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Sample GSM1350816 Query DataSets for GSM1350816
Status Public on Feb 19, 2019
Title B6.naive_2
Sample type RNA
Source name whole mouse ear with Leishmania lesion
Organism Mus musculus
Characteristics strain of mouse: C57BL/6
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_A
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 7520.8 0
ILMN_2721178 1299.6 0
ILMN_3033922 2715.5 0
ILMN_3092673 24761.4 0
ILMN_2816356 313.8 0.04637
ILMN_2808939 2113.4 0
ILMN_2634564 1722.9 0
ILMN_2737647 281.4 0.15539
ILMN_2734484 814.4 0
ILMN_2952292 723.9 0
ILMN_2699078 490.5 0
ILMN_1213681 1320.7 0
ILMN_2735413 275.2 0.2005
ILMN_2735415 313.2 0.04637
ILMN_2891688 1724.6 0
ILMN_2637698 3728.7 0
ILMN_2674228 981 0
ILMN_2601546 303.4 0.06015
ILMN_1230831 266.5 0.29198
ILMN_2848071 311.6 0.04762

Total number of rows: 25697

Table truncated, full table size 614 Kbytes.

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

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