|Fast, scalable generation of high‐quality protein multiple sequence alignments using Clustal Omega|
F Sievers, A Wilm, D Dineen, TJ Gibson, K Karplus, W Li, R Lopez, ...
Molecular systems biology 7 (1), 539, 2011
|Hidden Markov models for detecting remote protein homologies.|
K Karplus, C Barrett, R Hughey
Bioinformatics (Oxford, England) 14 (10), 846-856, 1998
|Assignment of homology to genome sequences using a library of hidden Markov models that represent all proteins of known structure|
J Gough, K Karplus, R Hughey, C Chothia
Journal of molecular biology 313 (4), 903-919, 2001
|Improving physical realism, stereochemistry, and side‐chain accuracy in homology modeling: Four approaches that performed well in CASP8|
E Krieger, K Joo, J Lee, J Lee, S Raman, J Thompson, M Tyka, D Baker, ...
Proteins: Structure, Function, and Bioinformatics 77 (S9), 114-122, 2009
|Sequence comparisons using multiple sequences detect three times as many remote homologues as pairwise methods|
J Park, K Karplus, C Barrett, R Hughey, D Haussler, T Hubbard, C Chothia
Journal of Molecular Biology 284 (4), 1201-1210, 1998
|Automated forward and reverse ratcheting of DNA in a nanopore at 5-Å precision|
GM Cherf, KR Lieberman, H Rashid, CE Lam, K Karplus, M Akeson
Nature biotechnology 30 (4), 344-348, 2012
|Digital synthesis of plucked-string and drum timbres|
K Karplus, A Strong
Computer Music Journal 7 (2), 43-55, 1983
|Dirichlet mixtures: a method for improved detection of weak but significant protein sequence homology|
K Sjölander, K Karplus, M Brown, R Hughey, A Krogh, IS Mian, ...
Bioinformatics 12 (4), 327-345, 1996
|A flexible motif search technique based on generalized profiles|
P Bucher, K Karplus, N Moeri, K Hofmann
Computers & chemistry 20 (1), 3-23, 1996
|Classifying G-protein coupled receptors with support vector machines|
R Karchin, K Karplus, D Haussler
Bioinformatics 18 (1), 147-159, 2002
|Combining local‐structure, fold‐recognition, and new fold methods for protein structure prediction|
K Karplus, R Karchin, J Draper, J Casper, Y Mandel‐Gutfreund, ...
Proteins: Structure, Function, and Bioinformatics 53 (S6), 491-496, 2003
|Hidden Markov models that use predicted local structure for fold recognition: alphabets of backbone geometry|
R Karchin, M Cline, Y Mandel‐Gutfreund, K Karplus
Proteins: Structure, Function, and Bioinformatics 51 (4), 504-514, 2003
|CAFASP‐1: Critical assessment of fully automated structure prediction methods|
D Fischer, C Barret, K Bryson, A Elofsson, A Godzik, D Jones, KJ Karplus, ...
Proteins: Structure, Function, and Bioinformatics 37 (S3), 209-217, 1999
|Predicting protein structure using hidden Markov models|
K Karplus, K Sjölander, C Barrett, M Cline, D Haussler, R Hughey, L Holm, ...
Proteins: Structure, Function, and Bioinformatics 29 (S1), 134-139, 1997
|Predicting protein structure using only sequence information|
K Karplus, C Barrett, M Cline, M Diekhans, L Grate, R Hughey
Proteins: Structure, Function, and Bioinformatics 37 (S3), 121-125, 1999
|What is the value added by human intervention in protein structure prediction?|
K Karplus, R Karchin, C Barrett, S Tu, M Cline, M Diekhans, L Grate, ...
Proteins: Structure, Function, and Bioinformatics 45 (S5), 86-91, 2001
|SAM-T08, HMM-based protein structure prediction|
Nucleic acids research 37 (suppl_2), W492-W497, 2009
|Xmap: A technology mapper for table-lookup field-programmable gate arrays|
Proceedings of the 28th ACM/IEEE Design Automation Conference, 240-243, 1991
|Scoring hidden Markov models|
C Barrett, R Hughey, K Karplus
Bioinformatics 13 (2), 191-199, 1997
|Identification and characterization of RbmA, a novel protein required for the development of rugose colony morphology and biofilm structure in Vibrio cholerae|
JCN Fong, K Karplus, GK Schoolnik, FH Yildiz
Journal of bacteriology 188 (3), 1049-1059, 2006