Daniela Soto, grad student & postdoc
Current
Postdoctoral fellow in Dr. Jonathan Flint’s group at UCLA (2023-current)
Education
Ph.D. student, Integrative Genetics and Genomics graduate group, UC Davis (2022)
M.S. Engineering, Pontificia Universidad Católica de Chile (2015)
Biological Engineering, Pontificia Universidad Católica de Chile (2012)
Professional Experience
Postdoc - Dennis lab, UC Davis (2023)
Bioinformatics support - Plant Systems Biology Lab, Pontificia Universidad Católica de Chile (2015-2017)
Research assistant – Fondecyt Project, Pontificia Universidad Católica de Chile (2012 - 2014)
Part-time researcher – Biofiltro SPA (2013)
Interests
Bioinformatics
Data science
Omics integration
Women in STEM
Hobbies
Classical guitar playing
Digital illustration
Latin dancing
Reading
Recent Publications
FixItFelix: improving genomic analysis by fixing reference errors. Behera S, LeFaive J, Orchard P, Mahmoud M, Paulin LF, Farek J, Soto DC, Parker SCJ, Smith AV, Dennis MY, Zook JM^, Sedlazeck FJ^. Genome Biology. 2023. doi: 10.1101/2022.07.18.500506
Genomic structural variation: A complex but important driver of human evolution. Soto DC*, Uribe-Salazar JM*, Shew CJ*, Sekar A, McGinty SP, Dennis MY^. Am J Biol Anthropol. 2023. Review. doi: 10.1002/ajpa.24713
A complete reference genome improves analysis of human genetic variation. 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^. Science. 2022.
The complete sequence of a human genome. 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, Sović 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^. Science. 2022.
Placental methylome reveals a 22q13.33 brain regulatory gene locus associated with autism. 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^. Genome Biol. 2022 Feb 16;23(1):46.
Diverse molecular mechanisms contribute to differential expression of human duplicated genes. Shew CJ, Carmona-Mora P, Soto DC, Mastoras M, Roberts E, Rosas J, Jagannathan D, Kaya G, O’Geen H, Dennis MY. MBE. 2021.
Telomere-to-telomere assembly of a complete human X chromosome. 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, Lindsay TAG, Fulton R, Hall I, Paten B, Howe K, Timp W, Young A, Mullikin JC, Pevzner PA, Gerton JL, Sullivan BA, Eichler EE, Phillippy AM. Nature. Jul 14. 2020.
Identification of Structural Variation in Chimpanzees Using Optical Mapping and Nanopore Sequencing. Soto DC*, Shew C*, Mastoras M, Schmidt JM, Sahasrabudhe R, Kaya G, Andrés AM, Dennis MY. Genes (Basel). 2020 Mar 4;11(3).
Contact: dcsoto [at] ucdavis.edu | Personal website: dcsoto.github.io