pmc logo image
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
Page of 2 Next Last
 Is Cited by the Following 56 Articles in this Archive:
Genetic Interaction Maps in Escherichia coli Reveal Functional Crosstalk among Cell Envelope Biogenesis Pathways
Mohan Babu, J. Javier Díaz-Mejía, James Vlasblom, Alla Gagarinova, Sadhna Phanse, Chris Graham, Fouad Yousif, Huiming Ding, Xuejian Xiong, Anaies Nazarians-Armavil, Md Alamgir, Mehrab Ali, Oxana Pogoutse, Asaf Pe'er, Roland Arnold, Magali Michaut, John Parkinson, Ashkan Golshani, Chris Whitfield, Shoshana J. Wodak, Gabriel Moreno-Hagelsieb, Jack F. Greenblatt, Andrew Emili
PLoS Genet. 2011 November; 7(11): e1002377. Published online 2011 November 17. doi: 10.1371/journal.pgen.1002377
PMCID:
PMC3219608
Abstract Full Text PDF–1.1M Supplementary Material
Dominating Biological Networks
Tijana Milenković, Vesna Memišević, Anthony Bonato, Nataša Pržulj
PLoS One. 2011; 6(8): e23016. Published online 2011 August 26. doi: 10.1371/journal.pone.0023016
PMCID:
PMC3162560
Abstract Full Text PDF–779K
Putting genetic interactions in context through a global modular decomposition
Jeremy Bellay, Gowtham Atluri, Tina L. Sing, Kiana Toufighi, Michael Costanzo, Philippe Souza Moraes Ribeiro, Gaurav Pandey, Joshua Baller, Benjamin VanderSluis, Magali Michaut, Sangjo Han, Philip Kim, Grant W. Brown, Brenda J. Andrews, Charles Boone, Vipin Kumar, Chad L. Myers
Genome Res. 2011 August; 21(8): 1375–1387. doi: 10.1101/gr.117176.110
PMCID:
PMC3149503
Abstract Full Text PDF–1.3M
Integrating multiple types of data to predict novel cell cycle-related genes
Lin Wang, Lin Hou, Minping Qian, Fangting Li, Minghua Deng
BMC Syst Biol. 2011; 5(Suppl 1): S9. Published online 2011 June 20. doi: 10.1186/1752-0509-5-S1-S9
PMCID:
PMC3121125
Abstract Full Text PDF–1.1M Supplementary Material
A yeast model for polyalanine-expansion aggregation and toxicity
Catherine A. Konopka, Melissa N. Locke, Pamela S. Gallagher, Ngan Pham, Michael P. Hart, Claire J. Walker, Aaron D. Gitler, Richard G. Gardner
Mol Biol Cell. 2011 June 15; 22(12): 1971–1984. doi: 10.1091/mbc.E11-01-0037
PMCID:
PMC3113764
Abstract Full Text PDF–5.6M
Improved functional overview of protein complexes using inferred epistatic relationships
Colm Ryan, Derek Greene, Aude Guénolé, Haico van Attikum, Nevan J Krogan, Pádraig Cunningham, Gerard Cagney
BMC Syst Biol. 2011; 5: 80. Published online 2011 May 23. doi: 10.1186/1752-0509-5-80
PMCID:
PMC3117733
Abstract Full Text PDF–1.4M Supplementary Material
Molecular Determinants and Genetic Modifiers of Aggregation and Toxicity for the ALS Disease Protein FUS/TLS
Zhihui Sun, Zamia Diaz, Xiaodong Fang, Michael P. Hart, Alessandra Chesi, James Shorter, Aaron D. Gitler
PLoS Biol. 2011 April; 9(4): e1000614. Published online 2011 April 26. doi: 10.1371/journal.pbio.1000614
PMCID:
PMC3082519
Abstract Full Text PDF–2.1M Supplementary Material
Quantitative maps of genetic interactions in yeast - Comparative evaluation and integrative analysis
Rolf O Lindén, Ville-Pekka Eronen, Tero Aittokallio
BMC Syst Biol. 2011; 5: 45. Published online 2011 March 24. doi: 10.1186/1752-0509-5-45
PMCID:
PMC3079637
Abstract Full Text PDF–1.4M Supplementary Material
Protein Complexes are Central in the Yeast Genetic Landscape
Magali Michaut, Anastasia Baryshnikova, Michael Costanzo, Chad L. Myers, Brenda J. Andrews, Charles Boone, Gary D. Bader
PLoS Comput Biol. 2011 February; 7(2): e1001092. Published online 2011 February 24. doi: 10.1371/journal.pcbi.1001092
PMCID:
PMC3044758
Abstract Full Text PDF–710K Supplementary Material
Modular analysis of the probabilistic genetic interaction network
Lin Hou, Lin Wang, Minping Qian, Dong Li, Chao Tang, Yunping Zhu, Minghua Deng, Fangting Li
Bioinformatics. 2011 March 15; 27(6): 853–859. Published online 2011 January 28. doi: 10.1093/bioinformatics/btr031
PMCID:
PMC3051332
Abstract Full Text PDF–398K
Cross-species chemogenomic profiling reveals evolutionarily conserved drug mode of action
Laura Kapitzky, Pedro Beltrao, Theresa J Berens, Nadine Gassner, Chunshui Zhou, Arthur Wüster, Julie Wu, M Madan Babu, Stephen J Elledge, David Toczyski, R Scott Lokey, Nevan J Krogan
Mol Syst Biol. 2010; 6: 451. Published online 2010 December 21. doi: 10.1038/msb.2010.107
PMCID:
PMC3018166
Abstract Full Text PDF–2.2M Supplementary Material
Rewiring of Genetic Networks in Response to DNA Damage
Sourav Bandyopadhyay, Monika Mehta, Dwight Kuo, Min-Kyung Sung, Ryan Chuang, Eric J. Jaehnig, Bernd Bodenmiller, Katherine Licon, Wilbert Copeland, Michael Shales, Dorothea Fiedler, Janusz Dutkowski, Aude Guénolé, Haico van Attikum, Kevan M. Shokat, Richard D. Kolodner, Won-Ki Huh, Ruedi Aebersold, Michael-Christopher Keogh, Nevan J. Krogan, Trey Ideker
Science. Author manuscript; available in PMC 2010 December 21.
Published in final edited form as: Science. 2010 December 3; 330(6009): 1385–1389. doi: 10.1126/science.1195618
PMCID:
PMC3006187
Abstract Full Text PDF–1.9M 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
Epistatic relationships reveal the functional organization of yeast transcription factors
Jiashun Zheng, Joris J Benschop, Michael Shales, Patrick Kemmeren, Jack Greenblatt, Gerard Cagney, Frank Holstege, Hao Li, Nevan J Krogan
Mol Syst Biol. 2010; 6: 420. Published online 2010 October 19. doi: 10.1038/msb.2010.77
PMCID:
PMC2990640
Abstract Full Text PDF–3.5M Supplementary Material
Individual Lysine Acetylations on the N Terminus of Saccharomyces cerevisiae H2A.Z Are Highly but Not Differentially Regulated
Monika Mehta, Hannes Braberg, Shuyi Wang, Anita Lozsa, Michael Shales, Alejandra Solache, Nevan J. Krogan, Michael-Christopher Keogh
J Biol Chem. 2010 December 17; 285(51): 39855–39865. Published online 2010 October 14. doi: 10.1074/jbc.M110.185967
PMCID:
PMC3000967
Abstract Full Text Supplementary Material
Identification of response-modulated genetic interactions by sensitivity-based epistatic analysis
Cory Batenchuk, Lioudmila Tepliakova, Mads Kærn
BMC Genomics. 2010; 11: 493. Published online 2010 September 10. doi: 10.1186/1471-2164-11-493
PMCID:
PMC2996989
Abstract Full Text PDF–2.9M 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
Introduction to Focus Issue: Genetic Interactions
Daniel Segrè, Christopher J. Marx
Chaos. 2010 June; 20(2): 026101. Published online 2010 June 30. doi: 10.1063/1.3456057
PMCID:
PMC2909308
Abstract Full Text PDF–77K
Recursive expectation-maximization clustering: A method for identifying buffering mechanisms composed of phenomic modules
Jingyu Guo, Dehua Tian, Brett A. McKinney, John L. Hartman, IV
Chaos. 2010 June; 20(2): 026103. Published online 2010 June 30. doi: 10.1063/1.3455188
PMCID:
PMC2909310
Abstract Full Text PDF–1.1M
ScreenMill: A freely available software suite for growth measurement, analysis and visualization of high-throughput screen data
John C Dittmar, Robert JD Reid, Rodney Rothstein
BMC Bioinformatics. 2010; 11: 353. Published online 2010 June 28. doi: 10.1186/1471-2105-11-353
PMCID:
PMC2909220
Abstract Full Text PDF–1.7M Supplementary Material
A plasma-membrane E-MAP reveals links of the eisosome with sphingolipid metabolism and endosomal trafficking
Pablo S Aguilar, Florian Fröhlich, Michael Rehman, Mike Shales, Igor Ulitsky, Agustina Olivera-Couto, Hannes Braberg, Ron Shamir, Peter Walter, Matthias Mann, Christer S Ejsing, Nevan J Krogan, Tobias C Walther
Nat Struct Mol Biol. Author manuscript; available in PMC 2011 July 1.
Published in final edited form as: Nat Struct Mol Biol. 2010 July; 17(7): 901–908. Published online 2010 June 6. doi: 10.1038/nsmb.1829
PMCID:
PMC3073498
Abstract Full Text PDF–1.9M Supplementary Material
Colonyzer: automated quantification of micro-organism growth characteristics on solid agar
Conor Lawless, Darren J Wilkinson, Alexander Young, Stephen G Addinall, David A Lydall
BMC Bioinformatics. 2010; 11: 287. Published online 2010 May 28. doi: 10.1186/1471-2105-11-287
PMCID:
PMC2901369
Abstract Full Text PDF–2.9M
Quantitative Genetic Interactions Reveal Layers of Biological Modularity
Pedro Beltrao, Gerard Cagney, Nevan J. Krogan
Cell. Author manuscript; available in PMC 2010 September 28.
Published in final edited form as: Cell. 2010 May 28; 141(5): 739–745. doi: 10.1016/j.cell.2010.05.019
PMCID:
PMC2946632
Abstract Full Text PDF–1.0M
Missing value imputation for epistatic MAPs
Colm Ryan, Derek Greene, Gerard Cagney, Pádraig Cunningham
BMC Bioinformatics. 2010; 11: 197. Published online 2010 April 20. doi: 10.1186/1471-2105-11-197
PMCID:
PMC2873538
Abstract Full Text PDF–1.3M 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
Quantitative Genetic Interaction Mapping Using the E-MAP Approach
Sean R. Collins, Assen Roguev, Nevan J. Krogan
Methods Enzymol. Author manuscript; available in PMC 2010 October 20.
Published in final edited form as: Methods Enzymol. 2010; 470: 205–231. Published online 2010 March 1. doi: 10.1016/S0076-6879(10)70009-4
PMCID:
PMC2957675
Abstract Full Text PDF–1.3M
Genome-Wide Association Data Reveal a Global Map of Genetic Interactions among Protein Complexes
Gregory Hannum, Rohith Srivas, Aude Guénolé, Haico van Attikum, Nevan J. Krogan, Richard M. Karp, Trey Ideker
PLoS Genet. 2009 December; 5(12): e1000782. Published online 2009 December 24. doi: 10.1371/journal.pgen.1000782
PMCID:
PMC2788232
Abstract Full Text PDF–2.0M Supplementary Material
Towards accurate imputation of quantitative genetic interactions
Igor Ulitsky, Nevan J Krogan, Ron Shamir
Genome Biol. 2009; 10(12): R140. Published online 2009 December 10. doi: 10.1186/gb-2009-10-12-r140
PMCID:
PMC2812947
Abstract Full Text PDF–1.5M Supplementary Material
A systematic characterization of Cwc21, the yeast ortholog of the human spliceosomal protein SRm300
May Khanna, Harm Van Bakel, Xinyi Tang, John A. Calarco, Tomas Babak, Grace Guo, Andrew Emili, Jack F. Greenblatt, Timothy R. Hughes, Nevan J. Krogan, Benjamin J. Blencowe
RNA. 2009 December; 15(12): 2174–2185. doi: 10.1261/rna.1790509
PMCID:
PMC2779666
Abstract Full Text PDF–974K
An acetylated form of histone H2A.Z regulates chromosome architecture in Schizosaccharomyces pombe
Hyun-Soo Kim, Vincent Vanoosthuyse, Jeffrey Fillingham, Assen Roguev, Stephen Watt, Thomas Kislinger, Alex Treyer, Laura Rocco Carpenter, Christopher S. Bennett, Andrew Emili, Jack F. Greenblatt, Kevin G. Hardwick, Nevan J. Krogan, Jürg Bähler, Michael-Christopher Keogh
Nat Struct Mol Biol. Author manuscript; available in PMC 2010 June 1.
Published in final edited form as: Nat Struct Mol Biol. 2009 December; 16(12): 1286–1293. Published online 2009 November 15. doi: 10.1038/nsmb.1688
PMCID:
PMC2788674
Abstract Full Text PDF–4.7M Supplementary Material
Page of 2 Next Last
You are here: NCBI > Literature > PubMed Central
Write to the Help Desk