Author
Rockefeller UniversityORCID 0000-0002-9403-0774Unclaimed ORCID profile · follow to get notified of new preprints
8 papers
Recent·Most cited
Chul Lee, Matthew H. Davenport, Erich David Jarvis
A human-specific CCG insertion in the RBFOX1 promoter boosts EGR1-driven reporter activity in HEK293T cells, as does an autism-linked CCG-gaining duplication in PTCHD1.
bioRxiv · Oct 12, 2026 · PreprintGenomics✦ In-depth digest
Giulio Formenti, Nivesh Jain, Jack A Medico, Marco Sollitto, Dmitry Antipov, Suziane Alves Barcellos, Matthew T. Biegler, Ines Borges, Jong-How Chang, Ying Chen, Haoyu Cheng, Helena B. Conceição, Matthew H. Davenport, Zhongwang Li, Erick Duarte, , Erich David Jarvis
This paper presents the first fully phased, diploid, telomere-to-telomere genome of the zebra finch, revealing new genes and structural features.
Cell · Aug 1, 2026Peer-reviewedGenomics
Giulio Formenti, Dominic E. Absolon, Linelle Ann L. Abueg, Francine Ackerman, Farooq O. Al-Ajli, Alexandre Luis Padovan Aleixo, Agostinho Antunes, Dahiana Arcila, Jean‐Nicolas Audet, Jennifer Balacco, Alan J. S. Beavan, Katherine Belov, Ricardo Betancur‐R, Shelby L. Bidwell, Matthew T. Biegler, , Fergal J. Martin
The Vertebrate Genomes Project Phase I provides high-quality reference genomes for 816 species, enabling evolutionary and conservation insights across vertebrates.
bioRxiv · Jun 26, 2026 · PreprintGenomics
Chern-Sing Goh, Matthew Davenport, Chul Lee, Erich David Jarvis
The paper identifies human- and lineage-specific DNA sequences fixed across human haplotypes and links them to traits like spoken language and hair reduction.
bioRxiv · May 5, 2026 · PreprintEvolutionary Biology
Young Ho Lee, Chul Min Lee, Erich David Jarvis, Heebal Kim
The paper characterizes promoter methylation patterns across 82 vertebrate species using long-read sequencing data, revealing conserved and lineage-specific epigenetic features.
bioRxiv · Mar 30, 2026 · PreprintBioinformatics
DongAhn Yoo, Arang Rhie, Prajna Hebbar, Francesca Antonacci, Glennis A. Logsdon, Steven J. Solar, Dmitry Antipov, Brandon D. Pickett, Yana Safonova, Francesco Montinaro, Yanting Luo, Joanna Malukiewicz, Jessica M. Storer, Jiadong Lin, Abigail N Sequeira, , Zhenmiao Zhang
The paper presents haplotype-resolved genomes of six ape species with high accuracy and provides comparative analyses to study evolutionary diversity and gene family evolution.
Nature · Apr 9, 2025Peer-reviewedGenomics
Delphine Larivière, Linelle Ann L. Abueg, Nadolina Brajuka, Cristóbal Gallardo Alba, Björn Andreas Grüning, Byung June Ko, Alexander Ostrovsky, Marc Palmada‐Flores, Brandon D. Pickett, Keon Rabbani, Agostinho Antunes, Jennifer Balacco, Mark Chaisson, Haoyu Cheng, Joanna Collins, , Giulio Formenti
The paper presents a scalable pipeline for reference genome assembly and evaluation, demonstrating its effectiveness across 51 vertebrate species using Galaxy.
Nature Biotechnology · Jan 26, 2024Peer-reviewedBioinformatics
Arang Rhie, Shane McCarthy, Olivier D. Fedrigo, Joana Damas, Giulio Formenti, Sergey Koren, Marcela Uliano‐Silva, William Chow, Arkarachai Fungtammasan, Juwan Kim, Chul Lee, Byung June Ko, Mark Chaisson, Gregory L. Gedman, Lindsey J. Cantin, , Hiram Clawson
The paper summarizes methods and lessons from assembling 16 vertebrate genomes, highlights the importance of long-read sequencing, and introduces the Vertebrate Genomes Project to generate complete reference genomes for all vertebrate species.
Nature · Apr 28, 2021Peer-reviewedGenomics