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Sample GSM1350829 Query DataSets for GSM1350829
Status Public on Feb 19, 2019
Title Balb.Lm_3
Sample type RNA
 
Source name whole mouse ear with Leishmania lesion
Organism Mus musculus
Characteristics strain of mouse: Balb/C
species of leishmania: major
susceptibility phenotype: suseptible
tissue: whole mouse ear
Treatment protocol Ear tissue was preserved in RNAlater reagent (Qiagen) and stored at -80c.
Growth protocol 6-8wk old mice were infected with 105 metacyclic-enriched parasites. Mice were killed at 4 weeks post-infection and the infected ear was recovered.
Extracted molecule total RNA
Extraction protocol RNAlater-preserved ear tissue was weighed, minced with a razor blade, and the entire ear was homogenized in 1ml of Qiazol (Qiagen) using 3 x 20 second pulses on a FastPrep-24 MP homogenizer (MP Biomedicals), with 5 min on ice between each pulse. Total RNA was isolated using the Qiagen miRNeasy kit.
Label biotin
Label protocol Biotin labeled complementary RNA (cRNA) was made using the EpiCentre Nano Total-Amp kit
 
Hybridization protocol Standard Illumina hybridization protocol
Scan protocol Standard Illumina scanning protocol
Description 8762430076_B
Data processing The data were quantile normalized without background subtraction using Illumina GenomeStudio V1.8
 
Submission date Mar 19, 2014
Last update date Feb 19, 2019
Contact name daniel beiting
E-mail(s) beiting@vet.upenn.edu
Organization name University of Pennsylvania
Department Pathobiology
Lab Beiting
Street address 380 S. University Ave
City Philadelphia
State/province PA
ZIP/Postal code 19104
Country USA
 
Platform ID GPL6885
Series (1)
GSE56029 Defining the transcriptional signature of healing and non-healing lesions during murine cutaneous leishmaniasis

Data table header descriptions
ID_REF
VALUE quantile normalized signal
Detection Pval

Data table
ID_REF VALUE Detection Pval
ILMN_2896528 6812.6 0
ILMN_2721178 1319.6 0
ILMN_3033922 2945.5 0
ILMN_3092673 18103.1 0
ILMN_2816356 305.5 0.06015
ILMN_2808939 2213.2 0
ILMN_2634564 1876.9 0
ILMN_2737647 304.9 0.06391
ILMN_2734484 452.6 0
ILMN_2952292 670.9 0
ILMN_2699078 433.8 0
ILMN_1213681 1256.3 0
ILMN_2735413 252.3 0.50501
ILMN_2735415 295.2 0.09023
ILMN_2891688 1191.7 0
ILMN_2637698 3066.1 0
ILMN_2674228 1098.8 0
ILMN_2601546 269.9 0.27068
ILMN_1230831 289.6 0.11153
ILMN_2848071 267.6 0.29198

Total number of rows: 25697

Table truncated, full table size 613 Kbytes.




Supplementary data files not provided
Raw data are available on Series record
Processed data included within Sample table

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