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* corresponding author
2026
Jiayi Sun et al. “B cell imprinting in children impairs antibodies to the haemagglutinin stalk.” Nature (2026). DOI:10.1038/s41586-026-10248-6 Nature
#*Li, Lei, #Haidong Yi, Jessica N. Brazelton, Richard Webby, Randall T. Hayden, Gang Wu, and Diego R. Hijano. Bridging Genomics and Clinical Medicine: RSVrecon Enhances RSV Surveillance with Automated Genotyping and Clinically-important Mutation Reporting. Influenza and Other Respiratory Viruses 20, no. 1 (2026): e70203, DOI:10.1111/irv.70203 Wiley
Te Ling et al. “GATA1 N-terminus coordinates metabolic reprogramming in erythropoiesis.” Blood (2026). DOI:10.1182/blood.2025030464 ASH
2025
Fu, Yanbin et al. In Vivo Evolution of Monoclonal Antibody CR3022 to Achieve Cross-Neutralization of SARS-CoV-2 and Implications for Vaccine Strategies Against SARS-related Viruses. bioRxiv (2025): 2025-08. DOI: 10.1101/2025.08.05.666673 bioRxiv
Changrob, Siriruk et al. Common cold embecovirus imprinting primes broadly neutralizing antibody responses to SARS-CoV-2 S2. Journal of Experimental Medicine 222, no. 12 (2025): e20251146. DOI: 10.1084/jem.20251146 Rockefeller University Press
#Jenna Guthmiller, #Linda Yu-Ling Lan, #Lei Li, #Yanbin Fu, #Sean A. Nelson, Carole Henry, Christopher Stamper, Henry Utset, Alec Freyn, Julianna Han, Olivia Stovicek, Jiaolong Wang, Nai-Ying Zheng, Min Huang, Haley Dugan, Micah Tepora, Xueyong Zhu, Yao-Qing Chen, Anna-Karin Palm, Dustin Shaw, Madhumanthi Loganathan, Benjamin Francis, Mia McNair, Philip Mead, Ian Wilson, Adolfo Garcia-Sastre, Raffael Nachbagauer, Peter Palese, Andrew Ward, Lynda Coughlan, Florian Krammer, Patrick Wilson. Long-lasting B cell convergence to distinct broadly reactive epitopes following vaccination with chimeric influenza virus hemagglutinins Immunity(2025) DOI: https://doi.org/10.1016/j.immuni.2025.02.025 Cell Press
Seiler, Patrick et al. Altered germinal center responses in mice vaccinated with highly pathogenic avian influenza A (H5N1) virus. Vaccine 60 (2025): 127311. DOI: https://doi.org/10.1016/j.vaccine.2025.127311 Elsevier Press
Joshua J.C. McGrath et al. Mutability and hypermutation antagonize immunoglobulin codon optimality Molecular Cell (2025) 85 (2), 430-444. e6 DOI: https://doi.org/10.1016/j.molcel.2024.11.033 Elsevier Press
2024
#Lei Li, #Jiayi Sun, #Yanbin Fu, Siriruk Changrob, Joshua J.C. McGrath, Patrick Wilson. A hybrid demultiplexing strategy that improves performance and robustness of cell hashing Briefings in Bioinformatics (2024) DOI: https://doi.org/10.1093/bib/bbae254 Oxford Press
Kim, Y. et al. Epitopes recognition of SARS-CoV-2 nucleocapsid RNA binding domain by human monoclonal antibodies. Iscience (2024) DOI:https://doi.org/10.1016/j.isci.2024.108976 CellPress
2023
Meng Hu et al. Hemagglutinin destabilizationin H3N2 vaccine reference viruses skews antigenicity and prevents airborne transmission in ferrets Science Advances (2023) Science Advances
Siriruk Changrob et al. Site of vulnerability on SARS-CoV-2 spike induces broadly protective antibody to antigenically distinct Omicron subvariants Journal of Clinical Investigation (2023) DOI: 10.1172/JCI166844 JCI
2022
Lei Li, Yu-Ling Lan, Lei Huang, Congting Ye, Jorge Andrade, and Patrick C Wilson. Selecting representative samples from complex biological datasets using k-medoids clustering. Frontiers in Genetics (2022) p. 1787. DOI: 10.3389/fgene.2022.954024 Frontiers in Genetics
Joshua J.C. McGrath et al. Memory B cell diversity: insights for optimized vaccine design Trends in Immunology (2022) https://doi.org/10.1016/j.it.2022.03.005 Cell Press
#Lei Li, #Siriruk Changrob, #Yanbin Fu,Olivia Stovicek, Jenna J. Guthmiller, Joshua JC McGrath, Haley L. Dugan, Christopher T. Stamper, Nai-Ying Zheng, Min Huang, Patrick C Wilson; Librator: a platform for the optimized analysis, design, and expression of mutable influenza viral antigens Briefings in Bioinformatics (2022) bbac028 Oxford Press
Guthmiller, Jenna J et al. Broadly neutralizing antibodies target a hemagglutinin anchor epitope Nature 602, 314–320 (2022) https://doi.org/10.1038/s41586-021-04356-8 Nature
2021
Siriruk Changrob et al. Cross neutralization of emerging SARS-CoV-2 variants of concern by antibodies targeting distinct epitopes on spike mBio 12, no. 6 (2021): e02975-21. ASM Journals
#Li, Lei; #Dugan, Haley L; #Stamper, Christopher; Lan, Linda Yu-Ling; Asby, Nicholas; Knight, Matthew; Stovicek, Olivia; Zheng, Nai-Ying; Madariaga, Maria Lucia; Shanmugarajah, Kumaran; Improved integration of single-cell transcriptome and surface protein expression by LinQ-View Cell Reports Methods 1 (4), 100056 (2021) Cell Press
Guthmiller, Jenna J et al. An egg-derived sulfated N-Acetyllactosamine glycan is an antigenic decoy of influenza virus vaccines Mbio 12, no. 3 (2021): e00838-21. ASM Journals
#Dugan, Haley L; #Stamper, Christopher; #Li, Lei; Changrob, Siriruk; Asby, Nicholas; Halfmann, Peter; Zheng, Nai-Ying; Huang, Min; Shaw, Dustin G; Cobb, Mari; Profiling B cell immunodominance after SARS-CoV-2 infection reveals antibody evolution to non-neutralizing viral targets Immunity 54, no. 6 (2021): 1290-1303. ScienceDirect
Guthmiller, Jenna J et al. SARS-CoV-2 infection severity is linked to superior humoral immunity against the spike MBio 12, no. 1 (2021): e02940-20 ASM Journals
Guthmiller, Jenna J et al. First exposure to the pandemic H1N1 virus induced broadly neutralizing antibodies targeting hemagglutinin head epitopes Science Translational Medicine 13, no. 596 (2021). DOI: 10.1126/scitranslmed.abg4535 Science Translational Medicine
Surette, Fionna A et al. Extrafollicular CD4 T cell-derived IL-10 functions rapidly and transiently to support anti-Plasmodium humoral immunity PLoS Pathogens 17, no. 2 (2021): e1009288. PLoS Pathogens
Lee, Dong-Hun et al. H7N1 Low Pathogenicity Avian Influenza Viruses in Poultry in the United States During 2018. Avian Diseases 65, no. 1 (2021): 59-62. Avian Diseases
Vijay, Rahul et al. Hemolysis-associated phosphatidylserine exposure promotes polyclonal plasmablast differentiation Journal of Experimental Medicine 218, no. 6 (2021): e20202359. JEM
2020
Li, Lei; Chang, Deborah; Han, Lei; Zhang, Xiaojian; Zaia, Joseph; Wan, Xiu-Feng; Multi-task learning sparse group lasso: a method for quantifying antigenicity of influenza A (H1N1) virus using mutations and variations in glycosylation of Hemagglutinin BMC bioinformatics 21 (2020): 1-22. BMC
Hu, Meng et al. HA stabilization promotes replication and transmission of swine H1N1 gamma influenza viruses in ferrets Elife 9 (2020): e56236. eLife
Knight, Matthew et al. Imprinting, immunodominance, and other impediments to generating broad influenza immunity Immunological Reviews 296, no. 1 (2020): 191-204. Wiley
Zhang, Xiaojian; Cunningham et al. Tissue tropisms of avian influenza A viruses affect their spillovers from wild birds to pigs Journal of Virology 94, no. 24 (2020): e00847-20. JVI
Guthmiller, Jenna J et al. Polyreactive Broadly Neutralizing B cells Are Selected to Provide Defense against Pandemic Threat Influenza Viruses Immunity 53, no. 6 (2020): 1230-1244. Pubmed
2019
Han, Lei et al. Graph-guided multi-task sparse learning model: a method for identifying antigenic variants of influenza A (H3N2) virus Bioinformatics 35, no. 1 (2019): 77-87. PMC
Guan, Minhui et al. Aerosol transmission of gull-origin Iceland subtype H10N7 influenza A virus in ferrets Journal of virology 93, no. 13 (2019): e00282-19. ResearchGate
Krammer, Florian; Li, Lei; Wilson, Patrick C; Emerging from the shadow of hemagglutinin: neuraminidase is an important target for influenza vaccination Cell host & microbe 26, no. 6 (2019): 712-713. Pubmed
2018
#Kosikova, Martina; #Li, Lei; Radvak, Peter; Ye, Zhiping; Wan, Xiu-Feng; Xie, Hang; Imprinting of repeated influenza A/H3 exposures on antibody quantity and antibody quality: implications for seasonal vaccine strain selection and vaccine performance Clinical infectious diseases 67, no. 10 (2018): 1523-1532. Pubmed
Li, Lei; Bowman, Andrew S; DeLiberto, Thomas J; Killian, Mary L; Krauss, Scott; Nolting, Jacqueline M; Torchetti, Mia Kim; Ramey, Andrew M; Reeves, Andrew B; Stallknecht, David E; Genetic evidence supports sporadic and independent introductions of subtype H5 low-pathogenic avian influenza A viruses from wild birds to domestic poultry in North America Journal of virology 92, no. 19 (2018): e00913-18. JVI
Li, Lei; DeLiberto, Thomas J; Killian, Mary L; Torchetti, Mia K; Wan, Xiu-Feng; Evolutionary pathway for the 2017 emergence of a novel highly pathogenic avian influenza A (H7N9) virus among domestic poultry in Tennessee, United States Virology 525 (2018): 32-39. Pubmed
#Zhang, Xiaojian; #Sun, Hailiang; #Cunningham, Fred L; #Li, Lei; Hanson-Dorr, Katie; Hopken, Matthew W; Cooley, Jim; Long, Li-Ping; Baroch, John A; Li, Tao; Tissue tropisms opt for transmissible reassortants during avian and swine influenza A virus co-infection in swine PLoS Pathogens 14, no. 12 (2018): e1007417. PLoS Pathogen
2017
Martin, Brigitte E et al. Detection of antigenic variants of subtype H3 swine influenza A viruses from clinical samples Journal of clinical microbiology 55, no. 4 (2017): 1037-1045. Pubmed
Xie, Hang et al. Differential effects of prior influenza exposures on H3N2 cross-reactivity of human postvaccination sera Clinical Infectious Diseases 65, no. 2 (2017): 259-267. Pubmed
Huang, Guangzao et al. Integrating multiple fitting regression and Bayes decision for cancer diagnosis with transcriptomic data from tumor-educated blood platelets Analyst 142, no. 19 (2017): 3588-3597. Pubmed
2016
Li, Lei; Han, Lei; Wan, Xiu-feng; Identification of glycosylation sites and mutations determining antigenic drift events for influenza A viruses using sparse group lasso regression GLYCOBIOLOGY vol. 26, no. 12, pp. 1393-1394.
2015
Li, Lei; Ji, Guoli; Ye, Congting; Shu, Changlong; Zhang, Jie; Liang, Chun; PlantOrDB: A genome-wide ortholog database for land plants and green algae BMC plant biology 15, no. 1 (2015): 1-11. Pubmed
Ji, Guoli et al. PASPA: a web server for mRNA poly (A) site predictions in plants and algae Bioinformatics 31, no. 10 (2015): 1671-1673. Oxford Press
Shi, Jieming et al. mirPRo–a novel standalone program for differential expression and variation analysis of miRNAs Scientific reports 5, no. 1 (2015): 1-12. Scientific Reports
2014
Ye, Congting et al. detectIR: a novel program for detecting perfect and imperfect inverted repeats using complex numbers and vector calculation PloS one 9, no. 11 (2014): e113349. PLoS One