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Sample GSM429646 Query DataSets for GSM429646
Status Public on Feb 04, 2011
Title BCBL-1 BrdU-IP; 2. Replicate
Sample type RNA
 
Source name BCBL-1 BrdU-IP (control)
Organism Homo sapiens
Characteristics antibody: BrdU
replicate: 2
Growth protocol DG75-eGFP, DG75-10/12 and BCBL-1 were cultured in RPMI 1640 medium containing 100 IU/ml Penicillin, 100 µg/ml Streptomycin and 2 mM L-Glutamin. BL41, BL41 B95.8 and Jijoye were cultered in RPMI 1640 medium containing 10% fetal calf serum and Penicillin/Streptomycin as well as Bykomycine and Nystatin.
Extracted molecule total RNA
Extraction protocol 5x10e08 cells were lyzed in 10 ml of lysis buffer containing 25 mM Tris HCl pH 7.5, 150 mM KCl, 2 mM EDTA, 0.5% NP-40, 0.5 mM DTT, and protease inhibitors (Roche); incubated for 30 min at 4°C and cleared by centrifugation at 20,000 g for 30 min. Conditions for immunoprecipitation: 60 µl Protein-G sepharose beads were incubated with 5 m RPMI containing 6µg of either anti hAgo2 (11A9) or anti-BrdU (abcam) over night. Next morning columns were drained by gravity flow and washed once with lysis buffer. Next, 5 ml of lysates were added and incubated for 3 h at 4°C. In the meanwhile, total RNA was prepared from 100µl of cell lysates. This was analyzed for BL41, B41 B95.8 and Jijoye instead of the BrdU-IP. Following the incubation, beads were washed 4x with IP wash buffer (300 mM NaCl, 50 mM Tris HCl pH 7.5, 5 mM Mg2Cl, 0.1% NP-40, 1 mM NaF) and once with PBS. RNA was recovered using miRNeasy (Qiagen).
Label biotin
Label protocol Affymetrix protocol
 
Hybridization protocol Affymetrix protocol
Scan protocol Affymetrix protocol
Description gene expression data
Data processing RMA
 
Submission date Jul 17, 2009
Last update date Oct 29, 2013
Contact name Lars Dölken
E-mail(s) Lars.Doelken@uni-wuerzburg.de
Organization name University of Cambridge
Department Medicine
Lab Box 157, Level 5
Street address Addenbrookes Hospital, Hills Road
City Cambridge
State/province Cambridgeshire
ZIP/Postal code CB20QQ
Country United Kingdom
 
Platform ID GPL6244
Series (1)
GSE17180 Identification of KSHV, EBV and cellular miRNA targets in human B-cells using RIP-Chip

Data table header descriptions
ID_REF
VALUE RMA signal intensity

Data table
ID_REF VALUE
8064336 115.9
8117020 105.4
7973618 51.2
8130539 44.3
7982868 30.4
8115865 129.8
8036908 18.3
8066716 201.9
7963009 14.9
7908917 61.4
8005699 38.0
8018324 120.8
8029560 428.0
7911559 324.3
8039939 324.3
7947434 198.1
7905918 58.6
8177955 130.1
8052834 163.8
8118116 168.7

Total number of rows: 33297

Table truncated, full table size 420 Kbytes.




Supplementary file Size Download File type/resource
GSM429646.CEL.gz 3.6 Mb (ftp)(http) CEL
Processed data included within Sample table

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