Scholars@Duke

• Background
• 

  Education, Training, & Certifications

  • Ph.D., Duke University 2017
• 

  Duke Appointment History

  • Assistant Professor of Biostatistics and Bioinformatics, Biostatistics & Bioinformatics, Basic Science Departments 2020
  • Assistant Professor of Biostatistics andBioinformatics, Biostatistics & Bioinformatics, Basic Science Departments 2019 - 2020
• Research
• 

  Selected Grants

  • Design, prediction, and prioritization of systematic perturbations of the human genome awarded by National Institutes of Health 2021 - 2026
  • High-Throughput Functional Annotation of Gene Regulatory Elements and Variants Critical to Complex Cellular Phenotypes awarded by National Institutes of Health 2021 - 2026
  • Beyond GWAS: High Throughput Functional Genomics & Epigenome Editing to Elucidate the Effects of Genetic Associations for Schizophrenia awarded by National Institutes of Health 2021 - 2026
  • The Duke FUNCTION Center: Pioneering the comprehensive identification of combinatorial noncoding causes of disease awarded by National Institutes of Health 2020 - 2023
  • Quantifying the genetic diversity of human regulatory element activity awarded by National Institutes of Health 2019 - 2023
  • Identifying Pathogenic Non-Coding Mutations in Rare Mendelian Disease awarded by National Institutes of Health 2019 - 2022
  • Thwarting Influenza with RNA-powered Modulators (ThIRM) awarded by Georgia Institute of Technology 2019 - 2022
  • Decoding and Reprogramming the Corticosteroid Transcriptional Regulatory Network awarded by National Institutes of Health 2015 - 2018
  • Genetics and Genomics of Maternal Glycemia During Pregnancy awarded by Northwestern University 2013 - 2018
  • Genetics and Evolution of Fetal Human Fat Accretion During Development awarded by Northwestern University 2013 - 2018
  • University of Utah awarded by University of Utah 2017 - 2018
  • EAGER: Graph-based Genome Annotation and Analyses for Plant Genomes awarded by University of Utah 2016 - 2017
  • Modeling the structure & evolution of regulatory regions in eukaryotic genomes awarded by National Institutes of Health 2007 - 2013
  • Function of alpha herpesvirus microRNAs awarded by National Institutes of Health 2010 - 2011
• Publications & Artistic Works
• 

  Selected Publications

  • Books

    • Majoros, William H. Methods for computational gene prediction. Cambridge Univ Pr, 2007.

  • Academic Articles

    • Majoros, William H., Young-Sook Kim, Alejandro Barrera, Fan Li, Xingyan Wang, Sarah J. Cunningham, Graham D. Johnson, et al. “Bayesian estimation of genetic regulatory effects in high-throughput reporter assays.” Bioinformatics 36, no. 2 (January 15, 2020): 331–38. https://doi.org/10.1093/bioinformatics/btz545.
       Full Text  Link to Item
    • Edsall, Lee E., Alejandro Berrio, William H. Majoros, Devjanee Swain-Lenz, Shauna Morrow, Yoichiro Shibata, Alexias Safi, Gregory A. Wray, Gregory E. Crawford, and Andrew S. Allen. “Evaluating Chromatin Accessibility Differences Across Multiple Primate Species Using a Joint Modeling Approach.” Genome Biol Evol 11, no. 10 (October 1, 2019): 3035–53. https://doi.org/10.1093/gbe/evz218.
       Full Text  Link to Item
    • Johnson, Graham D., Alejandro Barrera, Ian C. McDowell, Anthony M. D’Ippolito, William H. Majoros, Christopher M. Vockley, Xingyan Wang, Andrew S. Allen, and Timothy E. Reddy. “Human genome-wide measurement of drug-responsive regulatory activity.” Nat Commun 9, no. 1 (December 21, 2018): 5317. https://doi.org/10.1038/s41467-018-07607-x.
       Full Text  Link to Item
    • Majoros, William H., Carson Holt, Michael S. Campbell, Doreen Ware, Mark Yandell, and Timothy E. Reddy. “Predicting gene structure changes resulting from genetic variants via exon definition features.” Bioinformatics 34, no. 21 (November 1, 2018): 3616–23. https://doi.org/10.1093/bioinformatics/bty324.
       Full Text  Link to Item
    • McDowell, Ian C., Alejandro Barrera, Anthony M. D’Ippolito, Christopher M. Vockley, Linda K. Hong, Sarah M. Leichter, Luke C. Bartelt, et al. “Glucocorticoid receptor recruits to enhancers and drives activation by motif-directed binding.” Genome Res 28, no. 9 (September 2018): 1272–84. https://doi.org/10.1101/gr.233346.117.
       Full Text  Link to Item
    • D’Ippolito, Anthony M., Ian C. McDowell, Alejandro Barrera, Linda K. Hong, Sarah M. Leichter, Luke C. Bartelt, Christopher M. Vockley, et al. “Pre-established Chromatin Interactions Mediate the Genomic Response to Glucocorticoids.” Cell Syst 7, no. 2 (August 22, 2018): 146-160.e7. https://doi.org/10.1016/j.cels.2018.06.007.
       Full Text  Link to Item
    • Majoros, William H., Michael S. Campbell, Carson Holt, Erin K. DeNardo, Doreen Ware, Andrew S. Allen, Mark Yandell, and Timothy E. Reddy. “High-throughput interpretation of gene structure changes in human and nonhuman resequencing data, using ACE.” Bioinformatics 33, no. 10 (May 15, 2017): 1437–46. https://doi.org/10.1093/bioinformatics/btw799.
       Full Text  Link to Item
    • Gussow, Ayal B., Brett R. Copeland, Ryan S. Dhindsa, Quanli Wang, Slavé Petrovski, William H. Majoros, Andrew S. Allen, and David B. Goldstein. “Orion: Detecting regions of the human non-coding genome that are intolerant to variation using population genetics.” Plos One 12, no. 8 (2017): e0181604. https://doi.org/10.1371/journal.pone.0181604.
       Full Text  Link to Item
    • Vockley, Christopher M., Anthony M. D’Ippolito, Ian C. McDowell, William H. Majoros, Alexias Safi, Lingyun Song, Gregory E. Crawford, and Timothy E. Reddy. “Direct GR Binding Sites Potentiate Clusters of TF Binding across the Human Genome.” Cell 166, no. 5 (August 25, 2016): 1269-1281.e19. https://doi.org/10.1016/j.cell.2016.07.049.
       Full Text  Link to Item
    • Snyder-Mackler, Noah, William H. Majoros, Michael L. Yuan, Amanda O. Shaver, Jacob B. Gordon, Gisela H. Kopp, Stephen A. Schlebusch, et al. “Efficient Genome-Wide Sequencing and Low-Coverage Pedigree Analysis from Noninvasively Collected Samples.” Genetics 203, no. 2 (June 2016): 699–714. https://doi.org/10.1534/genetics.116.187492.
       Full Text  Link to Item
    • Vockley, Christopher M., Cong Guo, William H. Majoros, Michael Nodzenski, Denise M. Scholtens, M Geoffrey Hayes, William L. Lowe, and Timothy E. Reddy. “Massively parallel quantification of the regulatory effects of noncoding genetic variation in a human cohort.” Genome Res 25, no. 8 (August 2015): 1206–14. https://doi.org/10.1101/gr.190090.115.
       Full Text  Link to Item
    • Ousterout, D. G., A. M. Kabadi, P. I. Thakore, P. Perez-Pinera, M. T. Brown, W. H. Majoros, T. E. Reddy, and C. A. Gersbach. “Correction of dystrophin expression in cells from Duchenne muscular dystrophy patients through genomic excision of exon 51 by zinc finger nucleases.” Molecular Therapy 23, no. 3 (March 5, 2015): 523–32. https://doi.org/10.1038/mt.2014.234.
       Full Text
    • Ousterout, David G., Ami M. Kabadi, Pratiksha I. Thakore, Pablo Perez-Pinera, Matthew T. Brown, William H. Majoros, Timothy E. Reddy, and Charles A. Gersbach. “Correction of dystrophin expression in cells from Duchenne muscular dystrophy patients through genomic excision of exon 51 by zinc finger nucleases.” Mol Ther 23, no. 3 (March 2015): 523–32. https://doi.org/10.1038/mt.2014.234.
       Full Text  Link to Item
    • Ousterout, David G., Ami M. Kabadi, Pratiksha I. Thakore, William H. Majoros, Timothy E. Reddy, and Charles A. Gersbach. “Multiplex CRISPR/Cas9-based genome editing for correction of dystrophin mutations that cause Duchenne muscular dystrophy.” Nat Commun 6 (February 18, 2015): 6244. https://doi.org/10.1038/ncomms7244.
       Full Text  Link to Item
    • Majoros, William H., Niel Lebeck, Uwe Ohler, and Song Li. “Improved transcript isoform discovery using ORF graphs.” Bioinformatics 30, no. 14 (July 15, 2014): 1958–64. https://doi.org/10.1093/bioinformatics/btu160.
       Full Text  Link to Item
    • Majoros, William H., Parawee Lekprasert, Neelanjan Mukherjee, Rebecca L. Skalsky, David L. Corcoran, Bryan R. Cullen, and Uwe Ohler. “MicroRNA target site identification by integrating sequence and binding information.” Nat Methods 10, no. 7 (July 2013): 630–33. https://doi.org/10.1038/nmeth.2489.
       Full Text  Link to Item
    • Pruteanu-Malinici, Iulian, William H. Majoros, and Uwe Ohler. “Automated annotation of gene expression image sequences via non-parametric factor analysis and conditional random fields.” Bioinformatics 29, no. 13 (July 1, 2013): i27–35. https://doi.org/10.1093/bioinformatics/btt206.
       Full Text  Link to Item
    • Majoros, W. H., P. Lekprasert, N. Mukherjee, R. L. Skalsky, D. L. Corcoran, B. R. Cullen, and U. Ohler. “MicroRNA target site identification by integrating sequence and binding information (Accepted).” Nature Methods, May 26, 2013. https://doi.org/10.138/nmeth.2489.
       Full Text
    • LaMonte, Gregory, Nisha Philip, Joseph Reardon, Joshua R. Lacsina, William Majoros, Lesley Chapman, Courtney D. Thornburg, et al. “Translocation of sickle cell erythrocyte microRNAs into Plasmodium falciparum inhibits parasite translation and contributes to malaria resistance.” Cell Host Microbe 12, no. 2 (August 16, 2012): 187–99. https://doi.org/10.1016/j.chom.2012.06.007.
       Full Text  Link to Item
    • Majoros, William H., and Uwe Ohler. “Modeling the evolution of regulatory elements by simultaneous detection and alignment with phylogenetic pair HMMs.” Plos Comput Biol 6, no. 12 (December 16, 2010): e1001037. https://doi.org/10.1371/journal.pcbi.1001037.
       Full Text  Open Access Copy  Link to Item
    • Majoros, William H., and Uwe Ohler. “Complexity reduction in context-dependent DNA substitution models.” Bioinformatics 25, no. 2 (January 15, 2009): 175–82. https://doi.org/10.1093/bioinformatics/btn598.
       Full Text  Link to Item
    • Rach, Elizabeth A., Hsiang-Yu Yuan, William H. Majoros, Pavel Tomancak, and Uwe Ohler. “Motif composition, conservation and condition-specificity of single and alternative transcription start sites in the Drosophila genome.” Genome Biol 10, no. 7 (2009): R73. https://doi.org/10.1186/gb-2009-10-7-r73.
       Full Text  Link to Item
    • Gottwein, Eva, Neelanjan Mukherjee, Christoph Sachse, Corina Frenzel, William H. Majoros, Jen-Tsan A. Chi, Ravi Braich, et al. “A viral microRNA functions as an orthologue of cellular miR-155.” Nature 450, no. 7172 (December 13, 2007): 1096–99. https://doi.org/10.1038/nature05992.
       Full Text  Link to Item
    • Majoros, William H., and Uwe Ohler. “Spatial preferences of microRNA targets in 3' untranslated regions.” Bmc Genomics 8 (June 7, 2007): 152. https://doi.org/10.1186/1471-2164-8-152.
       Full Text  Link to Item
    • Eisen, Jonathan A., Robert S. Coyne, Martin Wu, Dongying Wu, Mathangi Thiagarajan, Jennifer R. Wortman, Jonathan H. Badger, et al. “Macronuclear genome sequence of the ciliate Tetrahymena thermophila, a model eukaryote.” Plos Biol 4, no. 9 (September 2006): e286. https://doi.org/10.1371/journal.pbio.0040286.
       Full Text  Link to Item
    • Majoros, W. H., M. Pertea, and S. L. Salzberg. “Efficient implementation of a generalized pair hidden Markov model for comparative gene finding.” Bioinformatics 21, no. 9 (May 1, 2005): 1782–88. https://doi.org/10.1093/bioinformatics/bti297.
       Full Text
    • Anderson, I. J., R. F. Watkins, J. Samuelson, D. F. Spencer, William Majoros, M. W. Gray, and B. J. Loftus. “Gene discovery in the Acanthamoeba castellanii genome.” Protist 156 (2005): 203-214-203–14.
    • Majoros, William, Mihaela Pertea, Arthur Delcher, and Steven Salzberg. “Efficient decoding algorithms for generalized hidden Markov model gene finders.” Bmc Bioinformatics 6, no. 16 (2005).
    • Nierman, William, William author 51, William Majoros, and William 97 authors. “Genomic sequence of the pathogenic and allergenic filamentous fungus Aspergillus fumigatus.” Nature 438 (2005): 1151-1156-1151–56.
       Link to Item
    • Majoros, W. H., M. Pertea, and S. L. Salzberg. “TigrScan and GlimmerHMM: two open source ab initio eukaryotic gene-finders.” Bioinformatics 20, no. 16 (November 1, 2004): 2878–79. https://doi.org/10.1093/bioinformatics/bth315.
       Full Text
    • ENCODE Project Consortium, E. J. “The ENCODE (ENCyclopedia Of DNA Elements) Project.” Science 306, no. 5696 (October 22, 2004): 636–40. https://doi.org/10.1126/science.1105136.
       Full Text  Link to Item
    • Majoros, William, and Steven Salzberg. “An empirical analysis of training protocols for probabilistic gene finders.” Bmc Bioinformatics 5, no. 206 (2004).
    • Mi, H. “Assessment of Genome-Wide Protein Function Classification for Drosophila melanogaster.” Genome Research 13, no. 9 (September 1, 2003): 2118–28. https://doi.org/10.1101/gr.771603.
       Full Text
    • Majoros, W. H. “GlimmerM, Exonomy and Unveil: three ab initio eukaryotic genefinders.” Nucleic Acids Research 31, no. 13 (July 1, 2003): 3601–4. https://doi.org/10.1093/nar/gkg527.
       Full Text
    • Majoros, W. H., G. M. Subramanian, and M. D. Yandell. “Identification of key concepts in biomedical literature using a modified Markov heuristic.” Bioinformatics 19, no. 3 (February 12, 2003): 402–7. https://doi.org/10.1093/bioinformatics/btg010.
       Full Text
    • Mural, Richard J., Eugene W. Myers, Hamilton Smith, George L. Gabor Miklos, Ron Wides, Aaron Halpern, Peter W. Li, et al. “A preliminary comparison of the mouse and human genomes.” International Congress Series 1246 (December 2002): 169–81. https://doi.org/10.1016/s0531-5131(02)01137-8.
       Full Text
    • Yandell, Mark D., and William H. Majoros. “Genomics and natural language processing.” Nature Reviews Genetics 3, no. 8 (August 2002): 601–10. https://doi.org/10.1038/nrg861.
       Full Text
    • Mural, R. J. “A Comparison of Whole-Genome Shotgun-Derived Mouse Chromosome 16 and the Human Genome.” Science 296, no. 5573 (May 31, 2002): 1661–71. https://doi.org/10.1126/science.1069193.
       Full Text
    • Majoros, William. “Syntactic Structure in Birdsong: Memetic Evolution of Songs or Grammars?” Journal of Memetics 6 (2002).
    • Venter, J. C., J. C. author 249, William Majoros, and William 273 authors. “The sequence of the human genome.” Science 291 (2001): 1304-1351-1304–51.

  • Book Sections

    • Majoros, W. H., I. Korf, and U. Ohler. “Gene prediction methods.” In Bioinformatics: Tools and Applications, 99–119, 2007. https://doi.org/10.1007/978-0-387-92738-1_5.
       Full Text
    • Majoros, William, and Uwe Ohler. “Advancing the State of the Art in Computational Gene Prediction.” In Proceedings of KDECB / Benelearn ’06. Springer-Verlag, 2007.
    • Majoros, William. “Dynamic programming for gene finders.” In Encyclopedia of Genetics, Genomics, Proteomics, and Bioinformatics. Wiley, 2005.
    • Majoros, William. “Automatic concept identification in biomedical literature.” In Encyclopedia of Genetics, Genomics, Proteomics, and Bioinformatics. Wiley, 2005.
• Teaching & Mentoring
• 

  Recent Courses

  • BIOSTAT 914: Graphical Models for Biological Data 2020
  • CBB 914: Graphical Models for Biological Data 2020

Some information on this profile has been compiled automatically from Duke databases and external sources. (Our About page explains how this works.) If you see a problem with the information, please write to Scholars@Duke and let us know. We will reply promptly.