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Sample GSM1051222 Query DataSets for GSM1051222
Status Public on Dec 11, 2012
Title MEL_control_uninduced_rep2
Sample type RNA
Source name MEL_control knockdown_uninduced
Organism Mus musculus
Characteristics strain background: BALB/c
cell type: Murine erythroidleukema (MEL) cells
genotype/variation: control
Treatment protocol Uninduced MEL cells were differentiated by incubating 2.5e5 cells/ml with 1.5-2% DMSO; cells were stably transformed with either control or Ldb1 shRNA from Open Biosystems.
Growth protocol Cells cultured in DMEM supplemented with 10% fetal bovine serum
Extracted molecule total RNA
Extraction protocol RNA was prepared from 2e6 cells using the Rneasy Plus Mini Kit (Qiagen). One microgram of RNA was reverse transcribed with random hexamers using the Superscript III first-strand synthesis system as suggested by the manufacturer (Invitrogen).
Label biotin
Label protocol Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
Hybridization protocol Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Mouse Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
Scan protocol GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
Description control.uninduced.2
Data processing Bioconductor/R (R 2.15.2); affy (1.36.0) and limma (3.14.1) packages; Mouse430_2_Mm_ENTREZG cdf (brainarray v.16.0)
Submission date Dec 11, 2012
Last update date Dec 11, 2012
Contact name Ryan Dale
Organization name National Institutes of Health
Department National Institute of Child Health and Human Development
Lab Bioinformatics and Scientific Programming Core
Street address Rm 10D39, 10 Center Drive
City Bethesda
State/province MD
ZIP/Postal code 20892
Country USA
Platform ID GPL16368
Series (1)
GSE42839 Expression changes in MEL cells upon differentiation and Ldb1 knockdown

Data table header descriptions
VALUE log2 RMA signal

Data table
100008567_at 7.39114978663254
100009600_at 7.81142571496148
100012_at 3.58498121997408
100017_at 9.09843976517254
100019_at 9.58146094892173
100034251_at 6.52194824099773
100034739_at 4.88362328868185
100034748_at 5.42285250115865
100036520_at 4.11936418807997
100036521_at 8.92725232704394
100036523_at 5.41328255236333
100036768_at 4.77269819368448
100037258_at 7.25605979272532
100037262_at 6.16981425380065
100037278_at 6.29395461823866
100038347_at 5.79519804125121
100038358_at 4.75483068584581
100038371_at 3.06495342614139
100038392_at 5.80914763134419
100038398_at 3.78197978610023

Total number of rows: 17566

Table truncated, full table size 451 Kbytes.

Supplementary file Size Download File type/resource
GSM1051222_08-27-08_ADean_S-HSC2_Mouse430_2_C2.CEL.gz 6.4 Mb (ftp)(http) CEL
Raw data provided as supplementary file
Processed data included within Sample table

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