Publications

  • M. Lim, M. Rho, Y. Song K. Lee, J. Sung, and G, Ko (2014), “Stability of Gut Enterotype in Korean Monozygotic Twins and Their Association with Biomarkers and Diet”, Scientific Reports 4:7348
  • Y. Kim, I. Koh, and M. Rho (2014), “Deciphering the human microbiome using next-generation sequencing data and bioinformatics approaches”, Methods, doi:10.1016
  • C. Kwon, H. Tak, M. Rho, H. R. Chang, Y. H. Kim, K. T. Kim, C. Balch, E. K. Lee, and S. Nam (2014), "Detection of PIWI and piRNAs in the mitochondria of mammalian cancer cells", Biochem Biophy Res Commun 28:446
  • Q. Zhang, M. Rho, H. Tang, T. G. Doak, and Y. Ye (2013), “CRISPR-Cas systems target a diverse collection of invasive mobile genetic elements in human microbiomes”, Genome Biol. 14:R40 [DOI:10.1186/gb-2013-14-4-r40]
  • Y. Wu, M. Rho, T. G. Doak, and Y. Ye (2012), “Stitching gene fragments with a network matching algorithm improves gene assembly for metagenomics”, Bioinformatics, 28:i363–i369.[DOI:10.1093/bioinformatics/bts388]
  • M. Rho, Y. Wu, H. Tang, T. G. Doak, and Y. Ye (2012), “Diverse CRISPRs evolving in human microbiomes”, PLoS Genet., 8:e1002441. [DOI:/10.1371/journal.pgen.1002441]
  • The Human Microbiome Project Consortium (2012), ``A framework for human microbiome research", Nature, 486:215–221. [DOI:/10.1038/nature11209]
  • The Human Microbiome Project Consortium (2012), "Structure, function and diversity of the healthy human microbiome" Nature, 486:207–214. [DOI:/10.1038/nature11234]
  • Y. Wu, M. Rho, T. G. Doak, and Y. Ye (2012), “Oral spirochetes implicated in dental diseases are widespread in normal human subjects and carry extremely diverse integron gene cassettes”, Appl. Environ. Microbiol. 78:5288–5296. [DOI:/10.1128/AEM.00564-12]
  • A. Hughes, Y. Ruan, S. Ekanayake, S.-H. Bae, Q. Dong, M. Rho, J. Qiu, and G. Fox (2012), "Interpolative multidimensional scaling techniques for the identification of clusters in very large sequence sets", BMC Bioinformatics, 13 (Suppl 2) : S9.
  • M. Lynch, L. M. Bobay, F. Catania, J. F. Gout, and M. Rho (2011), "The Repatterning of Eukaryotic Genomes by Random Genetic Drift", Annu. Rev. Genomics Hum. Genet. 12:347–366. [DOI:10.1146/annurev-genom-082410-101412]
  • J. K. Colbourne et al. (2011), "The Ecoresponsive Genome of Daphnia pulex", Science, 331:555–561. [DOI:10.1126/science.1197761]
  • M. Rho, H. Tang, and Y. Ye (2010), "FragGeneScan: predicting genes in short and error-prone reads", Nucleic Acids Res. 38:e191. [DOI:10.1093/nar/gkq747]
  • M. Rho, S. Schaack, X. Gao, S. Kim, M. Lynch, and H. Tang (2010), "LTR retroelements in the genome of Daphnia pulex", BMC Genomics, 11:425. [DOI:10.1186/1471-2164-11-425]
  • M. Rho and H. Tang (2009), "MGEScan-non-LTR: computational identification and classification of non-LTR retrotransposons in eukaryotic genomes", Nucleic Acids Res. 37:e143. [DOI:10.1093/nar/gkp752]
  • M. Rho, M. Zhou, X. Gao, S. Kim, H. Tang, and M. Lynch (2009), "Independent Mammalian Genome Contractions Following the KT Boundary", Gen. Biol. Evol. 1:2–12. [DOI:10.1093/gbe/evp007]
  • G. Fox, X. Qiu, S. Beason, J. Choi, J. Ekanayake, T. Gunarathne, M. Rho, H. Tang, N. Devadasan, and G. Liu (2009), "Biomedical Case Studies in Data Intensive Computing", Lecture Notes in Computer Science, 5931:2–18. [DOI:10.1007/978-3-642-10665-1_2]
  • M. Rho, J. H. Choi, S. Kim, M. Lynch, and H. Tang (2007), "De novo identification of LTR retrotransposons in eukaryotic genomes", BMC Genomics, 8:90. [DOI:10.1186/1471-2164-8-90]