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and/or belong to a corresponding publishing entity.

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• Strong associations between microbe phenotypes and their network architecture
  S. Roy, V. Filkov
  Physical Review E 80, 040902(R), 2009 (rapid communication)
  
  
• Fair and Balanced? Bias in bug-fix Datasets
  C. Bird, A. Bachmann, E. Aune, J. Duffy, A. Bernstein, V. Filkov, P. Devanbu
  SIGSOFT FSE 2009
  
  
• Modeling and verifying a broad array of network properties
  V. Filkov, Z. M. Saul, S. Roy, R. M. D'Souza, P. T. Devanbu
  EPL (Europhysics Letters) 2009 April; 86(2), 28003
  
  
• From Architecture to Function (and Back) in Bio-networks
  V. FIlkov
  Proceedings of 1st International Conference on Bioinformatics and Computational Bilogy (BICoB) 2009
  
  
• Evolution of Apache Open Source Software
  Hao Ran Wen, Raissa M. D'Souza, Zachary M. Saul, Vladimir Filkov
  chapter in Dynamics On and Of Complex Networks, Birkhauser, Springer. 2009
  
  
• Structure and Dynamics of Research Collaboration in Computer Science
  Christian Bird, Earl Barr, Andre Nash, Premkumar Devanbu, Vladimir Filkov, and Zhendong Su.
  Proceedings of SIAM International Conference on Data Mining (SDM), 2009, 826-837.
  
  
• A Simple Model of the Modular Structure of Transcriptional Regulation in Yeast
  Vladimir Filkov, Nameeta Shah
  Journal of Computational Biology 2008 May; 15(4): 393-405.
  
  
• Latent Social Structure in Open Source Projects
  Christian Bird, David Pattison, Raissa D'Souza, Vladimir Filkov, Premkumar Devanbu
  Proceedings of SIGSOFT FSE 2008, 24-35.
  
  
• Consensus Clustering Algorithms: Comparison and Refinement
  Andrey Goder, Vladimir Filkov
  Proceedings of ALENEX 2008, 109-117.
  
  
• Exploring Biological Network Structure Using Exponential Random Graph Models
  Zachary M. Saul; Vladimir Filkov
  Bioinformatics 2007 Oct 1;23(19):2604-11. 
  
  
• Recommending Random Walks
  Zachary M. Saul, Vladimir Filkov, Premkumar Devanbu, Christian Bird
  Proceedings of ESEC/SIGSOFT FSE 2007, 15-24.
  
  
• Methods for Random Modularization of Biological Networks
  Zachary M. Saul, Vladimir Filkov
  Proceedings of BIBE 2006: 285-288.
  
  
• A Linear-Time Algorithm for the Perfect Phylogeny Haplotyping (PPH) Problem
  Zhihong Ding, Vladimir Filkov, Dan Gusfield
  Journal of Computational Biology 2006 Mar;13(2):522-553
  (a shorter version appeared at RECOMB 2005). 
  
  
• Identifying Gene Regulatory Networks from Gene Expression Data
  Vladimir Filkov
  chapter in Handbook of Computational Molecular Biology (S. Aluru editor), Chapman&Hall/CRC Press 2005.
  
  
• Microarray Data Integration and Top-Down Modeling of Gene Regulation
  Vladimir Filkov (invited)
  Proceedings of 4th Int.Conf. on Informatics and IT, 2004, 423-432. (2004).
  
  
• Regulation Hierarchies from Expression Data
  Vladimir Filkov, Nameeta Shah
  Proceedings of RECOMB Satellite Workshop on Regulatory Genomics, 88-97, 2004.
  
  
• Heterogeneous Data Integration with the Consensus Clustering Formalism
  Vladimir Filkov,  Steven Skiena
  Proceedings of DILS'04, 110-123, 2004.
  
  
• Integrating Microarray Data by Consensus Clustering
  Vladimir Filkov, Steven Skiena
  International Journal on Artificial Intelligence Tools, 13(4): 863-880, 2004 
  
  
• GeneBox: Interactive Visualization of Microarray Data Sets
  Nameeta Shah, Vladimir Filkov, Bernd Hamann, Ken Joy
  Proceedings of METMBS'03, 10-16, 2003.
  
  
• Computational Understanding of Cis-Regions
  Vladimir Filkov, Sorin Istrail (invited)
  Genome Informatics 13:236-239, 2002.
  
  
• Analysis Techniques for Microarray Time-Series Data
  Vladimir Filkov, Steven Skiena, Jizu Zhu
  Journal of Computational Biology 9:317-330, 2002
  (a shorter version appeared at RECOMB 2001).
  
  
• Covering Points on a Circle with Circular Arcs
  Vladimir Filkov
  Proceedings of CCCG 2000.
  
  
• Identifying Gene Regulatory Networks from Experimental Data
  Ting Chen, Vladimir Filkov, Steven Skiena
  Proceedings of RECOMB 1999
  (extended version appeared in Parallel Computing, 27(1-2): 141-162, 2001).