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Pop M., Kosack DS, Salzberg SL.  2004.  Hierarchical Scaffolding With Bambus. Genome ResearchGenome Research. 14
Sharmin M, Bravo éctorCorrada, Hannenhalli S.  2016.  Heterogeneity of transcription factor binding specificity models within and across cell lines. Genome Research. :gr.199166.115.
Sharmin M, Bravo HCorrada, Hannenhalli SS.  2015.  Heterogeneity of Transcription Factor binding specificity models within and across cell lines.
Schatz MC, Phillippy AM, Sommer DD, Delcher AL, Puiu D, Narzisi G, Salzberg SL, Pop M..  2013.  Hawkeye and AMOS: visualizing and assessing the quality of genome assemblies. Briefings in bioinformaticsBriefings in bioinformatics. 14
Schatz MC, Phillippy AM, Shneiderman B, Salzberg SL.  2007.  Hawkeye: an interactive visual analytics tool for genome assemblies. Genome BiologyGenome Biology. 8
Treangen T, Ondov BD, Koren S, Phillippy AM.  2014.  The Harvest suite for rapid core-genome alignment and visualization of thousands of intraspecific microbial genomes. Genome biology. 15:524.
Oberhardt MA, Zarecki R, Gronow S, Lang E, Klenk H-P, Gophna U, Ruppin E.  2015.  Harnessing the landscape of microbial culture media to predict new organism-media pairings.. Nat Commun. 6:8493.
DanČÍK V., Hannenhalli S, Muthukrishnan S..  1997.  Hardness of flip-cut problems from optical mapping. Journal of Computational BiologyJournal of Computational Biology. 4
Frezza C, Zheng L, Folger O, Rajagopalan KN, MacKenzie ED, Jerby L, Micaroni M, Chaneton B, Adam J, Hedley A et al..  2011.  Haem oxygenase is synthetically lethal with the tumour suppressor fumarate hydratase.. Nature. 477(7363):225-8.
G
Haft DH, Selengut J., Mongodin EF, Nelson KE.  2005.  A guild of 45 CRISPR-associated (Cas) protein families and multiple CRISPR/Cas subtypes exist in prokaryotic genomes. PLoS computational biologyPLOS Computational Biology. 1
Giancarlo R., Hannenhalli S.  2008.  Guest Editors' Introduction to the Special Section on Algorithms in Bioinformatics (WABI'07). IEEE/ACM Transactions on Computational Biology and BioinformaticsIEEE/ACM Transactions on Computational Biology and Bioinformatics.
Bazinet AL, Myers D.S, Fuetsch J., Cummings MP.  2007.  Grid Services Base Library: A high-level, procedural application programming interface for writing Globus-based Grid services. Future Generation Comp SystFuture Generation Comp Syst. 23
Cummings MP, Huskamp J.C.  2005.  Grid computing. EDUCAUSE ReviewEDUCAUSE Review. 40
Shahri HHaidarian, Namata G, Navlakha S, Deshpande A, Roussopoulos N.  2007.  A graph-based approach to vehicle tracking in traffic camera video streams. Proceedings of the 4th workshop on Data management for sensor networks: in conjunction with 33rd International Conference on Very Large Data Bases.
Eilam O., Zarecki R., Oberhardt M., Ursell L.K, Kupiec M., Knight R., Gophna U., Ruppin E..  2014.  Glycan Degradation (GlyDeR) Analysis Predicts Mammalian Gut Microbiota Abundance and Host Diet-Specific Adaptations. mBio. 5(4):e01526-14-e01526-14.
Tardito S, Oudin ïs, Ahmed SU, Fack F, Keunen O, Zheng L, Miletic H, Sakariassen Ø, Weinstock A, Wagner A et al..  2015.  Glutamine synthetase activity fuels nucleotide biosynthesis and supports growth of glutamine-restricted glioblastoma. Nature Cell Biology. 17(12):1556-1568.
Blanco MAndres, LeRoy G, Khan Z, ković šač, Zee BM, Garcia BA, Kang Y.  2012.  Global secretome analysis identifies novel mediators of bone metastasis. Cell Research. 22(9):1339-1355.
Blanco MAndres, LeRoy G, Khan Z, Alečković M, Zee BM, Garcia BA, Kang Y.  2012.  Global secretome analysis identifies novel mediators of bone metastasis.. Cell Res. 22(9):1339-55.
Colwell RR.  2005.  Global microbial ecology of Vibrio cholerae. Oceans and health: pathogens in the marine environmentOceans and health: pathogens in the marine environment.
Pruzzo C, Vezzulli L, Colwell RR.  2008.  Global impact of Vibrio cholerae interactions with chitin. Environmental MicrobiologyEnvironmental Microbiology. 10
Colwell RR, Chun J..  2009.  The Genus Vibrio and Related Genera. Practical handbook of microbiologyPractical handbook of microbiology.
Battle A, Khan Z, Wang SH, Mitrano A, Ford MJ, Pritchard JK, Gilad Y.  2015.  Genomic variation. Impact of regulatory variation from RNA to protein.. Science. 347(6222):664-7.
Mount SM.  2000.  Genomic sequence, splicing, and gene annotation.. Am J Hum Genet. 67(4):788-92.
Zo Y.G, Rivera I.NG, Russek-Cohen E., Islam M.S, Siddique A.K, Yunus M., Sack R.B, Huq A., Colwell RR.  2002.  Genomic profiles of clinical and environmental isolates of Vibrio cholerae O1 in cholera-endemic areas of Bangladesh. Proceedings of the National Academy of SciencesProceedings of the National Academy of Sciences. 99
Bartholomeu DC, Cerqueira GC, Leão ACarolina A, daRocha WD, Pais FS, Macedo C, Djikeng A, Teixeira SMR, El-Sayed NM.  2009.  Genomic organization and expression profile of the mucin-associated surface protein (masp) family of the human pathogen Trypanosoma cruzi.. Nucleic Acids Res. 37(10):3407-17.

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