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Sample GSM933039 Query DataSets for GSM933039
Status Public on Aug 09, 2012
Title siPINC (no differentiation) 2
Sample type RNA
 
Source name HC11 mammary epithelial cells
Organism Mus musculus
Characteristics cell line: HC11
treatment: siRNA against PINC
differentiation: no differentiation-inducing agents
Treatment protocol Lentiviral vectors (LeGO-GFP, LeGO-1.0, LeGO-1.6 or LeGO-DCR) were co-transfected with packaging vectors (pCMV-VSVG, pMDLg/pRRE, pRSV-Rev) into 293-T cells using Fugene 6 (Roche). HC11 cells were transfected with siRNAs (10 nM/well) at 60-80 % confluency in 6 well plates using Lipofectamine RNAiMAX reagent (Invitrogen). Silencer Select siRNAs (Ambion) were used to target mPINC1.0 (n273107), mPINC1.6 (n254312) and DCR2 (n254314). The controls included mock tranfection without siRNAs and a siNEG, Silencer Select Negative Control #1 (4390843). Cells were treated with or without the lactogenic hormones hydrocortisone, insulin and prolactin to induce differentiation.
Growth protocol Cells were grown from HC11 line, a mouse mammary epithelial cell line derived from the Comma-D cell line which were isolated from a mid-pregnant Balb/c mouse
Extracted molecule total RNA
Extraction protocol Total RNA was isolated using TRIzol (Invitrogen) and quantified using a NanoDrop (ThermoScientific).
Label cy3
Label protocol standard Agilent protocol
 
Hybridization protocol Hybridizations were performed using One-colour hybridization on SurePrint G3 Mouse GE 60k Microarray (Agilent)
Scan protocol Slide were scanned in an Agilent Microarray Scanner and the data were analyzed using Agilent Feature Extraction Software (v.9.1).
Description HC11 mammary epithelial cells, with siRNA against PINC, and with no differentiation-inducing agents
Data processing quantile normalized, background subtracted data. Agilent and Bioconductor software was used.
 
Submission date May 18, 2012
Last update date Aug 09, 2012
Contact name Chad Creighton
E-mail(s) creighto@bcm.tmc.edu
Organization name Baylor College of Medicine
Department Biostatistics, Ducan Cancer Center
Street address One Baylor Plaza, Mail Stop: BCM305
City Houston
State/province TX
ZIP/Postal code 77030
Country USA
 
Platform ID GPL13912
Series (1)
GSE38052 Genome-wide transcriptional effects of Pregnancy-Induced Non-coding RNA (PINC)

Data table header descriptions
ID_REF
VALUE quantile normalized signal

Data table
ID_REF VALUE
1 11.24716108
2 4.448460501
3 3.971543554
4 4.266786541
5 6.313638887
6 4.266786541
7 5.036173613
8 9.697963019
9 4.77148947
10 4.360481336
11 5.450523951
12 4.695808269
13 8.377662432
14 13.33617237
15 4.940558308
16 4.448460501
17 11.51083627
18 6.827871939
19 10.58242624
20 15.76627817

Total number of rows: 62976

Table truncated, full table size 1090 Kbytes.




Supplementary file Size Download File type/resource
GSM933039_irs_JR_8087_AEG3M8_14002_31218.txt.gz 3.2 Mb (ftp)(http) TXT
Processed data included within Sample table

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