Activities

PROFESSIONAL EXPERIENCE

12/2022 – Present
Senior Bioinformatics Research Scientist → Lead Bioinformatics Research Scientist
St. Jude Children’s Research Hospital

08/2021 – 12/2022
Senior Bioinformatics Analyst → Assistant Professor of Bioinformatics Research in Pediatrics
Weill Cornell Medicine

03/2019 – 08/2021
Postdoctoral scholar
University of Chicago

08/2015 – 08/2018
Postdoctoral scholar
Missssippi State University

04/2013 - 06/2014
Visiting scholar
Miami University

RESEARCH INTERESTS

  • Single-cell Multi-Omics appaoaches, including demultiplexing, clustering, multimodal integration, and immune-repertoire profiling.
  • Spatial omics approaches for studying tissue organization, cellular interactions, and disease-associated microenvironments.
  • Cancer biology, with emphasis on understanding pediatric cancer origins and progression using single-cell, spatial, and multi-omics approaches.
  • Evolutionary genetics, viral adaptation, and B-cell antibody responses, with applications to vaccination, antigen design, and respiratory viral infections.

EDUCATION

Xiamen University
Xiamen, China, 2011 - 2015
Ph.D. System Engineering/Bioinformatics

Xi’an Jiaotong University
Xi’an, China, 2009 - 2011
M.S. Control Engineering/Natural Language Processing

Xi’an Jiaotong University
Xi’an, China, 2005 - 2009
B.S. Automation

CONTACT

Advanced Research Center - St. Jude Children's Research Hospital
262 Danny Thomas Place
Memphis, TN, 38105
USA

Email: lei.li[at]stjude.org or leilioxford[at]gmail.com

PROJECTS

RVEAtlas a comprehensive platform that tracks amino acid variation and clade evolution across respiratory viruses
   
   
RSVrecon: An efficient workflow to screen clinically relevant genomic variations of RSV from NGS data
   
   
Improving Data Interpretation for High Resolution Spatial Omics using computational approaches
   
   
   
HTOreader: hybrid single cell demultiplexing strategy that increases both cell recovery rate and calling accuracy.
   
   
VGenes: an integrated graphical tool for efficient, comprehensive and multimodal analyses of massive B-cell repertoire sequences.
   
   
Librator: a platform for optimized sequence editing, design, and expression of influenza virus proteins.
   
   
LinQ-View is a joint single cell analysis strategy that could integrate information from both transcriptome and surface protein markers for cell heterogeneity identification.
   
   
Cookie: Selecting representative samples from single cell atlas using k-medoids clustering.
   
   

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