Author

S. Sarkizova

Listed by name: these papers carry no ORCID for this author, so different people with the same name may be mixed together.

Biology Disciplines

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Immunology· 3 Cancer Biology· 2 Biochemistry· 1 Microbiology· 1

Signature Assays, Organisms & Methods

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Organism:human· 6 Approach:experimental assay· 5 Research Focus:host-pathogen & immune response· 4 Assay:proteomics· 4 Approach:statistical model· 3 Research Focus:cell type annotation· 2 Approach:deep learning· 1 Research Focus:differential expression· 1

Frequent Co-Authors

N. Hacohen· 5 shared K. R. Clauser· 4 shared S. A. Carr· 4 shared J. G. Abelin· 3 shared S. Klaeger· 3 shared A. Apffel· 2 shared C. J. Wu· 2 shared C. M. Rice· 2 shared

Activity by Year

2020-2023 · peak 3/yr

Co-Author Collaboration Network

10 top collaborators · 41 mutual co-author links

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5 shared papersImmunology

N. Hacohen

Mutual co-authors in cluster

Author profile →

7 papers

Recent·Most cited

The HLA-II immunopeptidome of SARS-CoV-2

S. Weingarten-Gabbay, D.-Y. Chen, S. Sarkizova, H. B. Taylor, M. Gentili, L. R. Pearlman, M. R. Bauer, C. M. Rice, K. R. Clauser, N. Hacohen, S. A. Carr, J. G. Abelin, M. Saeed, P. C. Sabeti

The paper identifies SARS-CoV-2 peptides presented by HLA-II complexes, showing their association with CD4+ T cell epitopes and distinct targeting of viral proteins compared to HLA-I.

bioRxiv · May 26, 2023Microbiology

Spatial analysis of human lung cancer reveals organized immune hubs enriched for stem-like CD8 T cells and associated with immunotherapy response

J. H. Chen, L. T. Nieman, M. Spurrell, V. Jorgji, P. M. Richieri, K. H. Xu, R. Madhu, M. Parikh, I. Zamora, A. Mehta, C. S. Nabel, S. S. Freeman, J. D. Pirl, C. Lu, C. B. Meador, , N. Hacohen

The paper identifies immune hubs in lung cancer that are associated with better responses to PD-1-blockade immunotherapy and contain stem-like CD8 T cells.

bioRxiv · Apr 4, 2023Immunology

Optimized liquid and gas phase fractionation increase HLA-peptidome coverage for primary cell and tissue samples

S. Klaeger, A. Apffel, K. R. Clauser, S. Sarkizova, G. Oliveira, S. Rachimi, P. M. Le, A. Tarren, V. Chea, J. G. Abelin, D. A. Braun, P. A. Ott, H. Keshishian, N. Hacohen, D. Keskin, , S. A. Carr

The paper improves HLA-peptidome coverage using optimized liquid and gas phase fractionation methods, enabling detection of more peptides from limited clinical tissue samples.

bioRxiv · May 25, 2021Biochemistry

Multicellular immune hubs and their organization in MMRd and MMRp colorectal cancer

K. Pelka, M. Hofree, J. Chen, S. Sarkizova, J. D. Pirl, V. Jorgji, A. Bejnood, D. Dionne, W. H. Ge, K. H. Xu, S. X. Chao, D. R. Zollinger, D. J. Lieb, J. W. Reeves, C. A. Fuhrman, , J

The paper identifies immune hubs in colorectal cancer by analyzing transcriptional and spatial patterns in MMRd and MMRp tumors.

bioRxiv · Jan 30, 2021 · PreprintCancer Biology

SARS-CoV-2 infected cells present HLA-I peptides from canonical and out-of-frame ORFs

S. Weingarten-Gabbay, S. Klaeger, S. Sarkizova, L. R. Pearlman, D.-Y. Chen, M. R. Bauer, H. B. Taylor, H. L. Conway, C. H. Tomkins-Tinch, Y. Finkel, A. Nachshon, M. Gentili, K. D. Rivera, D. B. Keskin, C. M. Rice, , P. C. Sabeti

The paper identifies HLA-I peptides from SARS-CoV-2 in infected cells, revealing epitopes from both canonical and out-of-frame ORFs, which could inform vaccine development.

bioRxiv · Oct 2, 2020 · PreprintImmunology

ERAP2 increases the abundance of a peptide submotif highly selective for the Birdshot Uveitis-associated HLA-A29

W. Venema, S. Hiddingh, J. H. de Boer, F. Claas, A. Mulder, A. D. Hollander, E. Stratikos, S. Sarkizova, L. v. d. Veken, G. Janssen, P. v. Veelen, J. J. Kuiper

The paper investigates how ERAP2 affects HLA-A29 peptide presentation in BU and identifies an HLA-A29-specific peptide motif linked to autoantigens.

bioRxiv · Aug 14, 2020 · PreprintImmunology

Thousands of novel unannotated proteins expand the MHC I immunopeptidome in cancer

T. Ouspenskaia, T. Law, K. R. Clauser, S. Klaeger, S. Sarkizova, F. Aguet, B. Li, E. Christian, B. A. Knisbacher, P. M. Le, C. R. Hartigan, H. Keshishian, A. Apffel, G. Oliveira, W. Zhang, , A. Regev

The paper identifies thousands of novel unannotated proteins in cancer that contribute to the MHC I immunopeptidome, expanding potential targets for immunotherapy.

bioRxiv · Feb 12, 2020 · PreprintCancer Biology