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Sample GSM2940579 Query DataSets for GSM2940579
Status Public on Jan 02, 2019
Title ingWAT WT BM; TF87
Sample type RNA
 
Source name ingWAT wild-type bone marrow
Organism Mus musculus
Characteristics genotype: wild type
tissue: Inguinal subcutaneous fat
strain: C57BL/6J
gender: male
Treatment protocol The fat tissue were isolated from chimeric mice reconstituted with bone marrow from Gipr-/-, S100a9-/- and Gipr-/-/ S100a9-/- mice.
Growth protocol Epididymal fat pads or inguinal subcutaneous fat were surgically removed from the following BM chimera mice after 6 weeks of BM reconstitution and additional 14 weeks of HFD (60% cal from fat):WT into WT, Gipr-/- into WT, Gipr-/-S100a9-/-.Fat tissues were frozen in liquid nitrogen and kept at -80 degree C until RNA extraction.
Extracted molecule total RNA
Extraction protocol RNA was prepared using QIAzol Lysis Reagent and Lipid RNA extraction RNeasy Mini Kit. RNA purity was assessed with NanoDrop™ (2000/2000c Spectrophotometers; Thermo, Fisher Scientific) and TapeStation Analysis (Software A.02.01, Agilent Technologies). RNA concentrations were determined by the absorbance at 260 nm and quality control standards were A260/A280 = 1.8 – 2.0.
Label biotin
Label protocol Samples were prepared according to the standard Affymetrix WT PLUS Reagent Kit protocol and Affymetrix WT Terminal Labeling Kit from 100 ng total RNA starting material
 
Hybridization protocol GeneChips were washed and stained in the Affymetrix Fluidics Station 450 according to the standard GeneChip Expression Wash, Stain and Scan protocol.
Scan protocol GeneChips were scanned using the Affymetrix 3000 7G scanner according to the instruction manual.
Description C57BL/6J mice (Envigo)
Data processing RNA normalization, summarization by mean, all were done by Partek Genomics suite (version 6.6)).
 
Submission date Jan 18, 2018
Last update date Jan 02, 2019
Contact name Metsada Pasmanik-Chor
E-mail(s) metsada@tauex.tau.ac.il
Organization name Tel Aviv University
Department Biology
Lab Bioinformatics Unit
Street address Ramat Aviv
City Tel Aviv
ZIP/Postal code 69978
Country Israel
 
Platform ID GPL23038
Series (1)
GSE109371 Glucose-dependent insulinotropic polypeptide ameliorates obesity and insulin resistance by attenuating S100A8/9 in myeloid cells

Data table header descriptions
ID_REF
VALUE Log2 signal intensities after normalization and summarization.

Data table
ID_REF VALUE
TSUnmapped00000064.mm.2 3.36042
TSUnmapped00000063.mm.2 2.75061
TSUnmapped00000062.mm.2 4.02625
TSUnmapped00000061.mm.2 3.32181
TSUnmapped00000060.mm.2 4.65006
TSUnmapped00000059.mm.2 3.3154
TSUnmapped00000058.mm.2 5.13876
TSUnmapped00000057.mm.2 4.4027
TSUnmapped00000056.mm.2 2.94358
TSUnmapped00000055.mm.2 4.32287
TSUnmapped00000054.mm.2 2.92491
TSUnmapped00000053.mm.2 7.84756
TSUnmapped00000052.mm.2 4.72394
TSUnmapped00000051.mm.2 5.00648
TSUnmapped00000050.mm.2 4.70554
TSUnmapped00000049.mm.2 5.39988
TSUnmapped00000048.mm.2 3.1986
TSUnmapped00000047.mm.2 8.02785
TSUnmapped00000044.mm.2 9.82024
TSUnmapped00000042.mm.2 5.89302

Total number of rows: 21793

Table truncated, full table size 551 Kbytes.




Supplementary file Size Download File type/resource
GSM2940579_TF87.CEL.gz 1.2 Mb (ftp)(http) CEL
Processed data included within Sample table

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