Mass Spectrometry Profiling of HLA-Associated Peptidomes in Mono-allelic Cells Enables More Accurate Epitope Prediction
Abelin, Jennifer G., Keskin, Derin B., Sarkizova, Siranush, Hartigan, Christina R., Zhang, Wandi, Sidney, John, Stevens, Jonathan, Lane, William, Zhang, Guang Lan, Eisenhaure, Thomas M., Clauser, Karl R., Hacohen, Nir, Rooney, Michael S., Carr, Steven A., Wu, Catherine J.
Published in Immunity (Cambridge, Mass.) (21.02.2017)
Published in Immunity (Cambridge, Mass.) (21.02.2017)
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Specter: linear deconvolution for targeted analysis of data-independent acquisition mass spectrometry proteomics
Peckner, Ryan, Myers, Samuel A, Jacome, Alvaro Sebastian Vaca, Egertson, Jarrett D, Abelin, Jennifer G, MacCoss, Michael J, Carr, Steven A, Jaffe, Jacob D
Published in Nature methods (01.05.2018)
Published in Nature methods (01.05.2018)
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Antigen discovery and specification of immunodominance hierarchies for MHCII-restricted epitopes
Graham, Daniel B., Luo, Chengwei, O’Connell, Daniel J., Lefkovith, Ariel, Brown, Eric M., Yassour, Moran, Varma, Mukund, Abelin, Jennifer G., Conway, Kara L., Jasso, Guadalupe J., Matar, Caline G., Carr, Steven A., Xavier, Ramnik J.
Published in Nature medicine (01.11.2018)
Published in Nature medicine (01.11.2018)
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The Role of Mass Spectrometry and Proteogenomics in the Advancement of HLA Epitope Prediction
Creech, Amanda L., Ting, Ying S., Goulding, Scott P., Sauld, John F.K., Barthelme, Dominik, Rooney, Michael S., Addona, Terri A., Abelin, Jennifer G.
Published in Proteomics (Weinheim) (01.06.2018)
Published in Proteomics (Weinheim) (01.06.2018)
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Reduced-representation Phosphosignatures Measured by Quantitative Targeted MS Capture Cellular States and Enable Large-scale Comparison of Drug-induced Phenotypes
Abelin, Jennifer G., Patel, Jinal, Lu, Xiaodong, Feeney, Caitlin M., Fagbami, Lola, Creech, Amanda L., Hu, Roger, Lam, Daniel, Davison, Desiree, Pino, Lindsay, Qiao, Jana W., Kuhn, Eric, Officer, Adam, Li, Jianxue, Abbatiello, Susan, Subramanian, Aravind, Sidman, Richard, Snyder, Evan, Carr, Steven A., Jaffe, Jacob D.
Published in Molecular & cellular proteomics (01.05.2016)
Published in Molecular & cellular proteomics (01.05.2016)
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MHC class I-associated phosphopeptides are the targets of memory-like immunity in leukemia
Cobbold, Mark, De La Peña, Hugo, Norris, Andrew, Polefrone, Joy M, Qian, Jie, English, Ann Michelle, Cummings, Kara L, Penny, Sarah, Turner, James E, Cottine, Jennifer, Abelin, Jennifer G, Malaker, Stacy A, Zarling, Angela L, Huang, Hsing-Wen, Goodyear, Oliver, Freeman, Sylvie D, Shabanowitz, Jeffrey, Pratt, Guy, Craddock, Charles, Williams, Michael E, Hunt, Donald F, Engelhard, Victor H
Published in Science translational medicine (18.09.2013)
Published in Science translational medicine (18.09.2013)
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Workflow enabling deepscale immunopeptidome, proteome, ubiquitylome, phosphoproteome, and acetylome analyses of sample-limited tissues
Abelin, Jennifer G., Bergstrom, Erik J., Rivera, Keith D., Taylor, Hannah B., Klaeger, Susan, Xu, Charles, Verzani, Eva K., Jackson White, C., Woldemichael, Hilina B., Virshup, Maya, Olive, Meagan E., Maynard, Myranda, Vartany, Stephanie A., Allen, Joseph D., Phulphagar, Kshiti, Harry Kane, M., Rachimi, Suzanna, Mani, D. R., Gillette, Michael A., Satpathy, Shankha, Clauser, Karl R., Udeshi, Namrata D., Carr, Steven A.
Published in Nature communications (03.04.2023)
Published in Nature communications (03.04.2023)
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The HLA-II immunopeptidome of SARS-CoV-2
Weingarten-Gabbay, Shira, Chen, Da-Yuan, Sarkizova, Siranush, Taylor, Hannah B., Gentili, Matteo, Hernandez, Gabrielle M., Pearlman, Leah R., Bauer, Matthew R., Rice, Charles M., Clauser, Karl R., Hacohen, Nir, Carr, Steven A., Abelin, Jennifer G., Saeed, Mohsan, Sabeti, Pardis C.
Published in Cell reports (Cambridge) (23.01.2024)
Published in Cell reports (Cambridge) (23.01.2024)
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Tumor Infiltrating Lymphocytes Target HLA-I Phosphopeptides Derived From Cancer Signaling in Colorectal Cancer
Penny, Sarah A, Abelin, Jennifer G, Malaker, Stacy A, Myers, Paisley T, Saeed, Abu Z, Steadman, Lora G, Bai, Dina L, Ward, Stephen T, Shabanowitz, Jeffrey, Hunt, Donald F, Cobbold, Mark
Published in Frontiers in immunology (24.08.2021)
Published in Frontiers in immunology (24.08.2021)
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HLA-I immunopeptidome profiling of human cells infected with high-containment enveloped viruses
Weingarten-Gabbay, Shira, Pearlman, Leah R., Chen, Da-Yuan, Klaeger, Susan, Taylor, Hannah B., Welch, Nicole L., Keskin, Derin B., Carr, Steven A., Abelin, Jennifer G., Saeed, Mohsan, Sabeti, Pardis C.
Published in STAR protocols (16.12.2022)
Published in STAR protocols (16.12.2022)
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Defining HLA-II Ligand Processing and Binding Rules with Mass Spectrometry Enhances Cancer Epitope Prediction
Abelin, Jennifer G., Harjanto, Dewi, Malloy, Matthew, Suri, Prerna, Colson, Tyler, Goulding, Scott P., Creech, Amanda L., Serrano, Lia R., Nasir, Gibran, Nasrullah, Yusuf, McGann, Christopher D., Velez, Diana, Ting, Ying S., Poran, Asaf, Rothenberg, Daniel A., Chhangawala, Sagar, Rubinsteyn, Alex, Hammerbacher, Jeff, Gaynor, Richard B., Fritsch, Edward F., Greshock, Joel, Oslund, Rob C., Barthelme, Dominik, Addona, Terri A., Arieta, Christina M., Rooney, Michael S.
Published in Immunity (Cambridge, Mass.) (15.10.2019)
Published in Immunity (Cambridge, Mass.) (15.10.2019)
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1040-B Identifying tumor-associated antigens in different stages of multiple myeloma using low input HLA immunopeptidomics
Hernandez, Gabrielle M, Taylor, Hannah, Verzani, Eva K, Ctortecka, Claudia, Berrios Nolasco, David A, Clauser, Karl R, Udeshi, Namrata D, Abelin, Jennifer G, Manasanch, Elisabet, Carr, Steven A
Published in Journal for immunotherapy of cancer (01.11.2023)
Published in Journal for immunotherapy of cancer (01.11.2023)
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What Can Ribo-Seq, Immunopeptidomics, and Proteomics Tell Us About the Noncanonical Proteome?
Prensner, John R., Abelin, Jennifer G., Kok, Leron W., Clauser, Karl R., Mudge, Jonathan M., Ruiz-Orera, Jorge, Bassani-Sternberg, Michal, Moritz, Robert L., Deutsch, Eric W., van Heesch, Sebastiaan
Published in Molecular & cellular proteomics (01.09.2023)
Published in Molecular & cellular proteomics (01.09.2023)
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Optimized Liquid and Gas Phase Fractionation Increases HLA-Peptidome Coverage for Primary Cell and Tissue Samples
Klaeger, Susan, Apffel, Annie, Clauser, Karl R., Sarkizova, Siranush, Oliveira, Giacomo, Rachimi, Suzanna, Le, Phuong M., Tarren, Anna, Chea, Vipheaviny, Abelin, Jennifer G., Braun, David A., Ott, Patrick A., Keshishian, Hasmik, Hacohen, Nir, Keskin, Derin B., Wu, Catherine J., Carr, Steven A.
Published in Molecular & cellular proteomics (2021)
Published in Molecular & cellular proteomics (2021)
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Sensitive, High-Throughput HLA-I and HLA-II Immunopeptidomics Using Parallel Accumulation-Serial Fragmentation Mass Spectrometry
Phulphagar, Kshiti Meera, Ctortecka, Claudia, Jacome, Alvaro Sebastian Vaca, Klaeger, Susan, Verzani, Eva K., Hernandez, Gabrielle M., Udeshi, Namrata D., Clauser, Karl R., Abelin, Jennifer G., Carr, Steven A.
Published in Molecular & cellular proteomics (01.06.2023)
Published in Molecular & cellular proteomics (01.06.2023)
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1408 Non-canonical peptide sources broaden the landscape of targetable antigens in pancreatic cancer
Ely, Zackery A, Kulstad, Zachary J, Abelin, Jennifer G, Verzani, Eva K, Addepalli, Sudarsana, Clauser, Karl, Kapner, Kevin S, Hennessey, Connor J, Agus, Miles, Klaeger, Susan, Jaeger, Alex M, Su, Jennifer, Greenberg, Philip D, Aguirre, Andrew J, Carr, Steven, Jacks, Tyler, Freed-Pastor, William
Published in Journal for immunotherapy of cancer (01.11.2023)
Published in Journal for immunotherapy of cancer (01.11.2023)
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HLA-II immunopeptidome profiling and deep learning reveal features of antigenicity to inform antigen discovery
Stražar, Martin, Park, Jihye, Abelin, Jennifer G., Taylor, Hannah B., Pedersen, Thomas K., Plichta, Damian R., Brown, Eric M., Eraslan, Basak, Hung, Yuan-Mao, Ortiz, Kayla, Clauser, Karl R., Carr, Steven A., Xavier, Ramnik J., Graham, Daniel B.
Published in Immunity (Cambridge, Mass.) (11.07.2023)
Published in Immunity (Cambridge, Mass.) (11.07.2023)
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MS-Based HLA-II Peptidomics Combined With Multiomics Will Aid the Development of Future Immunotherapies
Taylor, Hannah B., Klaeger, Susan, Clauser, Karl R., Sarkizova, Siranush, Weingarten-Gabbay, Shira, Graham, Daniel B., Carr, Steven A., Abelin, Jennifer G.
Published in Molecular & cellular proteomics (01.01.2021)
Published in Molecular & cellular proteomics (01.01.2021)
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Complementary IMAC enrichment methods for HLA-associated phosphopeptide identification by mass spectrometry
Abelin, Jennifer G, Trantham, Paisley D, Penny, Sarah A, Patterson, Andrea M, Ward, Stephen T, Hildebrand, William H, Cobbold, Mark, Bai, Dina L, Shabanowitz, Jeffrey, Hunt, Donald F
Published in Nature protocols (01.09.2015)
Published in Nature protocols (01.09.2015)
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