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Title: Genome-wide analysis of gene expression and intron retention during development in a U12-type splicing-deficient zebrafish mutant [RNA-seq]      
keywords:
Transcriptome or Gene expression
ID:
PRJNA236557
description:
To determine the global impact of the clbn mutation on gene expression and efficiency of U2- and U12-type splicing, we analyzed the transcriptome of 108hpf wt and clbn mutant larvae by microarrays and RNA sequencing. RNAseq data was used to characterize intron retention of U2-type and U12-type intron on a genome-wide scale to confirm that rnpc3 deficiency specifically impairs U12-type splicing. RNAseq and microarray data were combined to yield high-confidence lists of differentially expressed genes which show that impaired U12-type splicing has a wide-ranging effect on the developing transcriptome. Overall design: RNAseq libraries prepared from 108 hours post-fertilization zebrafish larvae (approx. 60 embryos each, genotyped homozygous wildtype and homozygous clbns841 mutants, respectively)
accesstypes:
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landingpage: http://www.ncbi.nlm.nih.gov/bioproject/PRJNA236557
authentication:
none
authorization:
none
ID:
pmid:24516132
name:
Danio rerio
ncbiID:
ncbitax:7955
abbreviation:
NCBI
homePage: http://www.ncbi.nlm.nih.gov
ID:
SCR:006472
name:
National Center for Biotechnology Information
homePage: http://www.ncbi.nlm.nih.gov/bioproject
ID:
SCR:004801
name:
NCBI BioProject
  • K12 GM068524/GM/NIGMS NIH HHS/United States

  • R01 DK060322/DK/NIDDK NIH HHS/United States

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