(B6 x BTBR)F₂-ob/ob Genotype Database

    Summary:

The Genotype database of August 2005 lists genotypes for 194 MIT microsatellite markers and 110 F2 animals used in combination with the Phenotypes and Liver transcriptome databases for mapping quantitative trait loci. To review a complete list of these genotypes type in the wildcard character * in the ANY search field. You can also search more selectively for markers using this general syntax Mb=(Chr1 50 150) to find all markers on Chr 1 between 50 and 150 Mb. This marker set includes genotypes for all 60 selected animals whose liver mRNAs were quantified using the Affymetrix M430A and B arrays, as well as an additional 50 F2 ob/ob animals from the same cross.

    About the cases used to generate this set of data:

The 110 F₂-ob/ob mice were from a mapping panel that we created to map diabetes related physiological phenotypes (Stoehr et al. 2000). These F₂-ob/ob mice were also used to map mRNA abundance traits derived by quantitative real-time RT-PCR (Lan et al. 2003). The sixty F₂-ob/ob mice that were used to generate microarray-derived mRNA abundance traits were selected from the 110 mice based on a selective phenotyping algorithm (Jin et al. 2004). The F₂-ob/ob mice were housed at weaning at the University of Wisconsin-Madison animal care facility on a 12-h light/dark cycle. Mice were provided Purina Formulab Chow 5008 (6.5% fat) and acidified water ad libitum. Mice were killed at 14 weeks of age by CO₂ asphyxiation after a 4-hour fast. The livers, along with other tissues, were immediately foil wrapped and frozen in liquid nitrogen, and subsequently transferred to -80 °C freezers for storage.

    About the marker set:

All 110 mice were genotyped at 194 MIT microsatellite markers separated an average of approximately 10 cM apart across the entire genome (Y chromsome, excepted). The maximum distance between markers wass less than 30 cM. The genotyping error-check routine implemented within R/qtl (Broman et al. 2003) showed no likely errors at p <0.01 probability.

    Data source acknowledgment:

This project was supported in part by NIH/NIDDK 5803701, NIH/NIDDK 66369-01 and American Diabetes Association 7-03-IG-01 to Alan D. Attie, USDA CSREES grants to the University of Wisconsin-Madison to Brian S. Yandell, and HHMI grant A-53-1200-4 to Christina Kendziorski.

    Information about this text file:

This text file originally generated by RWW and Alan Attie, August 20, 2005.