Raw data quality control Sequence alignment with IMGT database CDR3 amino acid abundancy analysis CDR3 length distribution V gene usage analysis Top V(D)J analysis Diversity analysis For customized analysis, please inquire Deliverables Project reports and FASTQ files ...
VDJdb in 2019:database extension, new analysis infrastructure and a T-cell receptor motifcompendium. Nucleic Acids Res 48: D1057–D1062 (2020). doi: 10.1093/nar/gkz874 [3] Zhang W, et al. A framework forhighly multiplexed dextramer mapping and prediction of T cell receptorsequences to ...
[3] Chen S Y, Yue T, Lei Q, et al. TCRdb: a comprehensive database for T-cell receptor sequences with powerful search function[J]. Nucleic acids research, 2021, 49(D1): D468-D474. [4] Shugay M, Bagaev D V, Turchaninova M A, et al. VDJtools: unifying post-analysis of ...
The ability to predict TCRs for novel epitopes using structural and sequence information is promising, and broadening the repository of experimental TCR–epitope data could further improve the precision of epitope–TCR binding predictions.doi:10.1093/bib/bbae210Ji, Hongchen...
VDJmatch is a command-line tool designed for matching T-cell receptor (TCR) repertoires against a database of TCR sequences with known antigen specificity. VDJmatch implements an API for interacting and querying theVDJdb database, and serves as a backend forVDJdb web browser. VDJmatch will aut...
An ultra-sensitive and precise tool for characterizing T cell CDR3 sequences in TCR-seq and RNA-seq data. bioinformaticstcrtcr-repertoirebioinformatics-tool UpdatedNov 2, 2023 Julia A react.js frontend for Substrate TCR runtime. blockchaintcrsubstratepolkadotparity-substrate ...
We describe the establishment and current content of the ImmuneCODE™ database, which includes hundreds of millions of T-cell Receptor (TCR) sequences from over 1,400 subjects exposed to or infected with the SARS-...
(example in Supplementary Fig.1a). TCR sequences were analyzed using an algorithm to predict antigen specificity: CDR3 sequences were compared to the McPAS-TCR database of TCRs of known antigenic specificity (http://friedmanlab.weizmann.ac.il/McPAS-TCR/42) and sequence similarities were ...
(Fig.1a). Mutation of this residue to leucine alters the peptide sequence to SIYLYYGL (L4), significantly reducing the TCR–pMHC 3D binding affinity and rendering the peptide non-stimulatory for the 2C-TCR (Fig.1b). Additionally, the binding strength is influenced by interactions between the...
A large-scale database of T-cell receptor beta (TCRbeta) sequences and binding associations from natural and synthetic exposure to SARS-CoV-2. Res Sq. 2020. https://doi.org/10.21203/rs.3.rs-51964/v1. Article PubMed PubMed Central Google Scholar Goncharov M, Bagaev D, Shcherbinin D...