Optimal Wiring between Rectangles - Danny Dolev; Kevin Karplus; Alan Siegel; Alex Strong; Jeffrey D. Ullman (STOC, 1981)

CHISEL: an extension to the programming language C for VLSI layout. - Kevin Karplus (1983)

Efficient hardware for multiway jumps and pre-fetches. - Kevin Karplus; Alexandru Nicolau (MICRO, 1985)

Getting High Performance with Slow Memory. - Kevin Karplus; Alexandru Nicolau (COMPCON, 1986)

Finding minimal perfect hash functions. - Gary Haggard; Kevin Karplus (SIGCSE, 1986)

Computing signal delay in general RC networks by tree/link partitioning. - Pak K. Chan; Kevin Karplus (IEEE Trans. Comput. Aided Des. Integr. Circuits Syst., 1990)

Xmap: A Technology Mapper for Table-Lookup Field-Programmable Gate Arrays. - Kevin Karplus (DAC, 1991)

Amap: A Technology Mapper for Selector-Based Field-Programmable Gate Arrays. - Kevin Karplus (DAC, 1991)

Logic Minimization using Two-column Rectangle Replacement. - Søren Søe; Kevin Karplus (DAC, 1991)

A semi-systolic decoder for the PDSC-73 error-correcting code. - Kevin Karplus; Habib Krit (Discret. Appl. Math., 1991)

Evaluating Regularizers for Estimating Distributions of Amino Acids. - Kevin Karplus (ISMB, 1995)

Kestrel: A Programmable Array for Sequence Analysis. - Jeffrey D. Hirschberg; Richard Hughey; Kevin Karplus; Don Speck (ASAP, 1996)

Dirichlet mixtures: a method for improved detection of weak but significant protein sequence homology. - Kimmen Sjölander; Kevin Karplus; Michael Brown; Richard Hughey; Anders Krogh; I. Saira Mian; David Haussler (Comput. Appl. Biosci., 1996)

A Flexible Motif Search Technique Based on Generalized Profiles. - Philipp Bucher; Kevin Karplus; Nicolas Moeri; Kay Hofmann (Comput. Chem., 1996)

Kestrel: Design of an 8-bit SIMD Parallel Processor. - David M. Dahle; Jeffrey D. Hirschberg; Kevin Karplus; Hansjörg Keller; Eric Rice; Don Speck; Douglas H. Williams; Richard Hughey (ARVLSI, 1997)

Scoring hidden Markov models. - Christian Barrett; Richard Hughey; Kevin Karplus (Comput. Appl. Biosci., 1997)

Hidden Markov models for detecting remote protein homologies. - Kevin Karplus; Christian Barrett; Richard Hughey (Bioinform., 1998)

Kestrel: A Programmable Array for Sequence Analysis. - Jeffrey D. Hirschberg; David M. Dahle; Kevin Karplus; Don Speck; Richard Hughey (J. VLSI Signal Process., 1998)

A homolog of mammalian antizyme is present in fission yeast Schizosaccharomyces pombe but not detected in budding yeast Saccharomyces cerevisiae. - Chang Zhu; Kevin Karplus; Leslie Grate; Philip Coffino (Bioinform., 2000)

Evaluation of protein multiple alignments by SAM-T99 using the BAliBASE multiple alignment test set. - Kevin Karplus; Birong Hu (Bioinform., 2001)

Predicting reliable regions in protein sequence alignments. - Melissa S. Cline; Richard Hughey; Kevin Karplus (Bioinform., 2002)

Classifying G-protein coupled receptors with support vector machines. - Rachel Karchin; Kevin Karplus; David Haussler (Bioinform., 2002)

SPrCY: comparison of structural predictions in the Saccharomyces cerevisiae genome. - Todd J. Dolinsky; P. M. J. Burgers; Kevin Karplus; Nathan A. Baker (Bioinform., 2004)

Calibrating E-values for hidden Markov models using reverse-sequence null models. - Kevin Karplus; Rachel Karchin; George Shackelford; Richard Hughey (Bioinform., 2005)

The UCSC Kestrel Parallel Processor. - Andrea Di Blas; David M. Dahle; Mark Diekhans; Leslie Grate; Jeffrey D. Hirschberg; Kevin Karplus; Hansjörg Keller; Mark Kendrick; Francisco J. Mesa-Martinez; David Pease; Eric Rice; Angela Schultz; et al. (IEEE Trans. Parallel Distributed Syst., 2005)

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

Pokefind: a novel topological filter for use with protein structure prediction. - Firas Khatib; Carol A. Rohl; Kevin Karplus (Bioinform., 2009)

SAM-T08, HMM-based protein structure prediction. - Kevin Karplus (Nucleic Acids Res., 2009)

Improving protein secondary structure prediction using a simple k-mer model. - Martin Madera; Ryan Calmus; Grant Thiltgen; Kevin Karplus; Julian Gough (Bioinform., 2010)

Protein Packing Quality Using Delaunay Complexes. - Rasmus Fonseca; Pawel Winter; Kevin Karplus (ISVD, 2011)

Identification of prokaryotic small proteins using a comparative genomic approach. - Josue Samayoa; Fitnat H. Yildiz; Kevin Karplus (Bioinform., 2011)

Analysis of nanopore data using hidden Markov models. - Jacob Schreiber; Kevin Karplus (Bioinform., 2015)