Artificial intelligence in cancer immunotherapy: Applications in neoantigen recognition, antibody design and immunotherapy response prediction

ABlooper: fast accurate antibody CDR loop structure prediction with accuracy estimation

(2022) Brennan Abanades et al.   BIOINFORMATICS

BioPhi: A platform for antibody design, humanization, and humanness evaluation based on natural antibody repertoires and deep learning

(2022) David Prihoda et al.   mAbs

Antibodies to watch in 2022

(2022) Hélène Kaplon et al.   mAbs

Identification of neoantigens for individualized therapeutic cancer vaccines

(2022) Franziska Lang et al.   NATURE REVIEWS DRUG DISCOVERY

Evaluating performance of existing computational models in predicting CD8+ T cell pathogenic epitopes and cancer neoantigens

(2022) Paul R Buckley et al.   BRIEFINGS IN BIOINFORMATICS

Advances in computational structure-based antibody design

(2022) Alissa M. Hummer et al.   CURRENT OPINION IN STRUCTURAL BIOLOGY

Progress and challenges for the machine learning-based design of fit-for-purpose monoclonal antibodies

(2022) Rahmad Akbar et al.   mAbs

Predicting antibody binders and generating synthetic antibodies using deep learning

(2022) Yoong Wearn Lim et al.   mAbs

Cell type identification in spatial transcriptomics data can be improved by leveraging cell-type-informative paired tissue images using a Bayesian probabilistic model

(2022) Asif Zubair et al.   NUCLEIC ACIDS RESEARCH

Artificial Intelligence-based Radiomics in the Era of Immuno-Oncology

(2022) Cyra Y Kang et al.   ONCOLOGIST

Single-cell characterization of malignant phenotypes and microenvironment alteration in retinoblastoma

(2022) Cheng Wu et al.   Cell Death & Disease

Spatial transcriptomics of macrophage infiltration in non-small cell lung cancer reveals determinants of sensitivity and resistance to anti-PD1/PD-L1 antibodies

(2022) Mathieu Larroquette et al.   Journal for ImmunoTherapy of Cancer

Machine-designed biotherapeutics: opportunities, feasibility and advantages of deep learning in computational antibody discovery

(2022) Wiktoria Wilman et al.   BRIEFINGS IN BIOINFORMATICS

Cell–cell communication inference and analysis in the tumour microenvironments from single-cell transcriptomics: data resources and computational strategies

(2022) Lihong Peng et al.   BRIEFINGS IN BIOINFORMATICS

Precise reconstruction of the TME using bulk RNA-seq and a machine learning algorithm trained on artificial transcriptomes

(2022) Aleksandr Zaitsev et al.   CANCER CELL

Designing antibodies as therapeutics

(2022) Paul J. Carter et al.   CELL

Improved Antibody‐Specific Epitope Prediction Using AlphaFold and AbAdapt**

(2022) Zichang Xu et al.   CHEMBIOCHEM

The Multi-Dimensional Biomarker Landscape in Cancer Immunotherapy

(2022) Jing Yi Lee et al.   INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES

Simultaneous prediction of antibody backbone and side-chain conformations with deep learning

(2022) Deniz Akpinaroglu et al.   PLoS One

Co-optimization of therapeutic antibody affinity and specificity using machine learning models that generalize to novel mutational space

(2022) Emily K. Makowski et al.   Nature Communications

Network-based machine learning approach to predict immunotherapy response in cancer patients

(2022) JungHo Kong et al.   Nature Communications

Prediction of B cell epitopes in proteins using a novel sequence similarity-based method

(2022) Alvaro Ras-Carmona et al.   Scientific Reports

NanoNet: Rapid and accurate end-to-end nanobody modeling by deep learning

(2022) Tomer Cohen et al.   Frontiers in Immunology

A Radiomics-Based Machine Learning Model for Prediction of Tumor Mutational Burden in Lower-Grade Gliomas

(2022) Luu Ho Thanh Lam et al.   Cancers

Predicting Tumor Mutational Burden From Lung Adenocarcinoma Histopathological Images Using Deep Learning

(2022) Yi Niu et al.   Frontiers in Oncology

Predicting colorectal cancer tumor mutational burden from histopathological images and clinical information using multi-modal deep learning

(2022) Kaimei Huang et al.   BIOINFORMATICS

Tumor immune contexture is a determinant of anti-CD19 CAR T cell efficacy in large B cell lymphoma

(2022) Nathalie Scholler et al.   NATURE MEDICINE

Deep learning reveals predictive sequence concepts within immune repertoires to immunotherapy

(2022) John-William Sidhom et al.   Science Advances

Recent Advances and Challenges in Cancer Immunotherapy

(2022) Chelsea Peterson et al.   Cancers

Critical review of conformational B-cell epitope prediction methods

(2022) Gabriel Cia et al.   BRIEFINGS IN BIOINFORMATICS

Challenges in neoantigen-directed therapeutics

(2022) Lien Lybaert et al.   CANCER CELL

Personal neoantigen vaccines induce persistent memory T cell responses and epitope spreading in patients with melanoma

(2021) Zhuting Hu et al.   NATURE MEDICINE

Advances in the development of personalized neoantigen-based therapeutic cancer vaccines

(2021) Eryn Blass et al.   Nature Reviews Clinical Oncology

DeepTCR is a deep learning framework for revealing sequence concepts within T-cell repertoires

(2021) John-William Sidhom et al.   Nature Communications

Human-interpretable image features derived from densely mapped cancer pathology slides predict diverse molecular phenotypes

(2021) James A. Diao et al.   Nature Communications

Antibody design using LSTM based deep generative model from phage display library for affinity maturation

(2021) Koichiro Saka et al.   Scientific Reports

Predicting Immunogenicity Risk in Biopharmaceuticals

(2021) Nikolet Doneva et al.   Symmetry-Basel

FDA Approval Summary: Pembrolizumab for the First-line Treatment of Patients with MSI-H/dMMR Advanced Unresectable or Metastatic Colorectal Carcinoma

(2021) Sandra J. Casak et al.   CLINICAL CANCER RESEARCH

Biological structure and function emerge from scaling unsupervised learning to 250 million protein sequences

(2021) Alexander Rives et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

RNA Dysregulation: An Expanding Source of Cancer Immunotherapy Targets

(2021) Yang Pan et al.   TRENDS IN PHARMACOLOGICAL SCIENCES

Applications of Machine and Deep Learning in Adaptive Immunity

(2021) Margarita Pertseva et al.   Annual Review of Chemical and Biomolecular Engineering

Artificial Intelligence in Cancer Research and Precision Medicine

(2021) Bhavneet Bhinder et al.   Cancer Discovery

Optimization of therapeutic antibodies by predicting antigen specificity from antibody sequence via deep learning

(2021) Derek M. Mason et al.   Nature Biomedical Engineering

An Integrated Approach for Discovering Noncanonical MHC-I Peptides Encoded by Small Open Reading Frames

(2021) Lei Chen et al.   JOURNAL OF THE AMERICAN SOCIETY FOR MASS SPECTROMETRY

Artificial intelligence-assisted system for precision diagnosis of PD-L1 expression in non-small cell lung cancer

(2021) Jianghua Wu et al.   MODERN PATHOLOGY

Highly accurate protein structure prediction with AlphaFold

(2021) John Jumper et al.   NATURE

Spatial omics and multiplexed imaging to explore cancer biology

(2021) Sabrina M. Lewis et al.   NATURE METHODS

NetTCR-2.0 enables accurate prediction of TCR-peptide binding by using paired TCRα and β sequence data

(2021) Alessandro Montemurro et al.   Communications Biology

epitope3D: a machine learning method for conformational B-cell epitope prediction

(2021) Bruna Moreira da Silva et al.   BRIEFINGS IN BIOINFORMATICS

Neoantigen-driven B cell and CD4 T follicular helper cell collaboration promotes anti-tumor CD8 T cell responses

(2021) Can Cui et al.   CELL

Super-resolved spatial transcriptomics by deep data fusion

(2021) Ludvig Bergenstråhle et al.   NATURE BIOTECHNOLOGY

Improved prediction of immune checkpoint blockade efficacy across multiple cancer types

(2021) Diego Chowell et al.   NATURE BIOTECHNOLOGY

Predicting cancer outcomes with radiomics and artificial intelligence in radiology

(2021) Kaustav Bera et al.   Nature Reviews Clinical Oncology

Multifactorial deep learning reveals pan-cancer genomic tumor clusters with distinct immunogenomic landscape and response to immunotherapy

(2020) Feng Xie et al.   CLINICAL CANCER RESEARCH

Tumor Immunology and Tumor Evolution: Intertwined Histories

(2020) Jérôme Galon et al.   IMMUNITY

B cells are associated with survival and immunotherapy response in sarcoma

(2020) Florent Petitprez et al.   NATURE

Tertiary lymphoid structures improve immunotherapy and survival in melanoma

(2020) Rita Cabrita et al.   NATURE

B cells and tertiary lymphoid structures promote immunotherapy response

(2020) Beth A. Helmink et al.   NATURE

pVACtools: a computational toolkit to identify and visualize cancer neoantigens

(2020) Jasreet Hundal et al.   Cancer Immunology Research

Cancer immunotherapy: Pros, cons and beyond

(2020) Shuzhen Tan et al.   BIOMEDICINE & PHARMACOTHERAPY

MethylNet: an automated and modular deep learning approach for DNA methylation analysis

(2020) Joshua J. Levy et al.   BMC BIOINFORMATICS

Macromolecular modeling and design in Rosetta: recent methods and frameworks

(2020) Julia Koehler Leman et al.   NATURE METHODS

NetMHCpan-4.1 and NetMHCIIpan-4.0: improved predictions of MHC antigen presentation by concurrent motif deconvolution and integration of MS MHC eluted ligand data

(2020) Birkir Reynisson et al.   NUCLEIC ACIDS RESEARCH

Cancer neoantigen prioritization through sensitive and reliable proteogenomics analysis

(2020) Bo Wen et al.   Nature Communications

Geometric potentials from deep learning improve prediction of CDR H3 loop structures

(2020) Jeffrey A Ruffolo et al.   BIOINFORMATICS

Benchmarking variant callers in next-generation and third-generation sequencing analysis

(2020) Surui Pei et al.   BRIEFINGS IN BIOINFORMATICS

Clinical-grade Detection of Microsatellite Instability in Colorectal Tumors by Deep Learning

(2020) Amelie Echle et al.   GASTROENTEROLOGY

MHCflurry 2.0: Improved Pan-Allele Prediction of MHC Class I-Presented Peptides by Incorporating Antigen Processing

(2020) Timothy J. O’Donnell et al.   Cell Systems

Deep learning–based cell composition analysis from tissue expression profiles

(2020) Kevin Menden et al.   Science Advances

Predicting response to immunotherapy in advanced non-small-cell lung cancer using tumor mutational burden radiomic biomarker

(2020) Bingxi He et al.   Journal for ImmunoTherapy of Cancer

Utility of Circulating Tumor DNA for Detection and Monitoring of Endometrial Cancer Recurrence and Progression

(2020) Esther L. Moss et al.   Cancers

Integrating spatial gene expression and breast tumour morphology via deep learning

(2020) Bryan He et al.   Nature Biomedical Engineering

EpiDope: A Deep Neural Network for linear B-cell epitope prediction

(2020) Maximilian Collatz et al.   BIOINFORMATICS

Key Parameters of Tumor Epitope Immunogenicity Revealed Through a Consortium Approach Improve Neoantigen Prediction

(2020) Daniel K. Wells et al.   CELL

Structural dissimilarity from self drives neoepitope escape from immune tolerance

(2020) Jason R. Devlin et al.   Nature Chemical Biology

Phage Display Derived Monoclonal Antibodies: From Bench to Bedside

(2020) Mohamed A. Alfaleh et al.   Frontiers in Immunology

Predicting Cross-Reactivity and Antigen Specificity of T Cell Receptors

(2020) Chloe H. Lee et al.   Frontiers in Immunology

Analysis of the molecular nature associated with microsatellite status in colon cancer identifies clinical implications for immunotherapy

(2020) Xuanwen Bao et al.   Journal for ImmunoTherapy of Cancer

Transcriptional Spatial Profiling of Cancer Tissues in the Era of Immunotherapy: The Potential and Promise

(2020) Sanjna Nilesh Nerurkar et al.   Cancers

Deep learning in cancer pathology: a new generation of clinical biomarkers

(2020) Amelie Echle et al.   BRITISH JOURNAL OF CANCER

Using Machine Learning Algorithms to Predict Immunotherapy Response in Patients with Advanced Melanoma

(2020) Paul Johannet et al.   CLINICAL CANCER RESEARCH

TCR Recognition of Peptide–MHC-I: Rule Makers and Breakers

(2020) Christopher Szeto et al.   INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES

Deep learning model for the prediction of microsatellite instability in colorectal cancer: a diagnostic study

(2020) Rikiya Yamashita et al.   LANCET ONCOLOGY

Predicting peptide presentation by major histocompatibility complex class I: an improved machine learning approach to the immunopeptidome

(2019) Kevin Michael Boehm et al.   BMC BIOINFORMATICS

Tumor mutational load predicts survival after immunotherapy across multiple cancer types

(2019) Robert M. Samstein et al.   NATURE GENETICS

Memory T cells targeting oncogenic mutations detected in peripheral blood of epithelial cancer patients

(2019) Gal Cafri et al.   Nature Communications

Five computational developability guidelines for therapeutic antibody profiling

(2019) Matthew I. J. Raybould et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Predicting Response to Cancer Immunotherapy using Non-invasive Radiomic Biomarkers

(2019) S Trebeschi et al.   ANNALS OF ONCOLOGY

Neoantigen identification strategies enable personalized immunotherapy in refractory solid tumors

(2019) Fangjun Chen et al.   JOURNAL OF CLINICAL INVESTIGATION

Determining cell type abundance and expression from bulk tissues with digital cytometry

(2019) Aaron M. Newman et al.   NATURE BIOTECHNOLOGY

Immunogenic neoantigens derived from gene fusions stimulate T cell responses

(2019) Wei Yang et al.   NATURE MEDICINE

Treatment-Related Adverse Events of PD-1 and PD-L1 Inhibitors in Clinical Trials

(2019) Yucai Wang et al.   JAMA Oncology

MHCSeqNet: a deep neural network model for universal MHC binding prediction

(2019) Poomarin Phloyphisut et al.   BMC BIOINFORMATICS

Deep learning can predict microsatellite instability directly from histology in gastrointestinal cancer

(2019) Jakob Nikolas Kather et al.   NATURE MEDICINE

Unique Neoantigens Arise from Somatic Mutations in Patients with Gastrointestinal Cancers

(2019) Maria R. Parkhurst et al.   Cancer Discovery

Defining HLA-II Ligand Processing and Binding Rules with Mass Spectrometry Enhances Cancer Epitope Prediction

(2019) Jennifer G. Abelin et al.   IMMUNITY

Distance-based protein folding powered by deep learning

(2019) Jinbo Xu   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Quantifying the nativeness of antibody sequences using long short-term memory networks

(2019) Andrew M Wollacott et al.   PROTEIN ENGINEERING DESIGN & SELECTION

Best practices for bioinformatic characterization of neoantigens for clinical utility

(2019) Megan M. Richters et al.   Genome Medicine

Antibody Complementarity Determining Region Design Using High-Capacity Machine Learning

(2019) Ge Liu et al.   BIOINFORMATICS

Computational approaches to therapeutic antibody design: established methods and emerging trends

(2019) Richard A Norman et al.   BRIEFINGS IN BIOINFORMATICS

Pan-cancer whole-genome analyses of metastatic solid tumours

(2019) Peter Priestley et al.   NATURE

Predicting HLA class II antigen presentation through integrated deep learning

(2019) Binbin Chen et al.   NATURE BIOTECHNOLOGY

Definitions, methods, and applications in interpretable machine learning

(2019) W. James Murdoch et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Automated and Manual Quantification of Tumour Cellularity in Digital Slides for Tumour Burden Assessment

(2019) Shazia Akbar et al.   Scientific Reports

pTuneos: prioritizing tumor neoantigens from next-generation sequencing data

(2019) Chi Zhou et al.   Genome Medicine

DeepHLApan: A Deep Learning Approach for Neoantigen Prediction Considering Both HLA-Peptide Binding and Immunogenicity

(2019) Jingcheng Wu et al.   Frontiers in Immunology

Investigation of Antigen-Specific T-Cell Receptor Clusters in Human Cancers

(2019) Hongyi Zhang et al.   CLINICAL CANCER RESEARCH

A large peptidome dataset improves HLA class I epitope prediction across most of the human population

(2019) Siranush Sarkizova et al.   NATURE BIOTECHNOLOGY

Explainable Artificial Intelligence (XAI): Concepts, taxonomies, opportunities and challenges toward responsible AI

(2019) Alejandro Barredo Arrieta et al.   Information Fusion

Neopepsee: accurate genome-level prediction of neoantigens by harnessing sequence and amino acid immunogenicity information

(2018) S Kim et al.   ANNALS OF ONCOLOGY

Digital image analysis improves precision of PD-L1 scoring in cutaneous melanoma

(2018) Viktor H Koelzer et al.   HISTOPATHOLOGY

International validation of the consensus Immunoscore for the classification of colon cancer: a prognostic and accuracy study

(2018) Franck Pagès et al.   LANCET

Points of Significance: Statistics versus machine learning

(2018) Danilo Bzdok et al.   NATURE METHODS

Sensitive and frequent identification of high avidity neo-epitope specific CD8+ T cells in immunotherapy-naive ovarian cancer

(2018) Sara Bobisse et al.   Nature Communications

Spatial Organization and Molecular Correlation of Tumor-Infiltrating Lymphocytes Using Deep Learning on Pathology Images

(2018) Joel Saltz et al.   Cell Reports

MHCflurry: Open-Source Class I MHC Binding Affinity Prediction

(2018) Timothy J. O'Donnell et al.   Cell Systems

Deep Learning and Its Applications in Biomedicine

(2018) Chensi Cao et al.   GENOMICS PROTEOMICS & BIOINFORMATICS

A radiomics approach to assess tumour-infiltrating CD8 cells and response to anti-PD-1 or anti-PD-L1 immunotherapy: an imaging biomarker, retrospective multicohort study

(2018) Roger Sun et al.   LANCET ONCOLOGY

Development of tumor mutation burden as an immunotherapy biomarker: utility for the oncology clinic

(2018) T A Chan et al.   ANNALS OF ONCOLOGY

Integrated Analysis of Genetic Ancestry and Genomic Alterations across Cancers

(2018) Jiao Yuan et al.   CANCER CELL

The Link between the Multiverse of Immune Microenvironments in Metastases and the Survival of Colorectal Cancer Patients

(2018) Marc Van den Eynde et al.   CANCER CELL

The Length Distribution and Multiple Specificity of Naturally Presented HLA-I Ligands

(2018) David Gfeller et al.   JOURNAL OF IMMUNOLOGY

Structure, heterogeneity and developability assessment of therapeutic antibodies

(2018) Yingda Xu et al.   mAbs

The Immune Epitope Database (IEDB): 2018 update

(2018) Randi Vita et al.   NUCLEIC ACIDS RESEARCH

Deep Semi Supervised Generative Learning for Automated Tumor Proportion Scoring on NSCLC Tissue Needle Biopsies

(2018) Ansh Kapil et al.   Scientific Reports

Systematically benchmarking peptide-MHC binding predictors: From synthetic to naturally processed epitopes

(2018) Weilong Zhao et al.   PLoS Computational Biology

NetMHCpan-4.0: Improved Peptide–MHC Class I Interaction Predictions Integrating Eluted Ligand and Peptide Binding Affinity Data

(2017) Vanessa Jurtz et al.   JOURNAL OF IMMUNOLOGY

Insertion-and-deletion-derived tumour-specific neoantigens and the immunogenic phenotype: a pan-cancer analysis

(2017) Samra Turajlic et al.   LANCET ONCOLOGY

PD-L1 immunohistochemistry in clinical diagnostics of lung cancer: inter-pathologist variability is higher than assay variability

(2017) Hans Brunnström et al.   MODERN PATHOLOGY

A neoantigen fitness model predicts tumour response to checkpoint blockade immunotherapy

(2017) Marta Łuksza et al.   NATURE

The problem with neoantigen prediction

(2017)   NATURE BIOTECHNOLOGY

Modeling and docking of antibody structures with Rosetta

(2017) Brian D Weitzner et al.   Nature Protocols

Biophysical properties of the clinical-stage antibody landscape

(2017) Tushar Jain et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Mismatch repair deficiency predicts response of solid tumors to PD-1 blockade

(2017) Dung T. Le et al.   SCIENCE

Autoantibody Production in Cancer—The Humoral Immune Response toward Autologous Antigens in Cancer Patients

(2016) P. Zaenker et al.   AUTOIMMUNITY REVIEWS

Unsupervised HLA Peptidome Deconvolution Improves Ligand Prediction Accuracy and Predicts Cooperative Effects in Peptide–HLA Interactions

(2016) Michal Bassani-Sternberg et al.   JOURNAL OF IMMUNOLOGY

Pan-Specific Prediction of Peptide–MHC Class I Complex Stability, a Correlate of T Cell Immunogenicity

(2016) Michael Rasmussen et al.   JOURNAL OF IMMUNOLOGY

Target-independent variable region mediated effects on antibody clearance can be FcRn independent

(2016) Ryan L. Kelly et al.   mAbs

Targeting of cancer neoantigens with donor-derived T cell receptor repertoires

(2016) E. Stronen et al.   SCIENCE

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

(2016) Michal Bassani-Sternberg et al.   Nature Communications

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

Gapped sequence alignment using artificial neural networks: application to the MHC class I system

(2015) Massimo Andreatta et al.   BIOINFORMATICS

Developability Assessment During the Selection of Novel Therapeutic Antibodies

(2015) Alexander Jarasch et al.   JOURNAL OF PHARMACEUTICAL SCIENCES

Computational tool for the early screening of monoclonal antibodies for their viscosities

(2015) Neeraj J Agrawal et al.   mAbs

Deep learning

(2015) Yann LeCun et al.   NATURE

Adoptive cell transfer as personalized immunotherapy for human cancer

(2015) S. A. Rosenberg et al.   SCIENCE

Immunogenicity of somatic mutations in human gastrointestinal cancers

(2015) E. Tran et al.   SCIENCE

Uncovering the Peptide-Binding Specificities of HLA-C: A General Strategy To Determine the Specificity of Any MHC Class I Molecule

(2014) Michael Rasmussen et al.   JOURNAL OF IMMUNOLOGY

The promise and challenge of high-throughput sequencing of the antibody repertoire

(2014) George Georgiou et al.   NATURE BIOTECHNOLOGY

High-throughput epitope discovery reveals frequent recognition of neo-antigens by CD4+ T cells in human melanoma

(2014) Carsten Linnemann et al.   NATURE MEDICINE

Overcoming the challenges in administering biopharmaceuticals: formulation and delivery strategies

(2014) Samir Mitragotri et al.   NATURE REVIEWS DRUG DISCOVERY

The immune epitope database (IEDB) 3.0

(2014) Randi Vita et al.   NUCLEIC ACIDS RESEARCH

Nanobodies: Natural Single-Domain Antibodies

(2013) Serge Muyldermans   Annual Review of Biochemistry

NetMHCstab- predicting stability of peptide-MHC-I complexes; impacts for cytotoxic T lymphocyte epitope discovery

(2013) Kasper W. Jørgensen et al.   IMMUNOLOGY

Sensitive detection of somatic point mutations in impure and heterogeneous cancer samples

(2013) Kristian Cibulskis et al.   NATURE BIOTECHNOLOGY

SAbDab: the structural antibody database

(2013) James Dunbar et al.   NUCLEIC ACIDS RESEARCH

The Basic Principles of Chimeric Antigen Receptor Design

(2013) Michel Sadelain et al.   Cancer Discovery

Role of intratumoural heterogeneity in cancer drug resistance: molecular and clinical perspectives

(2012) Nicholas A. Saunders et al.   EMBO Molecular Medicine

Cancer immunotherapy – revisited

(2011) W. Joost Lesterhuis et al.   NATURE REVIEWS DRUG DISCOVERY

NetCTLpan: pan-specific MHC class I pathway epitope predictions

(2010) Thomas Stranzl et al.   IMMUNOGENETICS

Accurate approximation method for prediction of class I MHC affinities for peptides of length 8, 10 and 11 using prediction tools trained on 9mers

(2008) C. Lundegaard et al.   BIOINFORMATICS