Megan Dennis

Title(s)Assistant Professor, Biochemistry and Molecular Medicine
SchoolUniversity of California, Davis
AddressGBSF
CA 95616
Phone530-752-1357
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    Collapse Research 
    Collapse Research Activities and Funding
    The function of duplicated genes in human brain evolution and disease
    NIH DP2MH119424Sep 15, 2018 - May 31, 2023
    Role: Principal Investigator
    Characterization of Human-Specific Duplicated Genes Implicated in Neurocognitive
    NIH R00NS083627Jan 1, 2016 - Dec 31, 2019
    Role: Principal Investigator
    Characterization of Human-Specific Duplicated Genes Implicated in Neurocognitive
    NIH K99NS083627Sep 1, 2013 - Aug 31, 2015
    Role: Principal Investigator
    Genetic & Functional Analysis of Variants Associated with Neurocognitive Disorder
    NIH F32HD071698Jan 1, 2012 - Dec 31, 2014
    Role: Principal Investigator

    Collapse Bibliographic 
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    Publications listed below are automatically derived from MEDLINE/PubMed and other sources, which might result in incorrect or missing publications. Researchers can login to make corrections and additions, or contact us for help. to make corrections and additions.
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    Altmetrics Details PMC Citations indicate the number of times the publication was cited by articles in PubMed Central, and the Altmetric score represents citations in news articles and social media. (Note that publications are often cited in additional ways that are not shown here.) Fields are based on how the National Library of Medicine (NLM) classifies the publication's journal and might not represent the specific topic of the publication. Translation tags are based on the publication type and the MeSH terms NLM assigns to the publication. Some publications (especially newer ones and publications not in PubMed) might not yet be assigned Field or Translation tags.) Click a Field or Translation tag to filter the publications.
    1. Complete genomic and epigenetic maps of human centromeres. Science. 2022 Apr; 376(6588):eabl4178. Altemose N, Logsdon GA, Bzikadze AV, Sidhwani P, Langley SA, Caldas GV, Hoyt SJ, Uralsky L, Ryabov FD, Shew CJ, Sauria MEG, Borchers M, Gershman A, Mikheenko A, Shepelev VA, Dvorkina T, Kunyavskaya O, Vollger MR, Rhie A, McCartney AM, Asri M, Lorig-Roach R, Shafin K, Lucas JK, Aganezov S, Olson D, de Lima LG, Potapova T, Hartley GA, Haukness M, Kerpedjiev P, Gusev F, Tigyi K, Brooks S, Young A, Nurk S, Koren S, Salama SR, Paten B, Rogaev EI, Streets A, Karpen GH, Dernburg AF, Sullivan BA, Straight AF, Wheeler TJ, Gerton JL, Eichler EE, Phillippy AM, Timp W, Dennis MY, O'Neill RJ, Zook JM, Schatz MC, Pevzner PA, Diekhans M, Langley CH, Alexandrov IA, Miga KH. PMID: 35357911.
      View in: PubMed   Mentions:
    2. A complete reference genome improves analysis of human genetic variation. Science. 2022 04; 376(6588):eabl3533. Aganezov S, Yan SM, Soto DC, Kirsche M, Zarate S, Avdeyev P, Taylor DJ, Shafin K, Shumate A, Xiao C, Wagner J, McDaniel J, Olson ND, Sauria MEG, Vollger MR, Rhie A, Meredith M, Martin S, Lee J, Koren S, Rosenfeld JA, Paten B, Layer R, Chin CS, Sedlazeck FJ, Hansen NF, Miller DE, Phillippy AM, Miga KH, McCoy RC, Dennis MY, Zook JM, Schatz MC. PMID: 35357935.
      View in: PubMed   Mentions:
    3. The complete sequence of a human genome. Science. 2022 Apr; 376(6588):44-53. Nurk S, Koren S, Rhie A, Rautiainen M, Bzikadze AV, Mikheenko A, Vollger MR, Altemose N, Uralsky L, Gershman A, Aganezov S, Hoyt SJ, Diekhans M, Logsdon GA, Alonge M, Antonarakis SE, Borchers M, Bouffard GG, Brooks SY, Caldas GV, Chen NC, Cheng H, Chin CS, Chow W, de Lima LG, Dishuck PC, Durbin R, Dvorkina T, Fiddes IT, Formenti G, Fulton RS, Fungtammasan A, Garrison E, Grady PGS, Graves-Lindsay TA, Hall IM, Hansen NF, Hartley GA, Haukness M, Howe K, Hunkapiller MW, Jain C, Jain M, Jarvis ED, Kerpedjiev P, Kirsche M, Kolmogorov M, Korlach J, Kremitzki M, Li H, Maduro VV, Marschall T, McCartney AM, McDaniel J, Miller DE, Mullikin JC, Myers EW, Olson ND, Paten B, Peluso P, Pevzner PA, Porubsky D, Potapova T, Rogaev EI, Rosenfeld JA, Salzberg SL, Schneider VA, Sedlazeck FJ, Shafin K, Shew CJ, Shumate A, Sims Y, Smit AFA, Soto DC, Sovic I, Storer JM, Streets A, Sullivan BA, Thibaud-Nissen F, Torrance J, Wagner J, Walenz BP, Wenger A, Wood JMD, Xiao C, Yan SM, Young AC, Zarate S, Surti U, McCoy RC, Dennis MY, Alexandrov IA, Gerton JL, O'Neill RJ, Timp W, Zook JM, Schatz MC, Eichler EE, Miga KH, Phillippy AM. PMID: 35357919.
      View in: PubMed   Mentions:
    4. Placental methylome reveals a 22q13.33 brain regulatory gene locus associated with autism. Genome Biol. 2022 02 16; 23(1):46. Zhu Y, Gomez JA, Laufer BI, Mordaunt CE, Mouat JS, Soto DC, Dennis MY, Benke KS, Bakulski KM, Dou J, Marathe R, Jianu JM, Williams LA, Gutierrez Fugón OJ, Walker CK, Ozonoff S, Daniels J, Grosvenor LP, Volk HE, Feinberg JI, Fallin MD, Hertz-Picciotto I, Schmidt RJ, Yasui DH, LaSalle JM. PMID: 35168652; PMCID: PMC8848662.
      View in: PubMed   Mentions:
    5. Evaluation of CRISPR gene-editing tools in zebrafish. BMC Genomics. 2022 Jan 06; 23(1):12. Uribe-Salazar JM, Kaya G, Sekar A, Weyenberg K, Ingamells C, Dennis MY. PMID: 34986794; PMCID: PMC8734261.
      View in: PubMed   Mentions:
    6. RapID Cell Counter: Semi-Automated and Mid-Throughput Estimation of Cell Density within Diverse Cortical Layers. eNeuro. 2021 Nov-Dec; 8(6). Sekar A, Sanches TM, Hino K, Kumar M, Wang J, Ha E, Durbin-Johnson B, Simó S, Dennis MY. PMID: 34725102; PMCID: PMC8638678.
      View in: PubMed   Mentions:
    7. Diverse Molecular Mechanisms Contribute to Differential Expression of Human Duplicated Genes. Mol Biol Evol. 2021 07 29; 38(8):3060-3077. Shew CJ, Carmona-Mora P, Soto DC, Mastoras M, Roberts E, Rosas J, Jagannathan D, Kaya G, O'Geen H, Dennis MY. PMID: 34009325; PMCID: PMC8321529.
      View in: PubMed   Mentions:    Fields:    Translation:HumansAnimalsCells
    8. Assessment of Autism Zebrafish Mutant Models Using a High-Throughput Larval Phenotyping Platform. Front Cell Dev Biol. 2020; 8:586296. Colón-Rodríguez A, Uribe-Salazar JM, Weyenberg KB, Sriram A, Quezada A, Kaya G, Jao E, Radke B, Lein PJ, Dennis MY. PMID: 33330465; PMCID: PMC7719691.
      View in: PubMed   Mentions:
    9. Single-cell strand sequencing of a macaque genome reveals multiple nested inversions and breakpoint reuse during primate evolution. Genome Res. 2020 11; 30(11):1680-1693. Maggiolini FAM, Sanders AD, Shew CJ, Sulovari A, Mao Y, Puig M, Catacchio CR, Dellino M, Palmisano D, Mercuri L, Bitonto M, Porubský D, Cáceres M, Eichler EE, Ventura M, Dennis MY, Korbel JO, Antonacci F. PMID: 33093070; PMCID: PMC7605249.
      View in: PubMed   Mentions:    Fields:    
    10. Telomere-to-telomere assembly of a complete human X chromosome. Nature. 2020 09; 585(7823):79-84. Miga KH, Koren S, Rhie A, Vollger MR, Gershman A, Bzikadze A, Brooks S, Howe E, Porubsky D, Logsdon GA, Schneider VA, Potapova T, Wood J, Chow W, Armstrong J, Fredrickson J, Pak E, Tigyi K, Kremitzki M, Markovic C, Maduro V, Dutra A, Bouffard GG, Chang AM, Hansen NF, Wilfert AB, Thibaud-Nissen F, Schmitt AD, Belton JM, Selvaraj S, Dennis MY, Soto DC, Sahasrabudhe R, Kaya G, Quick J, Loman NJ, Holmes N, Loose M, Surti U, Risques RA, Graves Lindsay TA, Fulton R, Hall I, Paten B, Howe K, Timp W, Young A, Mullikin JC, Pevzner PA, Gerton JL, Sullivan BA, Eichler EE, Phillippy AM. PMID: 32663838; PMCID: PMC7484160.
      View in: PubMed   Mentions: 109     Fields:    Translation:HumansCells
    11. Identification of Structural Variation in Chimpanzees Using Optical Mapping and Nanopore Sequencing. Genes (Basel). 2020 03 04; 11(3). Soto DC, Shew C, Mastoras M, Schmidt JM, Sahasrabudhe R, Kaya G, Andrés AM, Dennis MY. PMID: 32143403; PMCID: PMC7140787.
      View in: PubMed   Mentions: 4     Fields:    Translation:HumansAnimals
    12. Psychedelics Promote Structural and Functional Neural Plasticity. Cell Rep. 2018 06 12; 23(11):3170-3182. Ly C, Greb AC, Cameron LP, Wong JM, Barragan EV, Wilson PC, Burbach KF, Soltanzadeh Zarandi S, Sood A, Paddy MR, Duim WC, Dennis MY, McAllister AK, Ori-McKenney KM, Gray JA, Olson DE. PMID: 29898390; PMCID: PMC6082376.
      View in: PubMed   Mentions: 90     Fields:    Translation:AnimalsCells
    13. Human local adaptation of the TRPM8 cold receptor along a latitudinal cline. PLoS Genet. 2018 05; 14(5):e1007298. Key FM, Abdul-Aziz MA, Mundry R, Peter BM, Sekar A, D'Amato M, Dennis MY, Schmidt JM, Andrés AM. PMID: 29723195; PMCID: PMC5933706.
      View in: PubMed   Mentions: 21     Fields:    Translation:Humans
    14. The birth of a human-specific neural gene by incomplete duplication and gene fusion. Genome Biol. 2017 03 09; 18(1):49. Dougherty ML, Nuttle X, Penn O, Nelson BJ, Huddleston J, Baker C, Harshman L, Duyzend MH, Ventura M, Antonacci F, Sandstrom R, Dennis MY, Eichler EE. PMID: 28279197; PMCID: PMC5345166.
      View in: PubMed   Mentions: 13     Fields:    Translation:HumansCells
    15. The evolution and population diversity of human-specific segmental duplications. Nat Ecol Evol. 2017; 1(3):69. Dennis MY, Harshman L, Nelson BJ, Penn O, Cantsilieris S, Huddleston J, Antonacci F, Penewit K, Denman L, Raja A, Baker C, Mark K, Malig M, Janke N, Espinoza C, Stessman HAF, Nuttle X, Hoekzema K, Lindsay-Graves TA, Wilson RK, Eichler EE. PMID: 28580430; PMCID: PMC5450946.
      View in: PubMed   Mentions: 34     Fields:    
    16. Human adaptation and evolution by segmental duplication. Curr Opin Genet Dev. 2016 Dec; 41:44-52. Dennis MY, Eichler EE. PMID: 27584858; PMCID: PMC5161654.
      View in: PubMed   Mentions: 41     Fields:    Translation:HumansCells
    17. Epigenetics of autism-related impairment: copy number variation and maternal infection. J Dev Behav Pediatr. 2015 Feb-Mar; 36(2):61-7. Mazina V, Gerdts J, Trinh S, Ankenman K, Ward T, Dennis MY, Girirajan S, Eichler EE, Bernier R. PMID: 25629966; PMCID: PMC4318761.
      View in: PubMed   Mentions: 34     Fields:    Translation:Humans
    18. Resolving the complexity of the human genome using single-molecule sequencing. Nature. 2015 Jan 29; 517(7536):608-11. Chaisson MJ, Huddleston J, Dennis MY, Sudmant PH, Malig M, Hormozdiari F, Antonacci F, Surti U, Sandstrom R, Boitano M, Landolin JM, Stamatoyannopoulos JA, Hunkapiller MW, Korlach J, Eichler EE. PMID: 25383537; PMCID: PMC4317254.
      View in: PubMed   Mentions: 267     Fields:    Translation:HumansCells
    19. Palindromic GOLGA8 core duplicons promote chromosome 15q13.3 microdeletion and evolutionary instability. Nat Genet. 2014 Dec; 46(12):1293-302. Antonacci F, Dennis MY, Huddleston J, Sudmant PH, Steinberg KM, Rosenfeld JA, Miroballo M, Graves TA, Vives L, Malig M, Denman L, Raja A, Stuart A, Tang J, Munson B, Shaffer LG, Amemiya CT, Wilson RK, Eichler EE. PMID: 25326701; PMCID: PMC4244265.
      View in: PubMed   Mentions: 46     Fields:    Translation:HumansAnimalsCells
    20. Selection on a variant associated with improved viral clearance drives local, adaptive pseudogenization of interferon lambda 4 (IFNL4). PLoS Genet. 2014 Oct; 10(10):e1004681. Key FM, Peter B, Dennis MY, Huerta-Sánchez E, Tang W, Prokunina-Olsson L, Nielsen R, Andrés AM. PMID: 25329461; PMCID: PMC4199494.
      View in: PubMed   Mentions: 37     Fields:    Translation:HumansAnimalsCells
    21. Reconstructing complex regions of genomes using long-read sequencing technology. Genome Res. 2014 Apr; 24(4):688-96. Huddleston J, Ranade S, Malig M, Antonacci F, Chaisson M, Hon L, Sudmant PH, Graves TA, Alkan C, Dennis MY, Wilson RK, Turner SW, Korlach J, Eichler EE. PMID: 24418700; PMCID: PMC3975067.
      View in: PubMed   Mentions: 107     Fields:    Translation:HumansAnimalsCells
    22. Refinement and discovery of new hotspots of copy-number variation associated with autism spectrum disorder. Am J Hum Genet. 2013 Feb 07; 92(2):221-37. Girirajan S, Dennis MY, Baker C, Malig M, Coe BP, Campbell CD, Mark K, Vu TH, Alkan C, Cheng Z, Biesecker LG, Bernier R, Eichler EE. PMID: 23375656; PMCID: PMC3567267.
      View in: PubMed   Mentions: 119     Fields:    Translation:HumansCells
    23. Evolution of human-specific neural SRGAP2 genes by incomplete segmental duplication. Cell. 2012 May 11; 149(4):912-22. Dennis MY, Nuttle X, Sudmant PH, Antonacci F, Graves TA, Nefedov M, Rosenfeld JA, Sajjadian S, Malig M, Kotkiewicz H, Curry CJ, Shafer S, Shaffer LG, de Jong PJ, Wilson RK, Eichler EE. PMID: 22559943; PMCID: PMC3365555.
      View in: PubMed   Mentions: 138     Fields:    Translation:HumansAnimalsCells
    24. Detection of structural variants and indels within exome data. Nat Methods. 2011 Dec 18; 9(2):176-8. Karakoc E, Alkan C, O'Roak BJ, Dennis MY, Vives L, Mark K, Rieder MJ, Nickerson DA, Eichler EE. PMID: 22179552; PMCID: PMC3269549.
      View in: PubMed   Mentions: 58     Fields:    
    25. A rare myelin protein zero (MPZ) variant alters enhancer activity in vitro and in vivo. PLoS One. 2010 Dec 16; 5(12):e14346. Antonellis A, Dennis MY, Burzynski G, Huynh J, Maduro V, Hodonsky CJ, Khajavi M, Szigeti K, Mukkamala S, Bessling SL, Pavan WJ, McCallion AS, Lupski JR, Green ED, NISC Comparative Sequencing Program. PMID: 21179557; PMCID: PMC3002941.
      View in: PubMed   Mentions: 9     Fields:    Translation:HumansAnimalsCells
    26. Balancing selection maintains a form of ERAP2 that undergoes nonsense-mediated decay and affects antigen presentation. PLoS Genet. 2010 Oct 14; 6(10):e1001157. Andrés AM, Dennis MY, Kretzschmar WW, Cannons JL, Lee-Lin SQ, Hurle B, NISC Comparative Sequencing Program, Schwartzberg PL, Williamson SH, Bustamante CD, Nielsen R, Clark AG, Green ED. PMID: 20976248; PMCID: PMC2954825.
      View in: PubMed   Mentions: 94     Fields:    Translation:HumansCells
    27. A common variant associated with dyslexia reduces expression of the KIAA0319 gene. PLoS Genet. 2009 Mar; 5(3):e1000436. Dennis MY, Paracchini S, Scerri TS, Prokunina-Olsson L, Knight JC, Wade-Martins R, Coggill P, Beck S, Green ED, Monaco AP. PMID: 19325871; PMCID: PMC2653637.
      View in: PubMed   Mentions: 50     Fields:    Translation:HumansCells
    28. Mutation of Tyr-218 to Phe in Thermoanaerobacter ethanolicus secondary alcohol dehydrogenase: effects on bioelectronic interface performance. Appl Biochem Biotechnol. 2007 Oct; 143(1):1-15. Hassler BL, Dennis M, Laivenieks M, Zeikus JG, Worden RM. PMID: 18025592.
      View in: PubMed   Mentions:    Fields:    Translation:Cells
    29. Further evidence that the KIAA0319 gene confers susceptibility to developmental dyslexia. Mol Psychiatry. 2006 Dec; 11(12):1085-91, 1061. Harold D, Paracchini S, Scerri T, Dennis M, Cope N, Hill G, Moskvina V, Walter J, Richardson AJ, Owen MJ, Stein JF, Green ED, O'Donovan MC, Williams J, Monaco AP. PMID: 17033633.
      View in: PubMed   Mentions: 76     Fields:    Translation:HumansCellsCTClinical Trials
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