R
Rosa Castanon
Researcher at Salk Institute for Biological Studies
Publications - 52
Citations - 5773
Rosa Castanon is an academic researcher from Salk Institute for Biological Studies. The author has contributed to research in topics: Epigenomics & DNA methylation. The author has an hindex of 21, co-authored 41 publications receiving 4137 citations.
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Journal ArticleDOI
Hotspots of aberrant epigenomic reprogramming in human induced pluripotent stem cells
Ryan Lister,Mattia Pelizzola,Yasuyuki S. Kida,R. David Hawkins,Joseph R. Nery,Gary C. Hon,Jessica Antosiewicz-Bourget,Jessica Antosiewicz-Bourget,Ronan C. O'Malley,Rosa Castanon,Sarit Klugman,Michael Downes,Ruth T. Yu,Ron Stewart,Ron Stewart,Bing Ren,Bing Ren,James A. Thomson,Ronald M. Evans,Joseph R. Ecker +19 more
TL;DR: The first whole-genome profiles of DNA methylation at single-base resolution in five human iPSC lines, along with methylomes of ES cells, somatic cells, and differentiated iPSCs and ES cells are reported.
Journal ArticleDOI
Epigenomic Diversity in a Global Collection of Arabidopsis thaliana Accessions
Taiji Kawakatsu,Shao-shan Carol Huang,Florian Jupe,Eriko Sasaki,Robert J. Schmitz,Robert J. Schmitz,Mark A. Urich,Rosa Castanon,Joseph R. Nery,Cesar Barragan,Yupeng He,Huaming Chen,Manu J. Dubin,Cheng-Ruei Lee,Congmao Wang,Felix Bemm,Claude Becker,Ryan C. O’Neil,Ronan C. O'Malley,Danjuma Quarless,Nicholas J. Schork,Detlef Weigel,Magnus Nordborg,Joseph R. Ecker,Joseph R. Ecker +24 more
TL;DR: Comparison to cistrome and epicistrome datasets identifies associations between transcription factor binding sites, methylation, nucleotide variation, and co-expression modules in the 1001 Genomes collection of Arabidopsis thaliana.
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Single-cell methylomes identify neuronal subtypes and regulatory elements in mammalian cortex
Chongyuan Luo,Christopher L. Keown,Laurie Kurihara,Jingtian Zhou,Jingtian Zhou,Yupeng He,Yupeng He,Jun-Hao Li,Rosa Castanon,Jacinta Lucero,Joseph R. Nery,Justin P. Sandoval,Brian Bui,Terrence J. Sejnowski,Terrence J. Sejnowski,Timothy T. Harkins,Eran A. Mukamel,M. Margarita Behrens,Joseph R. Ecker +18 more
TL;DR: A comprehensive map of methylation variation in neuronal cell populations, including a between-species comparison, illustrates how epigenetic diversity plays important roles in neuronal development.
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Molecular Criteria for Defining the Naive Human Pluripotent State
Thorold W. Theunissen,Marc Friedli,Yupeng He,Yupeng He,Evarist Planet,Ryan C. O’Neil,Ryan C. O’Neil,Styliani Markoulaki,Julien Pontis,Haoyi Wang,Alexandra Iouranova,Michael Imbeault,Julien Duc,Malkiel A. Cohen,Katherine J. Wert,Rosa Castanon,Zhuzhu Zhang,Yanmei Huang,Joseph R. Nery,Jesse Drotar,Tenzin Lungjangwa,Didier Trono,Joseph R. Ecker,Rudolf Jaenisch +23 more
TL;DR: It is shown that transcription of transposable elements provides a sensitive measure of the concordance between pluripotent stem cells and early human development and induction of the naive state is accompanied by genome-wide DNA hypomethylation.
Journal ArticleDOI
A transcription factor hierarchy defines an environmental stress response network
Liang Song,Shao-shan Carol Huang,Aaron Wise,Rosa Castanon,Joseph R. Nery,Huaming Chen,Marina Watanabe,Jerushah Thomas,Ziv Bar-Joseph,Joseph R. Ecker +9 more
TL;DR: It is proposed that dynamic, multi-TF binding could be a criterion for prioritizing the characterization of TF binding events, cis-regulatory elements, and functionally unknown genes in both plants and other species.