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Data set / project: Attie1   (2015)

Project B6 x BTBR intercross to investigate obesity and diabetes (eQTL study)

Attie1     MPD:532     2015     QTLA: Attie_2015

Investigators Alan D Attie     University of Wisconsin   Madison, WI
Contact Alan D Attie
attie@biochem.wisc.edu
Other participants Keller MP, Broman KW, Kendziorski CM, Yandell BS
  To identify genes and pathways that contribute to obesity-induced type II diabetes, we constructed an F2 intercross between the diabetes-resistant C57BL/6J and diabetes-susceptible BTBR T+ tf/J mouse strains. All F2s were genetically obese through introgression of the leptin mutation (Lep ob/ob) and all were sacrificed at 10 weeks of age. We conducted genome-wide gene expression profiling in six tissues: adipose, gastrocnemius muscle, hypothalamus, pancreatic islets, kidney, and liver. Gene expression was assayed with custom Agilent two-color ink-jet microarrays. Mice were genotyped with the Affymetrix 5K GeneChip.

Papers:
1) Identification of Slco1a6 as a candidate gene that broadly affects gene expression in mouse pancreatic islets. Tian J, Keller MP, Oler AT, Rabaglia ME, Schueler KL, Stapleton DS, Broman AT, Zhao W, Kendziorski CM, Yandell BS, Hagenbuch B, Broman KW, Attie AD (2015) bioRxiv, doi: 10.1101/020974

2) Identification and correction of sample mix-ups in expression genetic data: A case study. Broman KW, Keller MP, Broman AT, Kendziorski C, Yandell BS, Sen A, Attie AD (2014) arXiv:1402.2633

Each of the .zip files is approx 950 MB download size.
The csv files posted below supersede those found in the *_clean.zip archive.
Availability
 Available download files:
Excel file with descriptions and data: • Attie_2015_eqtl.xlsx
CSV files • genotypes_clean.csv
• markers_genetic_map.csv
Large zipped data sets / archives • Attie_2015_eqtl_clean.zip
• Attie_2015_eqtl_raw.zip
Readme / text files: • Readme_clean.txt
• Readme_raw.txt
Progenitors: BTBR T+ Itpr3tf/J   C57BL/6J         Cross type: F2 intercross
Population size: 255     289    


Studied phenotypes
ob_diab   eQTL investigation of obesity and diabetes age 10wks  
Ontology term mappings

Phenotyping methodologies utilized:      


Notes and
funding
This project was supported by National Institutes of Health grant R01DK066369.
Changelog No updates or corrections have been posted since initial release in Aug 2015
 




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