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Series GSE78163 Query DataSets for GSE78163
Status Public on Jun 07, 2016
Title Ligation-Free Ribosome Profiling Reveals Cell Type-Specific Regulation of Protein Synthesis in the Brain
Organism Mus musculus
Experiment type Expression profiling by high throughput sequencing
Summary Ribosome profiling has emerged as a powerful tool for genome-wide measurements of translation, but library construction requires multiple ligation steps and remains cumbersome relative to more conventional deep sequencing experiments. We report a new approach to ribosome profiling that does not require ligation. Library construction for ligation-free ribosome profiling can be completed in one day with as little as 1 ng of purified RNA footprints. We used ligation-free ribosome profiling to identify new patterns of cell type-specific translation in the brain and tested its ability to identify translational targets of mTOR signaling in the brain.
Overall design We report a strategy for ligation free cell-type specific ribosome profiling. Our strategy was utilized to explore cell-type specific expression in mouse brain.
Contributor(s) Sims PA, Hornstein N, Torres D, Sharma S, Tang G, Canoll P
Citation(s) 27380875
Submission date Feb 22, 2016
Last update date May 15, 2019
Contact name Peter Sims
Organization name Columbia Medical Center
Street address 3960 Broadway blvd
City New York
State/province NEW YORK
ZIP/Postal code 10032
Country USA
Platforms (2)
GPL13112 Illumina HiSeq 2000 (Mus musculus)
GPL19057 Illumina NextSeq 500 (Mus musculus)
Samples (12)
GSM2068571 PD001
GSM2068572 PD002
GSM2068573 PD003
BioProject PRJNA312799
SRA SRP070655

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Supplementary file Size Download File type/resource
GSE78163_Matrix_NonNormalized_CDS_Cts.txt.gz 412.1 Kb (ftp)(http) TXT
GSE78163_Matrix_NonNormalized_Exon_Cts.txt.gz 349.9 Kb (ftp)(http) TXT
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