Rachel Karchin

Christopher Douville, Hannah Carter, Rick Kim, Noushin Niknafs, Mark Diekhans, Peter D. Stenson, David N. Cooper, Michael C. Ryan, Rachel Karchin: CRAVAT: cancer-related analysis of variants toolkit. Bioinformatics 29(5): 647-648 (2013)

Melissa S. Cline, Rachel Karchin: Using bioinformatics to predict the functional impact of SNVs. Bioinformatics 27(4): 441-448 (2011)

Wing Chung Wong, Dewey Kim, Hannah Carter, Mark Diekhans, Michael C. Ryan, Rachel Karchin: CHASM and SNVBox: toolkit for detecting biologically important single nucleotide mutations in cancer. Bioinformatics 27(15): 2147-2148 (2011)

Violeta Beleva Guthrie, Jennifer Allen, Manel Camps, Rachel Karchin: Network Models of TEM β-Lactamase Mutations Coevolving under Antibiotic Selection Show Modular Structure and Anticipate Evolutionary Trajectories. PLoS Computational Biology 7(9) (2011)

Michael Ochs, Rachel Karchin, Habtom W. Ressom, Robert Gentleman: Workshop Introduction. Pacific Symposium on Biocomputing 2011: 364-368

Rachel Karchin: Next generation tools for the annotation of human SNPs. Briefings in Bioinformatics 10(1): 35-52 (2009)

Michael C. Ryan, Mark Diekhans, Stephanie Lien, Yun Liu, Rachel Karchin: LS-SNP/PDB: annotated non-synonymous SNPs mapped to Protein Data Bank structures. Bioinformatics 25(11): 1431-1432 (2009)

Ursula Pieper, Narayanan Eswar, Ben M. Webb, David Eramian, Libusha Kelly, David T. Barkan, Hannah Carter, Parminder Mankoo, Rachel Karchin, Marc A. Martí-Renom, Fred P. Davis, Andrej Sali: MODBASE, a database of annotated comparative protein structure models and associated resources. Nucleic Acids Research 37(Database-Issue): 347-354 (2009)

Sol Katzman, Christian Barrett, Grant Thiltgen, Rachel Karchin, Kevin Karplus: PREDICT-2ND: a tool for generalized protein local structure prediction. Bioinformatics 24(21): 2453-2459 (2008)

Rachel Karchin, Alvaro N. A. Monteiro, Sean V. Tavtigian, Marcelo A. Carvalho, Andrej Sali: Functional Impact of Missense Variants in BRCA1 Predicted by Supervised Learning. PLoS Computational Biology 3(2) (2007)

Libusha Kelly, Rachel Karchin, Andrej Sali: Protein Interactions and Disease Phenotypes in the ABC Transporter Superfamily. Pacific Symposium on Biocomputing 2007: 51-63

Ursula Pieper, Narayanan Eswar, Fred P. Davis, Hannes Braberg, Mallur S. Madhusudhan, Andrea Rossi, Marc A. Martí-Renom, Rachel Karchin, Ben M. Webb, David Eramian, Min-Yi Shen, Libusha Kelly, Francisco Melo, Andrej Sali: MODBASE: a database of annotated comparative protein structure models and associated resources. Nucleic Acids Research 34(Database-Issue): 291-295 (2006)

Rachel Karchin, Mark Diekhans, Libusha Kelly, Daryl J. Thomas, Ursula Pieper, Narayanan Eswar, David Haussler, Andrej Sali: LS-SNP: large-scale annotation of coding non-synonymous SNPs based on multiple information sources. Bioinformatics 21(12): 2814-2820 (2005)

Kevin Karplus, Rachel Karchin, George Shackelford, Richard Hughey: Calibrating E-values for hidden Markov models using reverse-sequence null models. Bioinformatics 21(22): 4107-4115 (2005)

Rachel Karchin, Libusha Kelly, Andrej Sali: Improving Functional Annotation of Non-Synonomous SNPs with Information Theory. Pacific Symposium on Biocomputing 2005

Rachel Karchin, Kevin Karplus, David Haussler: Classifying G-protein coupled receptors with support vector machines. Bioinformatics 18(1): 147-159 (2002)

Rachel Karchin, Richard Hughey: Weighting hidden Markov models for maximum discrimination. Bioinformatics 14(9): 772-782 (1998)