Jingyi Jessica Li

According to our database, Jingyi Jessica Li authored at least 23 papers between 2012 and 2024.

Collaborative distances:

• Dijkstra number of four.
• Erdős number of four.

2024

APIR: Aggregating Universal Proteomics Database Search Algorithms for Peptide Identification with FDR Control.

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

Genom. Proteom. Bioinform., 2024

2023

A Python Package <i>itca</i> for Information-Theoretic Classification Accuracy: A Criterion That Guides Data-Driven Combination of Ambiguous Outcome Labels in Multiclass Classification.

Chihao Zhang, Shihua Zhang, Jingyi Jessica Li

J. Comput. Biol., November, 2023

2022

Information-theoretic Classification Accuracy: A Criterion that Guides Data-driven Combination of Ambiguous Outcome Labels in Multi-class Classification.

Chihao Zhang, Yiling Elaine Chen, Shihua Zhang, Jingyi Jessica Li

J. Mach. Learn. Res., 2022

Simulating Single-Cell Gene Expression Count Data with Preserved Gene Correlations by scDesign2.

Tianyi Sun, Dongyuan Song, Wei Vivian Li, Jingyi Jessica Li

J. Comput. Biol., 2022

Hierarchical Neyman-Pearson Classification for Prioritizing Severe Disease Categories in COVID-19 Patient Data.

Lijia Wang, Y. X. Rachel Wang, Jingyi Jessica Li, Xin Tong

CoRR, 2022

scSampler: fast diversity-preserving subsampling of large-scale single-cell transcriptomic data.

Dongyuan Song, Nan Miles Xi, Jingyi Jessica Li, Lin Wang

Bioinform., 2022

Single-cell generalized trend model (scGTM): a flexible and interpretable model of gene expression trend along cell pseudotime.

Elvis Han Cui, Dongyuan Song, Weng Kee Wong, Jingyi Jessica Li

Bioinform., 2022

2021

Identifying the combinatorial control of signal-dependent transcription factors.

Ning Wang, Diane Lefaudeux, Anup Mazumder, Jingyi Jessica Li, Alexander Hoffmann

PLoS Comput. Biol., 2021

A flexible model-free prediction-based framework for feature ranking.

Jingyi Jessica Li, Yiling Elaine Chen, Xin Tong

J. Mach. Learn. Res., 2021

Bipartite tight spectral clustering (BiTSC) algorithm for identifying conserved gene co-clusters in two species.

Yidan Eden Sun, Heather J. Zhou, Jingyi Jessica Li

Bioinform., 2021

scPNMF: sparse gene encoding of single cells to facilitate gene selection for targeted gene profiling.

Dongyuan Song, Kexin Li, Zachary Hemminger, Roy Wollman, Jingyi Jessica Li

Bioinform., 2021

RAD: a web application to identify region associated differentially expressed genes.

Yixin Guo, Ziwei Xue, Ruihong Yuan, Jingyi Jessica Li, William A. Pastor, Wanlu Liu

Bioinform., 2021

2020

Statistical Hypothesis Testing versus Machine Learning Binary Classification: Distinctions and Guidelines.

Jingyi Jessica Li, Xin Tong

Patterns, 2020

Bridging Cost-sensitive and Neyman-Pearson Paradigms for Asymmetric Binary Classification.

Wei Vivian Li, Xin Tong, Jingyi Jessica Li

CoRR, 2020

2019

Matched Bipartite Block Model with Covariates.

Zahra S. Razaee, Arash A. Amini, Jingyi Jessica Li

J. Mach. Learn. Res., 2019

Word and Sentence Embedding Tools to Measure Semantic Similarity of Gene Ontology Terms by Their Definitions.

Dat Duong, Wasi Uddin Ahmad, Eleazar Eskin, Kai-Wei Chang, Jingyi Jessica Li

J. Comput. Biol., 2019

A statistical simulator scDesign for rational scRNA-seq experimental design.

Wei Vivian Li, Jingyi Jessica Li

Bioinform., 2019

2018

Modeling and analysis of RNA-seq data: a review from a statistical perspective.

Wei Vivian Li, Jingyi Jessica Li

Quant. Biol., 2018

2017

Hybrid Statistical and Mechanistic Mathematical Model Guides Mobile Health Intervention for Chronic Pain.

Sara M. Clifton, Chaeryon Kang, Jingyi Jessica Li, Qi Long, Nirmish Shah, Daniel M. Abrams

J. Comput. Biol., 2017

2016

NMFP: a non-negative matrix factorization based preselection method to increase accuracy of identifying mRNA isoforms from RNA-seq data.

Yuting Ye, Jingyi Jessica Li

BMC Genom., 2016

Epigenome overlap measure (EPOM) for comparing tissue/cell types based on chromatin states.

Wei Vivian Li, Zahra S. Razaee, Jingyi Jessica Li

BMC Genom., 2016

2014

Comparative analysis of regulatory information and circuits across distant species Open.

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

Nat., 2014

2012

Biclustering of Linear Patterns In Gene Expression Data.

Qinghui Gao, Christine Ho, Yingmin Jia, Jingyi Jessica Li, Haiyan Huang

J. Comput. Biol., 2012