Research graph
References from Functional evaluation of TCR-pMHC pairs at scale allows in silico TCR reactivity prediction. Local targets link to admitted publications; unresolved targets remain external evidence.
How many different clonotypes do immune repertoires contain?
10.1016/j.coisb.2019.10.001 · 2019 · External reference
Cancer Neoantigens
10.1146/annurev-immunol-042617-053402 · 2019 · External reference
Immunological surveillance against altered self components by sensitised T lymphocytes in lymphocytes choriomeningitis
10.1038/251547a0 · 1974 · External reference
Isolation of cDNA clones encoding T cell-specific membrane-associated proteins
10.1038/308149a0 · 1984 · External reference
A human T cell-specific cDNA clone encodes a protein having extensive homology to immunoglobulin chains
10.1038/308145a0 · 1984 · External reference
Sequence relationships between putative T-cell receptor polypeptides and immunoglobulins
10.1038/308153a0 · 1984 · External reference
Autoimmunity-associated T cell receptors recognize HLA-B∗27-bound peptides
10.1038/s41586-022-05501-7 · 2022 · External reference
Neoantigens in cancer immunotherapy
10.1126/science.aaa4971 · 2015 · External reference
Evaluation of a mosaic HIV-1 vaccine in a multicentre, randomised, double-blind, placebo-controlled, phase 1/2a clinical trial (APPROACH) and in rhesus monkeys (NHP 13–19)
10.1016/s0140-6736(18)31364-3 · 2018 · External reference
Molecular basis of differential HLA class I-restricted T cell recognition of a highly networked HIV peptide
2023 · External reference
Mosaic HIV-1 Vaccines Expand the Breadth and Depth of Cellular Immune Responses in Rhesus Monkeys
10.1038/nm.2089 · 2010 · External reference
Polyvalent vaccines for optimal coverage of potential T-cell epitopes in global HIV-1 variants
10.1038/nm1461 · 2007 · External reference
Accurate structure prediction of biomolecular interactions with AlphaFold 3
10.1038/s41586-024-07487-w · 2024 · External reference
Accurate prediction of protein structures and interactions using a three-track neural network
10.1126/science.abj8754 · 2021 · External reference
Highly accurate protein structure prediction with AlphaFold
10.1038/s41586-021-03819-2 · 2021 · External reference
Boltz-2: Towards Accurate and Efficient Binding Affinity Prediction
2025 · External reference
STAPLER: Efficient learning of TCR-peptide specificity prediction from full-length TCR-peptide data
2023 · External reference
Can we predict T cell specificity with digital biology and machine learning?
10.1038/s41577-023-00835-3 · 2023 · External reference
VDJdb in the pandemic era: a compendium of T cell receptors specific for SARS-CoV-2
10.1038/s41592-022-01578-0 · 2022 · External reference
The Immune Epitope Database (IEDB): 2024 update
10.1093/nar/gkae1092 · 2025 · External reference
Benchmarking solutions to the T-cell receptor epitope prediction problem: IMMREP22 workshop report
10.1016/j.immuno.2023.100024 · 2023 · External reference
Minimap2: pairwise alignment for nucleotide sequences
10.1093/bioinformatics/bty191 · 2018 · External reference
High-accuracy long-read amplicon sequences using unique molecular identifiers with Nanopore or PacBio sequencing
10.1038/s41592-020-01041-y · 2021 · External reference
Discovery of tumor-reactive T cell receptors by massively parallel library synthesis and screening
10.1038/s41587-024-02210-6 · 2025 · External reference
PyDESeq2: a python package for bulk RNA-seq differential expression analysis
10.1093/bioinformatics/btad547 · 2023 · External reference
Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2
10.1186/s13059-014-0550-8 · 2014 · External reference
Isolation of a Structural Mechanism for Uncoupling T Cell Receptor Signaling from Peptide-MHC Binding
10.1016/j.cell.2018.06.017 · 2018 · External reference
Reversed T Cell Receptor Docking on a Major Histocompatibility Class I Complex Limits Involvement in the Immune Response
10.1016/j.immuni.2016.09.007 · 2016 · External reference
Efficient T cell activation requires an optimal dwell-time of interaction between the TCR and the pMHC complex
10.1038/85286 · 2001 · External reference
High-throughput T cell receptor engineering by functional screening identifies candidates with enhanced potency and specificity
10.1016/j.immuni.2022.09.004 · 2022 · External reference
Tuning T cell receptor sensitivity through catch bond engineering
10.1126/science.abl5282 · 2022 · External reference
Flexible Distance-Based TCR Analysis in Python with tcrdist3
10.1007/978-1-0716-2712-9_16 · 2022 · External reference
AlphaBridge: tools for the analysis of predicted macromolecular complexes
10.1016/j.str.2026.08.011 · 2026 · External reference
Identifying specificity groups in the T cell receptor repertoire
10.1038/nature22976 · 2017 · External reference
Cryo-EM model validation recommendations based on outcomes of the 2019 EMDataResource challenge
10.1038/s41592-020-01051-w · 2021 · External reference
A new generation of crystallographic validation tools for the protein data bank
10.1016/j.str.2011.08.006 · 2011 · External reference
The resting and ligand-bound states of the membrane-embedded human T-cell receptor–CD3 complex
10.1038/s41467-025-66939-7 · 2025 · External reference
An Evaluation of Biomolecular Energetics Learned by AlphaFold
2025 · External reference
Predicting specificity of TCR-pMHC interactions using machine-learning and biophysical models
10.1016/j.cels.2026.101700 · 2026 · External reference
Protenix-v2: Broadening the Reach of Structure Prediction and Biomolecular Design
2026 · External reference
Unresolved reference
External reference
Scalable TCR synthesis and screening enable antigen reactivity mapping in vitiligo
10.1016/j.immuni.2026.01.001 · 2026 · External reference
Compact CRISPR genetic screens enabled by improved guide RNA library cloning
10.1186/s13059-023-03132-3 · 2024 · External reference
gscreend: Modelling asymmetric count ratios in CRISPR screens to decrease experiment size and improve phenotype detection
10.1186/s13059-020-1939-1 · 2020 · External reference
Unresolved reference
External reference
IPD-IMGT/HLA Database
2020 · External reference
IMGT®, the international ImMunoGeneTics information system® 25 years on
10.1093/nar/gku1056 · 2015 · External reference
Protein interaction networks revealed by proteome coevolution
10.1126/science.aaw6718 · 2019 · External reference
Generation of stable monoclonal antibody–producing B cell receptor–positive human memory B cells by genetic programming
10.1038/nm.2071 · 2010 · External reference
Low and variable tumor reactivity of the intratumoral TCR repertoire in human cancers
10.1038/s41591-018-0266-5 · 2019 · External reference
Efficient Lentiviral Transduction and Transgene Expression in Primary Human B Cells
10.1089/hgtb.2012.160 · 2012 · External reference
Pydna: a simulation and documentation tool for DNA assembly strategies using python
10.1186/s12859-015-0544-x · 2015 · External reference
VSEARCH: a versatile open source tool for metagenomics
10.7717/peerj.2584 · 2016 · External reference
Exploring Network Structure, Dynamics, and Function using NetworkX
10.25080/tcwv9851 · 2008 · External reference
Predicting MHC-I ligands across alleles and species: how far can we go?
10.1186/s13073-025-01450-8 · 2025 · External reference
UCSF ChimeraX: Tools for structure building and analysis
10.1002/pro.4792 · 2023 · External reference
Scikit-Learn: Machine Learning in Python
2018 · External reference
A set of experimentally validated, mutually orthogonal primers for combinatorially specifying genetic components
2018 · External reference
Comprehensive Profiling of Four Base Overhang Ligation Fidelity by T4 DNA Ligase and Application to DNA Assembly
10.1021/acssynbio.8b00333 · 2018 · External reference
makeTCR: A Modular Platform for Rapid, Flexible, Scalable, Single-Step T Cell Receptor Synthesis
2025 · External reference
Unresolved reference
2009 · External reference
Generation of peptide–MHC class I complexes through UV-mediated ligand exchange
10.1038/nprot.2006.121 · 2006 · External reference
Improved T cell receptor antigen pairing through data-driven filtering of sequencing information from single cells
10.7554/elife.81810 · 2023 · External reference
Anthem: a user customised tool for fast and accurate prediction of binding between peptides and HLA class I molecules
10.1093/bib/bbaa415 · 2021 · External reference
Nanopore sequencing with unique molecular identifiers enables accurate mutation analysis and haplotyping in the complex lipoprotein(a) KIV-2 VNTR
10.1186/s13073-024-01391-8 · 2024 · External reference
Error filtering, pair assembly and error correction for next-generation sequencing reads
10.1093/bioinformatics/btv401 · 2015 · External reference
