E-GEOD-42509 - Transcriptome-profiling (RNA-seq) and Ribosome-profiling (Ribo-seq) in proliferation, quiescence, senescence and transformed states

Status
Released on 24 March 2013, last updated on 4 April 2013
Organism
Homo sapiens
Samples (17)
Protocols (5)
Description
We applied in parallel RNA-Seq and Ribosome-profiling analyses to immortalized human primary BJ fibroblast cells under the following conditions: normal proliferation, quiescence (induced by serum depletion), senescence (induced by activation of the oncogenic RASG12V gene, and examined at early (5 days; pre-senescent state) and late (14 days; fully senescent state) time points), and neoplastic transformation (induced by RASG12V in the background of stable p53 and p16INK4A knockdowns and SV40 small-T expression. RNA-seq, using Illumina HiSeq 2000, was applied to BJ cells under 5 conditions: proliferation, quiescence, pre-senescence, full-senescence, and transfomed. Ribosome profiling, using Illumina HiSeq 2000, was applied to BJ cells under 5 conditions: proliferation, quiescence, pre-senescence, full-senescence, and transfomed.
Experiment types
other, RNA-seq of coding RNA 
Contacts
Ran Elkon <geo@ncbi.nlm.nih.gov>, Fabricio Loayza-Puch, Rani Elkon, Reuven Agami
MINSEQE
Exp. designProtocolsVariablesProcessedSeq. reads
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