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clusterMaker: a multi-algorithm clustering plugin for Cytoscape
The Index-Based Subgraph Matching Algorithm (ISMA): Fast Subgraph Enumeration in Large Networks Using Optimized Search Trees

CAVER Analyst 2.0: analysis and visualization of channels and tunnels in protein structures and molecular dynamics trajectories
Large scale clustering of protein sequences with FORCE -A layout based heuristic for weighted cluster editing

BLSSpeller: exhaustive comparative discovery of conserved cis-regulatory elements
Bi-Force: large-scale bicluster editing and its application to gene expression data biclustering

BNDB – The Biochemical Network Database
Verification, model checking, and abstract interpretation 9th International Conference, VMCAI 2008, San Francisco, USA, January 7-9, 2008: proceedings /

Languages, methodologies and development tools for multi-agent systems First International Workshop, LADS 2007, Durham, UK, September 4-6, 2007 : revised selected papers /
Principles of digital image processing advanced methods /

Reflections on the teaching of programming methods and implementations /
Grid and services evolution

Tests and proofs first international conference, TAP 2007, Zurich, Switzerland, February 12-13, 2007 : revised papers /
Model checking software 15th International SPIN Workshop, Los Angeles, CA, USA, August 10-12, 2008 : proceedings /

Fifth IFIP International Conference on Theoretical Computer Science - TCS 2008 IFIP 20th World Computer Congress, TC 1, Foundations of Computer Science, September 7-10, 2008, Milano, Italy /
Formal foundations of reuse and domain engineering 11th International Conference on Software Reuse, ICSR 2009, Falls Church, VA, USA, September 27-30, 2009 : proceedings /

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