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Goodall S., Reggia JA, Chen Y., Ruppin E., Whitney C..  1997.  A computational model of acute focal cortical lesions. StrokeStroke. 28
Mendelowitz L, Pop M.  2014.  Computational methods for optical mapping. GigaScienceGigaScience. 3:33.
Pop M.  2015.  Computational challenges in microbiome research. 2015 IEEE International Conference on Bioinformatics and Biomedicine (BIBM)2015 IEEE International Conference on Bioinformatics and Biomedicine (BIBM).
Leparc G.G, Mitra R.D, Vardhanabhuti S., Wang J., Hannenhalli S, Smit S., Widmann J., Knight R., Wu S., Zhang Y. et al..  2007.  COMPUTATIONAL BIOLOGY. Nucleic acids researchNucleic Acids Research. 35
Choi J.H, Tang H., Kim S., Pop M..  2010.  Computational Approaches for Genome Assembly Validation. Biological Data MiningBiological Data Mining.
Essien K, Hannenhalli S, Stoeckert CJ.  2008.  Computational Analysis of Constraints on Noncoding Regions, Coding Regions and Gene Expression in Relation to Plasmodium Phenotypic Diversity. PLoS ONEPLoS ONEPLoS ONEPLoS ONE. 3
Campbell MA, Haas BJ, Hamilton JP, Mount SM, C Buell R.  2006.  Comprehensive analysis of alternative splicing in rice and comparative analyses with Arabidopsis.. BMC Genomics. 7:327.
Mount SM, Rubin GM.  1985.  Complete nucleotide sequence of the Drosophila transposable element copia: homology between copia and retroviral proteins.. Mol Cell Biol. 5(7):1630-8.
Lee HSook, Kang SGyun, Bae SSeob, Lim JKyu, Cho Y, Kim YJae, Jeon JHo, Cha S-S, Kwon KKyoung, Kim H-T et al..  2008.  The Complete Genome Sequence of Thermococcus Onnurineus NA1 Reveals a Mixed Heterotrophic and Carboxydotrophic Metabolism. Journal of BacteriologyJ. Bacteriol.Journal of BacteriologyJ. Bacteriol.. 190
Treangen TJ, Maybank RA, Enke S, Friss MBeth, Diviak LF, Karaolis DKR, Koren S, Ondov B, Phillippy AM, Bergman NH.  2014.  Complete genome sequence of the quality control strain Staphylococcus aureus subsp. aureus ATCC 25923. Genome announcements. 2:e01110–14.
C. Buell R, Joardar V, Lindeberg M, Selengut J., Paulsen IT, Gwinn ML, Dodson RJ, DeBoy RT, A. Durkin S, Kolonay JF et al..  2003.  The complete genome sequence of the Arabidopsis and tomato pathogen Pseudomonas syringae pv. tomato DC3000. Proceedings of the National Academy of Sciences of the United States of AmericaProceedings of the National Academy of Sciences of the United States of America. 100
Di Bonaventura MPia, DeSalle R, Pop M., Nagarajan N, Figurski DH, Fine DH, Kaplan JB, Planet PJ.  2009.  Complete Genome Sequence of Aggregatibacter (Haemophilus) Aphrophilus NJ8700. Journal of BacteriologyJ. Bacteriol.Journal of BacteriologyJ. Bacteriol.. 191
Nelson K.E, Weinel C., Paulsen I.T, Dodson R.J, Hilbert H., Santos V.APMart, Fouts D.E, Gill S.R, Pop M., Holmes M. et al..  2003.  Complete genome sequence and comparative analysis of the metabolically versatile Pseudomonas putida KT2440. Environmental MicrobiologyEnvironmental Microbiology. 5
Enk J, Devault A, Debruyne R, King CE, Treangen T, O'Rourke D, Salzberg SL, Fisher D, MacPhee R, Poinar H.  2011.  Complete Columbian mammoth mitogenome suggests interbreeding with woolly mammoths. Genome biology. 12:R51.
Seshadri R, Myers GSA, Tettelin H, Eisen JA, Heidelberg JF, Dodson RJ, Davidsen TM, DeBoy RT, Fouts DE, Haft DH et al..  2004.  Comparison of the genome of the oral pathogen Treponema denticola with other spirochete genomes. Proceedings of the National Academy of Sciences of the United States of AmericaProceedings of the National Academy of Sciences of the United States of America. 101
Cummings MP, Handley S.A, Myers D.S, Reed D.L, Rokas A., Winka K..  2003.  Comparing bootstrap and posterior probability values in the four-taxon case. Syst BiolSyst Biol. 52
Chun J., Grim C.J, Hasan N.A, Lee J.H, Choi S.Y, Haley B.J, Taviani E., Jeon Y.S, Kim D.W, Lee J.H et al..  2009.  Comparative genomics reveals mechanism for short-term and long-term clonal transitions in pandemic Vibrio cholerae. Proceedings of the National Academy of SciencesProceedings of the National Academy of Sciences. 106
El‐Sayed NM, Myler PJ, Blandin G, Berriman M, Crabtree J, Aggarwal G, Caler E, Renauld H, Worthey EA, Hertz-Fowler C et al..  2005.  Comparative Genomics of Trypanosomatid Parasitic Protozoa. ScienceScience. 309
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
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
Badger JH, Hoover TR, Brun YV, Weiner RM, Laub MT, Alexandre G, Mrázek J, Ren Q, Paulsen IT, Nelson KE et al..  2006.  Comparative genomic evidence for a close relationship between the dimorphic prosthecate bacteria Hyphomonas neptunium and Caulobacter crescentus. Journal of bacteriologyJournal of bacteriology. 188
Bradd H., Christopher G., Nur H., Seon-Young C., Jongsik C., Thomas B., David B., Jean C., Chris D.J, Cliff H. et al..  2010.  Comparative genomic analysis reveals evidence of two novel Vibrio species closely related to V. cholerae. BMC MicrobiologyBMC Microbiology. 10
Read TD, Salzberg SL, Pop M., Shumway M, Umayam L, Jiang L, Holtzapple E, Busch JD, Smith KL, Schupp JM et al..  2002.  Comparative Genome Sequencing for Discovery of Novel Polymorphisms in Bacillus Anthracis. ScienceScienceScienceScience. 296
Pop M., Phillippy A, Delcher AL, Salzberg SL.  2004.  Comparative Genome Assembly. Briefings in BioinformaticsBrief BioinformBriefings in BioinformaticsBrief Bioinform. 5
Bazinet AL, Cummings MP.  2012.  A comparative evaluation of sequence classification programs. BMC BioinformaticsBMC Bioinformatics. 13

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