Scholars@Duke

• Background
• 

  Education, Training, & Certifications

  • Ph.D., Princeton University 2013
• Recognition
• 

  Awards & Honors

  • Whitehead Scholars. Whitehead Charitable Foundation. January 13, 2020
• Expertise
• 

  Subject Headings

  • Computational Biology
  • Genetics--Statistical methods
  • Genome-Wide Association Study
  • Human population genetics
  • Kinship
  • Method of moments
  • Population genetics
  • Statistics, Nonparametric
• 

  Global Scholarship

  • Expertise

    • Mexico (Country) 
• Research
• 

  Selected Grants

  • Genetic and Genomics Training Grant awarded by National Institutes of Health 2020 - 2025
  • Defining the Landscape of HLA Risk Alleles in Primary Nephrotic Syndrome and Post Kidney Transplant Recurrence awarded by National Institutes of Health 2020 - 2025
  • The Duke FUNCTION Center: Pioneering the comprehensive identification of combinatorial noncoding causes of disease awarded by National Institutes of Health 2020 - 2023
  • Bioinformatics and Computational Biology Training Program awarded by National Institutes of Health 2005 - 2021
• Publications & Artistic Works
• 

  Selected Publications

  • Academic Articles

    • Kim, Young-Sook, Graham D. Johnson, Jungkyun Seo, Alejandro Barrera, Thomas N. Cowart, William H. Majoros, Alejandro Ochoa, Andrew S. Allen, and Timothy E. Reddy. “Correcting signal biases and detecting regulatory elements in STARR-seq data.” Genome Res 31, no. 5 (May 2021): 877–89. https://doi.org/10.1101/gr.269209.120.
       Full Text  Link to Item
    • Ochoa, Alejandro, and John D. Storey. “Estimating FST and kinship for arbitrary population structures.” Plos Genet 17, no. 1 (January 2021): e1009241. https://doi.org/10.1371/journal.pgen.1009241.
       Full Text  Link to Item
    • Ochoa, Alejandro, and John Storey. “New kinship and FST estimates reveal higher levels of differentiation in the global human population,” May 30, 2019. https://doi.org/10.1101/653279.
       Full Text
    • Ochoa, Alejandro, and Mona Singh. “Domain prediction with probabilistic directional context.” Bioinformatics 33, no. 16 (August 15, 2017): 2471–78. https://doi.org/10.1093/bioinformatics/btx221.
       Full Text  Link to Item
    • Ochoa, Alejandro, and Mona Singh. “Domain prediction with probabilistic directional context,” December 14, 2016. https://doi.org/10.1101/094284.
       Full Text
    • Ochoa, Alejandro, and John Storey. “FST and kinship for arbitrary population structures I: Generalized definitions,” October 27, 2016. https://doi.org/10.1101/083915.
       Full Text
    • Ochoa, Alejandro, and John Storey. “FST and kinship for arbitrary population structures II: Method-of-moments estimators,” October 27, 2016. https://doi.org/10.1101/083923.
       Full Text
    • Cobbold, Simon A., Joana M. Santos, Alejandro Ochoa, David H. Perlman, and Manuel Llinás. “Proteome-wide analysis reveals widespread lysine acetylation of major protein complexes in the malaria parasite.” Sci Rep 6 (January 27, 2016): 19722. https://doi.org/10.1038/srep19722.
       Full Text  Link to Item
    • Ochoa, Alejandro, John D. Storey, Manuel Llinás, and Mona Singh. “Beyond the E-Value: Stratified Statistics for Protein Domain Prediction.” Plos Comput Biol 11, no. 11 (November 2015): e1004509. https://doi.org/10.1371/journal.pcbi.1004509.
       Full Text  Link to Item
    • Szpara, Moriah L., Derek Gatherer, Alejandro Ochoa, Benjamin Greenbaum, Aidan Dolan, Rory J. Bowden, Lynn W. Enquist, Matthieu Legendre, and Andrew J. Davison. “Evolution and diversity in human herpes simplex virus genomes.” J Virol 88, no. 2 (January 2014): 1209–27. https://doi.org/10.1128/JVI.01987-13.
       Full Text  Link to Item
    • Ochoa, Alejandro, Manuel Llinás, and Mona Singh. “Using context to improve protein domain identification.” Bmc Bioinformatics 12 (March 31, 2011): 90. https://doi.org/10.1186/1471-2105-12-90.
       Full Text  Link to Item
    • Grigoryan, Gevorg, Alejandro Ochoa, and Amy E. Keating. “Computing van der Waals energies in the context of the rotamer approximation.” Proteins 68, no. 4 (September 1, 2007): 863–78. https://doi.org/10.1002/prot.21470.
       Full Text  Link to Item

  • Conference Papers

    • Gottipati, Srikanth, Alejandro Ochoa, Bharath Ramaswamy, Merzu Belete, and John Storey. “T73GENOME-WIDE ASSOCIATION STUDY FOR PSYCHIATRIC RESPONSE TO ANTI-PSYCHOTIC TREATMENT.” In European Neuropsychopharmacology, 29:S254–S254. Elsevier BV, 2019. https://doi.org/10.1016/j.euroneuro.2019.08.272.
       Full Text
• Teaching & Mentoring
• 

  Recent Courses

  • UPGEN 778C: University Program in Genetics and Genomics Biological Solutions Module Ill 2021

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.