Colin Dewey
Colin Dewey
Professor of Biostatistics and Medical Informatics, University of Wisconsin-Madison
Verified email at biostat.wisc.edu - Homepage
Title
Cited by
Cited by
Year
RSEM: accurate transcript quantification from RNA-Seq data with or without a reference genome
B Li, CN Dewey
BMC bioinformatics 12 (1), 323, 2011
77782011
Initial sequencing and comparative analysis of the mouse genome
RH Waterston, K Lindblad-Toh, E Birney, J Rogers, JF Abril, P Agarwal, ...
Nature 420 (6915), 520-562, 2002
70642002
Identification and analysis of functional elements in 1% of the human genome by the ENCODE pilot project
ENCODE Project Consortium
nature 447 (7146), 799, 2007
51212007
De novo transcript sequence reconstruction from RNA-seq using the Trinity platform for reference generation and analysis
BJ Haas, A Papanicolaou, M Yassour, M Grabherr, PD Blood, J Bowden, ...
Nature protocols 8 (8), 1494-1512, 2013
40572013
Sequence and comparative analysis of the chicken genome provide unique perspectives on vertebrate evolution
LDW Hillier, W Miller, E Birney, W Warren, RC Hardison, CP Ponting, ...
Nature 423 (10), 695-777, 2014
23272014
Genome sequence of the Brown Norway rat yields insights into mammalian evolution
RA Gibbs, GM Weinstock, ML Metzker, DM Muzny, EJ Sodergren, ...
Nature 428 (6982), 493-520, 2004
21342004
RNA-Seq gene expression estimation with read mapping uncertainty
B Li, V Ruotti, RM Stewart, JA Thomson, CN Dewey
Bioinformatics 26 (4), 493-500, 2010
8332010
Discovery of functional elements in 12 Drosophila genomes using evolutionary signatures
A Stark, MF Lin, P Kheradpour, JS Pedersen, L Parts, JW Carlson, ...
Nature 450 (7167), 219-232, 2007
6532007
Population genomics: whole-genome analysis of polymorphism and divergence in Drosophila simulans
DJ Begun, AK Holloway, K Stevens, LDW Hillier, YP Poh, MW Hahn, ...
PLoS Biol 5 (11), e310, 2007
6162007
A genome-wide map of conserved microRNA targets in C. elegans
S Lall, D Grün, A Krek, K Chen, YL Wang, CN Dewey, P Sood, T Colombo, ...
Current biology 16 (5), 460-471, 2006
5042006
BUCKy: gene tree/species tree reconciliation with Bayesian concordance analysis
BR Larget, SK Kotha, CN Dewey, C Ané
Bioinformatics 26 (22), 2910-2911, 2010
3562010
Fast statistical alignment
RK Bradley, A Roberts, M Smoot, S Juvekar, J Do, C Dewey, I Holmes, ...
PLoS computational biology 5 (5), e1000392, 2009
3442009
Genomic variation in natural populations of Drosophila melanogaster
CH Langley, K Stevens, C Cardeno, YCG Lee, DR Schrider, JE Pool, ...
Genetics 192 (2), 533-598, 2012
2782012
Analyses of deep mammalian sequence alignments and constraint predictions for 1% of the human genome
EH Margulies, GM Cooper, G Asimenos, DJ Thomas, CN Dewey, A Siepel, ...
Genome research 17 (6), 760-774, 2007
2372007
Evaluation of de novo transcriptome assemblies from RNA-Seq data
B Li, N Fillmore, Y Bai, M Collins, JA Thomson, R Stewart, CN Dewey
Genome biology 15 (12), 553, 2014
1932014
Aligning multiple whole genomes with Mercator and MAVID
CN Dewey
Comparative genomics, 221-235, 2007
1122007
Gata2 cis-element is required for hematopoietic stem cell generation in the mammalian embryo
X Gao, KD Johnson, YI Chang, ME Boyer, CN Dewey, J Zhang, ...
Journal of Experimental Medicine 210 (13), 2833-2842, 2013
1092013
Rbm20 regulates titin alternative splicing as a splicing repressor
S Li, W Guo, CN Dewey, ML Greaser
Nucleic acids research 41 (4), 2659-2672, 2013
1012013
Comparative RNA-seq analysis in the unsequenced axolotl: the oncogene burst highlights early gene expression in the blastema
R Stewart, CA Rascon, S Tian, J Nie, C Barry, LF Chu, H Ardalani, ...
PLoS Comput Biol 9 (3), e1002936, 2013
912013
Discovering transcription factor binding sites in highly repetitive regions of genomes with multi-read analysis of ChIP-Seq data
D Chung, PF Kuan, B Li, R Sanalkumar, K Liang, EH Bresnick, C Dewey, ...
PLoS Comput Biol 7 (7), e1002111, 2011
852011
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