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Series GSE42805 Query DataSets for GSE42805
Status Public on Feb 14, 2014
Title Chronic cocaine-regulated epigenome in mouse [RNA-Seq]
Organism Mus musculus
Experiment type Expression profiling by high throughput sequencing
Summary Increasing evidence supports a role for altered gene expression in mediating the lasting effects of cocaine on the brain, and recent work has demonstrated the involvement of chromatin modifications in these alterations. However, all such studies to date have been restricted by their reliance on microarray technologies which have intrinsic limitations. Here, we used advanced sequencing methods, RNA-seq and ChIP-seq, to obtain an unprecedented view of cocaine-induced changes in gene expression and associated adaptations in numerous modes of chromatin regulation in the nucleus accumbens, a key brain reward region. We identify unique combinations of chromatin changes, or signatures, that accompany cocaine’s regulation of gene expression, including the dramatic involvement of pre-mRNA alternative splicing in cocaine action. Together, this delineation of the cocaine-induced epigenome in the nucleus accumbens reveals several novel modes of drug regulation, thereby providing new insight into the biological basis of cocaine addiction. More broadly, the combinatorial chromatin and transcriptional approaches that we describe serve as an important resource for the field, as they can be applied to other systems to reveal novel transcriptional and epigenetic mechanisms of neuronal regulation.
Overall design Total RNA was isolated from mouse nucleus accumbens 24 hr after 7 day daily cocaine or saline control ip injection for mRNA sequencing by following illumina RNA seq kit protocol. Another batch of acute cocaine RNA-seq was performed using the same parameters except the treatment group was given 6 days of saline injection followed by 1 day of cocaine injection. The acute cocaine batch serves as control experiments.
Contributor(s) Shen L, Jian F
Citation(s) 24758366
Submission date Dec 07, 2012
Last update date May 15, 2019
Contact name Li Shen
Organization name Icahn School of Medicine at Mount Sinai
Department Neuroscience
Lab Shen
Street address 1425 Madison Ave
City New York
State/province NY
ZIP/Postal code 10029
Country USA
Platforms (1)
GPL13112 Illumina HiSeq 2000 (Mus musculus)
Samples (12)
GSM1050254 mRNA-seq Coc Rep1
GSM1050255 mRNA-seq Coc Rep2
GSM1050256 mRNA-seq Coc Rep3
This SubSeries is part of SuperSeries:
GSE42811 Chronic cocaine-regulated epigenome in mouse
BioProject PRJNA183442
SRA SRP017471

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Supplementary file Size Download File type/resource
GSE42805_acute_gene.diff.gz 1.4 Mb (ftp)(http) DIFF
GSE42805_cds.diff.gz 294.4 Kb (ftp)(http) DIFF
GSE42805_cds_exp.diff.gz 615.2 Kb (ftp)(http) DIFF
GSE42805_coc7d1d.combined.gtf.gz 7.9 Mb (ftp)(http) GTF
GSE42805_gene_exp.diff.gz 1.3 Mb (ftp)(http) DIFF
GSE42805_isoform_exp.diff.gz 2.7 Mb (ftp)(http) DIFF
GSE42805_promoters.diff.gz 537.8 Kb (ftp)(http) DIFF
GSE42805_splicing.diff.gz 670.9 Kb (ftp)(http) DIFF
GSE42805_tss_group_exp.diff.gz 1.4 Mb (ftp)(http) DIFF
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