|
Status |
Public on Jan 10, 2011 |
Title |
KO1 |
Sample type |
SRA |
|
|
Source name |
mESC
|
Organism |
Mus musculus |
Characteristics |
antibody: Ago2 antibody manufacturer: Wako antibody catalog #: 018-22021 antibody lot #: PEM0820 cell type: mouse embryonic stem cells genotype: Dicer null genetic background: mixed 129/B6
|
Extracted molecule |
total RNA |
Extraction protocol |
10E7 cells were plated and 48 hours later irradiated once with 4000 mJ/cm2. For immunoprecipitation, anti-mouse Ago2 mAb (lot# PEM0820 Wako 2x100ul 018-22021) was used, followed by deep-sequencing of RNA tags (CLIP-seq). One short RNA library was prepared for cloning and sequencing from total RNA extracted from Dicer WT mESCs. Libraries were cloned and sequenced using standard Illumina protocol.
|
|
|
Library strategy |
RNA-Seq |
Library source |
transcriptomic |
Library selection |
other |
Instrument model |
Illumina Genome Analyzer II |
|
|
Description |
Dicer-null mESC CLIP library; Performed photo-crosslinking immunoprecipitation using antibodies against Ago2, followed by deep-sequencing of RNA tags (CLIP-seq) in mouse embryonic stem cells (mESCs).
|
Data processing |
Raw reads were processed to remove traces of 3' linker and summarized by identical sequences (observations).
|
|
|
Submission date |
Nov 12, 2010 |
Last update date |
May 15, 2019 |
Contact name |
A Bhutkar |
Organization name |
MIT
|
Street address |
77 Massachusetts Avenue
|
City |
Cambridge |
State/province |
MA |
ZIP/Postal code |
02139 |
Country |
USA |
|
|
Platform ID |
GPL9250 |
Series (1) |
GSE25310 |
Genome-wide identification of Ago2 binding sites from mouse embryonic stem cells with and without mature microRNAs |
|
Relations |
SRA |
SRX031192 |
BioSample |
SAMN00120353 |