Publications by authors named "Martin Tompa"

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Following the 'tracks': Tramtrack69 regulates epithelial tube expansion in the Drosophila ovary through Paxillin, Dynamin, and the homeobox protein Mirror.
Nathaniel C Peters, Nathaniel H Thayer, Scott A Kerr, Martin Tompa, Celeste A Berg

Dev Biol· June 2013

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Identification of the Treponema pallidum subsp. pallidum TP0092 (RpoE) regulon and its implications for pathogen persistence in the host and syphilis pathogenesis.
Lorenzo Giacani, Oleg Denisenko, Martin Tompa, Arturo Centurion-Lara

J Bacteriol· February 2013

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Comparative assessment of methods for aligning multiple genome sequences.
Xiaoyu Chen, Martin Tompa

Nat Biotechnol· June 2010

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Assessing the discordance of multiple sequence alignments.
Amol Prakash, Martin Tompa

IEEE/ACM Trans Comput Biol Bioinform· February 2010

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Meta-analysis of inter-species liver co-expression networks elucidates traits associated with common human diseases.
Kai Wang, Manikandan Narayanan, Hua Zhong, Martin Tompa, Eric E Schadt

PLoS Comput Biol· December 2009

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Algorithms for locating extremely conserved elements in multiple sequence alignments.
Huei-Hun E Tseng, Martin Tompa

BMC Bioinformatics· December 2009

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TP0262 is a modulator of promoter activity of tpr Subfamily II genes of Treponema pallidum ssp. pallidum.
Lorenzo Giacani, Charmie Godornes, Maritza Puray-Chavez, Cristina Guerra-Giraldez, Martin Tompa

Mol Microbiol· June 2009

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Measuring the accuracy of genome-size multiple alignments.
Amol Prakash, Martin Tompa

Genome Biol· February 2008

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How accurately is ncRNA aligned within whole-genome multiple alignments?
Adrienne X Wang, Walter L Ruzzo, Martin Tompa

BMC Bioinformatics· October 2007

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Identification of 22 candidate structured RNAs in bacteria using the CMfinder comparative genomics pipeline.
Zasha Weinberg, Jeffrey E Barrick, Zizhen Yao, Adam Roth, Jane N Kim, Martin Tompa

Nucleic Acids Res· September 2007

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A computational pipeline for high- throughput discovery of cis-regulatory noncoding RNA in prokaryotes.
Zizhen Yao, Jeffrey Barrick, Zasha Weinberg, Shane Neph, Ronald Breaker, Martin Tompa

PLoS Comput Biol· July 2007

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Mis-translation of a computationally designed protein yields an exceptionally stable homodimer: implications for protein engineering and evolution.
Gautam Dantas, Alexander L Watters, Bradley M Lunde, Ziad M Eletr, Nancy G Isern, Martin Tompa

J Mol Biol· October 2006

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MicroFootPrinter: a tool for phylogenetic footprinting in prokaryotic genomes.
Shane Neph, Martin Tompa

Nucleic Acids Res· July 2006

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Analysis of computational approaches for motif discovery.
Nan Li, Martin Tompa

Algorithms Mol Biol· May 2006

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Discovery of regulatory elements in vertebrates through comparative genomics.
Amol Prakash, Martin Tompa

Nat Biotechnol· October 2005

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Statistics of local multiple alignments.
Amol Prakash, Martin Tompa

Bioinformatics· June 2005

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Assessing computational tools for the discovery of transcription factor binding sites.
Martin Tompa, Nan Li, Timothy L Bailey, George M Church, Bart De Moor

Nat Biotechnol· January 2005

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PhyME: a probabilistic algorithm for finding motifs in sets of orthologous sequences.
Saurabh Sinha, Mathieu Blanchette, Martin Tompa

BMC Bioinformatics· October 2004

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Evolutionarily conserved sequence elements that positively regulate IFN-gamma expression in T cells.
Maria Shnyreva, William M Weaver, Mathieu Blanchette, Scott L Taylor, Martin Tompa

Proc Natl Acad Sci U S A· August 2004

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YMF: A program for discovery of novel transcription factor binding sites by statistical overrepresentation.
Saurabh Sinha, Martin Tompa

Nucleic Acids Res· July 2003

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FootPrinter: A program designed for phylogenetic footprinting.
Mathieu Blanchette, Martin Tompa

Nucleic Acids Res· July 2003

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Rv3133c/dosR is a transcription factor that mediates the hypoxic response of Mycobacterium tuberculosis.
Heui-Dong Park, Kristi M Guinn, Maria I Harrell, Reiling Liao, Martin I Voskuil, Martin Tompa

Mol Microbiol· May 2003

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Discovery of novel transcription factor binding sites by statistical overrepresentation.
Saurabh Sinha, Martin Tompa

Nucleic Acids Res· December 2002

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Finding motifs using random projections.
Jeremy Buhler, Martin Tompa

J Comput Biol· October 2002

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Construction of optimal quality control for oligo arrays.
Charles J Colbourn, Alan C H Ling, Martin Tompa

Bioinformatics· April 2002

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