-
1
-
-
84928759208
-
Adoptive cell transfer as personalized immunotherapy for human cancer
-
Rosenberg, S. A. & Restifo, N. P. Adoptive cell transfer as personalized immunotherapy for human cancer. Science 348, 62-68 (2015).
-
(2015)
Science
, vol.348
, pp. 62-68
-
-
Rosenberg, S.A.1
Restifo, N.P.2
-
2
-
-
84928770388
-
Neoantigens in cancer immunotherapy
-
Schumacher, T. N. & Schreiber, R. D. Neoantigens in cancer immunotherapy. Science 348, 69-74 (2015).
-
(2015)
Science
, vol.348
, pp. 69-74
-
-
Schumacher, T.N.1
Schreiber, R.D.2
-
3
-
-
85024377220
-
An immunogenic personal neoantigen vaccine for patients with melanoma
-
Ott, P. A. et al. An immunogenic personal neoantigen vaccine for patients with melanoma. Nature 547, 217-221 (2017).
-
(2017)
Nature
, vol.547
, pp. 217-221
-
-
Ott, P.A.1
-
4
-
-
85024396858
-
Personalized RNA mutanome vaccines mobilize poly-specific therapeutic immunity against cancer
-
Sahin, U. et al. Personalized RNA mutanome vaccines mobilize poly-specific therapeutic immunity against cancer. Nature 547, 222-226 (2017).
-
(2017)
Nature
, vol.547
, pp. 222-226
-
-
Sahin, U.1
-
5
-
-
85018766073
-
Innate immune landscape in early lung adenocarcinoma by paired single-cell analyses
-
Lavin, Y. et al. Innate immune landscape in early lung adenocarcinoma by paired single-cell analyses. Cell 169, 750-765.e717 (2017).
-
(2017)
Cell
, vol.169
, pp. 750-765
-
-
Lavin, Y.1
-
6
-
-
85018787063
-
An immune atlas of clear cell renal cell carcinoma
-
Chevrier, S. et al. An immune atlas of clear cell renal cell carcinoma. Cell 169, 736-749.e718 (2017).
-
(2017)
Cell
, vol.169
, pp. 736-749
-
-
Chevrier, S.1
-
7
-
-
84920921528
-
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
-
9
-
-
85012159497
-
Applications of immunogenomics to cancer
-
Liu, X. S. & Mardis, E. R. Applications of immunogenomics to cancer. Cell 168, 600-612 (2017).
-
(2017)
Cell
, vol.168
, pp. 600-612
-
-
Liu, X.S.1
Mardis, E.R.2
-
10
-
-
85013836274
-
Targeting neoantigens to augment antitumour immunity
-
Yarchoan, M., Johnson, B. A. III, Lutz, E. R., Laheru, D. A. & Jaffee, E. M. Targeting neoantigens to augment antitumour immunity. Nat. Rev. Cancer 17, 209-222 (2017).
-
(2017)
Nat. Rev. Cancer
, vol.17
, pp. 209-222
-
-
Yarchoan, M.1
Johnson, B.A.2
Lutz, E.R.3
Laheru, D.A.4
Jaffee, E.M.5
-
11
-
-
85020894317
-
Landscape of infiltrating T cells in liver cancer revealed by single-cell sequencing
-
Zheng, C. et al. Landscape of infiltrating T cells in liver cancer revealed by single-cell sequencing. Cell 169, 1342-1356.e1316 (2017).
-
(2017)
Cell
, vol.169
, pp. 1342-1356
-
-
Zheng, C.1
-
12
-
-
84880289310
-
Combinatorial tetramer staining and mass cytometry analysis facilitate T-cell epitope mapping and characterization
-
Newell, E. W. et al. Combinatorial tetramer staining and mass cytometry analysis facilitate T-cell epitope mapping and characterization. Nat. Biotechnol. 31, 623-629 (2013).
-
(2013)
Nat. Biotechnol.
, vol.31
, pp. 623-629
-
-
Newell, E.W.1
-
13
-
-
85018926405
-
Antigen presentation profiling reveals recognition of lymphoma immunoglobulin neoantigens
-
Khodadoust, M. S. et al. Antigen presentation profiling reveals recognition of lymphoma immunoglobulin neoantigens. Nature 543, 723-727 (2017).
-
(2017)
Nature
, vol.543
, pp. 723-727
-
-
Khodadoust, M.S.1
-
14
-
-
84943329717
-
Isolation of neoantigen-specific T cells from tumor and peripheral lymphocytes
-
Cohen, C. J. et al. Isolation of neoantigen-specific T cells from tumor and peripheral lymphocytes. J. Clin. Invest. 125, 3981-3991 (2015).
-
(2015)
J. Clin. Invest.
, vol.125
, pp. 3981-3991
-
-
Cohen, C.J.1
-
15
-
-
84962301577
-
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
-
16
-
-
85039951668
-
Novel and shared neoantigen derived from histone 3 variant H3.3K27M mutation for glioma T cell therapy
-
Chheda, Z. S. et al. Novel and shared neoantigen derived from histone 3 variant H3.3K27M mutation for glioma T cell therapy. J. Exp. Med. 215, 141-157 (2018).
-
(2018)
J. Exp. Med.
, vol.215
, pp. 141-157
-
-
Chheda, Z.S.1
-
17
-
-
84896494243
-
+ T-cell responses in hepatocellular carcinoma
-
+ T-cell responses in hepatocellular carcinoma. Hepatology 59, 1415-1426 (2014).
-
(2014)
Hepatology
, vol.59
, pp. 1415-1426
-
-
Flecken, T.1
-
18
-
-
27144451051
-
- and CD8-mediated T-cell responses by fusions of autologous dendritic cells and metastatic colorectal cancer cells
-
- and CD8-mediated T-cell responses by fusions of autologous dendritic cells and metastatic colorectal cancer cells. Int. J. Cancer 117, 587-595 (2005).
-
(2005)
Int. J. Cancer
, vol.117
, pp. 587-595
-
-
Koido, S.1
-
19
-
-
3142710121
-
HER-2, gp100, and MAGE-1 are expressed in human glioblastoma and recognized by cytotoxic T cells
-
Liu, G. et al. HER-2, gp100, and MAGE-1 are expressed in human glioblastoma and recognized by cytotoxic T cells. Cancer Res. 64, 4980-4986 (2004).
-
(2004)
Cancer Res.
, vol.64
, pp. 4980-4986
-
-
Liu, G.1
-
20
-
-
77952343328
-
+ T cells are negatively regulated by LAG-3 and PD-1 in human ovarian cancer
-
+ T cells are negatively regulated by LAG-3 and PD-1 in human ovarian cancer. Proc. Natl Acad. Sci. USA 107, 7875-7880 (2010).
-
(2010)
Proc. Natl Acad. Sci. USA
, vol.107
, pp. 7875-7880
-
-
Matsuzaki, J.1
-
21
-
-
70349569569
-
Tumor antigen-specific CD8 T cells infiltrating the tumor express high levels of PD-1 and are functionally impaired
-
Ahmadzadeh, M. et al. Tumor antigen-specific CD8 T cells infiltrating the tumor express high levels of PD-1 and are functionally impaired. Blood 114, 1537-1544 (2009).
-
(2009)
Blood
, vol.114
, pp. 1537-1544
-
-
Ahmadzadeh, M.1
-
22
-
-
84919494669
-
+ T cell effector function
-
+ T cell effector function. Cancer Cell 26, 923-937 (2014).
-
(2014)
Cancer Cell
, vol.26
, pp. 923-937
-
-
Johnston, R.J.1
-
23
-
-
84899748384
-
+ tumor-reactive repertoire infiltrating human tumors
-
+ tumor-reactive repertoire infiltrating human tumors. J. Clin. Invest. 124, 2246-2259 (2014).
-
(2014)
J. Clin. Invest.
, vol.124
, pp. 2246-2259
-
-
Gros, A.1
-
24
-
-
85016274466
-
+ T cells infiltrate melanoma lesions and retain function independently of PD-1 expression
-
+ T cells infiltrate melanoma lesions and retain function independently of PD-1 expression. J. Immunol. 198, 2979-2988 (2017).
-
(2017)
J. Immunol.
, vol.198
, pp. 2979-2988
-
-
Erkes, D.A.1
-
25
-
-
85040102604
-
+ T cells
-
+ T cells. Cancer Res. 78, 115-128 (2018).
-
(2018)
Cancer Res.
, vol.78
, pp. 115-128
-
-
Canale, F.P.1
-
26
-
-
84946046795
-
+ T cells
-
+ T cells. PLoS Pathog. 11, e1005177 (2015).
-
(2015)
PLoS Pathog.
, vol.11
, pp. e1005177
-
-
Gupta, P.K.1
-
27
-
-
77958486856
-
Novel application of Ki67 to quantify antigen-specific in vitro lymphoproliferation
-
Soares, A. et al. Novel application of Ki67 to quantify antigen-specific in vitro lymphoproliferation. J. Immunol. Methods 362, 43-50 (2010).
-
(2010)
J. Immunol. Methods
, vol.362
, pp. 43-50
-
-
Soares, A.1
-
28
-
-
35349014587
-
+ T cell exhaustion during chronic viral infection
-
+ T cell exhaustion during chronic viral infection. Immunity 27, 670-684 (2007).
-
(2007)
Immunity
, vol.27
, pp. 670-684
-
-
Wherry, E.J.1
-
29
-
-
79957925314
-
+ T cells in metastases from melanoma patients
-
+ T cells in metastases from melanoma patients. J. Clin. Invest. 121, 2350-2360 (2011).
-
(2011)
J. Clin. Invest.
, vol.121
, pp. 2350-2360
-
-
Baitsch, L.1
-
30
-
-
84926528302
-
Overcoming T cell exhaustion in infection and cancer
-
Pauken, K. E. & Wherry, E. J. Overcoming T cell exhaustion in infection and cancer. Trends Immunol. 36, 265-276 (2015).
-
(2015)
Trends Immunol.
, vol.36
, pp. 265-276
-
-
Pauken, K.E.1
Wherry, E.J.2
-
31
-
-
85040780025
-
Elucidating the genomic architecture of Asian EGFR-mutant lung adenocarcinoma through multi-region exome sequencing
-
Nahar, R. et al. Elucidating the genomic architecture of Asian EGFR-mutant lung adenocarcinoma through multi-region exome sequencing. Nat. Commun. 9, 216 (2018).
-
(2018)
Nat. Commun.
, vol.9
, pp. 216
-
-
Nahar, R.1
-
32
-
-
84990938506
-
EGFR mutations and ALK rearrangements are associated with low response rates to PD-1 pathway blockade in non-small cell lung cancer: A retrospective analysis
-
Gainor, J. F. et al. EGFR mutations and ALK rearrangements are associated with low response rates to PD-1 pathway blockade in non-small cell lung cancer: a retrospective analysis. Clin. Cancer Res. 22, 4585-4593 (2018).
-
(2018)
Clin. Cancer Res.
, vol.22
, pp. 4585-4593
-
-
Gainor, J.F.1
-
33
-
-
85017451727
-
T-cell invigoration to tumour burden ratio associated with anti-PD-1 response
-
Huang, A. C. et al. T-cell invigoration to tumour burden ratio associated with anti-PD-1 response. Nature 545, 60-65 (2017).
-
(2017)
Nature
, vol.545
, pp. 60-65
-
-
Huang, A.C.1
-
34
-
-
85008239935
-
Human innate lymphoid cell subsets possess tissue-type based heterogeneity in phenotype and frequency
-
Simoni, Y. et al. Human innate lymphoid cell subsets possess tissue-type based heterogeneity in phenotype and frequency. Immunity 46, 148-161 (2017).
-
(2017)
Immunity
, vol.46
, pp. 148-161
-
-
Simoni, Y.1
-
35
-
-
41649096341
-
Conditional MHC class I ligands and peptide exchange technology for the human MHC gene products HLA-A1, -A3, -A11, and -B7
-
Bakker, A. H. et al. Conditional MHC class I ligands and peptide exchange technology for the human MHC gene products HLA-A1, -A3, -A11, and -B7. Proc. Natl Acad. Sci. USA 105, 3825-3830 (2008).
-
(2008)
Proc. Natl Acad. Sci. USA
, vol.105
, pp. 3825-3830
-
-
Bakker, A.H.1
-
36
-
-
32244442535
-
Design and use of conditional MHC class I ligands
-
Toebes, M. et al. Design and use of conditional MHC class I ligands. Nat. Med. 12, 246-251 (2006).
-
(2006)
Nat. Med.
, vol.12
, pp. 246-251
-
-
Toebes, M.1
-
37
-
-
84894559188
-
Tumour antigens recognized by T lymphocytes: At the core of cancer immunotherapy
-
Coulie, P. G., Van den Eynde, B. J., van der Bruggen, P. & Boon, T. Tumour antigens recognized by T lymphocytes: at the core of cancer immunotherapy. Nat. Rev. Cancer 14, 135-146 (2014).
-
(2014)
Nat. Rev. Cancer
, vol.14
, pp. 135-146
-
-
Coulie, P.G.1
Van Den-Eynde, B.J.2
Van Der-Bruggen, P.3
Boon, T.4
-
38
-
-
48449106045
-
NetMHC-3.0: Accurate web accessible predictions of human, mouse and monkey MHC class I affinities for peptides of length 8-11
-
Lundegaard, C. et al. NetMHC-3.0: accurate web accessible predictions of human, mouse and monkey MHC class I affinities for peptides of length 8-11. Nucleic Acids Res. 36, W509-512 (2008).
-
(2008)
Nucleic Acids Res.
, vol.36
, pp. W509-512
-
-
Lundegaard, C.1
-
39
-
-
84899488346
-
A two-step hierarchical hypothesis set testing framework, with applications to gene expression data on ordered categories
-
Li, Y. & Ghosh, D. A two-step hierarchical hypothesis set testing framework, with applications to gene expression data on ordered categories. BMC Bioinformatics 15, 108 (2014).
-
(2014)
BMC Bioinformatics
, vol.15
, pp. 108
-
-
Li, Y.1
Ghosh, D.2
-
40
-
-
77956295988
-
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
-
41
-
-
84874025843
-
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
-
42
-
-
84864153492
-
Strelka: Accurate somatic small-variant calling from sequenced tumor-normal sample pairs
-
Saunders, C. T. et al. Strelka: accurate somatic small-variant calling from sequenced tumor-normal sample pairs. Bioinformatics 28, 1811-1817 (2012).
-
(2012)
Bioinformatics
, vol.28
, pp. 1811-1817
-
-
Saunders, C.T.1
-
43
-
-
77958022751
-
Label-free imaging, detection, and mass measurement of single viruses by surface plasmon resonance
-
Wang, S. et al. Label-free imaging, detection, and mass measurement of single viruses by surface plasmon resonance. Proc. Natl Acad. Sci. USA 107, 16028-16032 (2010).
-
(2010)
Proc. Natl Acad. Sci. USA
, vol.107
, pp. 16028-16032
-
-
Wang, S.1
-
44
-
-
84897397058
-
Feature Counts: An efficient general purpose program for assigning sequence reads to genomic features
-
Liao, Y., Smyth, G. K. & Shi, W. feature Counts: an efficient general purpose program for assigning sequence reads to genomic features. Bioinformatics 30, 923-930 (2014).
-
(2014)
Bioinformatics
, vol.30
, pp. 923-930
-
-
Liao, Y.1
Smyth, G.K.2
Shi, W.3
-
45
-
-
33748645500
-
GENCODE: Producing a reference annotation for ENCODE
-
Harrow, J., et al GENCODE: producing a reference annotation for ENCODE. Genome biology 7, 1-9 (2006).
-
(2006)
Genome Biology
, vol.7
, pp. 1-9
-
-
Harrow, J.1
-
46
-
-
84896735766
-
Voom: Precision weights unlock linear model analysis tools for RNA-seq read counts
-
Law, C. W., Chen, Y., Shi, W. & Smyth, G. K. voom: precision weights unlock linear model analysis tools for RNA-seq read counts. Genome Biol. 15, R29 (2014).
-
(2014)
Genome Biol.
, vol.15
, pp. R29
-
-
Law, C.W.1
Chen, Y.2
Shi, W.3
Smyth, G.K.4
-
47
-
-
5344244656
-
-
(R Foundation for Statistical Computing, Vienna, Austria, 2013)
-
R Core Team. R: A Language and Environment for Statistical Computing https://www.R-project.org/ (R Foundation for Statistical Computing, Vienna, Austria, 2013).
-
R: A Language and Environment for Statistical Computing
-
-
-
48
-
-
84930341569
-
+ T cell expansions arise during tuberculosis because of TCR selection
-
+ T cell expansions arise during tuberculosis because of TCR selection. PLoS Pathog. 11, e1004849 (2015).
-
(2015)
PLoS Pathog.
, vol.11
, pp. e1004849
-
-
Nunes-Alves, C.1
-
49
-
-
84911016319
-
High-dimensional analysis of the murine myeloid cell system
-
Becher, B. et al. High-dimensional analysis of the murine myeloid cell system. Nat. Immunol. 15, 1181-1189 (2014).
-
(2014)
Nat. Immunol.
, vol.15
, pp. 1181-1189
-
-
Becher, B.1
-
50
-
-
84937638635
-
Mapping the diversity of follicular helper T cells in human blood and tonsils using high-dimensional mass cytometry analysis
-
Wong, M. T. et al. Mapping the diversity of follicular helper T cells in human blood and tonsils using high-dimensional mass cytometry analysis. Cell Reports 11, 1822-1833 (2015).
-
(2015)
Cell Reports
, vol.11
, pp. 1822-1833
-
-
Wong, M.T.1
-
51
-
-
84876799270
-
Normalization of mass cytometry data with bead standards
-
Finck, R. et al. Normalization of mass cytometry data with bead standards. Cytometry A 83, 483-494 (2013).
-
(2013)
Cytometry A
, vol.83
, pp. 483-494
-
-
Finck, R.1
-
52
-
-
84880280631
-
ViSNE enables visualization of high dimensional single-cell data and reveals phenotypic heterogeneity of leukemia
-
Amir, A. D. et al. viSNE enables visualization of high dimensional single-cell data and reveals phenotypic heterogeneity of leukemia. Nat. Biotechnol. 31, 545-552 (2013).
-
(2013)
Nat. Biotechnol.
, vol.31
, pp. 545-552
-
-
Amir, A.D.1
-
54
-
-
84858798276
-
Update for the logicle data scale including operational code implementations
-
Moore, W. A. & Parks, D. R. Update for the logicle data scale including operational code implementations. Cytometry A 81, 273-277 (2012).
-
(2012)
Cytometry A
, vol.81
, pp. 273-277
-
-
Moore, W.A.1
Parks, D.R.2
|