Mapping antibody footprints using binding profiles

Asaf Azulay, Liel Cohen-Lavi, Lilach M. Friedman, Maureen A. McGargill, Tomer Hertz

Research output: Contribution to journalArticlepeer-review


The increasing use of monoclonal antibodies (mAbs) in biology and medicine necessitates efficient methods for characterizing their binding epitopes. Here, we developed a high-throughput antibody footprinting method based on binding profiles. We used an antigen microarray to profile 23 human anti-influenza hemagglutinin (HA) mAbs using HA proteins of 43 human influenza strains isolated between 1918 and 2018. We showed that the mAb's binding profile can be used to characterize its influenza subtype specificity, binding region, and binding site. We present mAb-Patch—an epitope prediction method that is based on a mAb's binding profile and the 3D structure of its antigen. mAb-Patch was evaluated using four mAbs with known solved mAb-HA structures. mAb-Patch identifies over 67% of the true epitope when considering only 50–60 positions along the antigen. Our work provides proof of concept for utilizing antibody binding profiles to screen large panels of mAbs and to down-select antibodies for further functional studies.

Original languageEnglish
Article number100566
JournalCell Reports Methods
Issue number8
StatePublished - 28 Aug 2023


  • CP: Immunology
  • CP: Systems biology
  • antibody characterization
  • antibody footprints
  • antibody profiling
  • antigenic cartography
  • epitope prediction
  • mAb-Patch
  • monoclonal antibody

ASJC Scopus subject areas

  • Genetics
  • Biochemistry, Genetics and Molecular Biology (miscellaneous)
  • Biochemistry
  • Radiology Nuclear Medicine and imaging
  • Biotechnology
  • Computer Science Applications


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