Dissection of complex gene expression using the combined analysis of pleiotropy and epistasis

Pacific Symposium on Biocomputing

Volumn , Issue , 2014, Pages 200-211

  Philip, Vivek M ^a   Tyler, Anna L ^a   Carter, Gregory W ^a  

^a JACKSON LABORATORY   (United States)

Author keywords

Genetic interaction; Genetic network; Pleiotropy

Indexed keywords

PHYSIOLOGICAL MODELS; TRANSCRIPTION;

BIOLOGICAL PROCESS; GENE EXPRESSION DATA; GENETIC INTERACTION; GENETIC NETWORKS; METABOLIC FUNCTION; PHYSIOLOGICAL TRAIT; PLEIOTROPY; QUANTITATIVE TRAIT LOCUS;

COMPLEX NETWORKS;

MESSENGER RNA;

ANIMAL; ARTICLE; BIOLOGICAL MODEL; BIOLOGY; EPISTASIS; GENE EXPRESSION; GENE REGULATORY NETWORK; GENETICS; KIDNEY; MALE; MOUSE; PHYSIOLOGY; PLEIOTROPY; QUANTITATIVE TRAIT LOCUS;

ANIMALS; COMPUTATIONAL BIOLOGY; EPISTASIS, GENETIC; GENE EXPRESSION; GENE REGULATORY NETWORKS; GENETIC PLEIOTROPY; KIDNEY; MALE; MICE; MODELS, GENETIC; QUANTITATIVE TRAIT LOCI; RNA, MESSENGER;

EID: 84905884353     PISSN: 23356928     EISSN: 23356936     Source Type: Journal    
DOI: None     Document Type: Conference Paper

References (24)

1. R. Jansen and J.-P. Nap, Trends Genet 17, 388 (2001).
2. R. Brem, G. Yvert, R. Clinton and L. Kruglyak, Science 296, 752 (2002).
3. Schadt, E. E., S. Monks, T. Drake, A. Lusis, N. Che, V. Colinayo, T. Ruff, S. Milligan, J. Lamb, G. Cavet, P. Linsley, M. Mao, R. Stoughton and S. Friend, Nature 422, 297 (2003).
4. E. Chesler, L. Lu, S. Shou, Y. Qu, J. Gu, J. Wang, H. Hsu, J. Mountz, N. Baldwin, M. Langston, D. Threadgill, K. Manly and R. Williams, Nat Genet 37, 233 (2005).
5. J. Keurentjes, J. Fu, I. Terpstra, J. Garcia, G. van den Ackerveken, L. Snoek, A. Peeters, D. Vreugdenhil, M. Koornneef and R. Jansen, Proc Natl Acad Sci U S A. 104, 1708 (2007).
6. H. Yu and M. Gerstein, Proc Natl Acad Sci U S A. 103, 14724 (2006).
7. G. W. Carter, M. Hays, A. Sherman and T. Galitski, PLoS Genet 8, p. e1003010 (2012).
8. R. S. Hageman, M. S. Leduc, C. R. Caputo, S.-W. Tsaih, G. A. Churchill and R. Korstanje, J Am Soc Nephrol 22, 73 (2011).
9. K. W. Broman, H. Wu, S. Sen and G. A. Churchill, Bioinformatics 19, 289 (2003).
10. B. L. van der Warden, Koninklijke Nederlandse Akademie van Wetenschappen 55, 453 (1952).
11. P. Langfelder and S. Horvath, BMC Bioinformatics 9, 559 (2008).
12. A. Ghazalpour, S. Doss, B. Zhang, S. Wang, C. Plaisier, R. Castellanos, A. Brozell, E. E. Schadt, T. A. Drake, A. J. Lusis and S. Horvath, PLoS Genet 2, p. e130 (2006).
13. B. Zhang and S. Horvath, Stat Appl Genet Mol Biol 4, p. 17 (2005).
14. S. Falcon and R. Gentleman, Bioinformatics 23, 257 (2006).
15. M. Ashburner, C. Ball, J. Blake, D. Botstein, H. Butler, J. Cherry, A. Davis, K. Dolinski, S. Dwight, J. Eppig, M. Harris, D. Hill, L. Issel-Tarver, A. Kasarskis, S. Lewis, J. Matese, J. Richardson, M. Ringwald, G. Rubin and G. Sherlock, Nat Genet 25, 25 (2000).
16. M. Kanehisa and S. Goto, Nucleic Acids Res 28, 27 (2000).
17. A. Alexa, J. Rahnenführer and T. Lengauer, Bioinformatics 22, 1600 (2005).
18. A. L. Tyler, W. Lu, J. J. Hendrick, V. M. Philip and G. W. Carter, PLoS Comp Bio (2013), in press.
19. Y. Benjamini and Y. Hochberg, J. R. Stat. Soc. Ser. B 57, 289 (1995).
20. W. Huang, S. Richards, M. A. Carbone, D. Zhu, R. R. H. Anholt, L. D. Julien F. Ayroles, K. W. Jordan, F. Lawrence, M. M. Magwire, K. B. Crystal B. Warner, Y. Han, M. Javaid, J. Jayaseelan, S. N. Jhangiani, D. Muzny, L. P. Fiona Ongeri, Y.-Q. Wu, Y. Zhang, X. Zou, E. A. Stone, R. A. Gibbs and T. F. C. Mackay, Proc Natl Acad Sci U S A. 109, 15553 (2012).
21. L. Avery and S. Wasserman, Trends Genet 8, 312 (1992).
22. D. Segré, A. Deluna, G. Church and R. Kishony, Nat Genet 37, 77 (2005).
23. G. W. Carter, G3 3, 807 (2013).
24. G. W. Carter, S. Prinz, C. Neou, J. P. Shelby, B. Marzolf, V. Thorsson and T. Galitski, Mol Syst Biol 3, p. 96 (2007).