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A Biclique Approach to Reference Anchored Gene Blocks and Its Applications to Pathogenicity Islands [chapter]

Arnon Benshahar, Vered Chalifa-Caspi, Danny Hermelin, Michal Ziv-Ukelson
2016 Lecture Notes in Computer Science  
We implement the algorithm and exemplify its application to LEE, a well-known pathogenicity island from the e. coli genome harboring virulence genes.  ...  We formalize a new problem variant in gene-block discovery, denoted Reference-Anchored Gene Blocks (RAGB).  ...  Colorful Block Bipartite Biclique can be solved in O(2 d nm) time. Fig. 1 . 1 The main result bicluster, anchored by genes 10-13 (escR, escS, escT, and escU) from the LEE pathogenicity Island.  ... 
doi:10.1007/978-3-319-43681-4_2 fatcat:ij5fp35gvfagrkjvvjmh36dxou

Identification of a QTL in Mus musculus for Alcohol Preference, Withdrawal, and Ap3m2 Expression Using Integrative Functional Genomics and Precision Genetics

Jason A. Bubier, Jeremy J. Jay, Christopher L. Baker, Susan E. Bergeson, Hiroshi Ohno, Pamela Metten, John C. Crabbe, Elissa J. Chesler
2014 Genetics  
Combinatorial integration of functional genomics experimental results revealed a single QTL positional candidate gene in one of the loci common to both preference and withdrawal.  ...  Data from multiple such publications and public data resources have been incorporated in the GeneWeaver database with .60,000 gene sets including 285 alcohol withdrawal and preference-related gene sets  ...  Baker and Dr. Michael A. Langston.  ... 
doi:10.1534/genetics.114.166165 pmid:24923803 pmcid:PMC4125407 fatcat:cynyjcdhbfcujguogvu47pnfky