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Reverse Engineering the Evolution of Protein Interaction Networks.
In Pacific Symposium on Biocomputing (PSB 2009),
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Crystal L. Kahn, Benjamin J. Raphael.
A Parsimony Approach to Analysis of Human Segmental Duplications.
In Pacific Symposium on Biocomputing (PSB 2009),
14 volume of pp. 126-137, 2009.
[ Abstract ] [ Download from publisher ] [ BibTeX ]
Tara A. Gianoulis, Jeroen Raes, Prianka V. Patel, Robert Bjornson, Jan O. Korbel, Ivica Letunic, Takuji Yamada, Alberto Paccanaro, Lars J. Jensen, Michael Snyder, Peer Bork, Mark B. Gerstein.
Quantifying environmental adaptation of metabolic pathways in metagenomics.
Proceedings of the National Academy of Sciences of the United States of America,
106(5):1374-1379.
2009.
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Elhanan Borenstein, Marcus W. Feldman.
Topological signatures of species interactions in metabolic networks.
Journal of computational biology : a journal of computational molecular cell biology,
16(2):191-200.
2009.
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Umadevi Paila, Rohini Kondam, Akash Ranjan.
Genome bias influences amino acid choices: analysis of amino acid substitution and re-compilation of substitution matrices exclusive to an AT-biased genome.
Nucleic acids research,
36(21):6664-6665.
2008.
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Simon Wong, Mark A. Ragan.
MACHOS: Markov clusters of homologous subsequences.
Bioinformatics,
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2008.
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Jennifer L. Caswell, Swapan Mallick, Daniel J. Richter, Julie Neubauer, Christine Schirmer, Sante Gnerre, David Reich.
Analysis of chimpanzee history based on genome sequence alignments.
PLoS Genet,
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2008.
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Gary Hon, Bing Ren, Wei Wang.
ChromaSig: a probabilistic approach to finding common chromatin signatures in the human genome.
PLoS Comput Biol,
4(10):e1000201.
2008.
[ Abstract ] [ Download from publisher ] [ BibTeX ] [ PubMed ]
Naomi Habib, Tommy Kaplan, Hanah Margalit, Nir Friedman.
A novel Bayesian DNA motif comparison method for clustering and retrieval.
PLoS Comput Biol,
4(2):e1000010.
2008.
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Mario Stanke, Mark Diekhans, Robert Baertsch, David Haussler.
Using native and syntenically mapped cDNA alignments to improve de novo gene finding.
Bioinformatics,
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2008.
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Tyler S. Alioto, Roderic Guigo, Ernesto Picardi, Graziano Pesole.
GenePC and ASPIC Integrate Gene Predictions with Expressed Sequence Alignments To Predict Alternative Transcripts.
In APBC 2008,
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[ Abstract ] [ Download from publisher ] [ BibTeX ]
Jun Z. Li, Devin M. Absher, Hua Tang, Audrey M. Southwick, Amanda M. Casto, Sohini Ramachandran, Howard M. Cann, Gregory S. Barsh, Marcus Feldman, Luigi L. Cavalli-Sforza, Richard M. Myers.
Worldwide human relationships inferred from genome-wide patterns of variation.
Science,
319(5866):1100-1104.
2008.
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Vidushi S. Patel, Steven J. B. Cooper, Janine E. Deakin, Bob Fulton, Tina Graves, Wesley C. Warren, Richard K. Wilson, Jennifer A. M. Graves.
Platypus globin genes and flanking loci suggest a new insertional model for beta-globin evolution in birds and mammals.
BMC biology,
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2008.
[ Abstract ] [ Download from publisher ] [ BibTeX ] [ PubMed ]
Peter Donnelly.
Progress and challenges in genome-wide association studies in humans.
Nature,
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2008.
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Alexander Stark, Pouya Kheradpour, Leopold Parts, Julius Brennecke, Emily Hodges, Gregory J. Hannon, Manolis Kellis.
Systematic discovery and characterization of fly microRNAs using 12 Drosophila genomes.
Genome research,
17(12):1865-1869.
2007.
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Olivier Elemento, Noam Slonim, Saeed Tavazoie.
A universal framework for regulatory element discovery across all genomes and data types.
Molecular cell,
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2007.
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Miklos Csuros, J. Andrew Holey, Igor B. Rogozin.
In search of lost introns.
Bioinformatics,
23(13):i87-96.
2007.
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Ting Wang, Jue Zeng, Craig B. Lowe, Robert G. Sellers, Sofie R. Salama, Min Yang, Shawn M. Burgess, Rainer K. Brachmann, David Haussler.
Species-specific endogenous retroviruses shape the transcriptional network of the human tumor suppressor protein p53.
Proceedings of the National Academy of Sciences of the United States of America,
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2007.
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Ariel Jaimovich, Gal Elidan, Hanah Margalit, Nir Friedman.
Towards an integrated protein-protein interaction network: a relational Markov network approach.
Journal of computational biology : a journal of computational molecular cell biology,
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