Wei Vivian Li

ORCID: 0000-0002-2087-2709

Biochemistry, Genetics and Molecular Biology

Pilot corpus only

This score is computed over theSindex pilot corpus and does not cover the full scientific literature. Scores are relative to papers we have ingested — papers, authors, and institutions outside the pilot are not represented. Methodology.

Top 100%percentile

0Author DataRank

Indexed papers

0in pilot corpus

datarank_citation_only_1hop_v6· scope data_onlyMethodology

Papers

Driven by 34 papers. Top paper: “scDesign2: a transparent simulator that generates high-fidelity single-cell gene expression count data with gene correlations captured”.

scDesign2: a transparent simulator that generates high-fidelity single-cell gene expression count data with gene correlations captured

Genome biology(2021)10.1186/s13059-021-02367-2

N/A

2.7DataRank · unranked

127 citations

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

Infection and inflammation stimulate expansion of a CD74+ Paneth cell subset to regulate disease progression

The EMBO Journal(2023)10.15252/embj.2023113975

N/A

0.559DataRank · unranked

21 citations

Sheila Bandyopadhyay, Juan Flores, Jared Bianchi‐Smak, Xiang Lin, Haoran Liu +30 more

scLink: Inferring Sparse Gene Co-expression Networks from Single-cell Expression Data

bioRxiv (Cold Spring Harbor Laboratory)(2020)10.1101/2020.09.19.304956

N/A

0DataRank · unranked

9 citations

Yanzeng Li, Wei Vivian Li

mbImpute: an accurate and robust imputation method for microbiome data

bioRxiv (Cold Spring Harbor Laboratory)(2020)10.1101/2020.03.07.982314

N/A

0DataRank · unranked

8 citations

Wei Vivian Li, Jingyi Jessica Li, Ruochen Jiang

Transcriptomics, metabolomics and lipidomics of chronically injured alveolar epithelial cells reveals similar features of IPF lung epithelium

bioRxiv (Cold Spring Harbor Laboratory)(2020)10.1101/2020.05.08.084459

N/A

0DataRank · unranked

0 citations

Karina Cuevas-Mora, Dominic Sales, Wei Vivian Li, Iván O. Rosas, Freddy Romero +1 more

mbImpute: an accurate and robust imputation method for microbiome data

Genome biology(2021)10.1186/s13059-021-02400-4

N/A

0DataRank · unranked

75 citations

Wei Vivian Li, Jingyi Jessica Li, Ruochen Jiang

Maternal cecal microbiota transfer rescues early-life antibiotic-induced enhancement of type 1 diabetes in mice

Cell Host & Microbe(2021)10.1016/j.chom.2021.06.014

N/A

0DataRank · unranked

57 citations

Yue Yin, Jincheng Wang, Thomas Battaglia, Kimberly A. Krautkramer, Wei Vivian Li +24 more

scLink: Inferring Sparse Gene Co-Expression Networks from Single-Cell Expression Data

Genomics Proteomics & Bioinformatics(2021)10.1016/j.gpb.2020.11.006

N/A

0DataRank · unranked

47 citations

Yanzeng Li, Wei Vivian Li

Selecting gene features for unsupervised analysis of single-cell gene expression data

Briefings in Bioinformatics(2021)10.1093/bib/bbab295

N/A

0DataRank · unranked

38 citations

Wei Vivian Li, Jie Sheng

MAAPER: model-based analysis of alternative polyadenylation using 3′ end-linked reads

Genome biology(2021)10.1186/s13059-021-02429-5

N/A

0DataRank · unranked

32 citations

Dinghai Zheng, Ruijia Wang, Bin Tian, Wei Vivian Li

A computational pipeline for functional gene discovery

Scientific Reports(2021)10.1038/s41598-021-03041-0

N/A

0DataRank · unranked

1 citations

Rishabh Hirday, Ami Patel, Amrita Poddar, Emma Tuberty‐Vaughan, Tianyue Fu +4 more

scINSIGHT for interpreting single-cell gene expression from biologically heterogeneous data

bioRxiv (Cold Spring Harbor Laboratory)(2021)10.1101/2021.10.13.464306

N/A

0DataRank · unranked

3 citations

Shiwei Fu, Hongwei Li, Wei Vivian Li, Kun Qian

MAAPER: model-based analysis of alternative polyadenylation using 3’ end-linked reads

bioRxiv (Cold Spring Harbor Laboratory)(2021)10.1101/2021.03.21.436343

N/A

0DataRank · unranked

2 citations

Dinghai Zheng, Ruijia Wang, Bin Tian, Wei Vivian Li

A Computational Pipeline for Functional Gene Discovery

Research Square(2021)10.21203/rs.3.rs-770297/v1

N/A

0DataRank · unranked

0 citations

Rishabh Hirday, Ami Patel, Amrita Poddar, Emma Tuberty‐Vaughan, Tianyue Fu +4 more

Benchmarking cell-type clustering methods for spatially resolved transcriptomics data

Briefings in Bioinformatics(2022)10.1093/bib/bbac475

N/A

0DataRank · unranked

83 citations

Guanyu Hu, Wei Vivian Li, Andrew Y. S. Cheng

scINSIGHT for interpreting single-cell gene expression from biologically heterogeneous data

Genome biology(2022)10.1186/s13059-022-02649-3

N/A

0DataRank · unranked

34 citations

Shiwei Fu, Hongwei Li, Wei Vivian Li, Kun Qian

Phitest for analyzing the homogeneity of single-cell populations

Bioinformatics(2022)10.1093/bioinformatics/btac130

N/A

0DataRank · unranked

6 citations

Wei Vivian Li

Requirement of GrgA for Chlamydia infectious progeny production, optimal growth, and efficient plasmid maintenance

mBio(2023)10.1128/mbio.02036-23

N/A

0DataRank · unranked

13 citations

Yuxuan Wang, Wurihan Wurihan, Andrew Y. S. Cheng, Sydney Yeung, Joseph D. Fondell +6 more

scAce: an adaptive embedding and clustering method for single-cell gene expression data

Bioinformatics(2023)10.1093/bioinformatics/btad546

N/A

0DataRank · unranked

8 citations

Kun Qian, Ziqian Wang, Shirou Zeng, Hongwei Li, Wei Vivian Li +1 more

Temporal and structural patterns of hepatitis B virus integrations in hepatocellular carcinoma

Journal of Medical Virology(2023)10.1002/jmv.29187

N/A

0DataRank · unranked

5 citations

Xun Chen, Jinglin Wang, Ying Chen, Alex Hafiz, Qian Xiao +6 more

Requirement of GrgA for Chlamydia infectious progeny production, optimal growth, and efficient plasmid maintenance

bioRxiv (Cold Spring Harbor Laboratory)(2023)10.1101/2023.08.02.551707

N/A

0DataRank · unranked

1 citations

Yuxuan Wang, Wurihan Wurihan, Andrew Y. S. Cheng, Sydney Yeung, Joseph D. Fondell +6 more

Lactobacillus rhamnosus GG Stimulates Dietary Tryptophan-Dependent Production of Barrier-Protecting Methylnicotinamide

Cellular and Molecular Gastroenterology and Hepatology(2024)10.1016/j.jcmgh.2024.04.003

N/A

0DataRank · unranked

15 citations

Jayson M. Antonio, Juan Flores, Ravij Upadhyay, John Veltri, Sheila Bandyopadhyay +10 more

Expression activation of over 70% of Chlamydia trachomatis genes during the first hour of infection

Infection and Immunity(2024)10.1128/iai.00539-23

N/A

0DataRank · unranked

10 citations

Yuxuan Wang, Sydney Yeung, Yi Zou, Zhao Lai, Joseph D. Fondell +4 more

Metabolomic and Transcriptomic Correlative Analyses in Germ-Free Mice Link Lacticaseibacillus rhamnosus GG-Associated Metabolites to Host Intestinal Fatty Acid Metabolism and β-Oxidation

Laboratory Investigation(2024)10.1016/j.labinv.2024.100330

N/A

0DataRank · unranked

4 citations

Ronaldo P. Ferraris, Jayanth Ambat, Jayson M. Antonio, Juan Flores, A R Jones +4 more

Analyzing RNA-Seq data from Chlamydia with super broad transcriptomic activation: challenges, solutions, and implications for other systems

BMC Genomics(2024)10.1186/s12864-024-10714-3

N/A

0DataRank · unranked

3 citations

Andrew Y. S. Cheng, Yuxuan Wang, Guangming Zhong, Wei Vivian Li, Huizhou Fan +1 more

Analyzing RNA-Seq Data from Chlamydia with Super Broad Transcriptomic Activation: Challenges, Solutions, and Implications for Other Systems

bioRxiv (Cold Spring Harbor Laboratory)(2024)10.1101/2024.05.16.594566

N/A

0DataRank · unranked

0 citations

Andrew Y. S. Cheng, Yuxuan Wang, Guangming Zhong, Wei Vivian Li, Huizhou Fan +1 more

Harmonizing heterogeneous single-cell gene expression data with individual-level covariate information

Bioinformatics Advances(2024)10.1093/bioadv/vbaf189

N/A

0DataRank · unranked

0 citations

Wei Vivian Li, Yudi Mu

spCLUE: a contrastive learning approach to unified spatial transcriptomics analysis across single-slice and multi-slice data

Genome biology(2025)10.1186/s13059-025-03636-0

N/A

0DataRank · unranked

8 citations

Wei Vivian Li, Hongwei Li, Xiang Wang

Lacticaseibacillus rhamnosus GG -driven remodeling of arginine metabolism mitigates gut barrier dysfunction

American Journal of Physiology-Gastrointestinal and Liver Physiology(2025)10.1152/ajpgi.00366.2024

N/A

0DataRank · unranked

6 citations

Yue Liu, Panan Suntornsaratoon, A R Jones, Jayanth Ambat, Ajitha Bala +10 more

Generalized probabilistic canonical correlation analysis for multi-modal data integration with full or partial observations

BMC Bioinformatics(2025)10.1186/s12859-025-06227-9

N/A

0DataRank · unranked

4 citations

Wei Vivian Li, Tianjian Yang

Predicting and comparing transcription start sites in single cell populations

PLoS Computational Biology(2025)10.1371/journal.pcbi.1012878

N/A

0DataRank · unranked

2 citations

Wei Vivian Li, Shiwei Fu

Immune suppressive landscape in the human esophageal squamous cell carcinoma microenvironment

Nature Communications(2020)10.1038/s41467-020-20019-0

N/A

0DataRank · unranked

472 citations

Zheyi Chen, Yichao Han, Han Li, Xin Zou, Bingqian Zhou +14 more

Generalized probabilistic canonical correlation analysis for multi-modal data integration with full or partial observations

arXiv (Cornell University)(2025)10.48550/arxiv.2504.11610

N/A

0DataRank · unranked

0 citations

Wei Vivian Li, Tianjian Yang

scDesign2: a transparent simulator that generates high-fidelity single-cell gene expression count data with gene correlations captured

bioRxiv (Cold Spring Harbor Laboratory)(2020)10.1101/2020.11.17.387795

N/A

0DataRank · unranked

10 citations

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