Carl Kingsford
Carl Kingsford
Professor, Computational Biology Department, School of Computer Science, Carnegie
Verified email at - Homepage
Cited by
Cited by
Salmon provides fast and bias-aware quantification of transcript expression
R Patro, G Duggal, MI Love, RA Irizarry, C Kingsford
Nature methods 14 (4), 417-419, 2017
A fast, lock-free approach for efficient parallel counting of occurrences of k-mers
G Marçais, C Kingsford
Bioinformatics 27 (6), 764-770, 2011
Sailfish enables alignment-free isoform quantification from RNA-seq reads using lightweight algorithms
R Patro, SM Mount, C Kingsford
Nature biotechnology 32 (5), 462-464, 2014
Rapid, accurate, computational discovery of Rho-independent transcription terminators illuminates their relationship to DNA uptake
CL Kingsford, K Ayanbule, SL Salzberg
Genome biology 8, 1-12, 2007
What are decision trees?
C Kingsford, SL Salzberg
Nature biotechnology 26 (9), 1011-1013, 2008
The power of protein interaction networks for associating genes with diseases
S Navlakha, C Kingsford
Bioinformatics 26 (8), 1057-1063, 2010
Genome analysis linking recent European and African influenza (H5N1) viruses
SL Salzberg, C Kingsford, G Cattoli, DJ Spiro, DA Janies, MM Aly, ...
Emerging infectious diseases 13 (5), 713, 2007
Solving and analyzing side-chain positioning problems using linear and integer programming
CL Kingsford, B Chazelle, M Singh
Bioinformatics 21 (7), 1028-1039, 2005
Global network alignment using multiscale spectral signatures
R Patro, C Kingsford
Bioinformatics 28 (23), 3105-3114, 2012
Identification of alternative topological domains in chromatin
D Filippova, R Patro, G Duggal, C Kingsford
Algorithms for Molecular Biology 9, 1-11, 2014
Assembly complexity of prokaryotic genomes using short reads
C Kingsford, MC Schatz, M Pop
BMC bioinformatics 11, 1-11, 2010
Accurate assembly of transcripts through phase-preserving graph decomposition
M Shao, C Kingsford
Nature biotechnology 35 (12), 1167-1169, 2017
Salmon: accurate, versatile and ultrafast quantification from RNA-seq data using lightweight-alignment
R Patro, G Duggal, C Kingsford
Cold Spring Harbor, 2015
Fast search of thousands of short-read sequencing experiments
B Solomon, C Kingsford
Nature biotechnology 34 (3), 300-302, 2016
Alignment and clustering of phylogenetic markers-implications for microbial diversity studies
JR White, S Navlakha, N Nagarajan, MR Ghodsi, C Kingsford, M Pop
BMC bioinformatics 11, 1-10, 2010
A semidefinite programming approach to side chain positioning with new rounding strategies
B Chazelle, C Kingsford, M Singh
INFORMS Journal on Computing 16 (4), 380-392, 2004
Alignment and mapping methodology influence transcript abundance estimation
A Srivastava, L Malik, H Sarkar, M Zakeri, F Almodaresi, C Soneson, ...
Genome biology 21 (1), 1-29, 2020
Revealing biological modules via graph summarization
S Navlakha, MC Schatz, C Kingsford
Journal of Computational Biology 16 (2), 253-264, 2009
Experimental construction of very large scale DNA databases with associative search capability
JH Reif, TH LaBean, M Pirrung, VS Rana, B Guo, C Kingsford, ...
DNA Computing: 7th International Workshop on DNA-Based Computers, DNA7 Tampa …, 2002
Network archaeology: uncovering ancient networks from present-day interactions
S Navlakha, C Kingsford
PLoS computational biology 7 (4), e1001119, 2011
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