Genomics and Bioinformatics Group Genomics and Bioinformatics Group Genomics and Bioinformatics Group
Genomics and Bioinformatics Group

2011 Publication

Genomics and Bioinformatics Group
  Home
  Tools
  Molec Maps
  Members
  Contact
Publications
      2017
      2016
      2015
      2014
      2013
      2012
      2011
      2010
      2009
      2008
      2007
      2006
      2005
      2004
      2003
      2002
      2001
      2000
      1999
      Before 1999
      Selected
 

PathVisio-Validator: A Rule-based Validation Plugin for Graphical Pathway Notations.
Bioinformatics. 2011 Dec 22. [Epub ahead of print].
Chandan K, van Iersel MP, Aladjem MI, Kohn KW, Luna A.

Identification of a Predominant Co-Regulation among Kinetochore Genes, Prospective Regulatory Elements, and Association with Genomic Instability.
PLoS One. 2011;6(10):e25991. Epub 2011 Oct 10.
Reinhold WC, Erliandri I, Liu H, Zoppoli G, Pommier Y, Larionov V.

Genome-wide depletion of replication initiation events in highly transcribed regions.
Genome Research. 2011 Sep 22. [Epub ahead of print].
Martin MM, Ryan M, Kim R, Zakas AL, Fu H, Lin CM, Reinhold WC, Davis SR, Bilke S, Liu H, Doroshow JH, Reimers MA, Valenzuela MS, Pommier Y, Meltzer PS, Aladjem MI.

CHEK2 genomic and proteomic analyses reveal genetic inactivation or endogenous activation across the 60 cell lines of the US National Cancer Institute.
Oncogene (2011) 30, 403418; doi:10.1038/onc.2011.283; Epub 18 July 2011.
Zoppoli G, Solier S, Reinhold WC, Liu H, Connelly JW Jr, Monks A, Shoemaker RH, Abaan OD, Davis SR, Meltzer PS, Doroshow JH, Pommier Y.

G4 motifs correlate with promoter-proximal transcriptional pausing of human genes.
Nucleic Acids Research, 2011 Jul;39(12):4975-83. Epub 2011 Mar 3.
Eddy J, Vallur AC, Varma S, Liu H, Reinhold W, Pommier Y and Maizels N.

PathVisio-MIM: PathVisio plugin for creating and editing Molecular Interaction Maps (MIMs).
Bioinformatics. 2011 Aug 1;27(15):2165-6. Epub 2011 Jun 2.
Luna A, Sunshine M, van Iersel MP, Aladjem MI, Kohn KW.

A Formal MIM Specification and Tools for the Common Exchange of MIM Diagrams: an XML-Based Format, an API, and a Validation Method.
BMC Bioinformatics. 2011 May 17;12:167.
Luna A, Karac EI, Sunshine M, Chang L, Nussinov R, Aladjem MI, Kohn KW.

Coordinated regulation of mitochondrial topoisomerase IB with mitochondrial nuclear encoded genes and MYC.
Nucleic Acids Research, 2011, doi: 10.1093/nar/gkr208
Zoppoli G, Douarre C, Dalla Rosa I, Liu H, Reinhold W, Pommier Y.

RedundancyMiner: De-replication of redundant GO categories in microarray and proteomics analysis.
BMC Bioinformatics 2011, 2011 Feb 10;12:52
Barry R Zeeberg, Hongfang Liu, Ari B Kahn, Martin Ehler, Vinodh N Rajapakse, Robert F Bonner, Jacob D Brown, Brian P Brooks, Vladimir L Larionov, William Reinhold, John N Weinstein and Yves G Pommier.

Novel regulation of NF-YB by miR-485-3p affects expression of DNA topoisomerase II{alpha} and drug responsiveness.
Mol Pharmacol. 2011 Jan 20. [Epub ahead of print]
Chen CF, He X, Arslan AD, Mo YY, Reinhold WC, Pommier Y, Beck WT.


Genomics and Pharmacology  Facility
Home Page Link to Center for Cancer Research Home Page Link to National Cancer Institute Home Page Link to National Institutes of Health Link to Department of Health & Human Services Home Page