A collaborative database of inbred mouse strain characteristics

Grubb, Stephen C.; Churchill, Gary A.; Bogue, Molly A.

doi:10.1093/bioinformatics/bth299

Cited by 87 publications

(67 citation statements)

References 10 publications

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“…Group means and SDs for all strains in all laboratories with the 17 endpoints are given in Table 5, which is published as supporting information on the PNAS web site, and were submitted to the Mouse Phenome Database (25). Fig.…”

Section: Resultsmentioning

confidence: 99%

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Genotype–environment interactions in mouse behavior: A way out of the problem

Kafkafi

Benjamini²,

Sakov³

et al. 2005

Proc. Natl. Acad. Sci. U.S.A.

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In behavior genetics, behavioral patterns of mouse genotypes, such as inbred strains, crosses, and knockouts, are characterized and compared to associate them with particular gene loci. Such genotype differences, however, are usually established in singlelaboratory experiments, and questions have been raised regarding the replicability of the results in other laboratories. A recent multilaboratory experiment found significant laboratory effects and genotype ؋ laboratory interactions even after rigorous standardization, raising the concern that results are idiosyncratic to a particular laboratory. This finding may be regarded by some critics as a serious shortcoming in behavior genetics. A different strategy is offered here: (i) recognize that even after investing much effort in identifying and eliminating causes for laboratory differences, genotype ؋ laboratory interaction is an unavoidable fact of life. (ii) Incorporate this understanding into the statistical analysis of multilaboratory experiments using the mixed model. Such a statistical approach sets a higher benchmark for finding significant genotype differences. (iii) Develop behavioral assays and endpoints that are able to discriminate genetic differences even over the background of the interaction. (iv) Use the publicly available multilaboratory results in single-laboratory experiments. We use software-based strategy for exploring exploration (SEE) to analyze the open-field behavior in eight genotypes across three laboratories. Our results demonstrate that replicable behavioral measures can be practically established. Even though we address the replicability problem in behavioral genetics, our strategy is also applicable in other areas where concern about replicability has been raised.across-laboratory replicability ͉ mixed-model ANOVA ͉ open-field behavior I n behavior genetics, behavior patterns of standardized mouse genotypes, such as inbred strains or knockouts, are characterized to associate them with particular gene loci. The need for such characterization, referred to as behavioral phenotyping, has prompted the design of behavioral test batteries for mice (1-3). A practical problem well known to most experimenters in the field, however, is that it can be difficult to replicate behavioral phenotyping results in a different laboratory. This replicability problem was largely ignored until brought to light in 1999 by Crabbe, Wahlsten, and Dudek (3). In this pioneering study they conducted an experiment concurrently in three laboratories, comparing eight genotypes by using seven standard behavioral characteristics (endpoints) in a well coordinated study closely following identical protocols. Their main positive finding was that large genotype differences were demonstrated in all studied endpoints. On the negative side they found significant differences between laboratories across all genotypes in many endpoints. Although the difficulties raised by such significant laboratory effects can be overcome by running a common genotype as a local control, they ...

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Section: Resultsmentioning

confidence: 99%

“…It can be especially efficient when used with public databases to which many laboratories contribute results on mice and rats, such as the Mouse Phenome Database (25), because the Fig. 3.…”

Section: Discussionmentioning

confidence: 99%

Genotype–environment interactions in mouse behavior: A way out of the problem

Kafkafi

Benjamini²,

Sakov³

et al. 2005

Proc. Natl. Acad. Sci. U.S.A.

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“…Together, these and other studies using FVB mice point to the potential for previously untapped genetic differences in ethanol responses. The FVB/NJ strain used in the present studies is on the highest priority list for the Mouse Phenome Project, a consortium effort to provide basic behavioral and physiological data on a variety of mouse genotypes (Grubb et al, 2004) (http://aretha.jax.org/pub-cgi/phenome/mpdcgi?rtn=docs/pristrains). The repository of data in the Mouse Phenome Database was searched for differences between FVB and B6 on 12/01/04.…”

Section: Discussionmentioning

confidence: 99%

Hybrid C57BL/6J ?? FVB/NJ Mice Drink More Alcohol than Do C57BL/6J Mice

Blednov

Metten

Finn

et al. 2005

Alcoholism: Clinical & Experimental Research

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Background-From several recent strain surveys (28 strains: Bachmanov et al., personal communication; 22 strains: Finn et al., unpublished), and from data in >100 other published studies of 24-hr two-bottle ethanol preference, it is known that male C57BL/6 (B6) mice selfadminister about 10-14 g/kg/day and that female B6 mice self-administer about 12-18 g/kg/day. No strain has been found to consume more ethanol than B6. In one of our laboratories (Texas), we noted a markedly greater intake of ethanol in an F1 hybrid of B6 and FVB/NJ (FVB) mice.

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“…The C57BL6 mouse is a particularly good model of the human metabolic syndrome because, like humans, C57BL6 mice develop obesity, hyperlipidemia, hyperinsulinemia, hypertension (30), and steatohepatitis (31, 65) when allowed ad libitum access to a high-fat atherogenic diet. To determine whether PECAM-1 deficiency affects the development of steatohepatitis in C57BL6 mice, 6-to 8-wk-old male and female KO and WT C57BL6 littermates were allowed ad libitum access to a normal chow diet or to a high-fat atherogenic diet (21.2% fat, 0.15% cholesterol, 0.5% sodium cholate) for up to 18 wk.…”

Section: Pecam-1-deficient Mice Develop Marked Atherogenic Dietinducementioning

confidence: 99%