Attie1: B6 x BTBR intercross to investigate obesity and diabetes (eQTL study) (2015)

Attie AD   With: Keller MP, Broman KW, Kendziorski CM, Yandell BS

     
Attie1 downloads
QTL projects have several available downloads.
Use the QTL Data Downloads button near the bottom of this page.
Participants Alan D Attie       University of Wisconsin Madison, WI
With: Keller MP, Broman KW, Kendziorski CM, Yandell BS
ContactAlan D Attie     attie@biochem.wisc.edu
AcknowledgementsThis project was supported by National Institutes of Health grant R01DK066369.
Project type QTL Archive data set
MPD identifiersAttie1     MPD:532
Data changelog No updates/corrections.       Initial release date: 08/2015.
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.


QTL data set parameters:
Progenitor strains BTBR T+ Itpr3tf/J     C57BL/6J    
Cross typeF2 intercross
Population size 255 ♀     289 ♂
Age10wks


Measured phenotypes:       To access these data use the QTL Data Downloads button at bottom of page.
Data set MPD ID Procedure / Protocol Drug or Challenge Phenotype Measure Panel No. of Strains Sex Age Sample Size (Avg)
Attie1 53201 None (none) eQTL investigation of obesity and diabetes  ob_diab QTL population both 10wks N=272



Project / data set:   Attie1     a.k.a. Attie_2015
Excel file:   Attie_2015_eqtl.xlsx
CSV file:   genotypes_clean.csv
CSV file:   markers_genetic_map.csv
Large zipped data set:   Attie_2015_eqtl_clean.zip
Large zipped data set:   Attie_2015_eqtl_raw.zip
Readme / text file:   Readme_clean.txt
Readme / text file:   Readme_raw.txt