Supplementary Materials

Viral epitope profiling of COVID-19 patients reveals cross-reactivity and correlates of severity

Ellen Shrock, Eric Fujimura, Tomasz Kula, Richard T. Timms, I-Hsiu Lee, Yumei Leng, Matthew L. Robinson, Brandon M. Sie, Mamie Z. Li, Yuezhou Chen, Jennifer Logue, Adam Zuiani, Denise McCulloch, Felipe J. N. Lelis, Stephanie Henson, Daniel R. Monaco, Meghan Travers, Shaghayegh Habibi, William A. Clarke, Patrizio Caturegli, Oliver Laeyendecker, Alicja Piechocka-Trocha, Jon Li, Ashok Khatri, Helen Y. Chu, MGH COVID-19 Collection & Processing Team, Alexandra-ChloƩ Villani, Kyle Kays, Marcia B. Goldberg, Nir Hacohen, Michael R. Filbin, Xu G. Yu, Bruce D. Walker, Duane R. Wesemann, H. Benjamin Larman, James A. Lederer, Stephen J. Elledge

Materials/Methods, Supplementary Text, Tables, Figures, and/or References

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  • Figs. S1 to S11
  • Tables S2, S9, and S10
  • Captions for Tables S1, S3 to S8, and S11 to S19
  • References
MDAR Reproducibility Checklist
Table S1
Coronavirus VirScan library. Peptide sequences and annotations for the coronavirus VirScan 56-mer library, 20-mer library, and alanine scanning library.
Table S3
Sample legends and metadata.
Table S4
Z-scores for IgG IPs using the coronavirus (56-mer and 20-mer) libraries.
Table S5
Z-scores for IgG IPs using the virome library.
Table S6
Z-scores for IgA IPs using the coronavirus (56-mer and 20-mer) libraries.
Table S7
Z-scores for IgG IPs using the coronavirus alanine scanning library.
Table S8
Z-scores for IgA IPs using the coronavirus alanine scanning library.
Table S11
Relative enrichments for alanine scanning mutants of SARS-CoV-2 spike, IgG IPs
Table S12
Relative enrichments for alanine scanning mutants of SARS-CoV-2 spike, IgA IPs
Table S13
Relative enrichments for alanine scanning mutants of SARS-CoV-2 nucleoprotein, IgG IPs
Table S14
Relative enrichments for alanine scanning mutants of SARS-CoV-2 nucleoprotein, IgA IPs
Table S15
HMM epitope mapping output for SARS-CoV-2 spike, IgG IPs
Table S16
HMM epitope mapping output for SARS-CoV-2 spike, IgA IPs
Table S17
HMM epitope mapping output for SARS-CoV-2 nucleoprotein, IgG IPs
Table S18
HMM epitope mapping output for SARS-CoV-2 nucleoprotein, IgA IPs
Table S19
Unique epitope clusters for IgG and IgA IPs using alanine scanning mutagenesis library