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Perry Ridge

Associate Professor

4126 LSB
Provo, UT 84602

Teaching Interests

  • Bioinformatics
  • Genetics
  • Genomics

Research Interests

  • Bioinformatics
  • Computational Biology
  • Genetics


  • International Society for Computational Biology, 2013-Present
  • Alzheimer's Association, 2012-Present
  • American Society of Human Genetics, 2010-Present

Courses Taught

Winter 2019

  • BIO 494R: Mentored Research Section 015
  • BIO 799R: Dissertation Section 013

Fall 2018

  • BIO 165: Introduction to Bioinformatics Section 001, 002
  • BIO 494R: Mentored Research Section 015
  • BIO 664: Bioinf & Data Analysis 1 Section 001
  • BIO 799R: Dissertation Section 014

Summer 2018

  • BIO 799R: Dissertation Section 013

Spring 2018

  • BIO 194: Intro to Mentored Research Section 001
  • BIO 799R: Dissertation Section 012


Journal Articles

Morley S, Peralta-Castro A, Brieba LG, Miller J, Ong K, Ridge PG, Oliphant A, Aldous S, Nielsen B. 2019. Arabidopsis thaliana organelles mimic the T7 phage DNA replisome with specific interactions between Twinkle protein and DNA polymerases Pol1A and Pol1B. BMC Plant Biology. 19:16 pages.

Ridge PG, Karch CM, Hsu S, Arano I, Teerlink CC, Ebbert MT, Gonzalez Murcia JD, Farnham JM, Damato AR, Allen M, et al. 2017. Linkage, whole genome sequence, and biological data implicate variants in RAB10 in Alzheimer’s disease resilience. Genome Medicine. 9:100.

Gardner SG, Miller JB, Dean T, Robinson T, Erickson M, Ridge PG, McCleary WR. 2015. Genetic analysis, structural modeling, and direct couple analysis suggest a mechanism for phosphate signaling in Escherichia coli. BMC Genetics. 16(Suppl 2):11.

Lythgoe C, Perkes A, Peterson M, Schmutz C, Leary M, Ebbert MT, Ridge PG, Norton MC, Tschanz JT, Munger RG, et al. 2015. Population-based analysis of cholesteryl ester transfer protein identifies association between I405V and cognitive decline: the Cache County Study. Neurobiology of aging. 36(1):547.e1-3.

Kauwe JS, Bailey MH, Ridge PG, Perry R, Wadsworth ME, Hoyt KL, Staley LA, Karch CM, Harari O, Cruchaga C, et al. 2014. Genome-wide association study of CSF levels of 59 alzheimer's disease candidate proteins: significant associations with proteins involved in amyloid processing and inflammation. PLoS genetics. 10(10):e1004758.

Cruchaga C, Karch CM, Jin SC, Benitez BA, Cai Y, Guerreiro R, Harari O, Norton J, Budde J, Bertelsen S, et al. 2014. Rare coding variants in the phospholipase D3 gene confer risk for Alzheimer's disease. Nature. 505(7484):550-4.

Ridge PG, Maxwell TJ, Foutz SJ, Bailey MH, Corcoran CD, Tschanz JT, Norton MC, Munger RG, O'Brien E, Kerber RA, et al. 2014. Mitochondrial genomic variation associated with higher mitochondrial copy number: the Cache County Study on Memory Health and Aging. BMC Bioinformatics. 15(Suppl 7):S6.

Sharp AR, Ridge PG, Bailey MH, Boehme KL, Norton MC, Tschanz JT, Munger RG, Corcoran CD, Kauwe JS. 2014. Population substructure in Cache County, Utah: the Cache County study. BMC Bioinformatics. 15(Suppl 7):S8.

Ebbert MT, Wadsworth ME, Boehme KL, Hoyt KL, Sharp AR, O'Fallon BD, Kauwe JS, Ridge PG. 2014. Variant Tool Chest: an improved tool to analyze and manipulate variant call format (VCF) files. BMC Bioinformatics. 15(Suppl 7):S12.

Ebbert MT, Ridge PG, Wilson AR, Sharp AR, Bailey M, Norton MC, Tschanz JT, Munger RG, Corcoran CD, Kauwe JS. 2014. Population-based Analysis of Alzheimer’s Disease Risk Alleles Implicates Genetic Interactions. Biological Psychiatry. 75(9):732-739.

Ridge PG, Mukherjee S, Crane PK, Kauwe JS. 2013. Alzheimer's disease: analyzing the missing heritability. PLoS One. 8(11).

Chen K, Coonrod EM, Kumanovics A, Franks ZF, Durtschi JD, Margraf RL, Wu W, Heikal NM, Augustine NH, Ridge PG, et al. 2013. Germline Mutations in NFKB2 Implicate the Noncanonical NF-ë¼B Pathway in the Pathogenesis of Common Variable Immunodeficiency. Am. J. Hum. Genet.

Kauwe JS, Ridge PG, Foster NL, Cannon-Albright LA. 2013. Strong evidence for a genetic contribution to late-onset Alzheimer’s disease mortality: a population-based study. PLoS ONE. 8(10).

Ridge PG, Koop A, Maxwell TJ, Bailey MH, Swerdlow RH, Kauwe JS, Honea RA. 2013. Mitochondrial haplotypes associated with biomarkers for Alzheimer’s disease. PLoS ONE. 8(9).

Ridge PG, Ebbert MT, Kauwe JS. 2013. Genetics of Alzheimer’s disease. Biomed Research International. 2013(254954).

Conference Proceedings

Seeley M, Clement MJ, Giraud-Carrier CG, Snell QO, Bodily P, Fujimoto S, Kauwe JS, Ridge PG. 2014. A Structured Approach to Ensemble Learning for Alzheimer’s Disease Prediction. New York, NY, USA: ACM.

Bodily PM, Clement MJ, Snell QO, Fujimoto S, Ridge PG. 2014. Haplotype-centered Mapping for Improved Alignments and Genetic Association Studies. New York, NY, USA: ACM.


Miller JB, McKinnon LM, Whiting MF, Ridge PG. Codon Aversion Motifs: An alignment-free method to recover phylogenies. ISCB Rocky Mountain Bioinformatics Conference. Aspen/Snowmass, Colorado, USA. 2017.

Morley S, Miller J, Ridge PG, Nielsen B. Assembling the Arabidopsis Mitochondrial DNA Replisome. 28th International Conference on Arabidopsis Research. St. Louis, MO. 2017.

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