Lei Li
Sr. Bioinoformatics Research Scientist
ORCID
GitHub
Google Scholar
LinkedIn
Email
lei.li#stjude.org
Overview
Dr. Lei Li is a senior bioinformatics research scientist at St. Jude Children’s Research Hospital, He is particularly interested in the development and application of bioinformatics methods in single-cell sequencing.
His expertise includes analyisis, integration and intepretation of transcriptomics and genomics data:
- RNA-Seq, scRNA-Seq
- ATAC-Seq, scATAC-Seq
- NGS, virus genome assembly
- Phylogenetoic analysis
Education
- PhD, Xiamen University, Xiamen, China (2015)
- MS, Xian Jiaotong University, Xian, China (2011)
Professional Experience
| Time | Position | PI/Supervisor | Institution |
|---|---|---|---|
| 2022- | Sr. Bioinformatics | Yiping Fan | St. Jude Children’s Research Hospital |
| Research Scientist | |||
| 2022-2022 | Research Assistant | Patrick Wilson | Weill Cornell Medicine |
| Professor | |||
| 2021-2022 | Senior Bioinformatics | Patrick Wilson | Weill Cornell Medicine |
| Analyst | |||
| 2019-2021 | Postdoctoral Scholar | Patrick Wilson | The University of Chicago |
| 2015-2018 | Postdoctoral Scholar | Xiufeng Wan | Mississippi State University |
Publications
For a full list (GEO|SRA|Browser|Code) see below , or Google Scholar
Full List
2022:5
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Broadly neutralizing antibodies target a haemagglutinin anchor epitopeNature 2022
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Librator: a platform for the optimized analysis, design, and expression of mutable influenza viral antigensBriefings in Bioinformatics 2022
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Memory B cell diversity: insights for optimized vaccine designTrends in Immunology 2022
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Selecting Representative Samples From Complex Biological Datasets Using K-Medoids ClusteringFrontiers in Genetics 2022
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B cell convergence to distinct broadly reactive epitopes revealed by chimeric hemagglutinin vaccinationThe Journal of Immunology 2022
2021:9
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SARS-CoV-2 infection severity is linked to superior humoral immunity against the spikeMBio 2021
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Extrafollicular CD4 T cell-derived IL-10 functions rapidly and transiently to support anti-Plasmodium humoral immunityPLoS pathogens 2021
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An egg-derived sulfated N-Acetyllactosamine glycan is an antigenic decoy of influenza virus vaccinesMbio 2021
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Hemolysis-associated phosphatidylserine exposure promotes polyclonal plasmablast differentiationJournal of Experimental Medicine 2021
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Profiling B cell immunodominance after SARS-CoV-2 infection reveals antibody evolution to non-neutralizing viral targetsImmunity 2021
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H7N1 low pathogenicity avian influenza viruses in poultry in the United States during 2018Avian Diseases 2021
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First exposure to the pandemic H1N1 virus induced broadly neutralizing antibodies targeting hemagglutinin head epitopesScience Translational Medicine 2021
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Improved integration of single-cell transcriptome and surface protein expression by LinQ-ViewCell reports methods 2021
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Cross-neutralization of emerging SARS-CoV-2 variants of concern by antibodies targeting distinct epitopes on spikeMBio 2021
2020:7
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Multi-task learning sparse group lasso: a method for quantifying antigenicity of influenza A (H1N1) virus using mutations and variations in glycosylation of HemagglutininBMC bioinformatics 2020
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HA stabilization promotes replication and transmission of swine H1N1 gamma influenza viruses in ferretsElife 2020
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Imprinting, immunodominance, and other impediments to generating broad influenza immunityImmunological reviews 2020
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Tissue tropisms of avian influenza A viruses affect their spillovers from wild birds to pigsJournal of Virology 2020
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Polyreactive broadly neutralizing B cells are selected to provide defense against pandemic threat influenza virusesImmunity 2020
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Understanding memory B cell responses to a chimeric-based universal influenza virus vaccine candidateThe Journal of Immunology 2020
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SARS-CoV-2 infection severity is linked to superior humoral immunity against the spike (preprint)2020
2019:3
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Graph-guided multi-task sparse learning model: a method for identifying antigenic variants of influenza A (H3N2) virusBioinformatics 2019
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Aerosol transmission of gull-origin Iceland subtype H10N7 influenza A virus in ferretsJournal of Virology 2019
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Emerging from the shadow of hemagglutinin: neuraminidase is an important target for influenza vaccinationCell host & microbe 2019
2018:4
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Imprinting of repeated influenza A/H3 exposures on antibody quantity and antibody quality: implications for seasonal vaccine strain selection and vaccine performanceClinical Infectious Diseases 2018
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Genetic evidence supports sporadic and independent introductions of subtype H5 low-pathogenic avian influenza A viruses from wild birds to domestic poultry in North AmericaJournal of virology 2018
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Evolutionary pathway for the 2017 emergence of a novel highly pathogenic avian influenza A (H7N9) virus among domestic poultry in Tennessee, United StatesVirology 2018
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Tissue tropisms opt for transmissible reassortants during avian and swine influenza A virus co-infection in swinePLoS Pathogens 2018
2017:3
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Detection of antigenic variants of subtype H3 swine influenza A viruses from clinical samplesJournal of Clinical Microbiology 2017
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Differential effects of prior influenza exposures on H3N2 cross-reactivity of human postvaccination seraClinical Infectious Diseases 2017
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Integrating multiple fitting regression and Bayes decision for cancer diagnosis with transcriptomic data from tumor-educated blood plateletsAnalyst 2017
2016:1
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Identification of glycosylation sites and mutations determining antigenic drift events for influenza A viruses using sparse group lasso regressionIn GLYCOBIOLOGY 2016
2015:3
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PlantOrDB: A genome-wide ortholog database for land plants and green algaeBMC plant biology 2015
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PASPA: a web server for mRNA poly (A) site predictions in plants and algaeBioinformatics 2015
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mirPRo–a novel standalone program for differential expression and variation analysis of miRNAsScientific reports 2015