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Sample GSM933053 Query DataSets for GSM933053
Status Public on Aug 09, 2012
Title LeGO-1/6 (with differentiation) 2
Sample type RNA
 
Source name HC11 mammary epithelial cells
Organism Mus musculus
Characteristics cell line: HC11
treatment: PINC1/6 over-expression
differentiation: differentiation-inducing agents lactogenic hormones hydrocortisone, insulin and prolactin
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 PINC1/6 over-expression, and with 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 11.70065645
2 4.211077108
3 3.828665428
4 4.695808269
5 6.032964056
6 4.723376529
7 4.602389572
8 10.01035327
9 5.015879614
10 3.936637939
11 4.970585271
12 4.531381461
13 8.137738318
14 12.80429491
15 5.114609953
16 4.494522283
17 10.99305631
18 7.939211883
19 10.4465341
20 15.73802627

Total number of rows: 62976

Table truncated, full table size 1088 Kbytes.




Supplementary file Size Download File type/resource
GSM933053_irs_JR_8089_AEG3M8_14004_31279.txt.gz 3.2 Mb (ftp)(http) TXT
Processed data included within Sample table

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