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Panayiotis (Takis) Benos
Department of Computational Biology, University of Pittsburgh, Pittsburgh, United States of America

Faculty Member: Genomics & Genetics > Bioinformatics [ since 8 October 2007 ]
[ Biography ] [ Homepage ] [ Evaluations ]
Biography

Takis Benos' research focuses on the study of gene regulation at the transcriptional and post-transcriptional level and the evolution of gene regulatory networks. With undergraduate studies in mathematics, he was later attracted to molecular biology. He earned a PhD degree for his work on the molecular cloning and phylogenetic analysis of alcohol dehydrogenase genes in Diptera. As a post-doc, he worked on the analysis and annotation of the Drosophila melanogaster genome with Michael Ashburner (at EMBL-EBI in Cambridge, U.K.); and the development of probabilistic algorithms for modelling protein-DNA interactions with Gary Stormo (at Washington University in St. Louis). In 2002 he joined University of Pittsburgh and he is currently Assistant Professor of Computational Biology, while he holds joint appointments at the University of Pittsburgh Cancer Institute (UPCI) and the Department of Biomedical Informatics, University of Pittsburgh School of Medicine.

Home page

http://www.benoslab.pitt.edu

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Evaluations

Tiny RNAs associated with transcription start sites in animals.
Taft RJ, Glazov EA, …, Hayashizaki Y, Mattick JS
Nat Genet 2009 May 41(5):572-8 [abstract on PubMed] [related articles] [full text] [order article]
Selected by | Stephan Persengiev and Bart Roep / Panayiotis (Takis) Benos
Evaluated 7 Jan 2010

Systematic analysis of dynamic miRNA-target interactions during C. elegans development.
Zhang L, Hammell M, …, Ambros V, Han M
Development 2009 Sep 136(18):3043-55 [abstract on PubMed] [related articles] [full text] [order article]
Selected by | Helen Chamberlin / Panayiotis (Takis) Benos
Evaluated 10 Nov 2009

Genome evolution and adaptation in a long-term experiment with Escherichia coli.
Barrick JE, Yu DS, …, Lenski RE, Kim JF
Nature 2009 Oct 29 461(7268):1243-7 [abstract on PubMed] [related articles] [full text] [order article]
Selected by | Ulf Pettersson / Panayiotis (Takis) Benos / Jamie Snider and Igor Stagljar / Julien Dutheil and Nicolas Galtier / Douglas Bartlett
Evaluated 10 Nov 2009

New class of microRNA targets containing simultaneous 5'-UTR and 3'-UTR interaction sites.
Lee I, Ajay SS, …, Chinnaiyan AM, Athey BD
Genome Res 2009 Jul 19(7):1175-83 [abstract on PubMed] [related articles] [FREE full text]
Selected by | Panayiotis (Takis) Benos
Evaluated 7 Aug 2009

On reliable discovery of molecular signatures.
Nilsson R, Björkegren J, Tegnér J
BMC Bioinformatics 2009 10:38 [abstract on PubMed] [related articles] [FREE full text]
Selected by | Charles Auffray / Panayiotis (Takis) Benos
Evaluated 2 Jun 2009

The mechanism of micro-RNA-mediated translation repression is determined by the promoter of the target gene.
Kong YW, Cannell IG, …, Willis AE, Bushell M
Proc Natl Acad Sci U S A 2008 Jul 1 105(26):8866-71 [abstract on PubMed] [related articles] [full text] [order article]
Selected by | Fritz Eckstein / Matthew Sachs / Panayiotis (Takis) Benos
Evaluated 10 Mar 2009

Removal of AU bias from microarray mRNA expression data enhances computational identification of active microRNAs.
Elkon R, Agami R
PLoS Comput Biol 2008 4(10):e1000189 [abstract on PubMed] [related articles] [FREE full text]
Selected by | Panayiotis (Takis) Benos
Evaluated 22 Oct 2008

Evolution of evolvability in gene regulatory networks.
Crombach A, Hogeweg P
PLoS Comput Biol 2008 Jul 4(7):e1000112 [abstract on PubMed] [related articles] [FREE full text]
Selected by | Panayiotis (Takis) Benos / Nicola Mulder
Evaluated 1 Aug 2008

Discovering motifs in ranked lists of DNA sequences.
Eden E, Lipson D, Yogev S, Yakhini Z
PLoS Comput Biol 2007 Mar 23 3(3):e39 [abstract on PubMed] [related articles] [FREE full text]
Selected by | Panayiotis (Takis) Benos
Evaluated 13 Jun 2008

The genetic code is nearly optimal for allowing additional information within protein-coding sequences.
Itzkovitz S, Alon U
Genome Res 2007 Apr 17(4):405-12 [abstract on PubMed] [related articles] [FREE full text]
Selected by | Lawrence Chasin / Panayiotis (Takis) Benos
Evaluated 8 Apr 2008

Genome-wide investigation reveals pathogen-specific and shared signatures in the response of Caenorhabditis elegans to infection.
Wong D, Bazopoulou D, …, Tavernarakis N, Ewbank JJ
Genome Biol 2007 8(9):R194 [abstract on PubMed] [related articles] [FREE full text]
Selected by | Niyaz Ahmed / Panayiotis (Takis) Benos
Evaluated 6 Dec 2007

Deletion of ultraconserved elements yields viable mice.
Ahituv N, Zhu Y, …, Pennacchio LA, Rubin EM
PLoS Biol 2007 Sep 5(9):e234 [abstract on PubMed] [related articles] [FREE full text]
Selected by | Jane Hewitt / Andrew S. McCallion / Panayiotis (Takis) Benos
Evaluated 29 Nov 2007

More genes underwent positive selection in chimpanzee evolution than in human evolution.
Bakewell MA, Shi P, Zhang J
Proc Natl Acad Sci U S A 2007 May 1 104(18):7489-94 [abstract on PubMed] [related articles] [FREE full text]
Selected by | Mark D Adams / Andreas Wagner / Panayiotis (Takis) Benos
Evaluated 15 Nov 2007

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