Publications
2003. Transcriptional regulation of protein complexes and biological pathways. Mammalian GenomeMammalian Genome. 14
1995. Genome Sequence Comparison and Scenarios for Gene Rearrangements: A Test Case. GenomicsGenomics. 30
1999. Bacterial Start Site Prediction. Nucleic Acids ResearchNucl. Acids Res.Nucleic Acids ResearchNucl. Acids Res.. 27
1995. Towards a computational theory of genome rearrangements. Computer Science TodayComputer Science Today. 1000
1999. Transforming cabbage into turnip: polynomial algorithm for sorting signed permutations by reversals. J. ACMJ. ACM. 46
2007. Eukaryotic Transcriptional Regulation: Signals, Interactions, and Modules. Computational Genomics: Current MethodsComputational Genomics: Current Methods.
1996. Polynomial-time algorithm for computing translocation distance between genomes. Discrete Applied MathematicsDiscrete Applied Mathematics. 71
2011. Increased methylation variation in epigenetic domains across cancer types. Nature Genetics. 43(8):768-775.
2010. Mimosa: Mixture model of co-expression to detect modulators of regulatory interaction. Algorithms for Molecular BiologyAlgorithms for Molecular Biology. 5
2009. Mimosa: mixture model of co-expression to detect modulators of regulatory interaction. Algorithms in BioinformaticsAlgorithms in Bioinformatics.
2013. Genome sequence of the attenuated Carbosap vaccine strain of Bacillus anthracis. Genome announcements. 1:e00067–12.
2010. Comparative Genomics of Clinical and Environmental Vibrio Mimicus. Proceedings of the National Academy of SciencesPNASProceedings of the National Academy of SciencesPNAS. 107
2011. Metagenomic 16S rDNA Targeted PCR-DGGE in Determining Bacterial Diversity in Aquatic Ecosystem. Bangladesh Journal of MicrobiologyBangladesh Journal of Microbiology. 27
2004. Abstracting workflows: unifying bioinformatics task conceptualization and specification through Semantic Web services. W3C Workshop on Semantic Web for Life Sciences.
2013. Contribution of nucleosome binding preferences and co-occurring DNA sequences to transcription factor binding. BMC Genomics. 14(1):428.
2004. The genome sequence of the anaerobic, sulfate-reducing bacterium Desulfovibrio vulgaris Hildenborough. Nature biotechnologyNature biotechnology. 22
2015. Encyclopedia of MetagenomicsHuman Microbiome, Assembly and Analysis Software, Project. :243-246.
2013. K-mulus: Strategies for BLAST in the cloud. 10th International Conference on Parallel Processing and Applied Mathematics (PPAM).
2013. De novo likelihood-based measures for comparing metagenomic assemblies. 2013 IEEE International Conference on Bioinformatics and Biomedicine (BIBM).
2006. Recurring genomic breaks in independent lineages support genomic fragility. BMC Evolutionary BiologyBMC Evolutionary Biology. 6
2003. Dynamic querying for pattern identification in microarray and genomic data. 2003 International Conference on Multimedia and Expo, 2003. ICME '03. Proceedings. 3
2005. Dynamic Querying for Pattern Identification in Microarray and Genomic Data (2003). Institute for Systems Research Technical ReportsInstitute for Systems Research Technical Reports.