NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM1693948 Query DataSets for GSM1693948
Status Public on Sep 01, 2016
Title 37_U2OS_3d_NPAT_1
Sample type RNA
 
Source name U2OS
Organism Homo sapiens
Characteristics cell line: U2OS
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 9.050526394
ENSG00000000005_at 3.343489624
ENSG00000000419_at 10.79007315
ENSG00000000457_at 6.424773887
ENSG00000000460_at 7.770731534
ENSG00000000938_at 4.723554185
ENSG00000000971_at 3.654486123
ENSG00000001036_at 9.37464819
ENSG00000001084_at 8.679002513
ENSG00000001167_at 9.813846834
ENSG00000001460_at 7.897534418
ENSG00000001461_at 7.627221806
ENSG00000001497_at 9.70866378
ENSG00000001561_at 5.382019713
ENSG00000001617_at 6.382265735
ENSG00000001626_at 3.118643213
ENSG00000001629_at 10.08533646
ENSG00000001631_at 8.419709808
ENSG00000002016_at 7.077556571
ENSG00000002079_at 6.899901799

Total number of rows: 22069

Table truncated, full table size 665 Kbytes.




Supplementary file Size Download File type/resource
GSM1693948_37_U2OS_NPAT_1_B07.CEL.gz 4.5 Mb (ftp)(http) CEL
Processed data included within Sample table

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