Endogenous retroviral signatures predict immunotherapy response in clear cell renal cell carcinoma
Open accessAbstract
Human endogenous retroviruses (hERVs) are remnants of exogenous retroviruses that have integrated into the genome throughout evolution. We developed a computational workflow, hervQuant, which identified more than 3,000 transcriptionally active hERVs within The Cancer Genome Atlas (TCGA) pan-cancer RNA-Seq database. hERV expression was associated with clinical prognosis in several tumor types, most significantly clear cell renal cell carcinoma (ccRCC). We explored two mechanisms by which hERV expression may influence the tumor immune microenvironment in ccRCC: (i) RIG-I-like signaling and (ii) retroviral antigen activation of adaptive immunity. We demonstrated the ability of hERV signatures associated with these immune mechanisms to predict patient survival in ccRCC, independent of clinical staging and molecular subtyping. We identified potential tumor-specific hERV epitopes with evidence of translational activity through the use of a ccRCC ribosome profiling (Ribo-Seq) dataset, validated their ability to bind HLA in vitro, and identified the presence of MHC tetramer-positive T cells against predicted epitopes. hERV sequences identified through this screening approach were significantly more highly expressed in ccRCC tumors responsive to treatment with programmed death receptor 1 (PD-1) inhibition. hervQuant provides insights into the role of hERVs within the tumor immune microenvironment, as well as evidence that hERV expression could serve as a biomarker for patient prognosis and response to immunotherapy.
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Increased expression of ERVs, including a full-length HERV4700 element, was significantly associated with improved response to PD-1/PD-L1 blockade in clear cell renal cell carcinoma.
“increased expression of ERVs, including a full-length HERV4700 element, was significantly associated with improved response to PD-1/PD-L1 blockade in clear cell renal cell carcinoma32,33.”
From Multi-omic analysis of hepatocellular carcinoma reveals aberrant cis-regulatory changes and dysregulated retrotransposons with prognostic potential (2025) · cites this paper as [32]
The paper title (unpaginated in our copy) says endogenous retroviral signatures predict immunotherapy response in clear cell renal cell carcinoma. The available passages do not establish that increased expression predicts improved response, identify a full-length HERV4700 element, or specify a significant association with PD-1/PD-L1 blockade. Searches for HERV4700 and treatment-response terms returned no Results passages. (LLM, conf=0.68)
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Cites
Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2
Love, M. I., Huber, W., & Anders, S. (2014) · Genome Biology · doi:10.1186/s13059-014-0550-8 · Cited by 95,106 · see citing works
The Sequence Alignment/Map format and SAMtools
Li, H., Handsaker, B., Wysoker, A., Fennell, T., Ruan, J., Homer, N., Marth, G., Abecasis, G., Durbin, R., & 1000 Genome Project Data Processing Subgroup (2009) · Bioinformatics · doi:10.1093/bioinformatics/btp352 · Cited by 62,041 · see citing works
STAR: ultrafast universal RNA-seq aligner
Dobin, A., Davis, C. A., Schlesinger, F., Drenkow, J., Zaleski, C., Jha, S., Batut, P., Chaisson, M., & Gingeras, T. R. (2013) · Bioinformatics · doi:10.1093/bioinformatics/bts635 · Cited by 51,709 · see citing works
Salmon provides fast and bias-aware quantification of transcript expression
Patro, R., Duggal, G., Love, M. I., Irizarry, R. A., & Kingsford, C. (2017) · Nature Methods · doi:10.1038/nmeth.4197 · Cited by 12,700 · see citing works
Molecular signatures database (MSigDB) 3.0
Liberzon, A., Subramanian, A., Pinchback, R., Thorvaldsdóttir, H., Tamayo, P., & Mesirov, J. P. (2011) · Bioinformatics · doi:10.1093/bioinformatics/btr260 · Cited by 7,111 · see citing works
Neoantigens in cancer immunotherapy
Schumacher, T. N., & Schreiber, R. D. (2015) · Science · doi:10.1126/science.aaa4971 · Cited by 4,783 · see citing works
Spatiotemporal Dynamics of Intratumoral Immune Cells Reveal the Immune Landscape in Human Cancer
Bindea, G., Mlecnik, B., Tosolini, M., Kirilovsky, A., Waldner, M. J., Obenauf, A. C., Angell, H. K., Fredriksen, T., Lafontaine, L., Berger, A., et al. (2013) · Immunity · doi:10.1016/j.immuni.2013.10.003 · Cited by 4,390 · see citing works
Molecular and genetic properties of tumors associated with local immune cytolytic activity
Rooney, M. S., Shukla, S. A., Wu, C. J., Getz, G., & Hacohen, N. (2015) · Cell · doi:10.1016/j.cell.2014.12.033 · Cited by 3,825 · see citing works
Liu, J., Lichtenberg, T., Hoadley, K. A., Poisson, L. M., Lazar, A. J., Cherniack, A. D., Kovatich, A. J., Benz, C. C., Levine, D. A., Lee, A. V., et al. (2018) · Cell · doi:10.1016/j.cell.2018.02.052 · Cited by 3,725 · see citing works
Phenotypic Analysis of Antigen-Specific T Lymphocytes
Altman, J. D., Moss, P. A. H., Goulder, P. J. R., Barouch, D. H., McHeyzer-Williams, M. G., Bell, J. I., McMichael, A. J., & Davis, M. M. (1996) · Science · doi:10.1126/science.274.5284.94 · Cited by 3,544 · see citing works
Genomic and Transcriptomic Features of Response to Anti-PD-1 Therapy in Metastatic Melanoma
Hugo, W., Zaretsky, J. M., Sun, L., Song, C., Moreno, B. H., Hu-Lieskovan, S., Berent-Maoz, B., Pang, J., Chmielowski, B., Cherry, G., et al. (2016) · Cell · doi:10.1016/j.cell.2016.02.065 · Cited by 3,448 · see citing works
EAU Guidelines on Renal Cell Carcinoma: 2014 Update
Ljungberg, B., Bensalah, K., Canfield, S. E., Dabestani, S., Hofmann, F., Hora, M., Kuczyk, M. A., Lam, T. B. L., Marconi, L. S., Merseburger, A. S., et al. (2015) · European Urology · doi:10.1016/j.eururo.2015.01.005 · Cited by 3,397 · see citing works
An immunogenic personal neoantigen vaccine for patients with melanoma
Ott, P. A., Hu, Z., Keskin, D. B., Shukla, S. A., Sun, J., Bozym, D. J., Zhang, W., Luoma, A., Giobbie-Hurder, A., Peter, L., et al. (2017) · Nature · doi:10.1038/nature22991 · Cited by 2,936 · see citing works
Personalized RNA mutanome vaccines mobilize poly-specific therapeutic immunity against cancer
Sahin, U., Derhovanessian, E., Miller, M., Kloke, B.-P., Simon, P., Löwer, M., Bukur, V., Tadmor, A. D., Luxemburger, U., Schrörs, B., et al. (2017) · Nature · doi:10.1038/nature23003 · Cited by 2,488 · see citing works
Yoshida, M., Miyoshi, I., & Hinuma, Y. (1982) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.79.6.2031 · Cited by 2,169 · see citing works
Phenotypic and molecular characterization of the claudin-low intrinsic subtype of breast cancer
Prat, A., Parker, J. S., Karginova, O. A., Fan, C., Livasy, C., Herschkowitz, J. I., He, X., & Perou, C. M. (2010) · Breast Cancer Research · doi:10.1186/bcr2635 · Cited by 2,164 · see citing works
Self-citationChiappinelli, K. B., Strissel, P. L., Desrichard, A., Li, H., Henke, C., Akman, B., Hein, A., Rote, N. S., Cope, L. M., Snyder, A., et al. (2015) · Cell · doi:10.1016/j.cell.2015.07.011 · Cited by 2,022 · see citing works
MiXCR: software for comprehensive adaptive immunity profiling
Bolotin, D. A., Poslavskii, S., Mitrophanov, I., Shugay, M., Mamedov, I. Z., Putintseva, E. V., & Chudakov, D. M. (2015) · Nature Methods · doi:10.1038/nmeth.3364 · Cited by 1,730 · see citing works
CDK4/6 inhibition triggers anti-tumour immunity
Goel, S., DeCristo, M. J., Watt, A. C., BrinJones, H., Sceneay, J., Li, B. B., Khan, N., Ubellacker, J. M., Xie, S., Metzger-Filho, O., et al. (2017) · Nature · doi:10.1038/nature23465 · Cited by 1,513 · see citing works
Jurtz, V. I., Paul, S., Andreatta, M., Marcatili, P., Peters, B., & Nielsen, M. (2017) · The Journal of Immunology · doi:10.4049/jimmunol.1700893 · Cited by 1,476 · see citing works
Mutant MHC class II epitopes drive therapeutic immune responses to cancer
Kreiter, S., Vormehr, M., van de Roemer, N., Diken, M., Löwer, M., Diekmann, J., Boegel, S., Schrörs, B., Vascotto, F., Castle, J. C., et al. (2015) · Nature · doi:10.1038/nature14426 · Cited by 1,243 · see citing works
Kalyanaraman, V. S., Sarngadharan, M. G., Robert-Guroff, M., Miyoshi, I., Blayney, D. W., Golde, D. W., & Gallo, R. C. (1982) · Science · doi:10.1126/science.6981847 · Cited by 1,195 · see citing works
Şenbabaoğlu, Y., Gejman, R. S., Winer, A. G., Liu, M., Allen, E. M. V., de Velasco, G., Miao, D., Ostrovnaya, I., Drill, E. N., Luna, A., et al. (2016) · Genome biology · doi:10.1186/s13059-016-1092-z · Cited by 950 · see citing works
msa: an R package for multiple sequence alignment
Bodenhofer, U., Bonatesta, E., Horejš-Kainrath, C., & Hochreiter, S. (2015) · Bioinformatics · doi:10.1093/bioinformatics/btv494 · Cited by 721 · see citing works
Löwer, R., Löwer, J., & Kurth, R. (1996) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.93.11.5177 · Cited by 691 · see citing works
Chan, K. S., Espinosa, Í., Chao, M. P., Wong, D. J., Ailles, L., Diehn, M., Gill, H. S., Presti, J. C., Chang, H. Y., van de Rijn, M., et al. (2009) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0906549106 · Cited by 658 · see citing works
The Evolutionary Dynamics of Human Endogenous Retroviral Families
Bannert, N., & Kurth, R. (2006) · Annual Review of Genomics and Human Genetics · doi:10.1146/annurev.genom.7.080505.115700 · Cited by 371 · see citing works
Genomic Analysis of Immune Cell Infiltrates Across 11 Tumor Types
Iglesia, M. D., Parker, J. S., Hoadley, K. A., Serody, J. S., Perou, C. M., & Vincent, B. G. (2016) · JNCI Journal of the National Cancer Institute · doi:10.1093/jnci/djw144 · Cited by 356 · see citing works
Self-citationDesign and use of conditional MHC class I ligands
Toebes, M., Coccoris, M., Bins, A. D., Rodenko, B., Gomez, R., Nieuwkoop, N. J., van de Kasteele, W., Rimmelzwaan, G. F., Haanen, J. B. A. G., Ovaa, H., et al. (2006) · Nature Medicine · doi:10.1038/nm1360 · Cited by 348 · see citing works
Cell-type specific gene expression profiles of leukocytes in human peripheral blood
Palmer, C., Diehn, M., Alizadeh, A. A., & Brown, P. O. (2006) · BMC Genomics · doi:10.1186/1471-2164-7-115 · Cited by 331 · see citing works
Classification and characterization of human endogenous retroviruses; mosaic forms are common
Vargiu, L., Rodriguez‐Tomé, P., Sperber, G., Cadeddu, M., Grandi, N., Blikstad, V., Tramontano, E., & Blomberg, J. (2016) · Retrovirology · doi:10.1186/s12977-015-0232-y · Cited by 327 · see citing works
Generation of peptide–MHC class I complexes through UV-mediated ligand exchange
Rodenko, B., Toebes, M., Hadrup, S. R., van Esch, W. J. E., Molenaar, A. M., Schumacher, T. N., & Ovaa, H. (2006) · Nature Protocols · doi:10.1038/nprot.2006.121 · Cited by 320 · see citing works
Iglesia, M. D., Vincent, B. G., Parker, J. S., Hoadley, K. A., Carey, L., Perou, C. M., & Serody, J. S. (2014) · Clinical Cancer Research · doi:10.1158/1078-0432.ccr-13-3368 · Cited by 276 · see citing works
Self-citationTumour-specific proline vulnerability uncovered by differential ribosome codon reading
Loayza‐Puch, F., Rooijers, K., Buil, L. C. M., Zijlstra, J., Vrielink, J. A. F. O., Lopes, R., Ugalde, A. P., Breugel, P. C. V., Hofland, I., Wesseling, J., et al. (2016) · Nature · doi:10.1038/nature16982 · Cited by 272 · see citing works
Florl, A., Löwer, R., Schmitz-Dräger, B., & Schulz, W. (1999) · British Journal of Cancer · doi:10.1038/sj.bjc.6690524 · Cited by 260 · see citing works
GWIPS-viz: development of a ribo-seq genome browser
Michel, A. M., Fox, G., Kiran, A. M., Bo, C. D., O’Connor, P. B. F., Heaphy, S. M., Mullan, J. P. A., Donohue, C. A., Higgins, D. G., & Baranov, P. V. (2013) · Nucleic Acids Research · doi:10.1093/nar/gkt1035 · Cited by 249 · see citing works
Expression of Human Endogenous Retrovirus K in Melanomas and Melanoma Cell Lines
Büscher, K., Trefzer, U., Hofmann, M., Sterry, W., Kurth, R., & Denner, J. (2005) · Cancer Research · doi:10.1158/0008-5472.can-04-2983 · Cited by 249 · see citing works
Immune targets and neoantigens for cancer immunotherapy and precision medicine
Wang, R., & Wang, H. Y. (2016) · Cell Research · doi:10.1038/cr.2016.155 · Cited by 226 · see citing works
Expression of multiple human endogenous retrovirus surface envelope proteins in ovarian cancer
Wang‐Johanning, F., Liu, J., Rycaj, K., Huang, M. L., Tsai, K. L., Rosen, D. G., Chen, D., Lu, D. W., Barnhart, K. F., & Johanning, G. L. (2006) · International Journal of Cancer · doi:10.1002/ijc.22256 · Cited by 225 · see citing works
Lavie, L., Kitova, M., Maldener, E., Meese, E. U., & Mayer, J. M. (2004) · Journal of Virology · doi:10.1128/jvi.79.2.876-883.2005 · Cited by 225 · see citing works
Contreras-Galindo, R., Kaplan, M. H., Leissner, P., Verjat, T., Ferlenghi, I., Bagnoli, F., Giusti, F., Dosik, M. H., Hayes, D. F., Gitlin, S. D., et al. (2008) · Journal of Virology · doi:10.1128/jvi.00646-08 · Cited by 213 · see citing works
Sauter, M., Schommer, S., Kremmer, E., REMBERGER, K., Dölken, G., Lemm, I., Buck, M., Best, B. A., Neumann‐Haefelin, D., & Müeller, A. (1995) · Journal of Virology · doi:10.1128/jvi.69.1.414-421.1995 · Cited by 212 · see citing works
Claudin-low bladder tumors are immune infiltrated and actively immune suppressed
Kardos, J., Chai, S., Mose, L. E., Selitsky, S. R., Krishnan, B., Saito, R., Iglesia, M. D., Milowsky, M. I., Parker, J. S., Kim, W. Y., et al. (2016) · JCI Insight · doi:10.1172/jci.insight.85902 · Cited by 207 · see citing works
Self-citationTakahashi, Y., Harashima, N., Kajigaya, S., Yokoyama, H., Cherkasova, E. A., McCoy, J. P., Hanada, K., Mena, O. J., Kurlander, R. J., Tawab, A., et al. (2008) · Journal of Clinical Investigation · doi:10.1172/jci34409 · Cited by 190 · see citing works
Expression of human endogenous retrovirus k envelope transcripts in human breast cancer.
Wang‐Johanning, F., Frost, A. R., Johanning, G. L., Khazaeli, M. B., LoBuglio, A. F., Shaw, D. R., & Strong, T. V. (2001) · PubMed · Cited by 174 · see citing works
Bakker, A., Hoppes, R., Linnemann, C., Toebes, M., Rodenko, B., Berkers, C. R., Hadrup, S. R., van Esch, W. J. E., Heemskerk, M. H. M., Ovaa, H., et al. (2008) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0709717105 · Cited by 151 · see citing works
Human endogenous retrovirus HERV-K113 is capable of producing intact viral particles
Boller, K., Schönfeld, K., Lischer, S., Fischer, N., Hoffmann, A., Kurth, R., & Tönjes, R. R. (2008) · Journal of General Virology · doi:10.1099/vir.0.83534-0 · Cited by 138 · see citing works
More tricks with tetramers: a practical guide to staining T cells with peptide– MHC multimers
Dolton, G. M., Tungatt, K., Lloyd, A., Bianchi, V., Theaker, S. M., Trimby, A., Holland, C. J., Donia, M., Godkin, A. J., Cole, D. K., et al. (2015) · Immunology · doi:10.1111/imm.12499 · Cited by 137 · see citing works
Detection of an Immunogenic HERV-E Envelope with Selective Expression in Clear Cell Kidney Cancer
Cherkasova, E. A., Scrivani, C., Doh, S. J., Weisman, Q., Takahashi, Y., Harashima, N., Yokoyama, H., Srinivasan, R., Linehan, W. M., Lerman, M. I., et al. (2016) · Cancer Research · doi:10.1158/0008-5472.can-15-3139 · Cited by 129 · see citing works
HERVd: database of human endogenous retroviruses
Pačes, J. (2002) · Nucleic Acids Research · doi:10.1093/nar/30.1.205 · Cited by 118 · see citing works
Regulation of human endogenous retrovirus‐K expression in melanomas by CpG methylation
Stengel, S., Fiebig, U., Kurth, R., & Denner, J. (2010) · Genes Chromosomes and Cancer · doi:10.1002/gcc.20751 · Cited by 107 · see citing works
Wang‐Johanning, F., Frost, A. R., Jian, B., Azerou, R., Lu, D. W., Chen, D., & Johanning, G. L. (2003) · Cancer · doi:10.1002/cncr.11451 · Cited by 104 · see citing works
The evolutionary dynamics of endogenous retroviruses
Katzourakis, A., Rambaut, A., & Pybus, O. G. (2005) · Trends in Microbiology · doi:10.1016/j.tim.2005.08.004 · Cited by 92 · see citing works
HERVd: the Human Endogenous RetroViruses Database: update
Pačes, J. (2003) · Nucleic Acids Research · doi:10.1093/nar/gkh075 · Cited by 84 · see citing works
Levy, A., Sela, N., & Ast, G. (2007) · Nucleic Acids Research · doi:10.1093/nar/gkm949 · Cited by 79 · see citing works
Cherkasova, E. A., Malinzak, E., Rao, S. P., Takahashi, Y., Senchenko, V. N., Kudryavtseva, A. V., Nickerson, M. L., Merino, M. J., Hong, J. A., Schrump, D. S., et al. (2011) · Oncogene · doi:10.1038/onc.2011.179 · Cited by 77 · see citing works
Okada, M., Ogasawara, H., Kaneko, H., Hishikawa, T., Sekigawa, I., Hashimoto, H., Maruyama, N., Kaneko, Y., & Yamamoto, N. (2002) · PubMed · Cited by 64 · see citing works
Synthetic Peptides as Antigens for Antibody Production
Hancock, D. C., & O’Reilly, N. (2005) · Humana Press eBooks · doi:10.1385/1-59259-873-0:013 · Cited by 50 · see citing works
Faff, O., Murray, A. B., Schmidt, J., Leib‐Mösch, C., Erfle, V., & Hehlmann, R. (1992) · Journal of General Virology · doi:10.1099/0022-1317-73-5-1087 · Cited by 43 · see citing works
Tongyoo, P., Avihingsanon, Y., Prom–on, S., Mutirangura, A., Mhuantong, W., & Hirankarn, N. (2017) · PLoS ONE · doi:10.1371/journal.pone.0177119 · Cited by 29 · see citing works
Differential expression analysis of human endogenous retroviruses based on ENCODE RNA-seq data
Haase, K., Mösch, A., & Frishman, D. (2015) · BMC Medical Genomics · doi:10.1186/s12920-015-0146-5 · Cited by 20 · see citing works
Şenbabaoğlu, Y., Gejman, R. S., Winer, A. G., Liu, M., Allen, E. M. V., de Velasco, G., Miao, D., Ostrovnaya, I., Drill, E. N., Luna, A., et al. (2017) · Genome biology · doi:10.1186/s13059-017-1180-8 · Cited by 16 · see citing works
Flagged first, then by citations
1 of the 63 references couldn’t be matched to a known paper.
Cited by
Sorted by citations
Top 10 Challenges in Cancer Immunotherapy
Hegde, P. S., & Chen, D. S. (2020) · Immunity · doi:10.1016/j.immuni.2019.12.011 · Cited by 2,238 · see citing works
The evolving landscape of biomarkers for checkpoint inhibitor immunotherapy
Havel, J. J., Chowell, D., & Chan, T. A. (2019) · Nature Reviews Cancer · doi:10.1038/s41568-019-0116-x · Cited by 2,286 · see citing works
Antigen presentation in cancer: insights into tumour immunogenicity and immune evasion
Jhunjhunwala, S., Hammer, C., & Delamarre, L. (2021) · Nature reviews. Cancer · doi:10.1038/s41568-021-00339-z · Cited by 1,528 · see citing works
Consensus guidelines for the definition, detection and interpretation of immunogenic cell death
Galluzzi, L., Vitale, I., Warren, S., Adjemian, S., Agostinis, P., Buqué, A., Chan, T. A.-T., Coukos, G., Demaria, S., Deutsch, É., et al. (2020) · Journal for ImmunoTherapy of Cancer · doi:10.1136/jitc-2019-000337 · Cited by 1,151 · see citing works
Braun, D. A., Hou, Y., Bakouny, Z., Ficial, M., Sant’ Angelo, M., Forman, J., Ross-Macdonald, P., Berger, A. C., Jegede, O. A., Elagina, L., et al. (2020) · Nature Medicine · doi:10.1038/s41591-020-0839-y · Cited by 992 · see citing works
Neoantigens: promising targets for cancer therapy
Xie, N., Shen, G., Gao, W., Huang, Z., Huang, C., & Fu, L. (2023) · Signal Transduction and Targeted Therapy · doi:10.1038/s41392-022-01270-x · Cited by 1,020 · see citing works
Integrated Proteogenomic Characterization of Clear Cell Renal Cell Carcinoma
Clark, D. J., Dhanasekaran, S. M., Petralia, F., Pan, J., Song, X., Hu, Y., da Veiga Leprevost, F., Reva, B., Lih, T.-S. M., Chang, H.-Y., et al. (2019) · Cell · doi:10.1016/j.cell.2019.10.007 · Cited by 730 · see citing works
Epigenetic therapy in immune-oncology
Jones, P. A., Ohtani, H., Chakravarthy, A., & Carvalho, D. D. D. (2019) · Nature reviews. Cancer · doi:10.1038/s41568-019-0109-9 · Cited by 550 · see citing works
Dynamics and specificities of T cells in cancer immunotherapy
Oliveira, G., & Wu, C. J. (2023) · Nature reviews. Cancer · doi:10.1038/s41568-023-00560-y · Cited by 548 · see citing works
Progressive immune dysfunction with advancing disease stage in renal cell carcinoma
Braun, D. A., Street, K., Burke, K. P., Cookmeyer, D. L., Denize, T., Pedersen, C. B., Gohil, S. H., Schindler, N. R., Pomerance, L., Hirsch, L., et al. (2021) · Cancer Cell · doi:10.1016/j.ccell.2021.02.013 · Cited by 502 · see citing works
Targeting the HIF2–VEGF axis in renal cell carcinoma
Choueiri, T. K., & Kaelin, W. G. (2020) · Nature Medicine · doi:10.1038/s41591-020-1093-z · Cited by 477 · see citing works
Functional genomic landscape of cancer-intrinsic evasion of killing by T cells
Lawson, K. A., Sousa, C. M., Zhang, X., Kim, E., Akthar, R., Caumanns, J. J., Yao, Y., Mikolajewicz, N., Ross, C., Brown, K. R., et al. (2020) · Nature · doi:10.1038/s41586-020-2746-2 · Cited by 443 · see citing works
Predictive biomarkers for cancer immunotherapy with immune checkpoint inhibitors
Bai, R., Lv, Z., Xu, D., & Cui, J. (2020) · Biomarker Research · doi:10.1186/s40364-020-00209-0 · Cited by 469 · see citing works
Identifying and Targeting Human Tumor Antigens for T Cell-Based Immunotherapy of Solid Tumors
Leko, V., & Rosenberg, S. A. (2020) · Cancer Cell · doi:10.1016/j.ccell.2020.07.013 · Cited by 449 · see citing works
The landscape of viral associations in human cancers
Zapatka, M., Borozan, I., Brewer, D. S., Iskar, M., Grundhoff, A. T., Alawi, M., Desai, N., Sültmann, H., Moch, H., Pathogens, P., et al. (2020) · Nature Genetics · doi:10.1038/s41588-019-0558-9 · Cited by 389 · see citing works
Beyond conventional immune-checkpoint inhibition — novel immunotherapies for renal cell carcinoma
Braun, D. A., Bakouny, Z., Hirsch, L., Flippot, R., Van Allen, E. M., Wu, C. J., & Choueiri, T. K. (2021) · Nature Reviews Clinical Oncology · doi:10.1038/s41571-020-00455-z · Cited by 356 · see citing works
Alternative tumour-specific antigens
Smith, C. C., Selitsky, S. R., Chai, S., Armistead, P. M., Vincent, B. G., & Serody, J. S. (2019) · Nature reviews. Cancer · doi:10.1038/s41568-019-0162-4 · Cited by 353 · see citing works
Self-citationAntigen presentation in cancer — mechanisms and clinical implications for immunotherapy
Yang, K., Halima, A., & Chan, T. A.-T. (2023) · Nature Reviews Clinical Oncology · doi:10.1038/s41571-023-00789-4 · Cited by 333 · see citing works
Parikh, A. R., Szabolcs, A., Allen, J. N., Clark, J. W., Wo, J. Y.-L., Raabe, M. J., Thel, H. L., Hoyos, D., Mehta, A., Arshad, S., et al. (2021) · Nature Cancer · doi:10.1038/s43018-021-00269-7 · Cited by 298 · see citing works
B Cell Function in the Tumor Microenvironment
Downs‐Canner, S., Meier, J. A., Vincent, B. G., & Serody, J. S. (2022) · Annual Review of Immunology · doi:10.1146/annurev-immunol-101220-015603 · Cited by 295 · see citing works
Self-citationKong, Y., Rose, C. M., Cass, A. A., Williams, A. G., Darwish, M., Lianoglou, S., Haverty, P. M., Tong, A.-J., Blanchette, C., Albert, M. L., et al. (2019) · Nature Communications · doi:10.1038/s41467-019-13035-2 · Cited by 285 · see citing works
Determinants of anti-PD-1 response and resistance in clear cell renal cell carcinoma
Au, L., Hatipoglu, E., de Massy, M. R., Litchfield, K., Beattie, G., Rowan, A., Schnidrig, D., Thompson, R. H., Byrne, F., Horswell, S. D., et al. (2021) · Cancer Cell · doi:10.1016/j.ccell.2021.10.001 · Cited by 258 · see citing works
Self-citationEndogenous Retroelements and the Viral Mimicry Response in Cancer Therapy and Cellular Homeostasis
Chen, R. E., Ishak, C. A., & Carvalho, D. D. D. (2021) · Cancer Discovery · doi:10.1158/2159-8290.cd-21-0506 · Cited by 206 · see citing works
Derosa, L., Iebba, V., Silva, C. A. C., Piccinno, G., Wu, G., Lordello, L., Routy, B., Zhao, N., Thelemaque, C., Birebent, R., et al. (2024) · Cell · doi:10.1016/j.cell.2024.05.029 · Cited by 198 · see citing works
Von Hippel–Lindau disease: insights into oxygen sensing, protein degradation, and cancer
Kaelin, W. G. (2022) · Journal of Clinical Investigation · doi:10.1172/jci162480 · Cited by 178 · see citing works
Zheng, S., Wang, W., Shen, L., Yao, Y., Xia, W., & Ni, C. (2024) · Experimental Hematology and Oncology · doi:10.1186/s40164-024-00543-1 · Cited by 176 · see citing works
Wang, Q., Li, M., Yang, M., Yang, Y., Song, F., Zhang, W., Li, X., & Chen, K. (2020) · Aging · doi:10.18632/aging.102814 · Cited by 162 · see citing works
Endogenous retroviruses in the origins and treatment of cancer
Jansz, N., & Faulkner, G. J. (2021) · Genome biology · doi:10.1186/s13059-021-02357-4 · Cited by 155 · see citing works
Gupta, R. G., Li, F., Roszik, J., & Lizee, G. A. (2021) · Cancer Discovery · doi:10.1158/2159-8290.cd-20-1575 · Cited by 144 · see citing works
Mpakali, A., & Stratikos, E. (2021) · Cancers · doi:10.3390/cancers13010134 · Cited by 126 · see citing works
Activation of human endogenous retroviruses and its physiological consequences
Dopkins, N., & Nixon, D. F. (2024) · Nature Reviews Molecular Cell Biology · doi:10.1038/s41580-023-00674-z · Cited by 122 · see citing works
Bonaventura, P., Alcazer, V., Mutez, V., Tonon, L., Martin, J., Chuvin, N., Michel, E., Boulos, R. E., Estornes, Y., Valladeau‐Guilemond, J., et al. (2022) · Science Advances · doi:10.1126/sciadv.abj3671 · Cited by 110 · see citing works
Attig, J., Young, G. R., Hosie, L., Perkins, D., Encheva-Yokoya, V., Stoye, J. P., Snijders, A. P., Ternette, N., & Kassiotis, G. (2019) · Genome Research · doi:10.1101/gr.248922.119 · Cited by 110 · see citing works
Human endogenous retroviruses form a reservoir of T cell targets in hematological cancers
Saini, S. K., Ørskov, A. D., Bjerregaard, A.-M., Unnikrishnan, A., Holmberg-Thydén, S., Borch, A., Jensen, K. V., Anande, G., Bentzen, A. K., Marquard, A. M., et al. (2020) · Nature Communications · doi:10.1038/s41467-020-19464-8 · Cited by 101 · see citing works
Epigenetic Mechanisms of Resistance to Immune Checkpoint Inhibitors
Perrier, A., Didelot, A., Laurent‐Puig, P., Blons, H., & Garinet, S. (2020) · Biomolecules · doi:10.3390/biom10071061 · Cited by 99 · see citing works
Toward a comprehensive view of cancer immune responsiveness: a synopsis from the SITC workshop
Society for Immunotherapy of Cancer (SITC) Cancer Immune Responsiveness Task Force and Working Groups, Bedognetti, D., Ceccarelli, M., Galluzzi, L., Lu, R. O., Palucka, K., Samayoa, J. A., Spranger, S., Warren, S. E., Wong, K., et al. (2019) · Journal for ImmunoTherapy of Cancer · doi:10.1186/s40425-019-0602-4 · Cited by 90 · see citing works
Friedman, J., Moore, E. C., Zolkind, P., Robbins, Y., Clavijo, P. E., Sun, L., Greene, S., Morisada, M. V., Mydlarz, W. K., Schmitt, N., et al. (2020) · Clinical Cancer Research · doi:10.1158/1078-0432.ccr-19-2209 · Cited by 88 · see citing works
Human endogenous retroviruses role in cancer cell stemness
Matteucci, C., Balestrieri, E., Argaw-Denboba, A., & Vallebona, P. S. (2018) · Seminars in Cancer Biology · doi:10.1016/j.semcancer.2018.10.001 · Cited by 88 · see citing works
Human Endogenous Retrovirus K in Cancer: A Potential Biomarker and Immunotherapeutic Target
Curty, G., Marston, J. L., Rougvie, M. D. M., Leal, F. E., Nixon, D. F., & Soares, M. A. (2020) · Viruses · doi:10.3390/v12070726 · Cited by 85 · see citing works
Ficial, M., Jegede, O. A., Sant’Angelo, M., Hou, Y., Flaifel, A., Pignon, J., Braun, D. A., Wind‐Rotolo, M., Sticco-Ivins, M. A., Catalano, P. J., et al. (2020) · Clinical Cancer Research · doi:10.1158/1078-0432.ccr-20-3084 · Cited by 83 · see citing works
The renal lineage factor PAX8 controls oncogenic signalling in kidney cancer
Patel, S. A., Hirosue, S., Rodrigues, P., Vojtasova, E., Richardson, E. K., Ge, J., Syafruddin, S. E., Speed, A., Papachristou, E. K., Baker, D., et al. (2022) · Nature · doi:10.1038/s41586-022-04809-8 · Cited by 83 · see citing works
Eliciting antitumor immunity via therapeutic cancer vaccines
Peng, K., Zhao, X., Fu, Y., & Liang, Y. (2025) · Cellular and Molecular Immunology · doi:10.1038/s41423-025-01316-4 · Cited by 89 · see citing works
DNA Methylation: From Cancer Biology to Clinical Perspectives
Chen, C., Wang, Z., Ding, Y., Wang, L., Wang, S., Wang, H., & Qin, Y. (2022) · Frontiers in Bioscience-Landmark · doi:10.31083/j.fbl2712326 · Cited by 83 · see citing works
MHC Class I Immunopeptidome: Past, Present, and Future
Yewdell, J. W. (2022) · Molecular & Cellular Proteomics · doi:10.1016/j.mcpro.2022.100230 · Cited by 81 · see citing works
The Immunological Conundrum of Endogenous Retroelements
Kassiotis, G. (2023) · Annual Review of Immunology · doi:10.1146/annurev-immunol-101721-033341 · Cited by 79 · see citing works
Zhu, Z., Jin, Y., Zhou, J., Chen, F., Chen, M., Gao, Z., Hu, L., Xuan, J., Li, X., Song, Z., et al. (2024) · Molecular Cancer · doi:10.1186/s12943-024-02059-y · Cited by 83 · see citing works
News on immune checkpoint inhibitors as immunotherapy strategies in adult and pediatric solid tumors
Melaiu, O., Lucarini, V., Giovannoni, R., Fruci, D., & Gemignani, F. (2020) · Seminars in Cancer Biology · doi:10.1016/j.semcancer.2020.07.001 · Cited by 75 · see citing works
Bonté, P., Arribas, Y. A., Merlotti, A., Carrascal, M., Zhang, J. V., Zueva, E., Binder, Z. A., Alanio, C., Goudot, C., & Amigorena, S. (2022) · Cell Reports · doi:10.1016/j.celrep.2022.110916 · Cited by 75 · see citing works
de Cubas, A. A., Dunker, W., Zaninovich, A., Hongo, R. A., Bhatia, A., Panda, A., Beckermann, K. E., Bhanot, G., Ganesan, S., Karijolich, J. J., et al. (2020) · JCI Insight · doi:10.1172/jci.insight.137569 · Cited by 76 · see citing works
Self-citationDhillon, P., Mulholland, K. A., Hu, H., Park, J., Sheng, X., Abedini, A., Liu, H., Vassalotti, A., Wu, J., & Suszták, K. (2023) · Nature Communications · doi:10.1038/s41467-023-36212-w · Cited by 73 · see citing works
Hardy, M., Audemard, E. O., Migneault, F., Feghaly, A., Brochu, S., Gendron, P., Boilard, É., Major, F., Dieudé, M., Hébert, M., et al. (2019) · Scientific Reports · doi:10.1038/s41598-019-43591-y · Cited by 73 · see citing works
DNA methylation and cancer: transcriptional regulation, prognostic, and therapeutic perspective
Bhootra, S., Jill, N., Shanmugam, G., Rakshit, S., & Sarkar, K. (2023) · Medical Oncology · doi:10.1007/s12032-022-01943-1 · Cited by 77 · see citing works
Towards targeting transposable elements for cancer therapy
Liang, Y., Qu, X., Shah, N. M., & Wang, T. (2024) · Nature reviews. Cancer · doi:10.1038/s41568-023-00653-8 · Cited by 70 · see citing works
MHC Class I Deficiency in Solid Tumors and Therapeutic Strategies to Overcome It
Shklovskaya, E., & Rizos, H. (2021) · International Journal of Molecular Sciences · doi:10.3390/ijms22136741 · Cited by 67 · see citing works
HIF regulates multiple translated endogenous retroviruses: Implications for cancer immunotherapy
Jiang, Q., Braun, D. A., Clauser, K. R., Ramesh, V., Shirole, N. H., Duke-Cohan, J. E., Nabilsi, N., Kramer, N. J., Forman, C., Lippincott, I. E., et al. (2025) · Cell · doi:10.1016/j.cell.2025.01.046 · Cited by 68 · see citing works
Quantifying PD-L1 Expression to Monitor Immune Checkpoint Therapy: Opportunities and Challenges
Nimmagadda, S. (2020) · Cancers · doi:10.3390/cancers12113173 · Cited by 67 · see citing works
Hatano, Y., Ideta, T., Hirata, A., Hatano, K., Tomita, H., Okada, H., Shimizu, M., Tanaka, T., & Hara, A. (2021) · Cancers · doi:10.3390/cancers13112625 · Cited by 66 · see citing works
Exposing Hidden Targets: Combining epigenetic and immunotherapy to overcome cancer resistance
Olino, K. L., Park, T. S., & Ahuja, N. (2020) · Seminars in Cancer Biology · doi:10.1016/j.semcancer.2020.01.001 · Cited by 65 · see citing works
Endogenous retroviruses drive KRAB zinc-finger protein family expression for tumor suppression
Ito, J., Kimura, I., Soper, A., Coudray, A., Koyanagi, Y., Nakaoka, H., Inoue, I., Turelli, P., Trono, D., & Sato, K. (2020) · Science Advances · doi:10.1126/sciadv.abc3020 · Cited by 64 · see citing works
Human Endogenous Retroviruses (HERVs): Shaping the Innate Immune Response in Cancers
Alcazer, V., Bonaventura, P., & Depil, S. (2020) · Cancers · doi:10.3390/cancers12030610 · Cited by 64 · see citing works
Such, L., Zhao, F., Liu, D. H., Thier, B., Le‐Trilling, V. T. K., Sucker, A., Coch, C., Pieper, N., Howe, S., Bhat, H., et al. (2020) · Journal of Clinical Investigation · doi:10.1172/jci131572 · Cited by 60 · see citing works
Widespread and tissue-specific expression of endogenous retroelements in human somatic tissues
Larouche, J., Trofimov, A., Hesnard, L., Ehx, G., Zhao, Q., Vincent, K., Durette, C., Gendron, P., Laverdure, J., Bonneil, É., et al. (2020) · Genome Medicine · doi:10.1186/s13073-020-00740-7 · Cited by 61 · see citing works
Reverse Transcriptase Inhibition Disrupts Repeat Element Life Cycle in Colorectal Cancer.
Rajurkar, M., Parikh, A. R., Solovyov, A., You, E., Kulkarni, A. S., Chu, C., Xu, K. H., Jaicks, C., Taylor, M. S., Wu, C., et al. (2022) · Cancer Discovery · doi:10.1158/2159-8290.cd-21-1117 · Cited by 61 · see citing works
Sources of Cancer Neoantigens beyond Single-Nucleotide Variants
Capietto, A.-H., Hoshyar, R., & Delamarre, L. (2022) · International Journal of Molecular Sciences · doi:10.3390/ijms231710131 · Cited by 62 · see citing works
Machine-Learning Prediction of Tumor Antigen Immunogenicity in the Selection of Therapeutic Epitopes
Smith, C. C., Chai, S., Washington, A. R., Lee, S. J., Landoni, E., Field, K. P., Garness, J. A., Bixby, L. M., Selitsky, S. R., Parker, J. S., et al. (2019) · Cancer Immunology Research · doi:10.1158/2326-6066.cir-19-0155 · Cited by 60 · see citing works
Self-citationCamarena, M. E., Theunissen, P., Ruiz, M., Ruiz‐Orera, J., Calvo-Serra, B., Castelo, R., Castro, C., Sarobe, P., Fortes, P., Perera‐Bel, J., et al. (2024) · Science Advances · doi:10.1126/sciadv.adn3628 · Cited by 63 · see citing works
Luo, J., Xie, Y., Zheng, Y., Wang, C., Qi, F., Hu, J., & Xu, Y. (2020) · Cancer Medicine · doi:10.1002/cam4.2983 · Cited by 58 · see citing works
Zhong, F., Lin, Y., Zhao, L., Yang, C., Ye, Y., & Shen, Z. (2023) · British Journal of Cancer · doi:10.1038/s41416-023-02292-0 · Cited by 57 · see citing works
Emerging immunotherapies for malignant glioma: from immunogenomics to cell therapy
Dunn, G. P., Cloughesy, T. F., Maus, M. V., Prins, R. M., Reardon, D. A., & Sonabend, A. M. (2020) · Neuro-Oncology · doi:10.1093/neuonc/noaa154 · Cited by 56 · see citing works
Leveraging epigenetics to enhance the efficacy of immunotherapy
Licht, J. D., & Bennett, R. L. (2021) · Clinical Epigenetics · doi:10.1186/s13148-021-01100-x · Cited by 55 · see citing works
Zhang, C., He, H., Hu, X., Liu, A., Huang, D., Xu, Y., Chen, L., & Xu, D. (2019) · Aging · doi:10.18632/aging.102434 · Cited by 54 · see citing works
Human endogenous retroviruses in cancer: Oncogenesis mechanisms and clinical implications
Kitsou, K. S., Λάγιου, Π., & Magiorkinis, G. (2022) · Journal of Medical Virology · doi:10.1002/jmv.28350 · Cited by 54 · see citing works
Beyond Tumor PD-L1: Emerging Genomic Biomarkers for Checkpoint Inhibitor Immunotherapy
Lagos, G., Izar, B., & Rizvi, N. A. (2020) · American Society of Clinical Oncology Educational Book · doi:10.1200/edbk_289967 · Cited by 54 · see citing works
Vitiello, G. A. F., Ferreira, W. A. S., de Lima, V. C. C., & Medina, T. D. S. (2021) · Frontiers in Immunology · doi:10.3389/fimmu.2021.782852 · Cited by 53 · see citing works
Update on Biomarkers in Renal Cell Carcinoma
Saliby, R. M., Saad, E., Kashima, S., Schoenfeld, D. A., & Braun, D. A. (2024) · American Society of Clinical Oncology Educational Book · doi:10.1200/edbk_430734 · Cited by 54 · see citing works
A Roadmap Toward the Definition of Actionable Tumor-Specific Antigens
Minati, R., Perreault, C., & Thibault, P. (2020) · Frontiers in Immunology · doi:10.3389/fimmu.2020.583287 · Cited by 55 · see citing works
Biomarkers for Response to Immune Checkpoint Blockade
Ganesan, S., & Mehnert, J. (2020) · Annual Review of Cancer Biology · doi:10.1146/annurev-cancerbio-030419-033604 · Cited by 51 · see citing works
Self-citationDual G9A/EZH2 Inhibition Stimulates Antitumor Immune Response in Ovarian High-Grade Serous Carcinoma
Spiliopoulou, P., Spear, S., Mirza, H., Garner, I., McGarry, L., Grundland-Freile, F., Cheng, Z., Ennis, D. P., Iyer, N., McNamara, S., et al. (2022) · Molecular Cancer Therapeutics · doi:10.1158/1535-7163.mct-21-0743 · Cited by 51 · see citing works
Jang, H. J., Shah, N. M., Maeng, J. H., Liang, Y., Basri, N. L., Ge, J., Qu, X., Mahlokozera, T., Tzeng, S., Williams, R. B., et al. (2024) · Nature Genetics · doi:10.1038/s41588-024-01880-x · Cited by 51 · see citing works
Golkaram, M., Kuo, F., Gupta, S., Carlo, M. I., Salmans, M., Vijayaraghavan, R., Tang, C., Makarov, V., Rappold, P. M., Blum, K. A., et al. (2022) · Genome Medicine · doi:10.1186/s13073-022-01146-3 · Cited by 50 · see citing works
Lin, E., Liu, X., Liu, Y., Zhang, Z., Xie, L., Tian, K., Liu, J., & Yu, Y. (2021) · Frontiers in Immunology · doi:10.3389/fimmu.2021.653358 · Cited by 49 · see citing works
The Efficacy of Tumor Mutation Burden as a Biomarker of Response to Immune Checkpoint Inhibitors
Moeckel, C. M., Bakhl, K., Georgakopoulos‐Soares, I., & Zaravinos, A. (2023) · International Journal of Molecular Sciences · doi:10.3390/ijms24076710 · Cited by 48 · see citing works
Marquardt, A., Solimando, A. G., Kerscher, A., Bittrich, M., Kalogirou, C., Kübler, H. R., Rosenwald, A., Bargou, R. C., Kollmannsberger, P., Schilling, B., et al. (2021) · Frontiers in Oncology · doi:10.3389/fonc.2021.621278 · Cited by 47 · see citing works
Steiner, M. C., Marston, J. L., Iñiguez, L., Bendall, M. L., Chiappinelli, K. B., Nixon, D. F., & Crandall, K. A. (2021) · Cancer Research · doi:10.1158/0008-5472.can-20-3975 · Cited by 47 · see citing works
Mikhalkevich, N., O’Carroll, I. P., Tkavc, R., Lund, K., Sukumar, G., Dalgard, C. L., Johnson, K. R., Li, W., Wang, T., Nath, A., et al. (2021) · PLoS Pathogens · doi:10.1371/journal.ppat.1009305 · Cited by 41 · see citing works
Bioinformatic methods for cancer neoantigen prediction
Boegel, S., Castle, J. C., Kodysh, J., O’Donnell, T. J., & Rubinsteyn, A. (2019) · Progress in molecular biology and translational science · doi:10.1016/bs.pmbts.2019.06.016 · Cited by 43 · see citing works
Wang, J., Ren, M., Yu, J., Hu, M., Wang, X., Ma, W., Jiang, X., & Cui, J. (2022) · EBioMedicine · doi:10.1016/j.ebiom.2022.104319 · Cited by 43 · see citing works
Burgers, F. H., van der Mijn, J. C., Seijkens, T. T. P., Jedema, I., Bex, A., & Haanen, J. B. A. G. (2025) · Nature Reviews Nephrology · doi:10.1038/s41581-025-00983-w · Cited by 45 · see citing works
Asija, S., Chatterjee, A., Yadav, S., Chekuri, G., Karulkar, A., Jaiswal, A. K., Goda, J. S., & Purwar, R. (2022) · International Reviews of Immunology · doi:10.1080/08830185.2022.2101647 · Cited by 41 · see citing works
Immunotherapy in Advanced Biliary Tract Cancers
Boilève, A., Hilmi, M., Smolenschi, C., Ducreux, M. P., Hollebecque, A., & Malka, D. (2021) · Cancers · doi:10.3390/cancers13071569 · Cited by 41 · see citing works
The expanding role of BAP1 in clear cell renal cell carcinoma
Kapur, P., Rajaram, S., & Brugarolas, J. (2022) · Human Pathology · doi:10.1016/j.humpath.2022.07.022 · Cited by 39 · see citing works
HERVs establish a distinct molecular subtype in stage II/III colorectal cancer with poor outcome
Golkaram, M., Salmans, M., Kaplan, S., Vijayaraghavan, R., Martins, M., Khan, N., Garbutt, C. C., Wise, A. S., Yao, J., Casimiro, S., et al. (2021) · npj Genomic Medicine · doi:10.1038/s41525-021-00177-w · Cited by 39 · see citing works
Kolbe, A. R., Bendall, M. L., Pearson, A. T., Paul, D., Nixon, D. F., Pérez‐Losada, M., & Crandall, K. A. (2020) · Viruses · doi:10.3390/v12090956 · Cited by 38 · see citing works
Neoadjuvant pazopanib and molecular analysis of tissue response in renal cell carcinoma
Wood, C. G., Ferguson, J. E., Parker, J. S., Moore, D. T., Whisenant, J. G., Maygarden, S. J., Wallen, E., Kim, W. Y., Milowsky, M. I., Beckermann, K. E., et al. (2020) · JCI Insight · doi:10.1172/jci.insight.132852 · Cited by 35 · see citing works
Self-citationZhu, X., Fang, H., Gladysz, K., Barbour, J. A., & Wong, J. W. H. (2021) · European Journal of Cancer · doi:10.1016/j.ejca.2021.08.003 · Cited by 35 · see citing works
SITC cancer immunotherapy resource document: a compass in the land of biomarker discovery
Hu‐Lieskovan, S., Bhaumik, S., Dhodapkar, K. M., Grivel, J., Gupta, S. V., Hanks, B. A., Janetzki, S., Kleen, T. O., Koguchi, Y., Lund, A. W., et al. (2020) · Journal for ImmunoTherapy of Cancer · doi:10.1136/jitc-2020-000705 · Cited by 35 · see citing works
Yuan, H., Qin, X., Wang, J., Yang, Q., Fan, Y., & Xu, D. (2022) · Frontiers in Immunology · doi:10.3389/fimmu.2022.971142 · Cited by 33 · see citing works
Endogenous retroelements as alarms for disruptions to cellular homeostasis
Lindholm, H. T., Chen, R. E., & Carvalho, D. D. D. (2022) · Trends in cancer · doi:10.1016/j.trecan.2022.09.001 · Cited by 34 · see citing works
Wolf, M. M., Rathmell, W. K., & de Cubas, A. A. (2023) · Nature Reviews Nephrology · doi:10.1038/s41581-023-00700-5 · Cited by 34 · see citing works
Self-citationNatoli, M., Gallon, J., Lu, H., Amgheib, A., Pinato, D. J., Mauri, F. A., Marafioti, T., Akarca, A. U., Ullmo, I., Ip, J., et al. (2021) · Journal for ImmunoTherapy of Cancer · doi:10.1136/jitc-2020-001519 · Cited by 31 · see citing works
- Authors
- Smith, C. C., Beckermann, K. E., Bortone, D. S., De Cubas, A. A., Bixby, L. M., Lee, S. J., Panda, A., Ganesan, S., Bhanot, G., Wallen, E. M., Milowsky, M. I., Kim, W. Y., Rathmell, W. K., Swanstrom, R., Parker, J. S., Serody, J. S., Selitsky, S. R., & Vincent, B. G.
- Affiliations
- University of North Carolina at Chapel Hill (US)
- Vanderbilt University Medical Center (US)
- Rutgers, The State University of New Jersey (US)
- ORCID
- Venue
- Journal of Clinical Investigation
- Published
- 2018-10-02
- Volume
- 128
- Issue
- 11
- Pages
- 4804-4820
- ISSN
- 0021-9738 (ISSN-L)
- 1558-8238
- PMC
- PMC6205406
- OpenAlex
- W2888593931
- Cited by
- 303
- References
- 63
- Citations by year
- 2026: 16 · 2025: 37 · 2024: 30 · 2023: 48 · 2022: 52 · 2021: 47 · 2020: 53 · 2019: 18 · 2018: 2
- FWCI
- 11.28
- Type
- journal article
- Language
- en
- Open access
- hybrid
- doi.org
- Licence
- cc-by
- Locations
- Journal of Clinical Investigation (publishedVersion, cc-by)
- Europe PMC (PubMed Central) (publishedVersion)
- PubMed Central (publishedVersion)
- PubMed (publishedVersion)
- Rutgers University Community Repository (Rutgers University) (submittedVersion)
- Carolina Digital Repository (University of North Carolina at Chapel Hill) (submittedVersion)
- UNC Libraries
- Funders
- UNC Oncology Clinical Translational Research Training Program (5K12CA120780)
- National Institute of Health (5-P50-CA058223-22, 2-P30-CA016086-40, 1-U24-CA210988-01, U54-CA198999, 1F30CA225136-01)
- Forbeck Foundation Collaborative Research Award (NA)
- UNC University Cancer Research Fund (NA)
- Merck-Cancer Research Institute Irvington Postdoctoral Fellowship (NA)
- Topics
- Health Sciences › Medicine › Oncology › Cancer Immunotherapy and Biomarkers
- Health Sciences › Medicine › Pulmonary and Respiratory Medicine › Renal cell carcinoma treatment
- Life Sciences › Immunology and Microbiology › Immunology › Immunotherapy and Immune Responses
- Keywords
- human endogenous retroviruses, clear cell renal cell carcinoma, immunotherapy response prediction, anti-PD-1 therapy, tumor immune microenvironment, HLA binding, prognostic factors, ribosome profiling, T cell response
- MeSH terms
- Carcinoma, Renal Cell, Humans, Immunotherapy, Kidney Neoplasms, Prognosis, Endogenous Retroviruses, Tumor Microenvironment
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