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Volumn 7, Issue , 2016, Pages

Direct identification of clinically relevant neoepitopes presented on native human melanoma tissue by mass spectrometry

Author keywords

[No Author keywords available]

Indexed keywords

BETA 2 MICROGLOBULIN; CANCER TESTIS ANTIGEN; COMPLEMENTARY DNA; CYTOKINE; GAMMA INTERFERON; GENOMIC DNA; HLA ANTIGEN CLASS 1; HLA ANTIGEN CLASS 2; IPILIMUMAB; PEPTIDE; PHOSPHOPEPTIDE; PROGRAMMED DEATH 1 LIGAND 1; TUMOR ANTIGEN; EPITOPE; LIGAND;

EID: 84995916390     PISSN: None     EISSN: 20411723     Source Type: Journal    
DOI: 10.1038/ncomms13404     Document Type: Article
Times cited : (524)

References (64)
  • 2
    • 84931083080 scopus 로고    scopus 로고
    • Nivolumab versus chemotherapy in patients with advanced melanoma who progressed after anti-CTLA-4 treatment (CheckMate 037): A randomised, controlled, open-label, phase 3 trial
    • Weber, J. S. et al. Nivolumab versus chemotherapy in patients with advanced melanoma who progressed after anti-CTLA-4 treatment (CheckMate 037): a randomised, controlled, open-label, phase 3 trial. Lancet Oncol. 16, 375-384 (2015).
    • (2015) Lancet Oncol. , vol.16 , pp. 375-384
    • Weber, J.S.1
  • 3
    • 28844471692 scopus 로고    scopus 로고
    • Tumoral and immunologic response after vaccination of melanoma patients with an ALVAC virus encoding MAGE antigens recognized by T cells
    • van Baren, N. et al. Tumoral and immunologic response after vaccination of melanoma patients with an ALVAC virus encoding MAGE antigens recognized by T cells. J. Clin. Oncol.: Off. J. Am. Soc. Clin. Oncol. 23, 9008-9021 (2005).
    • (2005) J. Clin. Oncol.: Off. J. Am. Soc. Clin. Oncol. , vol.23 , pp. 9008-9021
    • Van Baren, N.1
  • 4
    • 79957831345 scopus 로고    scopus 로고
    • Gp100 peptide vaccine and interleukin-2 in patients with advanced melanoma
    • Schwartzentruber, D. J. et al. gp100 peptide vaccine and interleukin-2 in patients with advanced melanoma. N. Engl. J. Med. 364, 2119-2127 (2011).
    • (2011) N. Engl. J. Med. , vol.364 , pp. 2119-2127
    • Schwartzentruber, D.J.1
  • 5
    • 79952304769 scopus 로고    scopus 로고
    • Tumor regression in patients with metastatic synovial cell sarcoma and melanoma using genetically engineered lymphocytes reactive with NY-ESO-1
    • Robbins, P. F. et al. Tumor regression in patients with metastatic synovial cell sarcoma and melanoma using genetically engineered lymphocytes reactive with NY-ESO-1. J. Clin. Oncol.: Off. J. Am. Soc. Clin. Oncol. 29, 917-924 (2011).
    • (2011) J. Clin. Oncol.: Off. J. Am. Soc. Clin. Oncol. , vol.29 , pp. 917-924
    • Robbins, P.F.1
  • 6
    • 33749624177 scopus 로고    scopus 로고
    • Cancer regression in patients after transfer of genetically engineered lymphocytes
    • Morgan, R. A. et al. Cancer regression in patients after transfer of genetically engineered lymphocytes. Science 314, 126-129 (2006).
    • (2006) Science , vol.314 , pp. 126-129
    • Morgan, R.A.1
  • 7
    • 33750324618 scopus 로고    scopus 로고
    • Gene transfer of tumor-reactive TCR confers both high avidity and tumor reactivity to nonreactive peripheral blood mononuclear cells and tumor-infiltrating lymphocytes
    • Johnson, L. A. et al. Gene transfer of tumor-reactive TCR confers both high avidity and tumor reactivity to nonreactive peripheral blood mononuclear cells and tumor-infiltrating lymphocytes. J. Immunol. 177, 6548-6559 (2006).
    • (2006) J. Immunol. , vol.177 , pp. 6548-6559
    • Johnson, L.A.1
  • 8
    • 84880730689 scopus 로고    scopus 로고
    • Cardiovascular toxicity and titin cross-reactivity of affinityenhanced T cells in myeloma and melanoma
    • Linette, G. P. et al. Cardiovascular toxicity and titin cross-reactivity of affinityenhanced T cells in myeloma and melanoma. Blood 122, 863-871 (2013).
    • (2013) Blood , vol.122 , pp. 863-871
    • Linette, G.P.1
  • 9
    • 77954801079 scopus 로고    scopus 로고
    • Improved survival with ipilimumab in patients with metastatic melanoma
    • Hodi, F. S. et al. Improved survival with ipilimumab in patients with metastatic melanoma. N. Engl. J. Med. 363, 711-723 (2010).
    • (2010) N. Engl. J. Med. , vol.363 , pp. 711-723
    • Hodi, F.S.1
  • 10
    • 84936147067 scopus 로고    scopus 로고
    • Combined nivolumab and ipilimumab or monotherapy in untreated melanoma
    • Larkin, J. et al. Combined Nivolumab and Ipilimumab or Monotherapy in Untreated Melanoma. N. Engl. J. Med. 373, 23-34 (2015).
    • (2015) N. Engl. J. Med. , vol.373 , pp. 23-34
    • Larkin, J.1
  • 11
    • 84929481481 scopus 로고    scopus 로고
    • Pembrolizumab versus ipilimumab in advanced melanoma
    • Robert, C. et al. Pembrolizumab versus Ipilimumab in Advanced Melanoma. N. Engl. J. Med. 372, 2521-2532 (2015).
    • (2015) N. Engl. J. Med. , vol.372 , pp. 2521-2532
    • Robert, C.1
  • 12
    • 84928761118 scopus 로고    scopus 로고
    • Cancer immunology. Mutational landscape determines sensitivity to PD-1 blockade in non-small cell lung cancer
    • Rizvi, N. A. et al. Cancer immunology. Mutational landscape determines sensitivity to PD-1 blockade in non-small cell lung cancer. Science 348, 124-128 (2015).
    • (2015) Science , vol.348 , pp. 124-128
    • Rizvi, N.A.1
  • 13
    • 84918828514 scopus 로고    scopus 로고
    • Genetic basis for clinical response to CTLA-4 blockade in melanoma
    • Snyder, A. et al. Genetic basis for clinical response to CTLA-4 blockade in melanoma. N. Engl. J. Med. 371, 2189-2199 (2014).
    • (2014) N. Engl. J. Med. , vol.371 , pp. 2189-2199
    • Snyder, A.1
  • 14
    • 84943516465 scopus 로고    scopus 로고
    • Genomic correlates of response to CTLA-4 blockade in metastatic melanoma
    • Van Allen, E. M. et al. Genomic correlates of response to CTLA-4 blockade in metastatic melanoma. Science 350, 207-211 (2015).
    • (2015) Science , vol.350 , pp. 207-211
    • Van Allen, E.M.1
  • 15
    • 84882837534 scopus 로고    scopus 로고
    • Signatures of mutational processes in human cancer
    • Alexandrov, L. B. et al. Signatures of mutational processes in human cancer. Nature 500, 415-421 (2013).
    • (2013) Nature , vol.500 , pp. 415-421
    • Alexandrov, L.B.1
  • 16
    • 84961323160 scopus 로고    scopus 로고
    • High-throughput epitope discovery reveals frequent recognition of neo-antigens by CD4+ T cells in human melanoma
    • Linnemann, C. et al. High-throughput epitope discovery reveals frequent recognition of neo-antigens by CD4+ T cells in human melanoma. Nat. Med. 21, 81-85 (2015).
    • (2015) Nat. Med. , vol.21 , pp. 81-85
    • Linnemann, C.1
  • 17
    • 84872841412 scopus 로고    scopus 로고
    • Tumor exome analysis reveals neoantigen-specific T-Cell reactivity in an ipilimumab-responsive melanoma
    • van Rooij, N. et al. Tumor exome analysis reveals neoantigen-specific T-Cell reactivity in an ipilimumab-responsive melanoma. J. Clin. Oncol.: Off. J. Am. Soc. Clin. Oncol. 31, e439-e442 (2013).
    • (2013) J. Clin. Oncol.: Off. J. Am. Soc. Clin. Oncol. , vol.31 , pp. e439-e442
    • Van Rooij, N.1
  • 18
    • 84928811341 scopus 로고    scopus 로고
    • Mutant MHC class II epitopes drive therapeutic immune responses to cancer
    • Kreiter, S. et al. Mutant MHC class II epitopes drive therapeutic immune responses to cancer. Nature 520, 692-696 (2015).
    • (2015) Nature , vol.520 , pp. 692-696
    • Kreiter, S.1
  • 19
    • 84949730499 scopus 로고    scopus 로고
    • Immunogenicity of somatic mutations in human gastrointestinal cancers
    • Tran, E. et al. Immunogenicity of somatic mutations in human gastrointestinal cancers. Science 350, 1387-1390 (2015).
    • (2015) Science , vol.350 , pp. 1387-1390
    • Tran, E.1
  • 20
    • 27644534576 scopus 로고    scopus 로고
    • The response of autologous T cells to a human melanoma is dominated by mutated neoantigens
    • Lennerz, V. et al. The response of autologous T cells to a human melanoma is dominated by mutated neoantigens. Proc. Natl Acad. Sci. USA 102, 16013-16018 (2005).
    • (2005) Proc. Natl Acad. Sci. USA , vol.102 , pp. 16013-16018
    • Lennerz, V.1
  • 21
    • 84920956731 scopus 로고    scopus 로고
    • Predicting immunogenic tumour mutations by combining mass spectrometry and exome sequencing
    • Yadav, M. et al. Predicting immunogenic tumour mutations by combining mass spectrometry and exome sequencing. Nature 515, 572-576 (2014).
    • (2014) Nature , vol.515 , pp. 572-576
    • Yadav, M.1
  • 22
    • 84920921528 scopus 로고    scopus 로고
    • Checkpoint blockade cancer immunotherapy targets tumour-specific mutant antigens
    • Gubin, M. M. et al. Checkpoint blockade cancer immunotherapy targets tumour-specific mutant antigens. Nature 515, 577-581 (2014).
    • (2014) Nature , vol.515 , pp. 577-581
    • Gubin, M.M.1
  • 23
    • 84958064376 scopus 로고    scopus 로고
    • Use of HLA peptidomics and whole exome sequencing to identify human immunogenic neo-antigens
    • Kalaora, S. et al. Use of HLA peptidomics and whole exome sequencing to identify human immunogenic neo-antigens. Oncotarget 7, 5110-5117 (2016).
    • (2016) Oncotarget , vol.7 , pp. 5110-5117
    • Kalaora, S.1
  • 24
    • 84962301577 scopus 로고    scopus 로고
    • Clonal neoantigens elicit T cell immunoreactivity and sensitivity to immune checkpoint blockade
    • McGranahan, N. et al. Clonal neoantigens elicit T cell immunoreactivity and sensitivity to immune checkpoint blockade. Science 351, 1463-1469 (2016).
    • (2016) Science , vol.351 , pp. 1463-1469
    • McGranahan, N.1
  • 25
    • 84924326106 scopus 로고    scopus 로고
    • Mass spectrometry of human leukocyte antigen class I peptidomes reveals strong effects of protein abundance and turnover on antigen presentation
    • Bassani-Sternberg, M., Pletscher-Frankild, S., Jensen, L. J. & Mann, M. Mass spectrometry of human leukocyte antigen class I peptidomes reveals strong effects of protein abundance and turnover on antigen presentation. Mol. Cell. Proteom.: MCP 14, 658-673 (2015).
    • (2015) Mol. Cell. Proteom.: MCP , vol.14 , pp. 658-673
    • Bassani-Sternberg, M.1    Pletscher-Frankild, S.2    Jensen, L.J.3    Mann, M.4
  • 26
    • 57449099865 scopus 로고    scopus 로고
    • MaxQuant enables high peptide identification rates, individualized p.p.b.-range mass accuracies and proteome-wide protein quantification
    • Cox, J. & Mann, M. MaxQuant enables high peptide identification rates, individualized p.p.b.-range mass accuracies and proteome-wide protein quantification. Nat. Biotechnol. 26, 1367-1372 (2008).
    • (2008) Nat. Biotechnol. , vol.26 , pp. 1367-1372
    • Cox, J.1    Mann, M.2
  • 27
    • 84871811905 scopus 로고    scopus 로고
    • Simultaneous alignment and clustering of peptide data using a Gibbs sampling approach
    • Andreatta, M., Lund, O. & Nielsen, M. Simultaneous alignment and clustering of peptide data using a Gibbs sampling approach. Bioinformatics 29, 8-14 (2013).
    • (2013) Bioinformatics , vol.29 , pp. 8-14
    • Andreatta, M.1    Lund, O.2    Nielsen, M.3
  • 28
    • 84948702563 scopus 로고    scopus 로고
    • Analysis of Major Histocompatibility Complex (MHC) Immunopeptidomes Using Mass Spectrometry
    • Caron, E. et al. Analysis of Major Histocompatibility Complex (MHC) Immunopeptidomes Using Mass Spectrometry. Mol. Cell. Proteom.: MCP 14, 3105-3117 (2015).
    • (2015) Mol. Cell. Proteom.: MCP , vol.14 , pp. 3105-3117
    • Caron, E.1
  • 29
    • 59449094834 scopus 로고    scopus 로고
    • NetMHCpan, a method for MHC class I binding prediction beyond humans
    • Hoof, I. et al. NetMHCpan, a method for MHC class I binding prediction beyond humans. Immunogenetics 61, 1-13 (2009).
    • (2009) Immunogenetics , vol.61 , pp. 1-13
    • Hoof, I.1
  • 30
    • 84941120469 scopus 로고    scopus 로고
    • PhosphoSitePlus, 2014: Mutations, PTMs and recalibrations
    • Hornbeck, P. V. et al. PhosphoSitePlus, 2014: mutations, PTMs and recalibrations. Nucleic Acids Res. 43, D512-D520 (2015).
    • (2015) Nucleic Acids Res. , vol.43 , pp. D512-D520
    • Hornbeck, P.V.1
  • 31
    • 54549089744 scopus 로고    scopus 로고
    • Phosphorylation-dependent interaction between antigenic peptides and MHC class I: A molecular basis for the presentation of transformed self
    • Mohammed, F. et al. Phosphorylation-dependent interaction between antigenic peptides and MHC class I: a molecular basis for the presentation of transformed self. Nat. Immunol. 9, 1236-1243 (2008).
    • (2008) Nat. Immunol. , vol.9 , pp. 1236-1243
    • Mohammed, F.1
  • 32
    • 84884683734 scopus 로고    scopus 로고
    • MHC class I-associated phosphopeptides are the targets of memory-like immunity in leukemia
    • Cobbold, M. et al. MHC class I-associated phosphopeptides are the targets of memory-like immunity in leukemia. Sci. Transl. Med. 5, 203ra125 (2013).
    • (2013) Sci. Transl. Med. , vol.5 , pp. 203ra125
    • Cobbold, M.1
  • 33
    • 84894283785 scopus 로고    scopus 로고
    • Aaa comprehensive analysis of constitutive naturally processed and presented HLA-C∗04:01 (Cw4)-specific peptides
    • Schittenhelm, R. B., Dudek, N. L., Croft, N. P., Ramarathinam, S. H. & Purcell, A. W. A comprehensive analysis of constitutive naturally processed and presented HLA-C∗04:01 (Cw4)-specific peptides. Tissue Antigens 83, 174-179 (2014).
    • (2014) Tissue Antigens , vol.83 , pp. 174-179
    • Schittenhelm, R.B.1    Dudek, N.L.2    Croft, N.P.3    Ramarathinam, S.H.4    Purcell, A.W.5
  • 34
    • 84958568837 scopus 로고    scopus 로고
    • The length distribution of class I-restricted T cell epitopes is determined by both peptide supply and MHC allele-specific binding preference
    • Trolle, T. et al. The length distribution of class I-restricted T cell epitopes is determined by both peptide supply and mhc allele-specific binding preference. J. Immunol. 196, 1480-1487 (2016).
    • (2016) J. Immunol. , vol.196 , pp. 1480-1487
    • Trolle, T.1
  • 35
    • 84961942662 scopus 로고    scopus 로고
    • Toxoplasma gondii peptide ligands open the gate of the HLA class I binding groove
    • McMurtrey, C. et al. Toxoplasma gondii peptide ligands open the gate of the HLA class I binding groove. Elife 5, e12556 (2016).
    • (2016) Elife , vol.5
    • McMurtrey, C.1
  • 36
    • 84963517897 scopus 로고    scopus 로고
    • The source of MHC class I presented peptides and its implications
    • Apcher, S., Prado Martins, R. & Fahraeus, R. The source of MHC class I presented peptides and its implications. Curr. Opin. Immunol. 40, 117-122 (2016).
    • (2016) Curr. Opin. Immunol. , vol.40 , pp. 117-122
    • Apcher, S.1    Prado Martins, R.2    Fahraeus, R.3
  • 37
    • 0033203120 scopus 로고    scopus 로고
    • Selective transport of internalized antigens to the cytosol for MHC class I presentation in dendritic cells
    • Rodriguez, A., Regnault, A., Kleijmeer, M., Ricciardi-Castagnoli, P. & Amigorena, S. Selective transport of internalized antigens to the cytosol for MHC class I presentation in dendritic cells. Nat. Cell Biol. 1, 362-368 (1999).
    • (1999) Nat. Cell Biol. , vol.1 , pp. 362-368
    • Rodriguez, A.1    Regnault, A.2    Kleijmeer, M.3    Ricciardi-Castagnoli, P.4    Amigorena, S.5
  • 38
    • 84940552740 scopus 로고    scopus 로고
    • Complementary IMAC enrichment methods for HLAassociated phosphopeptide identification by mass spectrometry
    • Abelin, J. G. et al. Complementary IMAC enrichment methods for HLAassociated phosphopeptide identification by mass spectrometry. Nat. Protoc. 10, 1308-1318 (2015).
    • (2015) Nat. Protoc. , vol.10 , pp. 1308-1318
    • Abelin, J.G.1
  • 39
    • 84922537688 scopus 로고    scopus 로고
    • Ultradeep human phosphoproteome reveals a distinct regulatory nature of Tyr and Ser/Thr-based signaling
    • Sharma, K. et al. Ultradeep human phosphoproteome reveals a distinct regulatory nature of Tyr and Ser/Thr-based signaling. Cell Rep. 8, 1583-1594 (2014).
    • (2014) Cell Rep. , vol.8 , pp. 1583-1594
    • Sharma, K.1
  • 40
    • 0036535975 scopus 로고    scopus 로고
    • Pinning down proline-directed phosphorylation signaling
    • Lu, K. P., Liou, Y. C. & Zhou, X. Z. Pinning down proline-directed phosphorylation signaling. Trends Cell Biol. 12, 164-172 (2002).
    • (2002) Trends Cell Biol. , vol.12 , pp. 164-172
    • Lu, K.P.1    Liou, Y.C.2    Zhou, X.Z.3
  • 41
    • 84917708479 scopus 로고    scopus 로고
    • MHC-restricted phosphopeptides from insulin receptor substrate-2 and CDC25b offer broad-based immunotherapeutic agents for cancer
    • Zarling, A. L. et al. MHC-restricted phosphopeptides from insulin receptor substrate-2 and CDC25b offer broad-based immunotherapeutic agents for cancer. Cancer Res. 74, 6784-6795 (2014).
    • (2014) Cancer Res. , vol.74 , pp. 6784-6795
    • Zarling, A.L.1
  • 42
    • 84976406873 scopus 로고    scopus 로고
    • Neoantigen landscape dynamics during human melanoma-T cell interactions
    • Verdegaal, E. M. et al. Neoantigen landscape dynamics during human melanoma-T cell interactions. Nature 536, 91-95 (2016).
    • (2016) Nature , vol.536 , pp. 91-95
    • Verdegaal, E.M.1
  • 43
    • 84969764539 scopus 로고    scopus 로고
    • Targeting of cancer neoantigens with donor-derived T cell receptor repertoires
    • Stronen, E. et al. Targeting of cancer neoantigens with donor-derived T cell receptor repertoires. Science 352, 1337-1341 (2016).
    • (2016) Science , vol.352 , pp. 1337-1341
    • Stronen, E.1
  • 44
    • 84959152038 scopus 로고    scopus 로고
    • Prospective identification of neoantigen-specific lymphocytes in the peripheral blood of melanoma patients
    • Gros, A. et al. Prospective identification of neoantigen-specific lymphocytes in the peripheral blood of melanoma patients. Nat. Med. 22, 433-438 (2016).
    • (2016) Nat. Med. , vol.22 , pp. 433-438
    • Gros, A.1
  • 45
    • 0033587768 scopus 로고    scopus 로고
    • Cytotoxic T lymphocyte antigen-4 (CTLA-4) regulates primary and secondary peptide-specific CD4(+) T cell responses
    • Chambers, C. A., Kuhns, M. S. & Allison, J. P. Cytotoxic T lymphocyte antigen-4 (CTLA-4) regulates primary and secondary peptide-specific CD4(+) T cell responses. Proc. Natl Acad. Sci. USA 96, 8603-8608 (1999).
    • (1999) Proc. Natl Acad. Sci. USA , vol.96 , pp. 8603-8608
    • Chambers, C.A.1    Kuhns, M.S.2    Allison, J.P.3
  • 46
    • 84943329717 scopus 로고    scopus 로고
    • Isolation of neoantigen-specific T cells from tumour and peripheral lymphocytes
    • Cohen, C. J. et al. Isolation of neoantigen-specific T cells from tumour and peripheral lymphocytes. J. Clin. Investig. 125, 3981-3991 (2015).
    • (2015) J. Clin. Investig. , vol.125 , pp. 3981-3991
    • Cohen, C.J.1
  • 47
    • 84903846565 scopus 로고    scopus 로고
    • Efficient identification of mutated cancer antigens recognized by T cells associated with durable tumour regressions
    • Lu, Y. C. et al. Efficient identification of mutated cancer antigens recognized by T cells associated with durable tumour regressions. Clin. Cancer Res.: Off. J. Am. Assoc. Cancer Res. 20, 3401-3410 (2014).
    • (2014) Clin. Cancer Res.: Off. J. Am. Assoc. Cancer Res. , vol.20 , pp. 3401-3410
    • Lu, Y.C.1
  • 48
    • 62849092944 scopus 로고    scopus 로고
    • Visualizing CTL activity for different CD8+ effector T cells supports the idea that lower TCR/epitope avidity may be advantageous for target cell killing
    • Jenkins, M. R. et al. Visualizing CTL activity for different CD8+ effector T cells supports the idea that lower TCR/epitope avidity may be advantageous for target cell killing. Cell Death Differ. 16, 537-542 (2009).
    • (2009) Cell Death Differ. , vol.16 , pp. 537-542
    • Jenkins, M.R.1
  • 49
    • 84925286779 scopus 로고    scopus 로고
    • Therapeutic targeting of naturally presented myeloperoxidasederived HLA peptide ligands on myeloid leukemia cells by TCR-transgenic T cells
    • Klar, R. et al. Therapeutic targeting of naturally presented myeloperoxidasederived HLA peptide ligands on myeloid leukemia cells by TCR-transgenic T cells. Leukemia 28, 2355-2366 (2014).
    • (2014) Leukemia , vol.28 , pp. 2355-2366
    • Klar, R.1
  • 50
    • 79953701087 scopus 로고    scopus 로고
    • Andromeda: A peptide search engine integrated into the MaxQuant environment
    • Cox, J. et al. Andromeda: a peptide search engine integrated into the MaxQuant environment. J. Proteome Res. 10, 1794-1805 (2011).
    • (2011) J. Proteome Res. , vol.10 , pp. 1794-1805
    • Cox, J.1
  • 51
    • 84874025843 scopus 로고    scopus 로고
    • Sensitive detection of somatic point mutations in impure and heterogeneous cancer samples
    • Cibulskis, K. et al. Sensitive detection of somatic point mutations in impure and heterogeneous cancer samples. Nat. Biotechnol. 31, 213-219 (2013).
    • (2013) Nat. Biotechnol. , vol.31 , pp. 213-219
    • Cibulskis, K.1
  • 52
    • 79952422304 scopus 로고    scopus 로고
    • Quality control and preprocessing of metagenomic datasets
    • Schmieder, R. & Edwards, R. Quality control and preprocessing of metagenomic datasets. Bioinformatics 27, 863-864 (2011).
    • (2011) Bioinformatics , vol.27 , pp. 863-864
    • Schmieder, R.1    Edwards, R.2
  • 53
    • 67649884743 scopus 로고    scopus 로고
    • Fast and accurate short read alignment with Burrows-Wheeler transform
    • Li, H. & Durbin, R. Fast and accurate short read alignment with Burrows-Wheeler transform. Bioinformatics 25, 1754-1760 (2009).
    • (2009) Bioinformatics , vol.25 , pp. 1754-1760
    • Li, H.1    Durbin, R.2
  • 54
    • 77956295988 scopus 로고    scopus 로고
    • The Genome Analysis Toolkit: A MapReduce framework for analyzing next-generation DNA sequencing data
    • McKenna, A. et al. The Genome Analysis Toolkit: a MapReduce framework for analyzing next-generation DNA sequencing data. Genome Res. 20, 1297-1303 (2010).
    • (2010) Genome Res. , vol.20 , pp. 1297-1303
    • McKenna, A.1
  • 55
    • 84862506964 scopus 로고    scopus 로고
    • Aaa program for annotating and predicting the effects of single nucleotide polymorphisms, SnpEff: SNPs in the genome of Drosophila melanogaster strain w1118; Iso-2; iso-3
    • Cingolani, P. et al. A program for annotating and predicting the effects of single nucleotide polymorphisms, SnpEff: SNPs in the genome of Drosophila melanogaster strain w1118; iso-2; iso-3. Fly (Austin) 6, 80-92 (2012).
    • (2012) Fly (Austin) , vol.6 , pp. 80-92
    • Cingolani, P.1
  • 56
    • 0035710746 scopus 로고    scopus 로고
    • Analysis of relative gene expression data using real-time quantitative PCR and the 2(-Delta Delta C(T)) Method
    • Livak, K. J. & Schmittgen, T. D. Analysis of relative gene expression data using real-time quantitative PCR and the 2(-Delta Delta C(T)) Method. Methods 25, 402-408 (2001).
    • (2001) Methods , vol.25 , pp. 402-408
    • Livak, K.J.1    Schmittgen, T.D.2
  • 57
    • 84872769379 scopus 로고    scopus 로고
    • Derivation of HLA types from shotgun sequence datasets
    • Warren, R. L. et al. Derivation of HLA types from shotgun sequence datasets. Genome Med. 4, 95 (2012).
    • (2012) Genome Med. , vol.4 , pp. 95
    • Warren, R.L.1
  • 58
    • 84959881509 scopus 로고    scopus 로고
    • Gapped sequence alignment using artificial neural networks: Application to the MHC class I system
    • Andreatta, M. & Nielsen, M. Gapped sequence alignment using artificial neural networks: application to the MHC class I system. Bioinformatics 32, 511-517 (2015).
    • (2015) Bioinformatics , vol.32 , pp. 511-517
    • Andreatta, M.1    Nielsen, M.2
  • 59
    • 84857362309 scopus 로고    scopus 로고
    • NetMHCcons: A consensus method for the major histocompatibility complex class I predictions
    • Karosiene, E., Lundegaard, C., Lund, O. & Nielsen, M. NetMHCcons: a consensus method for the major histocompatibility complex class I predictions. Immunogenetics 64, 177-186 (2012).
    • (2012) Immunogenetics , vol.64 , pp. 177-186
    • Karosiene, E.1    Lundegaard, C.2    Lund, O.3    Nielsen, M.4
  • 60
    • 84866858992 scopus 로고    scopus 로고
    • Isolation of human MHC class II-restricted T cell receptors from the autologous T-cell repertoire with potent anti-leukaemic reactivity
    • Weigand, L. U. et al. Isolation of human MHC class II-restricted T cell receptors from the autologous T-cell repertoire with potent anti-leukaemic reactivity. Immunology 137, 226-238 (2012).
    • (2012) Immunology , vol.137 , pp. 226-238
    • Weigand, L.U.1
  • 61
    • 80052145682 scopus 로고    scopus 로고
    • AcDCs enhance human antigen-specific T-cell responses
    • Martinuzzi, E. et al. acDCs enhance human antigen-specific T-cell responses. Blood 118, 2128-2137 (2011).
    • (2011) Blood , vol.118 , pp. 2128-2137
    • Martinuzzi, E.1
  • 62
    • 0036284986 scopus 로고    scopus 로고
    • Reversible MHC multimer staining for functional isolation of T-cell populations and effective adoptive transfer
    • Knabel, M. et al. Reversible MHC multimer staining for functional isolation of T-cell populations and effective adoptive transfer. Nat. Med. 8, 631-637 (2002).
    • (2002) Nat. Med. , vol.8 , pp. 631-637
    • Knabel, M.1
  • 63
    • 61749095015 scopus 로고    scopus 로고
    • Molecular cloning and characterization of MHC class I-and II-restricted tumor antigens recognized by T cells
    • Wang, R. F. Molecular cloning and characterization of MHC class I-and II-restricted tumor antigens recognized by T cells. Curr. Protoc 84, 20.10.1-20.10.29 (2009).
    • (2009) Curr. Protoc , vol.84 , pp. 20101-201029
    • Wang, R.F.1
  • 64
    • 84891796097 scopus 로고    scopus 로고
    • ProteomeXchange provides globally coordinated proteomics data submission and dissemination
    • Vizcaino, J. A. et al. ProteomeXchange provides globally coordinated proteomics data submission and dissemination. Nat. Biotechnol. 32, 223-226 (2014).
    • (2014) Nat. Biotechnol. , vol.32 , pp. 223-226
    • Vizcaino, J.A.1


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