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Hire Dr. Marcus Chibucos
United States
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Genome biologist, writer, ontologist. Experienced with writing, collaborating, bioinformatics, and laboratory.
Profile Summary
Subject Matter Expertise
Services
Work Experience
Bioinformatics Associate
Cherokee Nation Technology Solutions
October 2020 - October 2021
Lead Bioinformatics Analyst
University of Maryland School of Medicine
November 2017 - February 2020
Research Associate
University of Maryland School of Medicine
January 2012 - September 2017
Bioinformatics Analyst II
University of Maryland School of Medicine
2008 - 2011
Postdoctoral Associate
Virginia Polytechnic Institute and State University
2006 - 2008
Education
Ph.D. (Biological Sciences)
Bowling Green State University
September 1997 - December 2004
B.A. (Biology and Philosophy)
Knox College
September 1991 - June 1995
Certifications
- Certification details not provided.
Publications
JOURNAL ARTICLE
Vita R, Zheng J, Jackson R, Dooley D, Overton JA, Miller MA, Berrios DC, Scheuermann RH, He Y, McGinty HK, et al.(2021). Standardization of assay representation in the Ontology for Biomedical Investigations . Database : the journal of biological databases and curation.
Gene Ontology Consortium
(2020). The Gene Ontology resource: enriching a GOld mine . Nucleic acids research.
C Silva M, Chibucos M, Munro JB, Daugherty S, Coelho MM, C Silva J(2020). Signature of adaptive evolution in olfactory receptor genes in Cory's Shearwater supports molecular basis for smell in procellariiform seabirds . Scientific reports.
(2019). Phenotype annotation with the ontology of microbial phenotypes (OMP) . Journal of biomedical semantics.
Michelle Giglio, Rebecca Tauber, Suvarna Nadendla, James Munro, Dustin Olley, Shoshannah Ball, Elvira Mitraka, Lynn M Schriml, Pascale Gaudet, Elizabeth T Hobbs, et al.(2018). ECO, the Evidence & Conclusion Ontology: community standard for evidence information . Nucleic Acids Research. Oxford University Press ({OUP})
The Gene Ontology Consortium(2017). Expansion of the Gene Ontology knowledgebase and resources . Nucleic Acids Res. 45. (D1). p. D331-D338.
Bradford, L.L., Chibucos, M.C., Ma, B., Bruno, V., Ravel, J.(2017). Vaginal Candida spp. genomes from women with vulvovaginal candidiasis . Pathogens and Disease. 75. (6).
Marcus C. Chibucos, Sameh Soliman, Teclegiorgis Gebremariam, Hongkyu Lee, Sean Daugherty, Joshua Orvis, Amol C. Shetty, Jonathan Crabtree, Tracy H. Hazen, Kizee A. Etienne, et al.(2016). An integrated genomic and transcriptomic survey of mucormycosis-causing fungi . Nature Communications. 7. (1). Springer Nature
Ifeonu, O.O., Chibucos, M.C., Orvis, J., Su, Q., Elwin, K., Guo, F., Zhang, H., Xiao, L., Sun, M., Chalmers, R.M., et al.(2016). Annotated draft genome sequences of three species of Cryptosporidium: Cryptosporidium meleagridis isolate UKMEL1, C. baileyi isolate TAMU-09Q1 and C. hominis isolates TU502 2012 and UKH1 . Pathogens and Disease. 74. (7).
Silva, J. C., Cornillot, E., McCracken, C., Usmani-Brown, S., Dwivedi, A., Ifeonu, O. O., Crabtree, J., Gotia, H. T., Virji, A. Z., Reynes, C., et al.(2016). Genome-wide diversity and gene expression profiling of Babesia microti isolates identify polymorphic genes that mediate host-pathogen interactions . Sci Rep. 6. p. 35284.
Sefa Kılıç, Dinara M. Sagitova, Shoshannah Wolfish, Benoit Bely, Mélanie Courtot, Stacy Ciufo, Tatiana Tatusova, Claire O’Donovan, Marcus C. Chibucos, Maria J. Martin, et al.(2016). From data repositories to submission portals: rethinking the role of domain-specific databases in CollecTF . Database. 2016. p. baw055. Oxford University Press ({OUP})
Gene Ontology Consortium(2015). Gene Ontology Consortium: going forward . Nucleic Acids Res. 43. (Database issue). p. D1049-56.
Shelburne, S. A., Ajami, N. J., Chibucos, M. C., Beird, H. C., Tarrand, J., Galloway-Peña, J., Albert, N., Chemaly, R. F., Ghantoji, S. S., Marsh, L., et al.(2015). Implementation of a Pan-Genomic Approach to Investigate Holobiont-Infecting Microbe Interaction: A Case Report of a Leukemic Patient with Invasive Mucormycosis . PLoS One. 10. (11). p. e0139851.
Bastian, F. B., Chibucos, M. C., Gaudet, P., Giglio, M., Holliday, G. L., Huang, H., Lewis, S. E., Niknejad, A., Orchard, S., Poux, S., et al.(2015). The Confidence Information Ontology: a step towards a standard for asserting confidence in annotations . Database (Oxford). 2015. p. bav043.
Chibucos, M. C., Etienne, K. A., Orvis, J., Lee, H., Daugherty, S., Lockhart, S. R., Ibrahim, A. S., Bruno, V. M.(2015). The genome sequence of four isolates from the family Lichtheimiaceae . Pathog Dis. 73. (5).
Etienne KA, Chibucos MC, Su Q, Orvis J, Daugherty S, Ott S, Sengamalay NA, Fraser CM, Lockhart SR, Bruno VM(2014). Draft Genome Sequence of Mortierella alpina Isolate CDC-B6842 . Genome announcements.
Etienne KA, Chibucos MC, Su Q, Orvis J, Daugherty S, Ott S, Sengamalay NA, Fraser CM, Lockhart SR, Bruno VM(2014). Draft Genome Sequence of Mortierella alpina Isolate CDC-B6842 . Genome announcements.
Tallon, L. J., Liu, X., Bennuru, S., Chibucos, M. C., Godinez, A., Ott, S., Zhao, X., Sadzewicz, L., Fraser, C. M., Nutman, T. B., et al.(2014). Single molecule sequencing and genome assembly of a clinical specimen of Loa loa, the causative agent of loiasis . BMC Genomics. 15. p. 788.
Chibucos, M. C., Mungall, C. J., Balakrishnan, R., Christie, K. R., Huntley, R. P., White, O., Blake, J. A., Lewis, S. E., Giglio, M.(2014). Standardized description of scientific evidence using the Evidence Ontology (ECO) . Database (Oxford). 2014.
Etienne, K.A., Chibucos, M.C., Su, Q., Orvis, J., Daugherty, S., Ott, S., Sengamalay, N.A., Fraser, C.M., Lockhart, S.R., Bruno, V.M.(2014). Draft genome sequence of Mortierella alpina isolate CDC-B6842 . Genome Announcements. 2. (1).
Ioannidis, P., Lu, Y., Kumar, N., Creasy, T., Daugherty, S., Chibucos, M. C., Orvis, J., Shetty, A., Ott, S., Flowers, M., et al.(2014). Rapid transcriptome sequencing of an invasive pest, the brown marmorated stink bug Halyomorpha halys . BMC Genomics. 15. p. 738.
Chibucos, M. C., Zweifel, A. E., Herrera, J. C., Meza, W., Eslamfam, S., Uetz, P., Siegele, D. A., Hu, J. C., Giglio, M. G.(2014). An ontology for microbial phenotypes . BMC Microbiol. 14. (1). p. 294.
Blake, J. A., Dolan, M., Drabkin, H., Hill, D. P., Li, N., Sitnikov, D., Bridges, S., Burgess, S., Buza, T., McCarthy, F., et al.(2013). Gene Ontology annotations and resources . Nucleic Acids Res. 41. (Database issue). p. D530-5.
Chibucos, M. C., Crabtree, J., Nagaraj, S., Chaturvedi, S., Chaturvedi, V.(2013). Draft Genome Sequences of Human Pathogenic Fungus Geomyces pannorum Sensu Lato and Bat White Nose Syndrome Pathogen Geomyces (Pseudogymnoascus) destructans . Genome Announc. 1. (6).
Humphrys, M. S., Creasy, T., Sun, Y., Shetty, A. C., Chibucos, M. C., Drabek, E. F., Fraser, C. M., Farooq, U., Sengamalay, N., Ott, S., et al.(2013). Simultaneous transcriptional profiling of bacteria and their host cells . PLoS One. 8. (12). p. e80597.
Hazen, T. H., Sahl, J. W., Redman, J. C., Morris, C. R., Daugherty, S. C., Chibucos, M. C., Sengamalay, N. A., Fraser-Liggett, C. M., Steinsland, H., Whittam, T. S., et al.(2012). Draft genome sequences of the diarrheagenic Escherichia coli collection . J Bacteriol. 194. (11). p. 3026-7.
Gene Ontology Consortium(2012). The Gene Ontology: enhancements for 2011 . Nucleic Acids Res. 40. (Database issue). p. D559-64.
Arnaud, M. B., Cerqueira, G. C., Inglis, D. O., Skrzypek, M. S., Binkley, J., Chibucos, M. C., Crabtree, J., Howarth, C., Orvis, J., Shah, P., et al.(2012). The Aspergillus Genome Database (AspGD): recent developments in comprehensive multispecies curation, comparative genomics and community resources . Nucleic Acids Res. 40. (Database issue). p. D653-9.
Mulangi, V., Chibucos, M. C., Phuntumart, V., Morris, P. F.(2012). Kinetic and phylogenetic analysis of plant polyamine uptake transporters . Planta. 236. (4). p. 1261-73.
Torto-Alalibo, T., Collmer, C. W., Gwinn-Giglio, M., Lindeberg, M., Meng, S., Chibucos, M. C., Tseng, T. T., Lomax, J., Biehl, B., Ireland, A., et al.(2010). Unifying themes in microbial associations with animal and plant hosts described using the gene ontology . Microbiol Mol Biol Rev. 74. (4). p. 479-503.
Baxter, L., Tripathy, S., Ishaque, N., Boot, N., Cabral, A., Kemen, E., Thines, M., Ah-Fong, A., Anderson, R., Badejoko, W., et al.(2010). Signatures of adaptation to obligate biotrophy in the Hyaloperonospora arabidopsidis genome . Science. 330. (6010). p. 1549-51.
Arnaud, M. B., Chibucos, M. C., Costanzo, M. C., Crabtree, J., Inglis, D. O., Lotia, A., Orvis, J., Shah, P., Skrzypek, M. S., Binkley, G., et al.(2010). The Aspergillus Genome Database, a curated comparative genomics resource for gene, protein and sequence information for the Aspergillus research community . Nucleic Acids Res. 38. (Database issue). p. D420-7.
Gene Ontology Consortium(2010). The Gene Ontology in 2010: extensions and refinements . Nucleic Acids Res. 38. (Database issue). p. D331-5.
Marcus Chibucos, Michelle Giglio, Chris Mungall, Peter Uetz, Lanlan Yin, Johannes Goll, Deborah Siegele, James Hu(2009). Development of an Ontology of Microbial Phenotypes (OMP) . Nature Precedings. Nature Publishing Group
Chibucos, M.C., Tyler, B.M.(2009). Common themes in nutrient acquisition by plant symbiotic microbes, described by the Gene Ontology . BMC microbiology. 9 Suppl 1.
Chibucos, M. C., Tseng, T. T., Setubal, J. C.(2009). Describing commonalities in microbial effector delivery using the Gene Ontology . Trends Microbiol. 17. (7). p. 312-9.
Chibucos, M.C., Collmer, C.W., Torto-Alalibo, T., Gwinn-Giglio, M., Lindeberg, M., Li, D., Tyler, B.M.(2009). Programmed cell death in host-symbiont associations, viewed through the Gene Ontology . BMC Microbiology. 9. (SUPPL. 1).
Haas, B. J., Kamoun, S., Zody, M. C., Jiang, R. H., Handsaker, R. E., Cano, L. M., Grabherr, M., Kodira, C. D., Raffaele, S., Torto-Alalibo, T., et al.(2009). Genome sequence and analysis of the Irish potato famine pathogen Phytophthora infestans . Nature. 461. (7262). p. 393-8.
Meng, S., Torto-Alalibo, T., Chibucos, M.C., Tyler, B.M., Dean, R.A.(2009). Common processes in pathogenesis by fungal and oomycete plant pathogens, described with Gene Ontology terms . BMC Microbiology. 9. (SUPPL. 1).
Torto-Alalibo, T. A., Tripathy, S., Smith, B. M., Arredondo, F. D., Zhou, L., Li, H., Chibucos, M. C., Qutob, D., Gijzen, M., Mao, C., et al.(2007). Expressed sequence tags from phytophthora sojae reveal genes specific to development and infection . Mol Plant Microbe Interact. 20. (7). p. 781-93.
Chibucos, M. C., Morris, P. F.(2006). Levels of polyamines and kinetic characterization of their uptake in the soybean pathogen Phytophthora sojae . Appl Environ Microbiol. 72. (5). p. 3350-6.
CONFERENCE PAPER
Chibucos, Marcus C., Nadendla, Suvarna, Munro , James B., Mitraka, Elvira, Olley, Dustin, Vasilevsky, Nicole A., Brush, Matthew H., Giglio, Michelle(2016). Supporting database annotations and beyond with the Evidence and Conclusion Ontology (ECO) . ICBO-BioCreative 2016: Food, Nutrition, Health and Environment for the 9 Billion. 1747.
Chibucos, M., Zweifel, A., Siegele, D., Uetz, P., Giglio, M., Hu, J.(2011). The ontology of microbial phenotypes (OMP): A precomposed ontology based on cross products from multiple external ontologies that is used for guiding microbial phenotype annotation . CEUR Workshop Proceedings. 833. p. 237-239.
OTHER
Marcus C. Chibucos, Deborah A. Siegele, James C. Hu, Michelle Giglio(2016). The Evidence and Conclusion Ontology (ECO): Supporting GO Annotations . The Gene Ontology Handbook. p. 245--259. Springer New York
CONFERENCE POSTER
Marcus Chibucos and Michelle Giglio and Chris Mungall and Peter Uetz and Lanlan Yin and Johannes Goll and Deborah Siegele and Marcus Chibucos and James Hu(2009). Development of an Ontology of Microbial Phenotypes (OMP) . Nature Precedings. Nature Publishing Group
CONFERENCE ABSTRACT
Collmer, CW and Torto-Alalibo, T and Lindeberg, M and Chibucos, M and Gwinn-Giglio, M and Biehl, B and Ireland, A and Lomax, J and Bird, D and Collmer, A and others(2008). Using the universal language of Gene Ontology to annotate gene products involved in the interactions between microbes and their hosts . Phytopathology. 98. (6). p. S40--S41.