish lines were used: cryabavu612 cryba / ; cryabbvu613 crybb / ; nrf2fh318. All animal procedures were approved by the Vanderbilt University Institutional Animal Care and Use Committee. Gupta T. and M.C. Mullins Dissection of organs from the adult zebrafish. J Vis Exp 201037. The following mutant and transgenic fish lines were used: cryabavu612 cryba / ; cryabbvu613 crybb / ; nrf2fh318. All animal procedures were approved by the Vanderbilt University Institutional Animal Care and Use Committee. RNA was extracted using a Trizol reagent with RNA clean up kit Zymo R2050 according to the manufacturer's instruction. Raw sequencing reads were obtained for the paired end samples.	lens nrf2 mut 2	SAMEA111349994	Vanderbilt Univiersity	ENA FIRST PUBLIC:2022 09 24\|ENA LAST UPDATE:2022 09 24\|External Id:SAMEA111349994\|INSDC center alias:Vanderbilt Univiersity\|INSDC center name:Vanderbilt Univiersity\|INSDC first public:2022 09 24T00:21:08Z\|INSDC last update:2022 09 24T00:21:08Z\|INSDC status:public\|Submitter Id:E MTAB 12172:lens nrf2 mut 2\|broker name:ArrayExpress\|common name:zebrafish\|developmental stage:adult\|genotype:nrf2 mutant\|organism part:lens\|sample name:E MTAB 12172:lens nrf2 mut 2\|sex:male									Illumina NovaSeq 6000 paired end sequencing; Transcriptional coupling between Nrf2 and aB crystallin in the lens and heart of zebrafish under proteostatic stress	E MTAB 12172:lens nrf2 mut 2 p	lens nrf2 mut 2 p	Transcriptional coupling between Nrf2 and aB crystallin in the lens and heart of zebrafish under proteostatic stress	adult zebrafish lens tissues were dissected The following mutant and transgenic fish lines were used: cryabavu612 cryba / ; cryabbvu613 crybb / ; nrf2fh318. All animal procedures were approved by the Vanderbilt University Institutional Animal Care and Use Committee. Gupta T. and M.C. Mullins Dissection of organs from the adult zebrafish. J Vis Exp 201037. The following mutant and transgenic fish lines were used: cryabavu612 cryba / ; cryabbvu613 crybb / ; nrf2fh318. All animal procedures were approved by the Vanderbilt University Institutional Animal Care and Use Committee. RNA was extracted using a Trizol reagent with RNA clean up kit Zymo R2050 according to the manufacturer's instruction. Raw sequencing reads were obtained for the paired end samples.	Experimental Factor: genotype:nrf2 mutant	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED	ILLUMINA	Illumina NovaSeq 6000		ERP140949	Illumina NovaSeq 6000 paired end sequencing; Transcriptional coupling between Nrf2 and aB crystallin in the lens and heart of zebrafish under proteostatic stress	ENA FIRST PUBLIC:2022 09 24\|ENA LAST UPDATE:2022 09 24	5089-PP-6-ACCAACAG-GTTTGCTC_S01_L005_R1_001.fastq.gz 5089-PP-6-ACCAACAG-GTTTGCTC_S01_L005_R2_001.fastq.gz	fastq fastq	16160592300.0	53868641.0	E MTAB 12172:5089 PP 6 ACCAACAG GTTTGCTC S01 L005 R	0:150 1:150	A:4169968181;C:3949888212;G:4033930705;T:4006382078;N:423124	150	150			4169968181	3949888212	4033930705	4006382078	423124	ERX9716165	ERS13447541	ERA17903080	Vanderbilt Univiersity\|European Nucleotide Archive	Vanderbilt Univiersity\|European Nucleotide Archive	2	0.96029	0.95994	0.04416	0.04259	0.82035	0.81982	0.36027	0.36601	150	150	B	B	biological fallback assumption	illumina	novaseq_era	unknown	cdna_unspecified	unknown	bulk	unknown	unknown		United States	2022-09-24	Adult	Adult	Heart	Cardiovascular System