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J

Jian Ma

carnegie mellon university

64H-index
360Paper Count
2.0WCitation Count
Published Papers 124
Publication Date
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Fifteen challenges for generative AI applications to cell biology
errCell
IF42.5
err2026-08-17
err0
errOAAI
errLeo Dupire; Aly A. Khan; Theofanis Karaletsos; Shana Kelley; Emma Lundberg; Jian Ma; Evan Paull; Stephen R. Quake; Raul Rabadan; Cassius Rowan; Peter Sims; Sohail Tavazoie; John S. Tsang; Mingxuan Zhang; Andrea Califano
errShare
errSave
Single-cell multiomics connects 3D genome and transcriptome alterations in Alzheimer’s disease
errScience
IF45.8
err2026-07-23
err0
PREAI
errYang Zhang; Xinyue Lu; Alexander K. Kunisky; Shahul Alam; Junjie Tang; Ruochi Zhang; Shike Wang; Han Zhang; Jude Baroudi; Walid Ichcho; Deyong Jia; Sahar Ghorbanikalateh; Sahel Ghorbanikalateh; Shihan Wang; David A. Bennett; Hansruedi Mathys; Zhijun Duan; Jian Ma
errShare
errSave
Dango: Predicting higher-order genetic interactions
errCell Systems
IF7.7
err2026-04-24
err0
PREAI
errRuochi Zhang; Mihir Bafna; Jianzhu Ma; Jian Ma
errShare
errSave
Serum Myoglobin After Cardiac Surgery Predicts Postoperative Cardiogenic Shock Requiring Mechanical Circulatory Support Within 14 Days
errShock
IF2.9
err2026-01-01
err0
PREAI
errLiu, Xiao-Jun; Liu, Jia-Sheng; Jian, Yu-Peng; Wang, Chen; Ma, Jian; Peng, Yue-Ming; He, Zhuo-Shan; Li, Yan; Ou, Zhi-Jun; Ou, Jing-Song
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errSave
An integrated view of the structure and function of the human 4D nucleome
errNature
IF48.5
err2025-12-17
err0
errOAAI
errJob Dekker; Betul Akgol Oksuz; Yang Zhang; Ye Wang; Miriam K. Minsk; Shuzhen Kuang; Liyan Yang; Johan H. Gibcus; Nils Krietenstein; Oliver J. Rando; Jie Xu; Derek H. Janssens; Steven Henikoff; Alexander Kukalev; Willemin Andréa; Warren Winick-Ng; Rieke Kempfer; Ana Pombo; Miao Yu; Pradeep Kumar; Liguo Zhang; Andrew S. Belmont; Takayo Sasaki; Tom van Schaik; Laura Brueckner; Daan Peric-Hupkes; Bas van Steensel; Ping Wang; Haoxi Chai; Minji Kim; Yijun Ruan; Ran Zhang; Sofia A. Quinodoz; Prashant Bhat; Mitchell Guttman; Wenxin Zhao; Shu Chien; Yuan Liu; Sergey V. Venev; Dariusz Plewczynski; Ibai Irastorza Azcarate; Dominik Szabó; Christoph J. Thieme; Teresa Szczepińska; Mateusz Chiliński; Kaustav Sengupta; Mattia Conte; Andrea Esposito; Alex Abraham; Ruochi Zhang; Yuchuan Wang; Xingzhao Wen; Qiuyang Wu; Yang Yang; Jie Liu; Lorenzo Boninsegna; Asli Yildirim; Yuxiang Zhan; Andrea Maria Chiariello; Simona Bianco; Lindsay Lee; Ming Hu; Yun Li; R. Jordan Barnett; Ashley L. Cook; Daniel J. Emerson; Claire Marchal; Peiyao Zhao; Peter J. Park; Burak H. Alver; Andrew J. Schroeder; Rahi Navelkar; Clara Bakker; William Ronchetti; Shannon Ehmsen; Alexander D. Veit; Nils Gehlenborg; Ting Wang; Daofeng Li; Xiaotao Wang; Mario Nicodemi; Bing Ren; Sheng Zhong; Jennifer E. Phillips-Cremins; David M. Gilbert; Katherine S. Pollard; Frank Alber; Jian Ma; William S. Noble; Feng Yue
errShare
errSave
Eucommia ulmoides and its inhibitory effects on prevotella in piglet gut microbiome through metagenomic and metabolomic analysis
errAnimal Biotechnology
IF1.8
err2025-12-15
err0
PREAI
errHan, Shanshan; Zhang, Qiang; Zhang, Hongyan; Ma, Jian
errShare
errSave
The IGVF catalog-from genetic variation to function
errNUCLEIC ACIDS RESEARCH
IF13.1
err2025-12-01
err1
PREAI
errLi, Daofeng; Liu, Shane; Assis, Pedro R.; Li, Mingjie; Dong, Shengcheng; Whaling, Ian; Jolanki, Otto; Kagda, Meenakshi; Zhang, Wenjin; Macias-Velasco, Juan F.; Liu, Tianjie; Cody, Sarah; Antonacci-Fulton, Lucinda; Huang, Yuanhao; Liu, Jie; Montgomery, Michael T.; Zeiberg, Daniel; Jain, Shantanu; Pejaver, Vikas; Bergquist, Timothy; Chen, Yile; Radivojac, Predrag; Gersbach, Charles A.; Sherpa, Rintsen N.; Castro, Christopher P.; Boyle, Alan P.; Starita, Lea M.; Fowler, Douglas M.; Ahituv, Nadav; Dey, Kushal K.; Majoros, William H.; Reddy, Timothy E.; Craven, Mark; Sinha, Riya; Sverchkov, Yuriy; Cai, Xiangmeng; Nzima, Mpathi Z.; Calderwood, Michael A.; Rozowsky, Joel; Gerstein, Mark; Ma, Jian; Yue, Feng; Cherry, J. Michael; Love, Michael, I; Engreitz, Jesse M.; Hitz, Benjamin C.; Wang, Ting
errShare
errSave
Unified integration of spatial transcriptomics across platforms with LLOKI
errGENOME RESEARCH
IF5.5
err2025-12-01
err1
PREAI
errHaber, Ellie; Deshpande, Ajinkya; Ma, Jian; Krieger, Spencer
errShare
errSave
Advances in predicting human olfactory perception: from data acquisition to computational models
errRSC Adv.
IF4.6
err2025-11-20
err0
errOAAI
errTao Zhou; Jian Ma; Zongwei He; Chuan He; Xixiang Zhang; Xiao Wu; Hao Li; Xiaoya Xie; Long Chen; Xing Chen
errShare
errSave
DNALONGBENCH: a benchmark suite for long-range DNA prediction tasks
errNature Communications
IF15.7
err2025-11-18
err0
errOAAI
errWenduo Cheng; Zhenqiao Song; Yang Zhang; Shike Wang; Danqing Wang; Muyu Yang; Lei Li; Jian Ma
errShare
errSave
Chronic respiratory diseases risk during the COVID-19 pandemic: an integrated modelling approach based on hospital records across 30 countries
errPopulation Health Metrics
IF2.5
err2025-11-07
err0
errOAAI
errCui Zhou; Jing Gao; Pia Lindberg; Chutian Zhang; Yuchen Wang; Jian Ma; Åsa M. Wheelock; Lei Xu
errShare
errSave
Vision-Language Guided Semantic Diffusion Sampling for Small Object Detection in Remote Sensing Imagery
errRemote Sensing 2025, Vol. 17, Page 3203
IF4.1
err2025-09-27
err0
errOAAI
errJian Ma; Mingming Bian; Fan Fan; Hui Kuang; Lei Liu; Zhibing Wang; Ting Li; Running Zhang
errShare
errSave
Advancing embryo selection: combined DNA and RNA analysis in PGT
errHUMAN REPRODUCTION
IF6.1
err2025-06-01
err0
errOAAI
errTong, X.; Ma, J.; Zhou, F.; Wang, X.; Hong, F.; Zhang, Y.; Yang, J.; Wan, C.; Han, B.; Lu, S.; Zhang, S.
errShare
errSave
Development of a Deep Learning-Based Model for Pressure Injury Surface Assessment
errJOURNAL OF CLINICAL NURSING
IF3.5
err2025-01-14
err0
PREAI
errLiu, Ankang; Ma, Hualong; Zhu, Yanying; Wu, Qinyang; Xu, Shihai; Feng, Wei; Liang, Haobin; Ma, Jian; Wang, Xinwei; Ye, Xuemei; Liu, Yanxiong; Wang, Chao; Sun, Xu; Xiang, Shijun; Yang, Qiaohong
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errSave
scGHOST: identifying single-cell 3D genome subcompartments (vol 21, pg 814, 2024)
errNATURE METHODS
IF32.1
err2024-09-17
err0
PREAI
errXiong, Kyle; Zhang, Ruochi; Ma, Jian
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errSave
Nucleolus and centromere Tyramide Signal Amplification-Seq reveals variable localization of heterochromatin in different cell types
errCOMMUNICATIONS BIOLOGY
IF5.1
err2024-09-13
err0
errOAAI
errKumar, Pradeep; Gholamalamdari, Omid; Zhang, Yang; Zhang, Liguo; Vertii, Anastassiia; van Schaik, Tom; Peric-Hupkes, Daan; Sasaki, Takayo; Gilbert, David M.; van Steensel, Bas; Ma, Jian; Kaufman, Paul D.; Belmont, Andrew S.
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errSave
Applying interpretable machine learning in computational biology-pitfalls, recommendations and opportunities for new developments
errNATURE METHODS
IF32.1
err2024-08-09
err1
PREAI
errChen, Valerie; Yang, Muyu; Cui, Wenbo; Kim, Joon Sik; Talwalkar, Ameet; Ma, Jian
errShare
errSave
Country-specific determinants for COVID-19 case fatality rate and response strategies from a global perspective: an interpretable machine learning framework
errssm population health
IF2.5
err2024-06-03
err0
errOAAI
errZhou, Cui; Wheelock, asa M.; Zhang, Chutian; Ma, Jian; Li, Zhichao; Liang, Wannian; Gao, Jing; Xu, Lei
errShare
errSave
GAGE-seq concurrently profiles multiscale 3D genome organization and gene expression in single cells
errNATURE GENETICS
IF31.8
err2024-05-14
err9
errOAAI
errZhou, Tianming; Zhang, Ruochi; Jia, Deyong; Doty, Raymond T.; Munday, Adam D.; Gao, Daniel; Xin, Li; Abkowitz, Janis L.; Duan, Zhijun; Ma, Jian
errShare
errSave
scGHOST: identifying single-cell 3D genome subcompartments
errNATURE METHODS
IF32.1
err2024-04-08
err3
errOAAI
errXiong, Kyle; Zhang, Ruochi; Ma, Jian
errShare
errSave

Research Directions

No research directions
Co-authors
Cooperation Journals
王
王军 (Jun Wang)
H-index: 222 · Papers: 3.2K
M
M Snyder
H-index: 210 · Papers: 3.3K
C
Charles M. Perou
H-index: 193 · Papers: 2.0K
M
Mark Gerstein
H-index: 191 · Papers: 1.2K
D
David Haussler
H-index: 175 · Papers: 720
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