The paper creates a central repository for zebrafish developmental genomics data, identifies new cis-regulatory elements, and compares regulatory elements between zebrafish and mouse.

Nature Genetics · Jul 1, 2022Peer-reviewedDevelopmental Biology

A subset of SMN complex members have a specific role in tissue regeneration via ERBB pathway-mediated proliferation

Wuhong Pei, Lisha Xu, Zelin Chen, Claire C. Slevin, Kade P. Pettie, Stephen Wincovitch, NISC Comparative Sequencing Program, Beatrice B. Barnabas, Sean Black, Gerard G. Bouffard, Shelise Y. Brooks, Holly Coleman, Lyudmila Dekhtyar, Xiaobin Guan, Joel Han, , Shawn Michael Burgess

The paper identifies gemin3 as a regeneration-essential gene in zebrafish and shows smn1, gemin3, and gemin5 inhibit the ErbB pathway to promote cell proliferation during tissue regeneration.

npj Regenerative Medicine · Mar 25, 2020Peer-reviewedGenetics

De Novo assembly of the goldfish (Carassius auratus) genome and the evolution of genes after whole genome duplication

Zelin Chen, Yoshihiro Omori, Sergey Koren, Takuya Shirokiya, Takuo Kuroda, Atsushi Miyamoto, Hironori Wada, Asao Fujiyama, Atsushi Toyoda, Suiyuan Zhang, Tyra G. Wolfsberg, Koichi Kawakami, Adam M. Phillippy, NISC Comparative Sequencing Program, James C. Mullikin, Shawn Michael Burgess

This paper presents a high-quality goldfish genome assembly and analyzes gene evolution after whole genome duplication, identifying gene divergence patterns across tissues.

Science Advances · Jun 1, 2019Peer-reviewedGenomics

Highly-efficient Cpf1-mediated gene targeting in mice following high concentration pronuclear injection

Dawn E. Watkins‐Chow, Gaurav K. Varshney, Lisa J Garrett, Zelin Chen, Erin Jimenez, Cecilia Rivas, Kevin S. Bishop, Raman B. Sood, Ursula L. Harper, William J. Pavan, Shawn Michael Burgess

This study shows that Cpf1 can achieve high gene targeting rates in mice, sometimes surpassing Cas9, but requires higher mRNA and guide concentrations.

G3 Genes Genomes Genetics · Feb 1, 2017Peer-reviewedGenetics