Author

Neil C. Chi

University of California San Diego

Listed by name: these papers carry no ORCID for this author, so different people with the same name may be mixed together.

Biology Disciplines

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Developmental Biology· 4 Bioinformatics· 1 Genetic & Genomic Medicine· 1

Signature Assays, Organisms & Methods

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Approach:experimental assay· 4 Organism:zebrafish· 4 Organism:human· 3 Approach:statistical model· 3 Research Focus:cell type annotation· 2 Research Focus:cell-cell communication· 2 Research Focus:clustering· 2 Research Focus:gene regulatory network inference· 2

Frequent Co-Authors

Deborah L. YeloniD· 2 shared Anca M. PașcaiD· 1 shared Anshul Bharat KundajeiD· 1 shared Arzoo PateliD· 1 shared Austin T. HilliardiD· 1 shared Azalia M. Martínez JaimesiD· 1 shared Beth L. RomaniD· 1 shared Bogdan BintuiD· 1 shared

Activity by Year

2017-2026 · peak 3/yr

Co-Author Collaboration Network

10 top collaborators · 9 mutual co-author links

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2 shared papersDevelopmental Biology

Deborah L. YelonORCID

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Author profile →

6 papers

Recent·Most cited

Genomic mosaicism reveals developmental organization of trunk neural crest-derived ganglia

Keng Ioi Vong, Yanina D. Álvarez, Qingquan Zhang, Jiaming Weng, Geoffroy P. J. C. Noël, Scott T. Barton, Changuk Chung, Robyn Ann Howarth, Naomi Meave Ojeda, Fiza Jiwani, Sai Babu Patarlapalli, Fenyong Yao, Fugui Zhu, Chelsea Barrows, Arzoo Patel, , Joseph G. Gleeson

The paper uses genomic mosaicism to study clonal dynamics of trunk neural crest-derived ganglia, finding conserved developmental patterns across species.

Nature · Apr 1, 2026Peer-reviewedDevelopmental Biology

PantheonOS: An Evolvable Multi-Agent Framework for Automatic Genomics Discovery

Weize Xu, Erwin Poussi, Quan Zhong, Zehua Zeng, Christopher Zou, Xuehai Wang, Yifan Lu, Miao Cui, Daiji Okamura, Cinlong Huang, Jiayuan Ding, Zhe Zhao, Yuheng Yang, Xinhai Pan, Varshini Vijay, , Xiaojie Qiu

PantheonOS introduces a multi-agent framework for automated genomics analysis, achieving super-human performance in batch correction and gene panel selection across diverse biological tasks.

bioRxiv · Feb 27, 2026 · PreprintBioinformatics

Hedgehog and Bmp signaling pathways play opposing roles during establishment of the cardiac inflow tract in zebrafish

Rhea-Comfort A. Robertson, Hannah G. Knight, Catherine E. Lipovsky, Hailey E. Edwards, Jie Ren, Neil C. Chi, Deborah L. Yelon

This study shows that Hedgehog signaling restricts IFT cardiomyocyte number while Bmp signaling promotes their formation in zebrafish embryos.

Development · Jan 2, 2026Peer-reviewedDevelopmental Biology

CXCL12 drives natural variation in coronary artery anatomy in diverse populations

Pamela E. Rios Coronado, Jiayan Zhou, Xiaochen Fan, Daniela Zanetti, Jeffrey A. Naftaly, Pratima Prabala, Azalia M. Martínez Jaimes, Elie N. Farah, Soumya Kundu, Salil Deshpande, Ivy Evergreen, Pik Fang Kho, Qixuan Ma, Austin T. Hilliard, Sarah A. Abramowitz, , Themistocles L. Assimes

The paper identifies CXCL12 as a genetic driver of coronary artery anatomy variation through GWAS and mouse models, showing its role in fetal coronary development.

Cell · Mar 5, 2025Peer-reviewedGenetic & Genomic Medicine

Cardiac function modulates endocardial cell dynamics to shape the cardiac outflow tract

Pragya Sidhwani, Dena M. Leerberg, Giulia L. M. Boezio, Teresa L. Capasso, Hongbo Yang, Neil C. Chi, Beth L. Roman, Didier Y. R. Stainier, Deborah L. Yelon

The paper shows that cardiac function affects endocardial cell dynamics, which in turn shape the cardiac outflow tract in zebrafish.

Development · Jan 1, 2020Peer-reviewedDevelopmental Biology

Re-evaluating functional landscape of the cardiovascular system during development

Norio Takada, Madoka Omae, Fumihiko Sagawa, Neil C. Chi, Satsuki Endo, Satoshi Kozawa, Thomas T. Sato

The study identifies organ-specific cardiovascular functions and mechanisms in zebrafish, revealing why the cardiovascular system develops first.

Biology Open · Jan 1, 2017Peer-reviewedDevelopmental Biology