Publications

  1. Comeau AM, Douglas GM, and Langille MGI (2017) “Micobiome Helper: A custom and streamlined workflow for microbiome research”, mSystems, 2(1), e00127-16.
  2. Rutherford K, Meehan CJ, Langille MGI, Tyack SG, McKay JC, McLean NL, Benkel K, Beiko RG, Benkel B (2016) “Discovery of an expended set of avian leukosis subroup E proviruses in chickens using Vermillion, a novel sequence capture and analysis pipeline”, Poultry Science, pew194.
  3. Miller RR, Langille MGI, Montoya V, Crisan A, Stefanovic A, Martin I, Hoang L, Patrick DM, Romney M, Tyrrell G, Jones SJM, Brinkman FSL, Tang P (2016) “Genomic analysis of a serotype 5 Streptococcus pneumoniae outbreak in Canada 2005-2009”, Canadian Journal of Infectious Diseases & Medical Microbiology, 5381871.
  4. Laird MR, Langille MGI, Brinkman FSL (2015) “GenomeD3Plot: A library for rich, interactive visualizations of genomic data in web applications”, Bioinformatics, Jun 20. pii: btv376
  5. Dhillon B, Laird M, Shay J, Winsor G, Lo R, Nizam F, Sheldon P, Waglechner N, McArthur A, Langille MGI, Brinkman FSL. (2015) “IslandViewer 3: more flexible, interactive genomic island discovery, visualization and analysis”, Nucleic Acids Research, Jul 1;43(W1):W104-8.
  6. Hester CM, Jala VR, Langille MGI, Umar S, Greiner KA, Haribabu B (2015) “Fecal microbes, short chain fatty acids, and colorectal cancer across racial/ethnic groups”, World Journal of Gastroenterology, 21(9):2759-2769.
  7. Langille MGI, Meehan CJ, Koenig J, Dhanani AS, Rose R, Howlett S, Beiko RG (2014) "Microbial shifts in the aging mouse gut", Microbiome, 2(1):50.
  8. Xu Z, Malmer D, Langille MGI, and Way SF, Knight R (2014) "Which is more important for classifying microbial communities: who's there, or what they can do?", ISME Journal, 8(12):2357-9.
  9. Boon E, Meehan CJ, Whidden C, Wong DH, Langille MGI, Beiko RG (2014) "Interactions in the microbiome: communities of organisms and communities of genes", FEMS Microbiology Reviews, 38(1):90-118.
  10. Langille MGI*, Zaneveld J*, Caporaso JG, McDonald D, Knights D, Reyes JA, Clemente JC, Burkepile DE, Vega Thurber RL, Knight R, Beiko RG, Huttenhower C (2013) "Predictive functional profiling of microbial communities using 16S rRNA marker gene sequences", Nature Biotechnology, 31(9):814-821. *Co-first authors
  11. Parks DH, Mankowski T, Zangooei S, Porter MS, Armanini DG, Baird DJ, Langille MGI, Beiko RG (2013) "GenGIS 2: Geospatial analysis of traditional and genetic biodiversity, with new gradient algorithms and an extensible plugin framework", PLoS ONE, 8(7):e69885.
  12. Dhillon B, Chiu T, Laird M, Langille MGI, Brinkman F (2013) "IslandViewer update: improved genomic island discovery and visualization", NAR, 41(W1):W129-W132.
  13. Sharpton TJ, Jospin G, Wu D, Langille MGI, Pollard KS, Eisen JA (2012) "Sifting through genomes with iterative-sequence clustering produces a large, phylogenetically diverse protein-family resource", BMC Bioinformatics, 13:624.
  14. Jiang X*, Langille MGI*, Neches RY, Elliot M, Levin SA, Eisen JA, Weitz JS, Dushoff J (2012) "Functional biogeography of ocean microbes revealed through non-negative matrix factorization", PLoS ONE, 7(9):e43866. *Co-first authors.
  15. Lynch EA, Langille MGI, Darling A, Wilbanks EG, Haltiner C, Shao KSY, Starr MO, Teiling C, Harkins TT, Edwards RA, Eisen JA, Facciotti MT (2012) "Sequencing of Seven Haloarchaeal Genomes Reveals Patterns of Genomic Flux", PLoS ONE 7(7):e41389.
  16. Langille MGI, Laird MR, Hsiao WWL, Chiu TA, Eisen JA, Brinkman FSL (2012) "MicrobeDB: a locally maintainable database of microbial genomic sequences", Bioinformatics, 28(14):1947-1948.
  17. Langille MGI, Meehan CJ, Beiko RG (2012) "Human Microbiome: A Genetic Bazaar for Microbes?", Current Biology, 22(1):R20-22.
  18. Langille MGI, Hsiao WWL, Brinkman FSL (2010) "Detection of genomic islands using bioinformatics approaches", Nature Reviews Microbiology, 8(5):373-82.
  19. Langille MGI and Eisen JA (2010) "BioTorrents: A file sharing service for scientific data" PLoS ONE, 5(4):e10071.
  20. Ho Sui SJ, Fedynak A, Hsiao WWL, Langille MGI, Brinkman FSL (2009) "The association of virulence factors with genomic islands", PLoS ONE, 4(12):e8094.
  21. Langille MGI (2009) "Computational prediction and characterization of genomic islands: insights into bacterial pathogenicity", Ph.D. dissertation, Simon Fraser University, Burnaby, BC, Canada.
  22. Langille MGI and Brinkman FSL (2009) "Bioinformatic detection of horizontally transferred DNA in bacterial genomes", F1000 Biology Reports, 1:25.
  23. Langille MGI and Brinkman FSL (2009) "IslandViewer: an integrated interface for computational identification and visualization of genomic islands", Bioinformatics, 25(5):664-5.
  24. Winstanley C, Langille MGI, Fothergill JL, Kukavica-Ibrulj I, Paradis-Bleau C, Sanschagrin F, Thomson NR, Winsor GI, Quail MA, Lennard N, Bignell A, Clarke L, Seeger K, Saunders D, Harris D, Parkhill J, Hancock REW, Brinkman FSL, and Levesque RC (2008). "Newly introduced genomic prophage islands are critical determinants of in vivo competitiveness in the Liverpool Epidemic Strain of Pseudomonas aeruginosa", Genome Research, 19(1):12-23.
  25. Langille MGI, Hsiao WWL, Brinkman FSL (2008). "Evaluation of genomic island predictors using a comparative genomics approach", BMC Bioinformatics, 9:329.
  26. Langille MGI and Clark DV (2007). "Parent genes of retrotransposition-generated gene duplicates in Drosophila melanogaster have distinct expression profiles", Genomics, 90(3):334-43.
  27. Spidlen, J, Gentleman RC, Haaland PD, Langille MGI, Meur NL, Ochs MF, Schmitt C, Smith CA, Treister AS, Brinkman RR (2006). "Data standards for flow cytometry", OMICS, 10(2):209-14.
  28. Hamarneh G, Yang J, McIntosh C, Langille MGI (2005). "3D live-wire-based semi-automatic segmentation of medical images", Proceedings of SPIE Medical Imaging: Image Processing, 5747:1597-603.
  29. Chodorowski A, Mattsson U, Langille MGI, Hamarneh G (2005). "Color Lesion Boundary Detection Using Live Wire", Proceedings of SPIE Medical Imaging: Image Processing, 5747:1589-96.