Journal Articles

(Publications are listed alphabetically by title)

Pages

Celikkan U, Cleaveland R. Generating diagnostic information for behavioral preorders. Distributed computing. 1995;9(2):61-75.

Labrinidis A, Roussopoulos N. Generating dynamic content at database-backed web servers. ACM SIGMOD RecordSIGMOD Rec.. 2000;29(1):26-31.

Yuan X, Memon AM. Generating Event Sequence-Based Test Cases Using GUI Runtime State Feedback. Software Engineering, IEEE Transactions on. 2010;36(1):81-95.

Madnani N, Dorr BJ. Generating Phrasal and Sentential Paraphrases: A Survey of Data-Driven Methods. Computational Linguistics. 2010;36(3):341-387.

Wald J, Farach M, Tagamets M, Reggia JA. Generating plausible diagnostic hypotheses with self-processing causal networks. Journal of Experimental & Theoretical Artificial Intelligence. 1989;1(2):91-112.

Das D, Gupta SK, Nau DS. Generating redesign suggestions to reduce setup cost: a step towards automated redesign. Computer-Aided Design. 1996;28(10):763-782.

Banerjee AG, Balijepalli A, Gupta SK, LeBrun TW. Generating simplified trapping probability models from simulation of optical tweezers system. Journal of Computing and Information Science in Engineering. 2009;9:021003.

Mohammad S, Dorr BJ, Egan M, Hassan A, Muthukrishan P, Qazvinian V, et al. Generating surveys of scientific paradigms. Proceedings of HLT-NAACL. 2009.

Cleaveland R, Sims ST. Generic tools for verifying concurrent systems. Science of Computer Programming. 2002;42(1):39-47.

Cummings MP, Otto SP, Wakeley J. Genes and other samples of DNA sequence data for phylogenetic inference. The Biological Bulletin. 1999;196(3):345-350.

Rohlfing A-, Miteva Y, Hannenhalli S, Lamitina T. Genetic and Physiological Activation of Osmosensitive Gene Expression Mimics Transcriptional Signatures of Pathogen Infection in C. elegans. PLoS ONEPLoS ONE. 2010;5(2):e9010.

Rashed S., Mannan S., Johura F., Islam M., Sadique A., Watanabe H., et al. Genetic characteristics of drug-resistant Vibrio cholerae O1 causing endemic cholera in Dhaka, 2006-2011. Journal of Medical Microbiology. 2012:1736-1745.

Neel MC, Cummings MP. Genetic consequences of ecological reserve design guidelines: An empirical investigation. Conserv Genet. 2003;4(4):427-439.

Mount SM. Genetic depletion reveals an essential role for an SR protein splicing factor in vertebrate cells. BioEssays. 1997;19(3):189-192.

Peng X, Mount SM. Genetic enhancement of RNA-processing defects by a dominant mutation in B52, the Drosophila gene for an SR protein splicing factor. Molecular and Cellular BiologyMol. Cell. Biol.. 1995;15(11):6273-6282.

Clayton C, Adams M, Almeida R, Baltz T, Barrett M, Bastien P, et al. Genetic nomenclature for Trypanosoma and Leishmania. Molecular and biochemical parasitology. 1998;97(1-2):221.

Clayton C, Adams M, Almeida R, Baltz T, Barrett M, Bastien P, et al. Genetic nomenclature for Trypanosoma and Leishmania. Mol Biochem Parasitol. 1998;97(1-2):221-4.

Salzberg SL, Kingsford C, Cattoli G, Spiro DJ, Janies DA, Aly M, et al. Genome Analysis Linking Recent European and African Influenza (H5N1) Viruses. Emerging Infectious DiseasesEmerg Infect Dis. 2007;13(5):713-718.

Phillippy AM, Schatz MC, Pop M. Genome assembly forensics: finding the elusive mis-assembly. Genome Biology. 2008;9(3):R55.

Pop M. Genome Assembly Reborn: Recent Computational Challenges. Briefings in Bioinformatics. 2009;10(4):354-366.

Brettin T, Bruce D, Challacombe J, Detter J, Han C, Munik C[, et al. Genome assortment, not serogroup, defines Vibrio cholerae pandemic strains. Nature. 2009.

Carlton JM, Angiuoli SV, Suh BB, Kooij TW, Pertea M, Silva JC, et al. Genome sequence and comparative analysis of the model rodent malaria parasite Plasmodium yoelii yoelii. Nature. 2002;419(6906):512-519.

Hannenhalli S, Chappey C, Koonin EV, Pevzner PA. Genome Sequence Comparison and Scenarios for Gene Rearrangements: A Test Case. Genomics. 1995;30(2):299-311.

Grim CJ, Hasan NA, Taviani E, Haley B, Chun J, Brettin TS, et al. Genome Sequence of Hybrid Vibrio Cholerae O1 MJ-1236, B-33, and CIRS101 and Comparative Genomics with V. Cholerae. Journal of BacteriologyJ. Bacteriol.. 2010;192(13):3524-3533.

Lewinski MK, Bisgrove D, Shinn P, Chen H, Hoffmann C, Hannenhalli S, et al. Genome-Wide Analysis of Chromosomal Features Repressing Human Immunodeficiency Virus Transcription. Journal of VirologyJ. Virol.. 2005;79(11):6610-6619.

Sethupathy P, Giang H, Plotkin JB, Hannenhalli S. Genome-Wide Analysis of Natural Selection on Human Cis-Elements. PLoS ONEPLoS ONE. 2008;3(9):e3137.

Nagarajan N, Navajas-Pérez R, Pop M, Alam M, Ming R, Paterson A, et al. Genome-Wide Analysis of Repetitive Elements in Papaya. Tropical Plant Biology. 2008;1(3):191-201.

Bushman F, Lewinski M, Ciuffi A, Barr S, Leipzig J, Hannenhalli S, et al. Genome-wide analysis of retroviral DNA integration. Nat Rev MicroNat Rev Micro. 2005;3(11):848-858.

Yang S, Wang K, Valladares O, Hannenhalli S, Bucan M. Genome-wide expression profiling and bioinformatics analysis of diurnally regulated genes in the mouse prefrontal cortex. Genome Biology. 2007;8(11):R247.

Vishnoi A, Sethupathy P, Simola D, Plotkin JB, Hannenhalli S. Genome-Wide Survey of Natural Selection on Functional, Structural, and Network Properties of Polymorphic Sites in Saccharomyces Paradoxus. Molecular Biology and EvolutionMol Biol Evol. 2011;28(9):2615-2627.

Taviani E, Spagnoletti M, Ceccarelli D, Haley BJ, Hasan NA, Chen A, et al. Genomic analysis of ICE Vch Ban8: An atypical genetic element in Vibrio cholerae. FEBS Letters. 2012;(11):1617-1621.

Chen PE, Cook C, Stewart AC, Nagarajan N, Sommer DD, Pop M, et al. Genomic characterization of the Yersinia genus. Genome biology. 2010;11(1).

Hasan N., Choi S., Eppinger M., Clark P., Chen A., Alam M., et al. Genomic diversity of 2010 Haitian cholera outbreak strains. Proceedings of the National Academy of Sciences. 2012:E2010-E2017.

Dupont CL, Rusch DB, Yooseph S, Lombardo M-, R Richter A, Valas R, et al. Genomic insights to SAR86, an abundant and uncultivated marine bacterial lineage. ISME J. 2012;6(6):1186-99.

Tighe S, Afshinnekoo E, Rock TM, McGrath K, Alexander N, McIntyre A, et al. Genomic Methods and Microbiological Technologies for Profiling Novel and Extreme Environments for the Extreme Microbiome Project (XMP). Journal of Biomolecular Techniques : JBT. 2017;28(1):31-39.

Zo YG, Rivera IN, Russek-Cohen E, Islam MS, Siddique AK, Yunus M, et al. Genomic profiles of clinical and environmental isolates of Vibrio cholerae O1 in cholera-endemic areas of Bangladesh. Proceedings of the National Academy of Sciences. 2002;99(19):12409.

Mount SM. Genomic Sequence, Splicing, and Gene Annotation. American Journal of Human GeneticsAm J Hum Genet. 2000;67(4):788-792.

Priyadarshi AK, Gupta SK. Geometric algorithms for automated design of multi-piece permanent molds. Computer-Aided Design. 2004;36(3):241-260.

Li X, Gupta SK. Geometric algorithms for automated design of rotary-platen multi-shot molds. Computer-Aided Design. 2004;36(12):1171-1187.

Gupta SK, Saini SK, Spranklin BW, Yao Z. Geometric algorithms for computing cutter engagement functions in 2.5D milling operations. Computer-Aided Design. 2005;37(14):1469-1480.

Karnik M, Gupta SK, Magrab EB. Geometric algorithms for containment analysis of rotational parts. Computer-Aided Design. 2005;37(2):213-230.

Arkin EM, Khuller S, Mitchell JS. Geometric knapsack problems. Algorithmica. 1993;10(5):399-427.

Banerjee A, Gupta SK. Geometrical algorithms for automated design of side actions in injection moulding of complex parts. Computer-Aided Design. 2007;39(10):882-897.

Bertotti G, Mayergoyz ID, Serpico C, d'Aquino M. Geometrical analysis of precessional switching and relaxation in uniformly magnetized bodies. Magnetics, IEEE Transactions on. 2003;39(5):2501-2503.

Lee CH, Hao X, Varshney A. Geometry-dependent lighting. Visualization and Computer Graphics, IEEE Transactions on. 2006;12(2):197-207.

Hao X, Varshney A. Geometry-guided computation of 3D electrostatics for large biomolecules. Computer Aided Geometric Design. 2006;23(6):545-557.

Yacoob Y, Davis LS. Gesture-Driven Control of Spaces and Objects in Collaborative Augmented Reality. GMD–Forschungszentrum Informationstechnik GmbH. 2001:49.

Shneiderman B. Getting serious about social media: strategies for increasing civic participation. Proceedings of HCI. 2010.

Akanda AS, Jutla AS, Colwell RR. Global diarrhoea action plan needs integrated climate-based surveillance. The Lancet Global Health. 2014;2(2):e69-e70.

Pruzzo C, Vezzulli L, Colwell RR. Global impact of Vibrio cholerae interactions with chitin. Environmental Microbiology. 2008;10(6):1400-1410.

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