Jingyi Jessica Li

Publication Activity (10 Years)

Years Active: 2012-2024
Publications (10 Years): 23

Top Topics

Gene Expression

Differentially Expressed

Statistical Hypothesis Testing

Binary Classification

Top Venues

J. Comput. Biol.

J. Mach. Learn. Res.

Publications

Yiling Elaine Chen, Xinzhou Ge, Kyla Woyshner, Meilu McDermott, Antigoni Manousopoulou, Scott B. Ficarro, Jarrod A. Marto, Kexin Li, Leo David Wang, Jingyi Jessica Li
APIR: Aggregating Universal Proteomics Database Search Algorithms for Peptide Identification with FDR Control. Genom. Proteom. Bioinform. 22 (1) (2024)
Chihao Zhang, Shihua Zhang, Jingyi Jessica Li
for Information-Theoretic Classification Accuracy: A Criterion That Guides Data-Driven Combination of Ambiguous Outcome Labels in Multiclass Classification. J. Comput. Biol. 30 (11) (2023)
Tianyi Sun, Dongyuan Song, Wei Vivian Li, Jingyi Jessica Li
Simulating Single-Cell Gene Expression Count Data with Preserved Gene Correlations by scDesign2. J. Comput. Biol. 29 (1) (2022)
Lijia Wang, Y. X. Rachel Wang, Jingyi Jessica Li, Xin Tong
Hierarchical Neyman-Pearson Classification for Prioritizing Severe Disease Categories in COVID-19 Patient Data. CoRR (2022)
Elvis Han Cui, Dongyuan Song, Weng Kee Wong, Jingyi Jessica Li
Single-cell generalized trend model (scGTM): a flexible and interpretable model of gene expression trend along cell pseudotime. Bioinform. 38 (16) (2022)
Chihao Zhang, Yiling Elaine Chen, Shihua Zhang, Jingyi Jessica Li
Information-theoretic Classification Accuracy: A Criterion that Guides Data-driven Combination of Ambiguous Outcome Labels in Multi-class Classification. J. Mach. Learn. Res. 23 (2022)
Dongyuan Song, Nan Miles Xi, Jingyi Jessica Li, Lin Wang
scSampler: fast diversity-preserving subsampling of large-scale single-cell transcriptomic data. Bioinform. 38 (11) (2022)
Yixin Guo, Ziwei Xue, Ruihong Yuan, Jingyi Jessica Li, William A. Pastor, Wanlu Liu
RAD: a web application to identify region associated differentially expressed genes. Bioinform. 37 (17) (2021)
Dongyuan Song, Kexin Li, Zachary Hemminger, Roy Wollman, Jingyi Jessica Li
scPNMF: sparse gene encoding of single cells to facilitate gene selection for targeted gene profiling. Bioinform. 37 (Supplement) (2021)
Jingyi Jessica Li, Yiling Elaine Chen, Xin Tong
A flexible model-free prediction-based framework for feature ranking. J. Mach. Learn. Res. 22 (2021)
Yidan Eden Sun, Heather J. Zhou, Jingyi Jessica Li
Bipartite tight spectral clustering (BiTSC) algorithm for identifying conserved gene co-clusters in two species. Bioinform. 37 (9) (2021)
Chihao Zhang, Yiling Elaine Chen, Shihua Zhang, Jingyi Jessica Li
Information-theoretic Classification Accuracy: A Criterion that Guides Data-driven Combination of Ambiguous Outcome Labels in Multi-class Classification. CoRR (2021)
Ning Wang, Diane Lefaudeux, Anup Mazumder, Jingyi Jessica Li, Alexander Hoffmann
Identifying the combinatorial control of signal-dependent transcription factors. PLoS Comput. Biol. 17 (6) (2021)
Jingyi Jessica Li, Xin Tong
Statistical Hypothesis Testing versus Machine Learning Binary Classification: Distinctions and Guidelines. Patterns 1 (7) (2020)
Wei Vivian Li, Xin Tong, Jingyi Jessica Li
Bridging Cost-sensitive and Neyman-Pearson Paradigms for Asymmetric Binary Classification. CoRR (2020)
Wei Vivian Li, Jingyi Jessica Li
A statistical simulator scDesign for rational scRNA-seq experimental design. Bioinform. 35 (14) (2019)
Dat Duong, Wasi Uddin Ahmad, Eleazar Eskin, Kai-Wei Chang, Jingyi Jessica Li
Word and Sentence Embedding Tools to Measure Semantic Similarity of Gene Ontology Terms by Their Definitions. J. Comput. Biol. 26 (1) (2019)
Zahra S. Razaee, Arash A. Amini, Jingyi Jessica Li
Matched Bipartite Block Model with Covariates. J. Mach. Learn. Res. 20 (2019)
Wei Vivian Li, Jingyi Jessica Li
Modeling and analysis of RNA-seq data: a review from a statistical perspective. Quant. Biol. 6 (3) (2018)
Zahra S. Razaee, Arash A. Amini, Jingyi Jessica Li
Matched bipartite block model with covariates. CoRR (2017)
Sara M. Clifton, Chaeryon Kang, Jingyi Jessica Li, Qi Long, Nirmish Shah, Daniel M. Abrams
Hybrid Statistical and Mechanistic Mathematical Model Guides Mobile Health Intervention for Chronic Pain. J. Comput. Biol. 24 (7) (2017)
Wei Vivian Li, Zahra S. Razaee, Jingyi Jessica Li
Epigenome overlap measure (EPOM) for comparing tissue/cell types based on chromatin states. BMC Genom. 17 (S-1) (2016)
Yuting Ye, Jingyi Jessica Li
NMFP: a non-negative matrix factorization based preselection method to increase accuracy of identifying mRNA isoforms from RNA-seq data. BMC Genom. 17 (S-1) (2016)
Alan P. Boyle, Carlos L. Araya, Cathleen Brdlik, Philip Cayting, Chao Cheng, Yong Cheng, Kathryn Gardner, LaDeana W. Hillier, Judith Janette, Lixia Jiang, Dionna Kasper, Trupti Kawli, Pouya Kheradpour, Anshul Kundaje, Jingyi Jessica Li, Lijia Ma, Wei Niu, E. Jay Rehm, Joel S. Rozowsky, Matthew Slattery, Rebecca Spokony, Robert Terrell, Dionne Vafeados, Daifeng Wang, Peter Weisdepp, Yi-Chieh Wu, Dan Xie, Koon-Kiu Yan, Elise A. Feingold, Peter J. Good, Michael J. Pazin, Haiyan Huang, Peter J. Bickel, Steven E. Brenner, Valerie Reinke, Robert H. Waterston, Mark Gerstein, Kevin P. White, Manolis Kellis, Michael Snyder
Comparative analysis of regulatory information and circuits across distant species Open. Nat. 512 (7515) (2014)
Qinghui Gao, Christine Ho, Yingmin Jia, Jingyi Jessica Li, Haiyan Huang
Biclustering of Linear Patterns In Gene Expression Data. J. Comput. Biol. 19 (6) (2012)