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Sample GSM437512 Query DataSets for GSM437512
Status Public on Sep 04, 2009
Title C.B6-(lmr1, lmr2) uninfected macrophages
Sample type RNA
 
Source name bone marrow-derived macrophages
Organism Mus musculus
Characteristics strain: BALB/c congenic
l. major infection: uninfected
gender: female
tissue: Bone marrow
cell type: macrophage
age: 6-8 weeks
Treatment protocol After maturation of macrophage precursors, the cells were washed and incubated for 4 hours with or without L. major promoastigotes. The cells were then washed free of unbound parasites and incubated for 24hours before harvesting for RNA preparation.
Growth protocol Bone marrow-derived macrophages from 6 mice each of C57BL/6, BALB/c, C.B6-(lmr1, lmr2) and B6.c-(lmr1, lmr2) were cultured for 3 days in the presence of FCS and L-cell conditioned media. After 2 days, adherent cells were discarded. This served to removed any fibroblasts present in the culture. The remaining cells were cultured for a further 4 days allowing non-adherent macrophage precursors to mature and adhere to the culture dish.
Extracted molecule total RNA
Extraction protocol RNA was prepared by using RNeasy (Qiagen, Valencia, CA).
Label biotin
Label protocol Samples were labelled using the Enzo BioArray HighYield RNA Transcript Labeling kit – Affymetrix, following the manufacturer's protocol.
 
Hybridization protocol Samples were hybridised using Affymetrix protocols.
Scan protocol GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
Description Bc.12.U
Data processing The data were background corrected, normalized and summarized with the Bioconductor package gcrma. Full (fast=FALSE) parameter estimation was used.
 
Submission date Aug 06, 2009
Last update date Aug 06, 2009
Contact name Gordon K Smyth
E-mail(s) smyth@wehi.edu.au
Phone (+61 3) 9345 2326
Fax (+61 3) 9347 0852
URL http://www.wehi.edu.au
Organization name Walter and Eliza Hall Institute of Medical Research
Department Bioinformatics
Lab Smyth
Street address 1G Royal Pde
City Parkville
State/province Vic
ZIP/Postal code 3052
Country Australia
 
Platform ID GPL81
Series (1)
GSE17550 Gene expression profiles of in vitro-infected (Leishmania major) and uninfected mouse bone marrow-derived macrophages

Data table header descriptions
ID_REF
VALUE gcRMA-normalized log2-expression values

Data table
ID_REF VALUE
100001_at 1.844075434
100002_at 2.645359286
100003_at 1.779261648
100004_at 3.019910664
100005_at 3.493683794
100006_at 0.853985087
100007_at 6.039641435
100009_r_at 0.583096231
100010_at 4.355675087
100011_at 5.240735777
100012_at 12.48163783
100013_at 7.48845817
100014_at 3.144223562
100015_at 1.530269194
100016_at 1.89134279
100017_at 2.352533392
100018_at 4.433297265
100019_at 2.90378717
100020_at 5.21984508
100021_at 1.259446745

Total number of rows: 12488

Table truncated, full table size 267 Kbytes.




Supplementary file Size Download File type/resource
GSM437512.CEL.gz 2.7 Mb (ftp)(http) CEL
Processed data included within Sample table

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