Keith Cheng

Distinguished Professor of Pathology and Laboratory Medicine, of Biochemistry and Molecular Biology, and of Pharmacology

Keith Cheng

Research Summary

Computational phenomics, image informatics, and "Geometry of Life" based on x-ray histotomography, population, genomic, and functional genomic analyses of complex traits in human and zebrafish; web-based science resources.

Huck Graduate Students

Huck Affiliations

Links

Most Recent Publications

A web-based histology atlas for the freshwater sentinel species Daphnia magna

Mee S. Ngu, Daniel J. Vanselow, Carolyn R. Zaino, Alex Y. Lin, Jean E. Copper, Margaret J. Beaton, Luisa Orsini, John K. Colbourne, Keith Cheng, Khai C. Ang, 2025, Science of the Total Environment

Developmental mouse brain common coordinate framework

Fae N. Kronman, Josephine K. Liwang, Rebecca Betty, Daniel J. Vanselow, Yuan Ting Wu, Nicholas J. Tustison, Ashwin Bhandiwad, Steffy B. Manjila, Jennifer A. Minteer, Donghui Shin, Choong Heon Lee, Rohan Patil, Jeffrey T. Duda, Jian Xue, Yingxi Lin, Keith C. Cheng, Luis Puelles, James C. Gee, Jiangyang Zhang, Lydia Ng, Yongsoo Kim, 2024, Nature Communications

Staining and resin embedding of whole Daphnia magna samples for micro-CT imaging enabling 3D visualization of cells, tissues, and organs

Mee S. Ngu, Daniel J. Vanselow, Andrew L. Sugarman, Rachelle A. Saint-Fort, Carolyn R. Zaino, Maksim A. Yakovlev, Keith C. Cheng, Khai C. Ang, 2024, PLoS One

Monitoring mouse papillomavirus-associated cancer development using longitudinal Pap smear screening

Hannah M. Atkins, Aysegul Aksakal Uslu, Jingwei J. Li, Debra A. Shearer, Sarah A. Brendle, Chen Han, Michael Kozak, Paul Lopez, Deesha Nayar, Karla K. Balogh, Catherine Abendroth, Jean Copper, Keith C. Cheng, Neil D. Christensen, Yusheng Zhu, Stefanie Avril, Adam D. Burgener, Thomas T. Murooka, Jiafen Hu, 2024, mBio on p. e0142024

Sinogram domain angular upsampling of sparse-view micro-CT with dense residual hierarchical transformer and attention-weighted loss

Amogh Subbakrishna Adishesha, Daniel J. Vanselow, Patrick La Riviere, Keith C. Cheng, Sharon X. Huang, 2023, Computer Methods and Programs in Biomedicine

Prehistoric human migration between Sundaland and South Asia was driven by sea-level rise

Hie Lim Kim, Tanghua Li, Namrata Kalsi, Hung Tran The Nguyen, Timothy A. Shaw, Khai C. Ang, Keith C. Cheng, Aakrosh Ratan, W. Richard Peltier, Dhrubajyoti Samanta, Mahesh Pratapneni, Stephan C. Schuster, Benjamin P. Horton, 2023, Communications Biology

Native American genetic ancestry and pigmentation allele contributions to skin color in a Caribbean population

Khai C. Ang, Victor A. Canfield, Tiffany C. Foster, Thaddeus D. Harbaugh, Kathryn A. Early, Rachel L. Harter, Katherine P. Reid, Shou Ling Leong, Yuka I. Kawasawa, Dajiang J. Liu, John W. Hawley, Keith C. Cheng, 2023, eLife

Promoting validation and cross-phylogenetic integration in model organism research

Keith C. Cheng, Rebecca D. Burdine, Mary E. Dickinson, Stephen C. Ekker, Alex Y. Lin, K. C.Kent Lloyd, Cathleen M. Lutz, Calum A. MacRae, John H. Morrison, David H. O'Connor, John H. Postlethwait, Crystal D. Rogers, Susan Sanchez, Julie H. Simpson, William S. Talbot, Douglas C. Wallace, Jill M. Weimer, Hugo J. Bellen, 2022, DMM Disease Models and Mechanisms

Whole-Brain Wiring Diagram of Oxytocin System in Adult Mice

Seoyoung Son, Steffy B. Manjila, Kyra T. Newmaster, Yuan Ting Wu, Daniel J. Vanselow, Matt Ciarletta, Todd E. Anthony, Keith C. Cheng, Yongsoo Kim, 2022, Journal of Neuroscience on p. 5021-5033

Quantitative relationship between cerebrovascular network and neuronal cell types in mice

Yuan ting Wu, Hannah C. Bennett, Uree Chon, Daniel J. Vanselow, Qingguang Zhang, Rodrigo Muñoz-Castañeda, Rodrigo Mun˜ oz-Castan˜ eda, Keith C. Cheng, Pavel Osten, Patrick J. Drew, Yongsoo Kim, 2022, Cell Reports on p. 110978

Most-Cited Papers

The GenomeAsia 100K Project enables genetic discoveries across Asia

Jeffrey D. Wall, Eric W. Stawiski, Aakrosh Ratan, Hie Lim Kim, Changhoon Kim, Ravi Gupta, Kushal Suryamohan, Elena S. Gusareva, Rikky Wenang Purbojati, Tushar Bhangale, Vadim Stepanov, Vladimir Kharkov, Markus S. Schröder, Vedam Ramprasad, Jennifer Tom, Steffen Durinck, Qixin Bei, Jiani Li, Joseph Guillory, Sameer Phalke, Analabha Basu, Jeremy Stinson, Sandhya Nair, Sivasankar Malaichamy, Nidhan K. Biswas, John C. Chambers, Keith C. Cheng, Joyner T. George, Seik Soon Khor, Jong Il Kim, Belong Cho, Ramesh Menon, Thiramsetti Sattibabu, Akshi Bassi, Manjari Deshmukh, Anjali Verma, Vivek Gopalan, Jong Yeon Shin, Mahesh Pratapneni, Sam Santhosh, Katsushi Tokunaga, Badrul M. Md-Zain, Kok Gan Chan, Madasamy Parani, Purushothaman Natarajan, Michael Hauser, R. Rand Allingham, Cecilia Santiago-Turla, Arkasubhra Ghosh, Khai C. Ang, 2019, Nature on p. 106-111

Selective synthetic augmentation with HistoGAN for improved histopathology image classification

Yuan Xue, Jiarong Ye, Qianying Zhou, L. Rodney Long, Sameer Antani, Zhiyun Xue, Carl Cornwell, Richard Zaino, Keith C. Cheng, Xiaolei Huang, 2021, Medical Image Analysis

Enhanced and unified anatomical labeling for a common mouse brain atlas

Uree Chon, Daniel J. Vanselow, Keith C. Cheng, Yongsoo Kim, 2019, Nature Communications

A map of cis-regulatory elements and 3D genome structures in zebrafish

Hongbo Yang, Yu Luan, Tingting Liu, Hyung Joo Lee, Li Fang, Yanli Wang, Xiaotao Wang, Bo Zhang, Qiushi Jin, Khai Chung Ang, Xiaoyun Xing, Juan Wang, Jie Xu, Fan Song, Iyyanki Sriranga, Chachrit Khunsriraksakul, Tarik Salameh, Daofeng Li, Mayank N.K. Choudhary, Jacek Topczewski, Kai Wang, Glenn S. Gerhard, Ross C. Hardison, Ting Wang, Keith C. Cheng, Feng Yue, 2020, Nature on p. 337-343

Computational 3d histological phenotyping of whole zebrafish by x-ray histotomography

Yifu Ding, Daniel J. Vanselow, Maksim A. Yakovlev, Spencer R. Katz, Alex Y. Lin, Darin P. Clark, Phillip Vargas, Xuying Xin, Jean E. Copper, Victor A. Canfield, Khai C. Ang, Yuxin Wang, Xianghui Xiao, Francesco De Carlo, Damian B.Van Rossum, Patrick La Riviere, Keith C. Cheng, 2019, eLife

Comparative analysis of fixation and embedding techniques for optimized histological preparation of zebrafish

Jean E. Copper, Lynn R. Budgeon, Christina A. Foutz, Damian B. van Rossum, Daniel J. Vanselow, Margaret J. Hubley, Darin P. Clark, David T. Mandrell, Keith C. Cheng, 2018, Comparative Biochemistry and Physiology - C Toxicology and Pharmacology on p. 38-46

Whole-Brain Wiring Diagram of Oxytocin System in Adult Mice

Seoyoung Son, Steffy B. Manjila, Kyra T. Newmaster, Yuan Ting Wu, Daniel J. Vanselow, Matt Ciarletta, Todd E. Anthony, Keith C. Cheng, Yongsoo Kim, 2022, Journal of Neuroscience on p. 5021-5033

Dietary lipophilic iron alters amyloidogenesis and microglial morphology in Alzheimer's disease knock-in APP mice

Douglas G. Peters, Alexis N. Pollack, Keith C. Cheng, Dongxiao Sun, Takaomi Saido, Michael P. Haaf, Qing X. Yang, James R. Connor, Mark D. Meadowcroft, 2018, Metallomics on p. 426-443

Quantitative relationship between cerebrovascular network and neuronal cell types in mice

Yuan ting Wu, Hannah C. Bennett, Uree Chon, Daniel J. Vanselow, Qingguang Zhang, Rodrigo Muñoz-Castañeda, Rodrigo Mun˜ oz-Castan˜ eda, Keith C. Cheng, Pavel Osten, Patrick J. Drew, Yongsoo Kim, 2022, Cell Reports on p. 110978

Prehistoric human migration between Sundaland and South Asia was driven by sea-level rise

Hie Lim Kim, Tanghua Li, Namrata Kalsi, Hung Tran The Nguyen, Timothy A. Shaw, Khai C. Ang, Keith C. Cheng, Aakrosh Ratan, W. Richard Peltier, Dhrubajyoti Samanta, Mahesh Pratapneni, Stephan C. Schuster, Benjamin P. Horton, 2023, Communications Biology

News Articles Featuring Keith Cheng

Oct 21, 2024

Researchers develop 3D atlas of the developing mammalian brain

A 3D atlas of developing mice brains using advanced imaging and microscopy techniques has been created by a team of researchers at Penn State College of Medicine and collaborators from five different institutes.

Full Article

Oct 03, 2024

ICDS Day seeks to amplify synergy for interdisciplinary research opportunities

Oct. 23 event aims to bring together faculty, students and industry professionals to foster innovation and interdisciplinary collaboration.

Full Article

Aug 02, 2024

$3.8M NIH grant funds 3D tissue and organism visualization project

Keith Cheng, distinguished professor of pathology, of pharmacology and of biochemistry and molecular biology at the Penn State College of Medicine, has been awarded a four-year, $3.8 million grant from the National Institutes of Health to further develop novel methods for 3D tissue imaging.

Full Article

Oct 25, 2023

Deciphering the genetic link between skin tone and ancestral origins

A team of Penn State geneticists is pursuing the answers to an age-old question of human biology: the genetic origin of fundamental variations in skin pigmentation between people of different ethnicities.

Full Article

Oct 05, 2021

New way to image whole organisms in 3D brings key skin color pigment into focus

To understand the biological underpinnings of skin and hair pigmentation and related diseases such as albinism or melanoma, scientists and doctors need quantitative, three-dimensional information about the architecture, content and location of pigment cells. Penn State College of Medicine researchers have developed a new technique that allows scientists to visualize every cell containing melanin pigment in 3D, in whole zebrafish.

Full Article