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Derivation of genetic interaction networks from quantitative phenotype data
Becky L Drees, Vesteinn Thorsson, Gregory W Carter, Alexander W Rives, Marisa Z Raymond, Iliana Avila-Campillo, Paul Shannon, Timothy Galitski
Genome Biol. 2005; 6(4): R38. Published online 2005 March 31. doi: 10.1186/gb-2005-6-4-r38
PMCID:
PMC1088966
Abstract Full Text PDF–464K Supplementary Material
 Is Cited by the Following 28 Articles in this Archive:
Predicting Protein Phenotypes Based on Protein-Protein Interaction Network
Lele Hu, Tao Huang, Xiao-Jun Liu, Yu-Dong Cai
PLoS One. 2011; 6(3): e17668. Published online 2011 March 10. doi: 10.1371/journal.pone.0017668
PMCID:
PMC3053377
Abstract Full Text PDF–201K Supplementary Material
Quantitative analysis of fitness and genetic interactions in yeast on a genome scale
Anastasia Baryshnikova, Michael Costanzo, Yungil Kim, Huiming Ding, Judice Koh, Kiana Toufighi, Ji-Young Youn, Jiongwen Ou, Bryan-Joseph San Luis, Sunayan Bandyopadhyay, Matthew Hibbs, David Hess, Anne-Claude Gingras, Gary D Bader, Olga G Troyanskaya, Grant W Brown, Brenda Andrews, Charles Boone, Chad L Myers
Nat Methods. Author manuscript; available in PMC 2011 June 17.
Published in final edited form as: Nat Methods. 2010 December; 7(12): 1017–1024. Published online 2010 November 14. doi: 10.1038/nmeth.1534
PMCID:
PMC3117325
Abstract Full Text PDF–1.4M Supplementary Material
Markov Logic Networks in the Analysis of Genetic Data
Nikita A. Sakhanenko, David J. Galas
J Comput Biol. 2010 November; 17(11): 1491–1508. doi: 10.1089/cmb.2010.0044
PMCID:
PMC3122930
Abstract Full Text PDF–1008K
Trees on networks: resolving statistical patterns of phylogenetic similarities among interacting proteins
William P Kelly, Michael PH Stumpf
BMC Bioinformatics. 2010; 11: 470. Published online 2010 September 20. doi: 10.1186/1471-2105-11-470
PMCID:
PMC2955699
Abstract Full Text PDF–1.5M Supplementary Material
Genome-Wide Scoring of Positive and Negative Epistasis through Decomposition of Quantitative Genetic Interaction Fitness Matrices
Ville-Pekka Eronen, Rolf O. Lindén, Anna Lindroos, Mirella Kanerva, Tero Aittokallio
PLoS One. 2010; 5(7): e11611. Published online 2010 July 15. doi: 10.1371/journal.pone.0011611
PMCID:
PMC2904709
Abstract Full Text PDF–841K Supplementary Material
A systems-biology approach to modular genetic complexity
Gregory W. Carter, Cynthia G. Rush, Filiz Uygun, Nikita A. Sakhanenko, David J. Galas, Timothy Galitski
Chaos. 2010 June; 20(2): 026102. Published online 2010 June 30. doi: 10.1063/1.3455183
PMCID:
PMC2909309
Abstract Full Text PDF–300K
Automated identification of pathways from quantitative genetic interaction data
Alexis Battle, Martin C Jonikas, Peter Walter, Jonathan S Weissman, Daphne Koller
Mol Syst Biol. 2010; 6: 379. Published online 2010 June 8. doi: 10.1038/msb.2010.27
PMCID:
PMC2913392
Abstract Full Text PDF–2.8M Supplementary Material
Allele-specific genetic interactions between Mitf and Kit affect melanocyte development
Bin Wen, Yu Chen, Huirong Li, Jin Wang, Jie Shen, Aobo Ma, Jia Qu, Keren Bismuth, Julien Debbache, Heinz Arnheiter, Ling Hou
Pigment Cell Melanoma Res. Author manuscript; available in PMC 2011 June 1.
Published in final edited form as: Pigment Cell Melanoma Res. 2010 June; 23(3): 441–447. Published online 2010 March 29. doi: 10.1111/j.1755-148X.2010.00699.x
PMCID:
PMC2884299
Abstract Full Text PDF–901K Supplementary Material
On the Classification of Epistatic Interactions
Hong Gao, Julie M. Granka, Marcus W. Feldman
Genetics. 2010 March; 184(3): 827–837. doi: 10.1534/genetics.109.111120
PMCID:
PMC2845349
Abstract Full Text PDF–2.3M
Environmental and Genetic Determinants of Colony Morphology in Yeast
Joshua A. Granek, Paul M. Magwene
PLoS Genet. 2010 January; 6(1): e1000823. Published online 2010 January 22. doi: 10.1371/journal.pgen.1000823
PMCID:
PMC2809765
Abstract Full Text PDF–854K Supplementary Material
Tn-seq; high-throughput parallel sequencing for fitness and genetic interaction studies in microorganisms
Tim van Opijnen, Kip L. Bodi, Andrew Camilli
Nat Methods. Author manuscript; available in PMC 2010 October 20.
Published in final edited form as: Nat Methods. 2009 October; 6(10): 767–772. Published online 2009 September 20. doi: 10.1038/nmeth.1377
PMCID:
PMC2957483
Abstract Full Text PDF–565K Supplementary Material
Drug interactions and the evolution of antibiotic resistance
Pamela J. Yeh, Matthew J. Hegreness, Aviva Presser Aiden, Roy Kishony
Nat Rev Microbiol. Author manuscript; available in PMC 2010 April 16.
Published in final edited form as: Nat Rev Microbiol. 2009 June; 7(6): 460–466. doi: 10.1038/nrmicro2133
PMCID:
PMC2855488
Abstract Full Text PDF–1.6M
Maximal Extraction of Biological Information from Genetic Interaction Data
Gregory W. Carter, David J. Galas, Timothy Galitski
PLoS Comput Biol. 2009 April; 5(4): e1000347. Published online 2009 April 3. doi: 10.1371/journal.pcbi.1000347
PMCID:
PMC2659753
Abstract Full Text PDF–712K Supplementary Material
Predicting Quantitative Genetic Interactions by Means of Sequential Matrix Approximation
Aki P. Järvinen, Jukka Hiissa, Laura L. Elo, Tero Aittokallio
PLoS ONE. 2008; 3(9): e3284. Published online 2008 September 26. doi: 10.1371/journal.pone.0003284
PMCID:
PMC2538561
Abstract Full Text PDF–354K Supplementary Material
A Network Model for the Correlation between Epistasis and Genomic Complexity
Rafael Sanjuán, Miguel R. Nebot
PLoS ONE. 2008; 3(7): e2663. Published online 2008 July 16. doi: 10.1371/journal.pone.0002663
PMCID:
PMC2481279
Abstract Full Text PDF–248K Supplementary Material
Genetic interaction network of the Saccharomyces cerevisiae type 1 phosphatase Glc7
Michael R Logan, Thao Nguyen, Nicolas Szapiel, James Knockleby, Hanting Por, Megan Zadworny, Michael Neszt, Paul Harrison, Howard Bussey, Craig A Mandato, Jackie Vogel, Guillaume Lesage
BMC Genomics. 2008; 9: 336. Published online 2008 July 15. doi: 10.1186/1471-2164-9-336
PMCID:
PMC2481269
Abstract Full Text PDF–1.8M Supplementary Material
Functional Maps of Protein Complexes from Quantitative Genetic Interaction Data
Sourav Bandyopadhyay, Ryan Kelley, Nevan J. Krogan, Trey Ideker
PLoS Comput Biol. 2008 April; 4(4): e1000065. Published online 2008 April 18. doi: 10.1371/journal.pcbi.1000065
PMCID:
PMC2289880
Abstract Full Text PDF–551K Supplementary Material
A Caenorhabditis elegans genetic-interaction map wiggles into view
Kristin C Gunsalus
J Biol. 2008; 7(3): 8. Published online 2008 March 7. doi: 10.1186/jbiol70
PMCID:
PMC2323036
Abstract Full Text PDF–639K
Defining genetic interaction
Ramamurthy Mani, Robert P. St.Onge, John L. Hartman, IV, Guri Giaever, Frederick P. Roth
Proc Natl Acad Sci U S A. 2008 March 4; 105(9): 3461–3466. Published online 2008 February 27. doi: 10.1073/pnas.0712255105
PMCID:
PMC2265146
Abstract Full Text PDF–316K Supplementary Material
Genetic interactions: the missing links for a better understanding of cancer susceptibility, progression and treatment
Christopher A Maxwell, Víctor Moreno, Xavier Solé, Laia Gómez, Pilar Hernández, Ander Urruticoechea, Miguel Angel Pujana
Mol Cancer. 2008; 7: 4. Published online 2008 January 10. doi: 10.1186/1476-4598-7-4
PMCID:
PMC2244643
Abstract Full Text PDF–787K
Inferring cellular networks – a review
Florian Markowetz, Rainer Spang
BMC Bioinformatics. 2007; 8(Suppl 6): S5. Published online 2007 September 27. doi: 10.1186/1471-2105-8-S6-S5
PMCID:
PMC1995541
Abstract Full Text PDF–502K
Integrating physical and genetic maps: from genomes to interaction networks
Andreas Beyer, Sourav Bandyopadhyay, Trey Ideker
Nat Rev Genet. Author manuscript; available in PMC 2010 January 25.
Published in final edited form as: Nat Rev Genet. 2007 September; 8(9): 699–710. doi: 10.1038/nrg2144
PMCID:
PMC2811081
Abstract Full Text PDF–1.7M
Network motif analysis of a multi-mode genetic-interaction network
R James Taylor, Andrew F Siegel, Timothy Galitski
Genome Biol. 2007; 8(8): R160. Published online 2007 August 2. doi: 10.1186/gb-2007-8-8-r160
PMCID:
PMC2374991
Abstract Full Text PDF–450K Supplementary Material
Prediction of phenotype and gene expression for combinations of mutations
Gregory W Carter, Susanne Prinz, Christine Neou, J Patrick Shelby, Bruz Marzolf, Vesteinn Thorsson, Timothy Galitski
Mol Syst Biol. 2007; 3: 96. Published online 2007 March 27. doi: 10.1038/msb4100137
PMCID:
PMC1847951
Abstract Full Text PDF–220K Supplementary Material
Accurate, precise modeling of cell proliferation kinetics from time-lapse imaging and automated image analysis of agar yeast culture arrays
Najaf A Shah, Richard J Laws, Bradley Wardman, Lue Ping Zhao, John L Hartman, IV
BMC Syst Biol. 2007; 1: 3. Published online 2007 January 8. doi: 10.1186/1752-0509-1-3
PMCID:
PMC1847469
Abstract Full Text PDF–1.1M Supplementary Material
Systematic pathway analysis using high-resolution fitness profiling of combinatorial gene deletions
Robert P St Onge, Ramamurthy Mani, Julia Oh, Michael Proctor, Eula Fung, Ronald W Davis, Corey Nislow, Frederick P Roth, Guri Giaever
Nat Genet. Author manuscript; available in PMC 2009 July 28.
Published in final edited form as: Nat Genet. 2007 February; 39(2): 199–206. Published online 2007 January 7. doi: 10.1038/ng1948
PMCID:
PMC2716756
Abstract Full Text PDF–3.0M
Combinatorial RNA interference in Caenorhabditis elegans reveals that redundancy between gene duplicates can be maintained for more than 80 million years of evolution
Julia Tischler, Ben Lehner, Nansheng Chen, Andrew G Fraser
Genome Biol. 2006; 7(8): R69. Published online 2006 August 2. doi: 10.1186/gb-2006-7-8-r69
PMCID:
PMC1779603
Abstract Full Text PDF–471K Supplementary Material
A strategy for extracting and analyzing large-scale quantitative epistatic interaction data
Sean R Collins, Maya Schuldiner, Nevan J Krogan, Jonathan S Weissman
Genome Biol. 2006; 7(7): R63. Published online 2006 July 21. doi: 10.1186/gb-2006-7-7-r63
PMCID:
PMC1779568
Abstract Full Text PDF–1.2M Supplementary Material
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