Publications

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Lewinski MK, Bisgrove D, Shinn P, Chen H, Hoffmann C, Hannenhalli S, Verdin E, Berry CC, Ecker JR, Bushman FD.  2005.  Genome-Wide Analysis of Chromosomal Features Repressing Human Immunodeficiency Virus Transcription. Journal of VirologyJ. Virol.. 79(11):6610-6619.
El-Sayed NM, Myler PJ, Bartholomeu DC, Nilsson D, Aggarwal G, Tran A-N, Ghedin E, Worthey EA, Delcher AL, Blandin G et al..  2005.  The Genome Sequence of Trypanosoma cruzi, Etiologic Agent of Chagas Disease. Science. 309(5733):409-415.
El-Sayed NM, Myler PJ, Bartholomeu DC, Nilsson D, Aggarwal G, Tran AN, Ghedin E, Worthey EA, Delcher AL, Blandin G et al..  2005.  The genome sequence of Trypanosoma cruzi, etiologic agent of Chagas disease. Science. 309(5733)
El-Sayed NM, Myler PJ, Bartholomeu DC, Nilsson D, Aggarwal G, Tran A-N, Ghedin E, Worthey EA, Delcher AL, Blandin G et al..  2005.  The Genome Sequence of Trypanosoma Cruzi, Etiologic Agent of Chagas Disease. ScienceScience. 309(5733):409-415.
Grim CJ, Hasan NA, Taviani E, Haley B, Chun J, Brettin TS, Bruce DC, Detter CJ, Han CS, Chertkov O et al..  2010.  Genome Sequence of Hybrid Vibrio Cholerae O1 MJ-1236, B-33, and CIRS101 and Comparative Genomics with V. Cholerae. Journal of BacteriologyJ. Bacteriol.. 192(13):3524-3533.
Adams MD, Celniker SE, Holt RA, Evans CA, Gocayne JD, Amanatides PG, Scherer SE, Li PW, Hoskins RA, Galle RF et al..  2000.  The genome sequence of Drosophila melanogaster. Science. 287(5461):2185-2185.
Read TD, Peterson SN, Tourasse N, Baillie LW, Paulsen IT, Nelson KE, Tettelin H|[eacute]|, Fouts DE, Eisen JA, Gill SR et al..  2003.  The genome sequence of Bacillus anthracis Ames and comparison to closely related bacteria. Nature. 423(6935):81-86.
Hannenhalli S, Chappey C, Koonin EV, Pevzner PA.  1995.  Genome Sequence Comparison and Scenarios for Gene Rearrangements: A Test Case. Genomics. 30(2):299-311.
Pop M, Salzberg SL, Shumway M.  2002.  Genome Sequence Assembly: Algorithms and Issues. Computer. 35(7):47-54.
Carlton JM, Angiuoli SV, Suh BB, Kooij TW, Pertea M, Silva JC, Ermolaeva MD, Allen JE, Selengut JD, Koo HL et al..  2002.  Genome sequence and comparative analysis of the model rodent malaria parasite Plasmodium yoelii yoelii. Nature. 419(6906):512-519.
Loftus B, Anderson I, Davies R, Alsmark UCM, Samuelson J, Amedeo P, Roncaglia P, Berriman M, Hirt RP, Mann BJ et al..  2005.  The genome of the protist parasite Entamoeba histolytica. Nature. 433(7028):865-868.
Berriman M, Ghedin E, Hertz-Fowler C, Blandin G, Renauld H, Bartholomeu DC, Lennard NJ, Caler E, Hamlin NE, Haas B et al..  2005.  The genome of the African trypanosome Trypanosoma brucei. Science. 309(5733):416-416.
Brettin T S[L A N L, Bruce D C[L A N L, Challacombe J F[L A N L, Detter J C[L A N L, Han C S[L A N L, Munik C[L A N LA, Chertkov O[L A N L, Meincke L[L A N L, Saunders E[L A N L, Choi S Y[SEOUL NATL UNIV et al..  2009.  Genome assortment, not serogroup, defines Vibrio cholerae pandemic strains. Nature.
Pop M.  2009.  Genome Assembly Reborn: Recent Computational Challenges. Briefings in Bioinformatics. 10(4):354-366.
Phillippy AM, Schatz MC, Pop M.  2008.  Genome assembly forensics: finding the elusive mis-assembly. Genome Biology. 9(3):R55-R55.
Salzberg SL, Kingsford C, Cattoli G, Spiro DJ, Janies DA, Aly M M, Brown IH, Couacy-Hymann E, De Mia G M, Dung D H et al..  2007.  Genome Analysis Linking Recent European and African Influenza (H5N1) Viruses. Emerging Infectious DiseasesEmerg Infect Dis. 13(5):713-718.
Clayton C, Adams M, Almeida R, Baltz T, Barrett M, Bastien P, Belli S, Beverley S, Biteau N, Blackwell J et al..  1998.  Genetic nomenclature for Trypanosoma and Leishmania.. Mol Biochem Parasitol. 97(1-2):221-4.
Clayton C, Adams M, Almeida R, Baltz T, Barrett M, Bastien P, Belli S, Beverley S, Biteau N, Blackwell J et al..  1998.  Genetic nomenclature for Trypanosoma and Leishmania.. Molecular and biochemical parasitology. 97(1-2):221-221.
MacLeod A, Tweedie A, McLellan S, Taylor S, Hall N, Berriman M, El-Sayed NM, Hope M, Turner CMR, Tait A.  2005.  The genetic map and comparative analysis with the physical map of Trypanosoma brucei. Nucleic acids research. 33(21):6688-6688.
Peng X, Mount SM.  1995.  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.. 15(11):6273-6282.
Mount SM.  1997.  Genetic depletion reveals an essential role for an SR protein splicing factor in vertebrate cells. BioEssays. 19(3):189-192.
Neel MC, Cummings MP.  2003.  Genetic consequences of ecological reserve design guidelines: An empirical investigation. Conserv Genet. 4(4):427-439.
Rashed S.M, Mannan S.B, Johura F.-T., Islam M.T, Sadique A., Watanabe H., Sack R.B, Huq A., Colwell RR, Cravioto A. et al..  2012.  Genetic characteristics of drug-resistant Vibrio cholerae O1 causing endemic cholera in Dhaka, 2006-2011. Journal of Medical Microbiology. :1736-1745.
Rohlfing A-K, Miteva Y, Hannenhalli S, Lamitina T.  2010.  Genetic and Physiological Activation of Osmosensitive Gene Expression Mimics Transcriptional Signatures of Pathogen Infection in C. elegans. PLoS ONEPLoS ONE. 5(2):e9010-e9010.
Cummings MP, Otto SP, Wakeley J.  1999.  Genes and other samples of DNA sequence data for phylogenetic inference. The Biological Bulletin. 196(3):345-350.

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