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Sample GSM1079830 Query DataSets for GSM1079830
Status Public on Apr 10, 2013
Title Sarcoma cell line - Dicer Null -rep1
Sample type RNA
Source name Sarcoma cell line Null for Dicer
Organism Mus musculus
Characteristics cell type: Sarcoma cell line
strain: C57BL6/J
genotype/variation: Dicer Null
Treatment protocol Dicer-heterozygous and Dicer KO cells were grown to confluence in T25s and harvested for extraction of total RNA.
Growth protocol Cells were cultured in DMEM supplemented with penicillin/streptomycin, L-glutamine, and 10% FBS.
Extracted molecule total RNA
Extraction protocol Trizol extraction of total RNA was performed according to the manufacturer's instructions. RNA was DNAseI treated and further purified using the QIAgen Rneasy mini columns
Label Biotin
Label protocol Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA according to the Affymetrix Expression Analysis Technical Manual.
Hybridization protocol Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on Mouse 430_2 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
Scan protocol GeneChips were scanned using the GeneChip Scanner 3000.
Data processing R version 2.11.1 (x86_64-pc-linux-gnu), affyPLM_1.24.0, preprocessCore_1.10.0, gcrma_2.20.0, affy_1.26.0, Biobase_2.8.0
Submission date Feb 07, 2013
Last update date Apr 10, 2013
Contact name A Bhutkar
Organization name MIT
Street address 77 Massachusetts Avenue
City Cambridge
State/province MA
ZIP/Postal code 02139
Country USA
Platform ID GPL1261
Series (2)
GSE44162 Let-7 represses Nr6a1 and a mid-gestation developmental program in adult fibroblasts [3p arrays]
GSE44163 Let-7 represses Nr6a1 and a mid-gestation developmental program in adult fibroblasts

Data table header descriptions
VALUE log2 intensities (gcRMA, fast=FALSE)

Data table
1460746_at 1.75
1460745_at 1.56
1460744_at 5.04
1460743_at 2.42
1460742_at 7.37
1460741_x_at 9.36
1460740_at 6.3
1460739_at 5.97
1460738_at 5.22
1460737_at 11.76
1460736_at 7.83
1460735_at 7.81
1460734_at 2.96
1460733_at 8.38
1460732_a_at 1.66
1460731_at 4.72
1460730_at 7.84
1460729_at 9.48
1460728_s_at 7.39
1460727_at 4.85

Total number of rows: 45037

Table truncated, full table size 721 Kbytes.

Supplementary file Size Download File type/resource
GSM1079830_A9123_3A_null.CEL.gz 3.8 Mb (ftp)(http) CEL
Processed data included within Sample table

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