The documents available on this page may be copyrighted,
and/or belong to a corresponding publishing entity.

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Preprints:

• "Graphlet Arrival: Modeling and verifying a broad array of network properties"
  Z. M. Saul, S. Roy, R. M. D'Souza, P. T. Devanbu, V. Filkov,
  arXiv:0805.1489.

• 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. In press, 2008.

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• 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.
  
  
• Chapels in the Bazaar? Latent Social Structure in OSS
  Christian Bird, David Pattison, Raissa D'Souza, Vladimir Filkov, Premkumar Devanbu
  SIGSOFT FSE 2008, Accepted.
  
  
• 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).