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Sample GSM1350827 Query DataSets for GSM1350827
Status Public on Feb 19, 2019
Title Balb.Lm_1
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 8762430077_G
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 5251.6 0
ILMN_2721178 1025.5 0
ILMN_3033922 2242.4 0
ILMN_3092673 14542 0
ILMN_2816356 275.2 0.23058
ILMN_2808939 1663.4 0
ILMN_2634564 1489.4 0
ILMN_2737647 244 0.60401
ILMN_2734484 558.3 0
ILMN_2952292 696.9 0
ILMN_2699078 376.6 0.00125
ILMN_1213681 929.4 0
ILMN_2735413 243.5 0.61028
ILMN_2735415 255.3 0.45113
ILMN_2891688 2093 0
ILMN_2637698 3697.1 0
ILMN_2674228 944.7 0
ILMN_2601546 276.6 0.21805
ILMN_1230831 247.5 0.55514
ILMN_2848071 321.1 0.03383

Total number of rows: 25697

Table truncated, full table size 610 Kbytes.




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

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