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Sample GSM1350814 Query DataSets for GSM1350814
Status Public on Feb 19, 2019
Title Balb.naive_3
Sample type RNA
Source name whole mouse ear with Leishmania lesion
Organism Mus musculus
Characteristics strain of mouse: Balb/C
species of leishmania: uninfected
susceptibility phenotype: n.a.
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_F
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
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
VALUE quantile normalized signal
Detection Pval

Data table
ID_REF VALUE Detection Pval
ILMN_2896528 10174.4 0
ILMN_2721178 1713.7 0
ILMN_3033922 3131.8 0
ILMN_3092673 20126.1 0
ILMN_2816356 404.8 0.00125
ILMN_2808939 2460.7 0
ILMN_2634564 1286.8 0
ILMN_2737647 281.2 0.12531
ILMN_2734484 723.3 0
ILMN_2952292 514.6 0
ILMN_2699078 383.7 0.00125
ILMN_1213681 1299.9 0
ILMN_2735413 271.1 0.20551
ILMN_2735415 315.9 0.02506
ILMN_2891688 1971.8 0
ILMN_2637698 2993 0
ILMN_2674228 972.6 0
ILMN_2601546 279.6 0.12907
ILMN_1230831 279 0.13283
ILMN_2848071 311.5 0.02882

Total number of rows: 25697

Table truncated, full table size 616 Kbytes.

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

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