Publications

2025

Human-specific gene expansions contribute to brain evolution.

Soto DC†, Uribe-Salazar JM†, et al.Cell. 2025.

co-first

Drug-Based Lifespan Extension in Mice Strongly Affects Lipids Across Six Organs.

Greenfield S et al.Aging Cell. 2025.

Local genetic adaptation to habitat in wild chimpanzees.

Ostridge HJ et al.Science. 2025.

2024

Integration of CTCF loops, methylome, and transcriptome in differentiating LUHMES as a model for imprinting dynamics of the 15q11-q13 locus in human neurons.

Gutierrez Fugon OJ et al.Hum. Mol. Genet. 2024.

Complementation testing identifies genes mediating effects at quantitative trait loci underlying fear-related behavior.

Chen PB et al.Cell Genomics. 2024.

2023

LRRC37B is a human modifier of voltage-gated sodium channels and axon excitability in cortical neurons.

Libé-Philippot B et al.Cell. 2023.

FixItFelix: improving genomic analysis by fixing reference errors.

Behera S et al.Genome Biol. 2023.

Genomic structural variation: A complex but important driver of human evolution.

Soto DC†, Uribe-Salazar JM†, Shew CJ†, et al.Am J Biol Anthropol. 2023.

co-first

2022

The complete sequence of a human genome.

Nurk S, Koren S, Rhie A, Rautiainen M, Bzikadze AV, Mikheenko A, et al.Science. 2022;376: 44–53.

A complete reference genome improves analysis of human genetic variation.

Aganezov S†, Yan SM†, Soto DC†, Kirsche M†, Zarate S†, Avdeyev P, et al.Science. 2022;376: eabl3533.

co-first

Chasing perfection: validation and polishing strategies for telomere-to-telomere genome assemblies.

Mc Cartney AM, Shafin K, Alonge M, Bzikadze AV, Formenti G, Fungtammasan A, et al.Nat Methods. 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, et al.Genome Biol. 2022;23: 1–32.

2021

Plant ecological genomics at the limits of life in the Atacama Desert.

Eshel G†, Araus V†, Undurraga S, Soto DC, Moraga C, Montecinos A, et al.Proc Natl Acad Sci. 2021.

Diverse molecular mechanisms contribute to differential expression of human duplicated genes.

Shew CJ, Carmona-Mora P, Soto DC, Mastoras M, Roberts E, Rosas J, et al.Mol Biol Evol. 2021.

Revealing hidden plant diversity in arid environments.

Carrasco-Puga G, Díaz FP, Soto DC, Hernández-Castro C, Contreras-López O, Maldonado A, et al.Ecography. 2021.

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, et al.Genes. 2020.

co-first

Telomere-to-telomere assembly of a complete human X chromosome.

Miga KH, Koren S, Rhie A, Vollger MR, Gershman A, Bzikadze A, et al.Nature. 2020.

Prev.

Multiscale climate change impacts on plant diversity in the Atacama Desert.

Díaz FP, Latorre C, Carrasco-Puga G, Wood JR, Wilmshurst JM, Soto DC, et al.Glob Chang Biol. 2019.

Whole Genome Sequence, Variant Discovery and Annotation in Mapuche-Huilliche Native South Americans.

Vidal EA, Moyano TC, Bustos BI, Pérez-Palma E, Moraga C, Riveras E, et al.Sci Rep. 2019.

Step-by-Step Construction of Gene Co-expression Networks from High-Throughput Arabidopsis RNA Sequencing Data.

Contreras-López O†, Moyano TC†, Soto DC, Gutiérrez RA.Root Development. Humana Press, New York, NY. 2018. pp. 275-301.

HIPPO: An Iterative Reparametrization Method for Identification and Calibration of Dynamic Bioreactor Models of Complex Processes.

Sánchez BJ, Soto DC, Jorquera H, Gelmi CA, Pérez-Correa JR.Ind Eng Chem Res. 2014.