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BMCBI
2011
15 years 1 months ago
RedundancyMiner: De-replication of redundant GO categories in microarray and proteomics analysis
Background: The Gene Ontology (GO) Consortium organizes genes into hierarchical categories based on biological process, molecular function and subcellular localization. Tools such...
Barry Zeeberg, Hongfang Liu, Ari B. Kahn, Martin E...
IV
2008
IEEE
296views Visualization» more  IV 2008»
16 years 22 days ago
Revealing Subnetwork Roles using Contextual Visualization: Comparison of Metabolic Networks
This article is addressing a recurrent problem in biology: mining newly built large scale networks. Our approach consists in comparing these new networks to well known ones. The v...
Romain Bourqui, Fabien Jourdan
RECOMB
2010
Springer
15 years 11 months ago
SubMAP: Aligning Metabolic Pathways with Subnetwork Mappings
Abstract. We consider the problem of aligning two metabolic pathways. Unlike traditional approaches, we do not restrict the alignment to one-to-one mappings between the molecules o...
Ferhat Ay, Tamer Kahveci
SODA
2010
ACM
209views Algorithms» more  SODA 2010»
16 years 3 months ago
Counting Stars and Other Small Subgraphs in Sublinear Time
Detecting and counting the number of copies of certain subgraphs (also known as network motifs or graphlets), is motivated by applications in a variety of areas ranging from Biolo...
Mira Gonen, Dana Ron, Yuval Shavitt
WEA
2010
Springer
330views Algorithms» more  WEA 2010»
16 years 1 months ago
Exact Bipartite Crossing Minimization under Tree Constraints
A tanglegram consists of a pair of (not necessarily binary) trees T1, T2 with leaf sets L1, L2. Additional edges, called tangles, may connect nodes in L1 with those in L2. The task...
Frank Baumann, Christoph Buchheim, Frauke Liers