Kevin Karplus

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Richard HugheyProfessor of Computer Engineering and Biomolecular Engineering, University of California Santa CruzVerified email at soe.ucsc.edu
Johannes SödingMax-Planck-Institute for Multidisciplinary Sciences, GöttingenVerified email at mpinat.mpg.de
des higginsUniversity College DublinVerified email at ucd.ie
Melissa ClineAssociate Research Scientist, UC Santa Cruz Genomics InstituteVerified email at ucsc.edu
Rachel KarchinProfessor of Biomedical Engineering, Oncology and Computer Science, Johns Hopkins UniversityVerified email at jhu.edu
David HausslerScientific Director, UC Santa Cruz Genomics Institute, University of California, Santa CruzVerified email at soe.ucsc.edu
Prof. Julian GoughMRC Laboratory of Molecular Biology, CambridgeVerified email at mrc-lmb.cam.ac.uk
Mark DiekhansUniversity of California, Santa Cruz; UC Santa Cruz Genomics InstituteVerified email at soe.ucsc.edu
Kimmen SjolanderProfessor of Bioengineering, University of California, BerkeleyVerified email at berkeley.edu
Mark AkesonProfessor of Biomolecular Engineering, UC Santa CruzVerified email at soe.ucsc.edu
David BakerUniversity of WashingtonVerified email at uw.edu
Yael mandel-gutfreundTechnionVerified email at tx.technion.ac.il
Kay HofmannProfessor of Genetics, University of CologneVerified email at uni-koeln.de
Karen M. OttemannUC Santa CruzVerified email at ucsc.edu
Tim HubbardHead Dept. Medical & Molecular Genetics, King's College London, Director of Bioinformatics, King'sVerified email at kcl.ac.uk
Anders KroghDepartment of Computer Science and Center for Health Data Science, University of CopenhagenVerified email at di.ku.dk
Alex NicolauProfessor of Computer Science, University of CaliforniaVerified email at ics.uci.edu
Philipp BucherGroup leader in Bioinformatics, EPFL and Swiss Institute of Bioinformatics, LausanneVerified email at epfl.ch
Jeffrey UllmanProfessor of Computer Science, Stanford UniversityVerified email at stanford.edu

Kevin Karplus

Professor of Biomolecular Engineering, University of California, Santa Cruz

Verified email at soe.ucsc.edu - Homepage


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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	16086	2011
Hidden Markov models for detecting remote protein homologies. K Karplus, C Barrett, R Hughey Bioinformatics (Oxford, England) 14 (10), 846-856, 1998	1486	1998
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	1482	2009
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	1446	2001
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	720	2012
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	700	1998
Digital synthesis of plucked-string and drum timbres K Karplus, A Strong Computer Music Journal 7 (2), 43-55, 1983	620	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	480	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	393	1996
Classifying G-protein coupled receptors with support vector machines R Karchin, K Karplus, D Haussler Bioinformatics 18 (1), 147-159, 2002	374	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	364	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	256	2003
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	230	1997
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	228	1999
Error rates for nanopore discrimination among cytosine, methylcytosine, and hydroxymethylcytosine along individual DNA strands J Schreiber, ZL Wescoe, R Abu-Shumays, JT Vivian, B Baatar, K Karplus, ... Proceedings of the National Academy of Sciences 110 (47), 18910-18915, 2013	213	2013
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	187	1999
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	182	2006
SAM-T08, HMM-based protein structure prediction K Karplus Nucleic acids research 37 (suppl_2), W492-W497, 2009	181	2009
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	179	2001
Xmap: A technology mapper for table-lookup field-programmable gate arrays K Karplus Proceedings of the 28th ACM/IEEE Design Automation Conference, 240-243, 1991	176	1991

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