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| Status |
Public on Aug 16, 2012 |
| Title |
Muscleblind-Like 2 mediated alternative splicing in the developing bain by mRNA sequencing |
| Organism |
Mus musculus |
| Experiment type |
Expression profiling by high throughput sequencing
Other
|
| Summary |
We have identified Mbnl2 mediated splicing events and mRNA expression regulation by comparing WT and Mbnl2 ΔE2/ΔE2 mouse hippocampii using Affymetrix Mouse Exon Junction Array and mRNA sequencing.
The splicing microarray data has already been submitted under GSE37908 which also includes a re-analysis of RNA-seq data.
The TableS1.xls contains Splicing microarray analysis data of Mbnl2+/+ vs. MBNL2 ΔE2/ΔE2 knockout hippocampus.
The TableS2.xls files contain RNA-Seq, Gene Ontology, HITS-CLIP and CIMS summary of Mbnl2+/+ vs. MBNL2 ΔE2/ΔE2 knockout hippocampus.
The file contents are descibed in the 'TableS1_S2_readme.pdf' and data processing details are included in the 'data_processing_readme.pdf' file.
The Mbnl2_TableS2.xls contains data from exon junction microarrays for splicing analysis between WT and Mbnl2 delta2 mice. It also contains RNA-seq based splicing analysis between WT and Mbnl2 delta2 mice. Mbnl2_TableS2 further contains common targets between the two analyses, Gene Ontology and finally the HITS-CLIP data. CLIP tag summary describes read numbers for the three biological replicates. CLIP sig peaks contains significant HITS-CLIP unique reads/peaks after processing the data (BED files). Finally, CIMS analysis describes the Mbnl2 binding motif.
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| Overall design |
9 total samples were analyzed; 6 for RNA-seq: brains from 3 WT and 3 MBNL2 E2/ E2 female mice, all 2-3 months of age, and 3 for HITS-CLIP: brains from 3 WT BL6 female mice, all 2-3 months of age.
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| |
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| Contributor(s) |
Ranjan B, Chaolin Z |
| Citation(s) |
22884328 |
| |
| Submission date |
Jun 05, 2012 |
| Last update date |
May 15, 2019 |
| Contact name |
Ranjan Batra |
| E-mail(s) |
ranjanbatra9@yahoo.com
|
| Phone |
352-222-9209
|
| Organization name |
University of California San Diego
|
| Department |
Cellular and Molecular Medicine
|
| Lab |
Yeo Lab
|
| Street address |
2880 Torrey Pines Scenic Drive
|
| City |
La Jolla |
| State/province |
California |
| ZIP/Postal code |
92037 |
| Country |
USA |
| |
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| Platforms (1) |
| GPL11002 |
Illumina Genome Analyzer IIx (Mus musculus) |
|
| Samples (9)
|
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| Relations |
| BioProject |
PRJNA168021 |
| SRA |
SRP013558 |
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