NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM1693940 Query DataSets for GSM1693940
Status Public on Sep 01, 2016
Title 29_RPE_3d_NPAT_1
Sample type RNA
 
Source name hTERT-RPE1
Organism Homo sapiens
Characteristics cell line: hTERT-RPE1
sirna: NPAT
day after sirna treatment: Day 3
replica: biological rep 1
Treatment protocol For reverse transfection protocol, cells at 30% confluence were plated in the growth medium into 6-well plates using 15 nM siRNA and 7 µl HiPerFect (Qiagen) in final total volume 2 100 µl.
Growth protocol cells were cultured in media supplemented with penicillin/streptomycin and 10% FBS under standard culture conditions.
Extracted molecule total RNA
Extraction protocol RNA was purified from cells using RNeasy kit (Qiagen)
Label biotin
Label protocol biotin
 
Hybridization protocol Standard Affymetrix
Scan protocol Standard Affymetrix
Description Gene expression data on 3d day after NPAT siRNA transfection
Data processing The data were analyzed with RMA method in R. Probe set data extracted from custom CDF (hugene11sthsensgcdf_18.0.0)
 
Submission date May 21, 2015
Last update date Sep 01, 2016
Contact name Maria Sokolova
E-mail(s) maria.fulop@helsinki.fi
Organization name University of Helsinki
Department Institute of Biotechnology
Lab Nuclear Actin Lab
Street address Viikinkaari 5
City Helsinki
ZIP/Postal code 00014
Country Finland
 
Platform ID GPL20234
Series (2)
GSE69148 Differential response of normal and tumor cells to nucleosome depletion
GSE69149 Histone gene regulation in normal and tumor cells

Data table header descriptions
ID_REF
VALUE log2 RMA signal

Data table
ID_REF VALUE
ENSG00000000003_at 8.590885549
ENSG00000000005_at 3.438013614
ENSG00000000419_at 10.2805563
ENSG00000000457_at 6.604334
ENSG00000000460_at 7.888780055
ENSG00000000938_at 4.706947844
ENSG00000000971_at 8.121185823
ENSG00000001036_at 9.91455722
ENSG00000001084_at 7.603172347
ENSG00000001167_at 8.570850296
ENSG00000001460_at 8.182126116
ENSG00000001461_at 8.747770628
ENSG00000001497_at 8.448589636
ENSG00000001561_at 4.675425375
ENSG00000001617_at 7.917855262
ENSG00000001626_at 3.181870066
ENSG00000001629_at 10.13878859
ENSG00000001631_at 7.944847757
ENSG00000002016_at 6.593048729
ENSG00000002079_at 5.701004806

Total number of rows: 22069

Table truncated, full table size 665 Kbytes.




Supplementary file Size Download File type/resource
GSM1693940_29_RPE_NPAT_1_E09.CEL.gz 4.6 Mb (ftp)(http) CEL
Processed data included within Sample table

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap