Personal information

Gene regulatory mechanism, Single-cell sequencing analysis, Algorithm, Deep learning
China, United States

Activities

Employment (6)

Beijing University of Technology: Beijing, CN

2024-08-14 to present | Assistant Professor (Mathematics, Statistics and Mechanics)
Employment
Source: Self-asserted source
Yang Li

AstraZeneca: Gaithersburg, MD, US

2022-03-21 to 2023-04-30 | Postdoc Fellow (R&D)
Employment
Source: Self-asserted source
Yang Li

The Ohio State University: Columbus, Ohio, US

2020-01-06 to 2022-03-20 | Postdoc Fellow (Department of Biomedical Informatics)
Employment
Source: Self-asserted source
Yang Li

Shandong University: Jinan, Shandong, CN

2011-09-01 to 2019-12-31 | Graduate Research Assistant (School of Mathematics)
Employment
Source: Self-asserted source
Yang Li

University of North Carolina at Charlotte: Charlotte, North Carolina, US

2014-12-01 to 2015-10-31 | Visiting Scholar Researcher (Department of Bioinformatics and Genomics)
Employment
Source: Self-asserted source
Yang Li

Shandong University: Jinan, Shandong, CN

2011-09-01 to 2012-01-31 | Graduate Teaching Assistant (School of Mathematics)
Employment
Source: Self-asserted source
Yang Li

Education and qualifications (3)

Shandong University: Jinan, Shandong, CN

2013-09-01 to 2019-12-31 | Ph.D. (School of Mathematics)
Education
Source: Self-asserted source
Yang Li

Shandong University: Jinan, Shandong, CN

2011-09-01 to 2013-06-30 | M.D. (School of Mathematics)
Education
Source: Self-asserted source
Yang Li

Shandong University: Jinan, Shandong, CN

2007-09-01 to 2011-06-30 | B.S. (School of Mathematics)
Education
Source: Self-asserted source
Yang Li

Works (22)

Identification of DNA motif pairs on paired sequences based on composite heterogeneous graph

Frontiers in Genetics
2024-06-17 | Journal article | Conceptualization, Supervision, Writing - review & editing
Contributors: Yang Li
Source: Self-asserted source
Yang Li

Human iPSC-based model of COPD to investigate disease mechanisms, predict SARS-COV-2 outcome and test preventive immunotherapy

Stem Cells
2024-01-06 | Journal article
Part of ISSN: 1066-5099
Part of ISSN: 1549-4918
Contributors: Rania Dagher; Aigul Moldobaeva; Elise Gubbins; Sydney Clark; Mia Madel Alfajaro; Craig B Wilen; Finn Hawkins; Xiaotao Qu; Chia Chien Chiang; Yang Li et al.
Source: Self-asserted source
Yang Li

CEMIG: prediction of the cis-regulatory motif using the de Bruijn graph from ATAC-seq

Briefings in Bioinformatics
2023-11-22 | Journal article
Part of ISSN: 1467-5463
Part of ISSN: 1477-4054
Contributors: Yizhong Wang; Yang Li; Cankun Wang; Chan-Wang Jerry Lio; Qin Ma; Bingqiang Liu
Source: Self-asserted source
Yang Li

CD200R signaling contributes to unfavorable tumor microenvironment through regulating production of chemokines by tumor-associated myeloid cells

iScience
2023-06 | Journal article
Part of ISSN: 2589-0042
Contributors: Cho-Hao Lin Lin; Fatemeh Talebian; Yang Li; Jianmin Zhu; Jin-Qing Liu; Bolin Zhao; Sujit Basu; Xueliang Pan; Xi Chen; Pearlly Yan et al.
Source: Self-asserted source
Yang Li

CEMIG: Prediction of thecis-regulatory motif using the De Bruijn graph from ATAC-seq

2023-05-28 | Preprint
Contributors: Yizhong Wang; Yang Li; Cankun Wang; Qin Ma; Bingqiang Liu
Source: check_circle
Crossref

A Weighted Two-stage Sequence Alignment Framework to Identify DNA Motifs from ChIP-exo Data

2023-04-08 | Preprint
Contributors: Yang Li; Yizhong Wang; Cankun Wang; Anne Fennell; Anjun Ma; Jing Jiang; Zhaoqian Liu; Qin Ma; Bingqiang Liu
Source: check_circle
Crossref

Single-cell biological network inference using a heterogeneous graph transformer

Nature Communications
2023-02-21 | Journal article
Part of ISSN: 2041-1723
Contributors: Anjun Ma; Xiaoying Wang; Jingxian Li; Cankun Wang; Tong Xiao; Yuntao Liu; Hao Cheng; Juexin Wang; Yang Li; Yuzhou Chang et al.
Source: Self-asserted source
Yang Li

Spatially resolved transcriptomics reveals genes associated with the vulnerability of middle temporal gyrus in Alzheimer’s disease

Acta Neuropathologica Communications
2022-12-21 | Journal article
Part of ISSN: 2051-5960
Contributors: Shuo Chen; Yuzhou Chang; Liangping Li; Diana Acosta; Yang Li; Qi Guo; Cankun Wang; Emir Turkes; Cody Morrison; Dominic Julian et al.
Source: Self-asserted source
Yang Li

Enhancer-driven gene regulatory networks inference from single-cell RNA-seq and ATAC-seq data

2022-12-15 | Preprint
Contributors: Yang Li; Anjun Ma; Yizhong Wang; Qi Guo; Cankun Wang; Shuo Chen; Hongjun Fu; Bingqiang Liu; Qin Ma
Source: check_circle
Crossref

scGNN 2.0: a graph neural network tool for imputation and clustering of single-cell RNA-Seq data

Bioinformatics
2022-11-30 | Journal article
Part of ISSN: 1367-4803
Part of ISSN: 1367-4811
Contributors: Haocheng Gu; Hao Cheng; Anjun Ma; Yang Li; Juexin Wang; Dong Xu; Qin Ma
Source: Self-asserted source
Yang Li

Microglia coordinate cellular interactions during spinal cord repair in mice

Nature Communications
2022-07-14 | Journal article
Part of ISSN: 2041-1723
Contributors: Faith Brennan; Yang Li; Cankun Wang; Anjun Ma; Qi Guo; Yi Li; Nicole Pukos; Warren A. Campbell; Kristina G. Witcher; Zhen Guan et al.
Source: Self-asserted source
Yang Li

Elucidation of Biological Networks across Complex Diseases Using Single-Cell Omics

Trends in Genetics
2020-12 | Journal article
Contributors: Yang Li; Anjun Ma; Ewy A. Mathé; Lang Li; Bingqiang Liu; Qin Ma
Source: check_circle
Crossref

Abstract 4409: Towards cell-type-specific gene regulation in heterogeneous cancer cells

Cancer Research
2020-08-15 | Journal article
Part of ISSN: 0008-5472
Part of ISSN: 1538-7445
Contributors: Qin Ma; Anjun Ma; Cankun Wang; Yang Li; Chi Zhang
Source: Self-asserted source
Yang Li

Identification of lncRNAs-gene interactions in transcription regulation based on co-expression analysis of RNA-seq data

Mathematical Biosciences and Engineering
2019 | Journal article
Part of ISSN: 1551-0018
Contributors: Sijie Lu; 1 School of Mathematics, Shandong University, Jinan, Shandong 250100, China; Juan Xie; Yang Li; Bin Yu; Qin Ma; Bingqiang Liu; 2 Department of Biomedical Informatics, College of Medicine, The Ohio State University, Columbus, OH, 43210, USA; 3 College of Mathematics and Physics, Qingdao University of Science and Technology, Qingdao 266061, China
Source: Self-asserted source
Yang Li

Revealing favorable and unfavorable residues in cooperative positions in protease cleavage sites

Biochemical and Biophysical Research Communications
2019-11-19 | Journal article
Part of ISSN: 0006-291X
Source: Self-asserted source
Yang Li

ProSampler: an ultrafast and accurate motif finder in large ChIP-seq datasets for combinatory motif discovery

Bioinformatics
2019-11-01 | Journal article
Part of ISSN: 1367-4803
Part of ISSN: 1460-2059
Source: Self-asserted source
Yang Li

Prediction of regulatory motifs from human Chip-sequencing data using a deep learning framework

Nucleic Acids Research
2019-09-05 | Journal article
Part of ISSN: 0305-1048
Part of ISSN: 1362-4962
Source: Self-asserted source
Yang Li
grade
Preferred source (of 2)‎

MiMod: A New Algorithm for Mining Biological Network Modules

IEEE Access
2019-04-09 | Journal article
Part of ISSN: 2169-3536
Source: Self-asserted source
Yang Li

Prediction of Driver Modules via Balancing Exclusive Coverages of Mutations in Cancer Samples

Advanced Science
2019-02-20 | Journal article
Part of ISSN: 2198-3844
Source: Self-asserted source
Yang Li

An algorithmic perspective of de novo cis-regulatory motif finding based on ChIP-seq data

Briefings in Bioinformatics
2018-09-28 | Journal article
Part of ISSN: 1467-5463
Part of ISSN: 1477-4054
Source: Self-asserted source
Yang Li

Block-based characterization of protease specificity from substrate sequence profile

BMC Bioinformatics
2017-10-03 | Journal article
Part of ISSN: 1471-2105
Source: Self-asserted source
Yang Li

Identification of driver modules in pan-cancer via coordinating coverage and exclusivity

Oncotarget
2017-05-30 | Journal article
Part of ISSN: 1949-2553
Source: Self-asserted source
Yang Li

Peer review (12 reviews for 1 publication/grant)

Review activity for Computational biology and chemistry. (12)