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Hua K.A, Hannenhalli S. 1991. Parallel transitive closure computations using topological sort. Proceedings of the First International Conference on Parallel and Distributed Information Systems, 1991.

Hotopp JCDunning, Lin M, Madupu R, Crabtree J, Angiuoli SV, Eisen JA, Eisen J, Seshadri R, Ren Q, Wu M et al.. 2006. Comparative genomics of emerging human ehrlichiosis agents. PLoS geneticsPLoS genetics. 2

Hochheiser H, Baehrecke EH, Mount SM, Shneiderman B. 2005. Dynamic Querying for Pattern Identification in Microarray and Genomic Data (2003). Institute for Systems Research Technical ReportsInstitute for Systems Research Technical Reports.

Hochheiser H., Baehrecke E.H, Mount SM, Shneiderman B. 2003. Dynamic querying for pattern identification in microarray and genomic data. 2003 International Conference on Multimedia and Expo, 2003. ICME '03. Proceedings. 3

Hinsch H, Hannenhalli S. 2006. Recurring genomic breaks in independent lineages support genomic fragility. BMC Evolutionary BiologyBMC Evolutionary Biology. 6

Hill CM, Astrovskaya I, Huang H, Koren S, Memon A, Treangen T, Pop M. 2013. De novo likelihood-based measures for comparing metagenomic assemblies. 2013 IEEE International Conference on Bioinformatics and Biomedicine (BIBM).

Hill CM, Albach CH, Angel S, Pop M.. 2013. K-mulus: Strategies for BLAST in the cloud. 10th International Conference on Parallel Processing and Applied Mathematics (PPAM).

Pop M. 2015. Encyclopedia of MetagenomicsHuman Microbiome, Assembly and Analysis Software, Project. :243-246.

Heidelberg JF, Seshadri R, Haveman SA, Hemme CL, Paulsen IT, Kolonay JF, Eisen JA, Ward N, Methe B, Brinkac LM et al.. 2004. The genome sequence of the anaerobic, sulfate-reducing bacterium Desulfovibrio vulgaris Hildenborough. Nature biotechnologyNature biotechnology. 22

He X, Chatterjee R, John S, Bravo H, Sathyanarayana BK, Biddie SC, FitzGerald PC, Stamatoyannopoulos JA, Hager GL, Vinson C. 2013. Contribution of nucleosome binding preferences and co-occurring DNA sequences to transcription factor binding. BMC Genomics. 14(1):428.

Hashmi N., Lee S., Cummings MP. 2004. Abstracting workflows: unifying bioinformatics task conceptualization and specification through Semantic Web services. W3C Workshop on Semantic Web for Life Sciences.

Hasan NA, W. Chowdhury B, Rahim N, Sultana M, S. Shabnam A, Mai V, Ali A, Morris GJ, R. Sack B, Huq A et al.. 2011. Metagenomic 16S rDNA Targeted PCR-DGGE in Determining Bacterial Diversity in Aquatic Ecosystem. Bangladesh Journal of MicrobiologyBangladesh Journal of Microbiology. 27

Hasan NA, Grim CJ, Haley BJ, Jongsik C, Alam M, Taviani E, Mozammel H, A. Munk C, Colwell RR. 2010. Comparative Genomics of Clinical and Environmental Vibrio Mimicus. Proceedings of the National Academy of SciencesPNASProceedings of the National Academy of SciencesPNAS. 107

Harrington R, Ondov BD, Radune D, Friss MBeth, Klubnik J, Diviak L, Hnath J, Cendrowski SR, Blank TE, Karaolis D et al.. 2013. Genome sequence of the attenuated Carbosap vaccine strain of Bacillus anthracis. Genome announcements. 1:e00067–12.

Hansen KDaniel, Timp W, Bravo HCorrada, Sabunciyan S, Langmead B, McDonald OG, Wen B, Wu H, Liu Y, Diep D et al.. 2011. Increased methylation variation in epigenetic domains across cancer types. Nature Genetics. 43(8):768-775.

Hansen M., Everett L., Singh L., Hannenhalli S. 2009. Mimosa: mixture model of co-expression to detect modulators of regulatory interaction. Algorithms in BioinformaticsAlgorithms in Bioinformatics.

Hansen M, Everett L, Singh L, Hannenhalli S. 2010. Mimosa: Mixture model of co-expression to detect modulators of regulatory interaction. Algorithms for Molecular BiologyAlgorithms for Molecular Biology. 5

Hannenhalli S, Putt ME, Gilmore JM, Wang J, Parmacek MS, Epstein JA, Morrisey EE, Margulies KB, Cappola TP. 2006. Transcriptional Genomics Associates FOX Transcription Factors With Human Heart Failure. CirculationCirculation. 114

Hannenhalli S. 2007. Eukaryotic Transcriptional Regulation: Signals, Interactions, and Modules. Computational Genomics: Current MethodsComputational Genomics: Current Methods.

Hannenhalli S, Pevzner P. 1996. To cut… or not to cut (applications of comparative physical maps in molecular evolution). Proceedings of the seventh annual ACM-SIAM symposium on Discrete algorithms.

Hannenhalli S. 2008. BIOINFORMATICS REVIEW. BIOINFORMATICSBioinformatics. 24

Hannenhalli S, Russell R.B. 2001. Analysis and prediction of protein functional sub-types from protein sequence alignments.

Hannenhalli S, Hubbell E, Lipshutz R, Pevzner P. 2002. Combinatorial Algorithms for Design of DNA Arrays. Chip TechnologyChip Technology. 77

Hannenhalli S, Pevzner P.A. 1995. Transforming men into mice (polynomial algorithm for genomic distance problem). Foundations of Computer Science, Annual IEEE Symposium on.

Hannenhalli S. 2008. Eukaryotic Transcription Factor Binding Sites—modeling and Integrative Search Methods. BioinformaticsBioinformaticsBioinformaticsBioinformatics. 24

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