High infiltration of B cells in tertiary lymphoid structures, TCR oligoclonality, and neoantigens are part of esophageal squamous cell carcinoma microenvironment

First-Line Nivolumab Plus Ipilimumab in Advanced Non–Small-Cell Lung Cancer (CheckMate 568): Outcomes by Programmed Death Ligand 1 and Tumor Mutational Burden as Biomarkers

(2019) Neal Ready et al.   JOURNAL OF CLINICAL ONCOLOGY

Prognostic impact of tumor-associated macrophage infiltration in esophageal cancer: a meta-analysis

(2019) Jiangfen Li et al.   Future Oncology

B cells sustain inflammation and predict response to immune checkpoint blockade in human melanoma

(2019) Johannes Griss et al.   Nature Communications

A mutational signature associated with alcohol consumption and prognostically significantly mutated driver genes in esophageal squamous cell carcinoma

(2018) X C Li et al.   ANNALS OF ONCOLOGY

Nivolumab plus Ipilimumab versus Sunitinib in Advanced Renal-Cell Carcinoma

(2018) Robert J. Motzer et al.   NEW ENGLAND JOURNAL OF MEDICINE

B lymphocytes can be activated to act as antigen presenting cells to promote anti-tumor responses

(2018) Renata Ariza Marques Rossetti et al.   PLoS One

Esophageal squamous cell carcinoma transcriptome reveals the effect of FOXM1 on patient outcome through novel PIK3R3 mediated activation of PI3K signaling pathway

(2018) Pedro Nicolau-Neto et al.   Oncotarget

New Insights into Tumor-Infiltrating B Lymphocytes in Breast Cancer: Clinical Impacts and Regulatory Mechanisms

(2018) Meng Shen et al.   Frontiers in Immunology

Mutations, Differential Gene Expression, and Chimeric Transcripts in Esophageal Squamous Cell Carcinoma Show High Heterogeneity

(2018) Paulo Thiago de Souza-Santos et al.   Translational Oncology

The increased number of tumor-associated macrophage is associated with overexpression of VEGF-C, plays an important role in Kazakh ESCC invasion and metastasis

(2017) Jian Ming Hu et al.   EXPERIMENTAL AND MOLECULAR PATHOLOGY

PD-L1 on tumor cells is sufficient for immune evasion in immunogenic tumors and inhibits CD8 T cell cytotoxicity

(2017) Vikram R. Juneja et al.   JOURNAL OF EXPERIMENTAL MEDICINE

Integrated genomic characterization of oesophageal carcinoma

(2017)   NATURE

Immunotherapy for Esophageal Squamous Cell Carcinoma

(2017) Takashi Kojima et al.   Current Oncology Reports

Current status of cancer immunotherapy for esophageal squamous cell carcinoma

(2017) Koji Kono et al.   Esophagus

MAGE-A11 is activated through TFCP2/ZEB1 binding sites de-methylation as well as histone modification and facilitates ESCC tumor growth

(2017) Shina Liu et al.   Oncotarget

Tumour infiltrating lymphocytes correlate with improved survival in patients with esophageal squamous cell carcinoma

(2017) Dongxian Jiang et al.   Scientific Reports

Pan-cancer Immunogenomic Analyses Reveal Genotype-Immunophenotype Relationships and Predictors of Response to Checkpoint Blockade

(2017) Pornpimol Charoentong et al.   Cell Reports

Tumor-Infiltrating Plasma Cells Are Associated with Tertiary Lymphoid Structures, Cytolytic T-Cell Responses, and Superior Prognosis in Ovarian Cancer

(2016) D. R. Kroeger et al.   CLINICAL CANCER RESEARCH

Basis for molecular diagnostics and immunotherapy for esophageal cancer

(2016) Joe Abdo et al.   Expert Review of Anticancer Therapy

Cancer/Testis Antigens: Expression, Regulation, Tumor Invasion, and Use in Immunotherapy of Cancers

(2016) Arash Salmaninejad et al.   IMMUNOLOGICAL INVESTIGATIONS

A Molecular Switch Abrogates Glycoprotein 100 (gp100) T-cell Receptor (TCR) Targeting of a Human Melanoma Antigen

(2016) Valentina Bianchi et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Safety and Immunogenicity of the PRAME Cancer Immunotherapeutic in Patients with Resected Non–Small Cell Lung Cancer: A Phase I Dose Escalation Study

(2016) Jean-Louis Pujol et al.   Journal of Thoracic Oncology

Modeling of RNA-seq fragment sequence bias reduces systematic errors in transcript abundance estimation

(2016) Michael I Love et al.   NATURE BIOTECHNOLOGY

Spatial intratumoral heterogeneity and temporal clonal evolution in esophageal squamous cell carcinoma

(2016) Jia-Jie Hao et al.   NATURE GENETICS

The role of PD-L1 in the radiation response and prognosis for esophageal squamous cell carcinoma related to IL-6 and T-cell immunosuppression

(2016) Miao-Fen Chen et al.   Oncotarget

Comprehensive immunohistochemical analysis of tumor microenvironment immune status in esophageal squamous cell carcinoma

(2016) Ken Hatogai et al.   Oncotarget

Prognostic significance of programmed death-1 and programmed death-ligand 1 expression in patients with esophageal squamous cell carcinoma

(2016) Kaiyan Chen et al.   Oncotarget

NetMHCpan-3.0; improved prediction of binding to MHC class I molecules integrating information from multiple receptor and peptide length datasets

(2016) Morten Nielsen et al.   Genome Medicine

tcR: an R package for T cell receptor repertoire advanced data analysis

(2015) Vadim I. Nazarov et al.   BMC BIOINFORMATICS

Genetic instability in the tumor microenvironment: a new look at an old neighbor

(2015) Antonio Palumbo et al.   Molecular Cancer

The prognostic landscape of genes and infiltrating immune cells across human cancers

(2015) Andrew J Gentles et al.   NATURE MEDICINE

MiXCR: software for comprehensive adaptive immunity profiling

(2015) Dmitriy A Bolotin et al.   NATURE METHODS

Robust enumeration of cell subsets from tissue expression profiles

(2015) Aaron M Newman et al.   NATURE METHODS

Pembrolizumab versus Ipilimumab in Advanced Melanoma

(2015) Caroline Robert et al.   NEW ENGLAND JOURNAL OF MEDICINE

TCGAbiolinks: an R/Bioconductor package for integrative analysis of TCGA data

(2015) Antonio Colaprico et al.   NUCLEIC ACIDS RESEARCH

Diagnostic marker signature for esophageal cancer from transcriptome analysis

(2015) Ute Warnecke-Eberz et al.   TUMOR BIOLOGY

DockTope: a Web-based tool for automated pMHC-I modelling

(2015) Maurício Menegatti Rigo et al.   Scientific Reports

Multiple region whole-exome sequencing reveals dramatically evolving intratumor genomic heterogeneity in esophageal squamous cell carcinoma

(2015) W Cao et al.   Oncogenesis

OptiType: precision HLA typing from next-generation sequencing data

(2014) András Szolek et al.   BIOINFORMATICS

Cancer statistics, 2014

(2014) Rebecca Siegel et al.   CA-A CANCER JOURNAL FOR CLINICIANS

Cancer incidence and mortality worldwide: Sources, methods and major patterns in GLOBOCAN 2012

(2014) Jacques Ferlay et al.   INTERNATIONAL JOURNAL OF CANCER

STAR: ultrafast universal RNA-seq aligner

(2012) Alexander Dobin et al.   BIOINFORMATICS

Cyclin-A1 represents a new immunogenic targetable antigen expressed in acute myeloid leukemia stem cells with characteristics of a cancer-testis antigen

(2012) S. Ochsenreither et al.   BLOOD

Association of CD8+ T cell infiltration in oesophageal carcinoma lesions with human leucocyte antigen (HLA) class I antigen expression and survival

(2011) T. Tsuchikawa et al.   CLINICAL AND EXPERIMENTAL IMMUNOLOGY

Methylation of the promoter of human leukocyte antigen class I in human esophageal squamous cell carcinoma and its histopathological characteristics

(2011) Sun Qifeng et al.   JOURNAL OF THORACIC AND CARDIOVASCULAR SURGERY

A framework for variation discovery and genotyping using next-generation DNA sequencing data

(2011) Mark A DePristo et al.   NATURE GENETICS

FcRγ Activation Regulates Inflammation-Associated Squamous Carcinogenesis

(2010) Pauline Andreu et al.   CANCER CELL

ANNOVAR: functional annotation of genetic variants from high-throughput sequencing data

(2010) K. Wang et al.   NUCLEIC ACIDS RESEARCH

Serum autoantibodies as biomarkers for early cancer detection

(2009) Hwee Tong Tan et al.   FEBS Journal