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Sample GSM2940590 Query DataSets for GSM2940590
Status Public on Jan 02, 2019
Title epiWAT Gipr-/- BM; TF53
Sample type RNA
 
Source name epiWAT glucose-dependent insulinotropic polypeptide (GIP) receptor -/- bone marrow
Organism Mus musculus
Characteristics genotype: Gipr-/-
tissue: Epididymal fat pads
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 3.04714
TSUnmapped00000063.mm.2 3.09006
TSUnmapped00000062.mm.2 3.45513
TSUnmapped00000061.mm.2 3.37676
TSUnmapped00000060.mm.2 3.65198
TSUnmapped00000059.mm.2 2.87329
TSUnmapped00000058.mm.2 3.6751
TSUnmapped00000057.mm.2 3.42884
TSUnmapped00000056.mm.2 3.01931
TSUnmapped00000055.mm.2 3.10722
TSUnmapped00000054.mm.2 3.49736
TSUnmapped00000053.mm.2 6.47334
TSUnmapped00000052.mm.2 3.46884
TSUnmapped00000051.mm.2 4.30363
TSUnmapped00000050.mm.2 3.29687
TSUnmapped00000049.mm.2 5.36184
TSUnmapped00000048.mm.2 3.30868
TSUnmapped00000047.mm.2 7.34462
TSUnmapped00000044.mm.2 9.37909
TSUnmapped00000042.mm.2 5.58871

Total number of rows: 21793

Table truncated, full table size 551 Kbytes.




Supplementary file Size Download File type/resource
GSM2940590_TF53.CEL.gz 1.2 Mb (ftp)(http) CEL
Processed data included within Sample table

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