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Hire Dr. Marcus C.
United States
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Biologist, Researcher, Writer. Expert in genomics, bioinformatiics, ontologies, big data, host-microbe interactions.
Profile Summary
Subject Matter Expertise
Services
Writing
Technical Writing
Research
Scientific and Technical Research,
Systematic Literature Review
Consulting
Scientific and Technical Consulting
Work Experience
Biomedical Ontology Specialist (Consultant)
ProPharma Group Holdings LLC
February 2022 - Present
Bioinformatics Associate (Contractor)
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
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Group 4 Biomedical Research Support Personnel
CITI Program
https://www.citiprogram.org/verify/?w145382be-45cd-4d7a-8c26-2d669852a60e-434153703415370July 2021 - Present
-
Responsible Conduct of Research Refresher for Biomedical Researchers
CITI Program
https://www.citiprogram.org/verify/?wc933da0d-93ca-41b2-8aac-9811f06d03c1-43415406July 2021 - Present
Publications
JOURNAL ARTICLE
Marcus Chibucos, Marcus C. Chibucos, Shilpa Hakre, Evelyn Y. Lam, Irina Maljkovic-Berry, Jun Hang, Luis A. Pow Sang, Elizabeth J. Bianchi, Christian Fung, Jay Gandhi, et al.(2022). Investigation of an outbreak of COVID-19 among U.S. military personnel and beneficiaries stationed in the Republic of Korea, June-July 2021 . PLOS Global Public Health. 2. (5). p. e0000236. Public Library of Science ({PLoS})
Nadendla, S., Jackson, R., Munro, J., Quaglia, F., Mészáros, B., Olley, D., Hobbs, E.T., Goralski, S.M., Chibucos, M., Mungall, C.J., et al.(2022). ECO: The Evidence and Conclusion Ontology, an update for 2022 . Nucleic Acids Research. 50. (D1). p. D1515-D1521.
Maljkovic Berry, I., Hang, J., Fung, C., Yang, Y., Chibucos, M., Pollio, A., Gandhi, J., Li, T., Conte, M.A., Lidl, G.M., et al.(2022). Genomic surveillance of SARS-CoV-2 in US military compounds in Afghanistan reveals multiple introductions and outbreaks of Alpha and Delta variants . BMC Genomics. 23. (1).
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.
Vita, R., Zheng, J., Jackson, R., Dooley, D., Overton, J.A., Miller, M.A., Berrios, D.C., Scheuermann, R.H., He, Y., Mcginty, H.K., et al.(2021). Standardization of assay representation in the Ontology for Biomedical Investigations . Database. 2021.
Vita, R., Zheng, J., Jackson, R., Dooley, D., Overton, J.A., Miller, M.A., Berrios, D.C., Scheuermann, R.H., He, Y., Mcginty, H.K., et al.(2021). Standardization of assay representation in the Ontology for Biomedical Investigations . Database. 2021.
Carbon, S., Douglass, E., Good, B.M., Unni, D.R., Harris, N.L., Mungall, C.J., Basu, S., Chisholm, R.L., Dodson, R.J., Hartline, E., et al.(2021). The Gene Ontology resource: Enriching a GOld mine . Nucleic Acids Research. 49. (D1). p. D325-D334.
Carbon, S., Douglass, E., Good, B.M., Unni, D.R., Harris, N.L., Mungall, C.J., Basu, S., Chisholm, R.L., Dodson, R.J., Hartline, E., et al.(2021). The Gene Ontology resource: Enriching a GOld mine . Nucleic Acids Research. 49. (D1). p. D325-D334.
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.
C. Silva, M., Chibucos, M., Munro, J.B., Daugherty, S., Coelho, M.M., 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. 10. (1).
C. Silva, M., Chibucos, M., Munro, J.B., Daugherty, S., Coelho, M.M., 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. 10. (1).
(2019). Phenotype annotation with the ontology of microbial phenotypes (OMP) . Journal of biomedical semantics.
Siegele, D.A., Labonte, S.A., Wu, P.I.-F., Chibucos, M.C., Nandendla, S., Giglio, M.G., Hu, J.C.(2019). Phenotype annotation with the ontology of microbial phenotypes (OMP) . Journal of Biomedical Semantics. 10. (1).
Giglio, M., Tauber, R., Nadendla, S., Munro, J., Olley, D., Ball, S., Mitraka, E., Schriml, L.M., Gaudet, P., Hobbs, E.T., et al.(2019). Eco, the evidence & conclusion ontology: Community standard for evidence information . Nucleic Acids Research. 47. (D1). p. D1186-D1194.
Carbon, S., Douglass, E., Dunn, N., Good, B., Harris, N.L., Lewis, S.E., Mungall, C.J., Basu, S., Chisholm, R.L., Dodson, R.J., et al.(2019). The Gene Ontology Resource: 20 years and still GOing strong . Nucleic Acids Research. 47. (D1). p. D330-D338.
Siegele, D.A., Labonte, S.A., Wu, P.I.-F., Chibucos, M.C., Nandendla, S., Giglio, M.G., Hu, J.C.(2019). Phenotype annotation with the ontology of microbial phenotypes (OMP) . Journal of Biomedical Semantics. 10. (1).
Giglio, M., Tauber, R., Nadendla, S., Munro, J., Olley, D., Ball, S., Mitraka, E., Schriml, L.M., Gaudet, P., Hobbs, E.T., et al.(2019). Eco, the evidence & conclusion ontology: Community standard for evidence information . Nucleic Acids Research. 47. (D1). p. D1186-D1194.
Attrill, H., Gaudet, P., Huntley, R.P., Lovering, R.C., Engel, S.R., Poux, S., Van Auken, K.M., Georghiou, G., Chibucos, M.C., Berardini, T.Z., et al.(2019). Annotation of gene product function from high-throughput studies using the Gene Ontology . Database. 2019.
Carbon, S., Douglass, E., Dunn, N., Good, B., Harris, N.L., Lewis, S.E., Mungall, C.J., Basu, S., Chisholm, R.L., Dodson, R.J., et al.(2019). The Gene Ontology Resource: 20 years and still GOing strong . Nucleic Acids Research. 47. (D1). p. D330-D338.
Attrill, H., Gaudet, P., Huntley, R.P., Lovering, R.C., Engel, S.R., Poux, S., Van Auken, K.M., Georghiou, G., Chibucos, M.C., Berardini, T.Z., et al.(2019). Annotation of gene product function from high-throughput studies using the Gene Ontology . Database. 2019.
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})
Carbon, S., Dietze, H., Lewis, S.E., Mungall, C.J., Munoz-Torres, M.C., Basu, S., Chisholm, R.L., Dodson, R.J., Fey, P., Thomas, P.D., et al.(2017). Expansion of the gene ontology knowledgebase and resources: The gene ontology consortium . Nucleic Acids Research. 45. (D1). p. D331-D338.
The Gene Ontology Consortium(2017). Expansion of the Gene Ontology knowledgebase and resources . Nucleic Acids Res. 45. (D1). p. D331-D338.
Carbon, S., Dietze, H., Lewis, S.E., Mungall, C.J., Munoz-Torres, M.C., Basu, S., Chisholm, R.L., Dodson, R.J., Fey, P., Thomas, P.D., et al.(2017). Expansion of the gene ontology knowledgebase and resources: The gene ontology consortium . Nucleic Acids Research. 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).
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})
Kiliç, S., Sagitova, D.M., Wolfish, S., Bely, B., Courtot, M., Ciufo, S., Tatusova, T., O'Donovan, C., Chibucos, M.C., Martin, M.J., et al.(2016). From data repositories to submission portals: Rethinking the role of domain-specific databases in CollecTF . Database. 2016.
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.
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 . Scientific Reports. 6.
Bandrowski, A., Brinkman, R., Brochhausen, M., Brush, M.H., Bug, B., Chibucos, M.C., Clancy, K., Courtot, M., Derom, D., Dumontier, M., et al.(2016). The Ontology for Biomedical Investigations . PLoS ONE. 11. (4).
Bandrowski, A., Brinkman, R., Brochhausen, M., Brush, M.H., Bug, B., Chibucos, M.C., Clancy, K., Courtot, M., Derom, D., Dumontier, M., et al.(2016). The Ontology for Biomedical Investigations . PLoS ONE. 11. (4).
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 . Scientific Reports. 6.
Kiliç, S., Sagitova, D.M., Wolfish, S., Bely, B., Courtot, M., Ciufo, S., Tatusova, T., O'Donovan, C., Chibucos, M.C., Martin, M.J., et al.(2016). From data repositories to submission portals: Rethinking the role of domain-specific databases in CollecTF . Database. 2016.
Chibucos, M.C., Soliman, S., Gebremariam, T., Lee, H., Daugherty, S., Orvis, J., Shetty, A.C., Crabtree, J., Hazen, T.H., Etienne, K.A., et al.(2016). An integrated genomic and transcriptomic survey of mucormycosis-causing fungi . Nature Communications. 7.
Chibucos, M.C., Soliman, S., Gebremariam, T., Lee, H., Daugherty, S., Orvis, J., Shetty, A.C., Crabtree, J., Hazen, T.H., Etienne, K.A., et al.(2016). An integrated genomic and transcriptomic survey of mucormycosis-causing fungi . Nature Communications. 7.
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. 2015.
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. 2015.
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).
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 . Pathogens and Disease. 73. (5).
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 . Pathogens and Disease. 73. (5).
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.
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).
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).
Blake, J.A., Christie, K.R., Dolan, M.E., Drabkin, H.J., Hill, D.P., Ni, L., Sitnikov, D., Burgess, S., Buza, T., Gresham, C., et al.(2015). Gene ontology consortium: Going forward . Nucleic Acids Research. 43. (D1). p. D1049-D1056.
Blake, J.A., Christie, K.R., Dolan, M.E., Drabkin, H.J., Hill, D.P., Ni, L., Sitnikov, D., Burgess, S., Buza, T., Gresham, C., et al.(2015). Gene ontology consortium: Going forward . Nucleic Acids Research. 43. (D1). p. D1049-D1056.
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.
Gene Ontology Consortium(2015). Gene Ontology Consortium: going forward . Nucleic Acids Res. 43. (Database issue). p. D1049-56.
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.
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. (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. (1).
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.
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 Microbiology. 14. (1).
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 Microbiology. 14. (1).
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.
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. 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).
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. (1).
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. (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., 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. 2014.
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.
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.
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).
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 Announcements. 1. (6).
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 Announcements. 1. (6).
Blake, J.A., Dolan, M., Drabkin, H., Hill, D.P., Ni, L., Sitnikov, D., Bridges, S., Burgess, S., Buza, T., McCarthy, F., et al.(2013). Gene ontology annotations and resources . Nucleic Acids Research. 41. (D1).
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.
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).
Blake, J.A., Dolan, M., Drabkin, H., Hill, D.P., Ni, L., Sitnikov, D., Bridges, S., Burgess, S., Buza, T., McCarthy, F., et al.(2013). Gene ontology annotations and resources . Nucleic Acids Research. 41. (D1).
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).
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.
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 . Journal of Bacteriology. 194. (11). p. 3026-3027.
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 . Journal of Bacteriology. 194. (11). p. 3026-3027.
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.
Mulangi, V., Chibucos, M.C., Phuntumart, V., Morris, P.F.(2012). Kinetic and phylogenetic analysis of plant polyamine uptake transporters . Planta. 236. (4). p. 1261-1273.
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 Research. 40. (D1).
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 Research. 40. (D1).
Gene Ontology Consortium(2012). The Gene Ontology: enhancements for 2011 . Nucleic Acids Res. 40. (Database issue). p. D559-64.
Blake, J.A., Dolan, M., Drabkin, H., Hill, D.P., Ni, L., Sitnikov, D., Burgess, S., Buza, T., Gresham, C., McCarthy, F., et al.(2012). The Gene Ontology: Enhancements for 2011 . Nucleic Acids Research. 40. (D1).
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. 1261-1273.
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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.
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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 . Microbiology and Molecular Biology Reviews. 74. (4). p. 479-503.
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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. 1549-1551.
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., Tseng, T.-T., Setubal, J.C.(2009). Describing commonalities in microbial effector delivery using the Gene Ontology . Trends in Microbiology. 17. (7). p. 312-319.
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.(2009). The Aspergillus Genome Database, a curated comparative genomics resource for gene, protein and sequence information for the Aspergillus research community . Nucleic Acids Research. 38. (SUPPL.1).
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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).
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).
Chibucos, M.C., Tseng, T.-T., Setubal, J.C.(2009). Describing commonalities in microbial effector delivery using the Gene Ontology . Trends in Microbiology. 17. (7). p. 312-319.
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.
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.(2009). The Aspergillus Genome Database, a curated comparative genomics resource for gene, protein and sequence information for the Aspergillus research community . Nucleic Acids Research. 38. (SUPPL.1).
Haas, B.J., Kamoun, S., Zody, M.C., Jiang, R.H.Y., 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. 393-398.
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.
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 . Molecular Plant-Microbe Interactions. 20. (7). p. 781-793.
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 . Molecular Plant-Microbe Interactions. 20. (7). p. 781-793.
Chibucos, M.C., Morris, P.F.(2006). Levels of polyamines and kinetic characterization of their uptake in the soybean pathogen Phytophthora sojae . Applied and Environmental Microbiology. 72. (5). p. 3350-3356.
Chibucos, M.C., Morris, P.F.(2006). Levels of polyamines and kinetic characterization of their uptake in the soybean pathogen Phytophthora sojae . Applied and Environmental Microbiology. 72. (5). p. 3350-3356.
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
Tauber, R., Munro, J.B., Nadendla, S., Chibucos, M.C., Giglio, M.(2018). Current development in the Evidence and Conclusion Ontology (ECO) . CEUR Workshop Proceedings. 2285.
Tauber, R., Munro, J.B., Nadendla, S., Chibucos, M.C., Giglio, M.(2018). Current development in the Evidence and Conclusion Ontology (ECO) . CEUR Workshop Proceedings. 2285.
Tauber, R., Chibucos, M.C.(2017). Logical axiomatization of the evidence and conclusion ontology (ECO) by integrating external ontology classes . CEUR Workshop Proceedings. 2137.
Tauber, R., Chibucos, M.C.(2017). Logical axiomatization of the evidence and conclusion ontology (ECO) by integrating external ontology classes . CEUR Workshop Proceedings. 2137.
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.C., Nadendla, S., Munro, J.B., Mitraka, E., Olley, D., Vasilevsky, N.A., Brush, M.H., Giglio, M.(2016). Supporting database annotations and beyond with the Evidence & Conclusion Ontology (ECO) . CEUR Workshop Proceedings. 1747.
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.C., Nadendla, S., Munro, J.B., Mitraka, E., Olley, D., Vasilevsky, N.A., Brush, M.H., Giglio, M.(2016). Supporting database annotations and beyond with the Evidence & Conclusion Ontology (ECO) . CEUR Workshop Proceedings. 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.
BOOK CHAPTER
Chibucos, M.C., Siegele, D.A., Hu, J.C., Giglio, M.(2017). The evidence and conclusion ontology (ECO): Supporting GO annotations . Methods in Molecular Biology. 1446. p. 245-259.
Chibucos, M.C., Siegele, D.A., Hu, J.C., Giglio, M.(2017). The evidence and conclusion ontology (ECO): Supporting GO annotations . Methods in Molecular Biology. 1446. p. 245-259.
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.