Results 91 to 100 of about 7,150 (221)

Is the vaccination-induced B cell receptor repertoire predictable?

ImmunoInformatics
Vaccines trigger an immune response that results in a population of memory cells that can quickly respond to subsequent antigen re-encounters. Most vaccines are designed to induce memory B cells with vaccine-specific B cell receptors (BCRs).
Eve Richardson, Lisa Willemsen, Pramod Shinde, Morten Nielsen, Bjoern Peters   +4 more
doaj   +1 more source

Differential binding affinity of mutated peptides for MHC class I is a predictor of survival in advanced lung cancer and melanoma [PDF]

, 2018
Background: Cancer mutations generate novel (neo-)peptides recognised by T cells, but the determinants of recognition are not well characterised. The difference in predicted class I major histocompatibility complex (MHC-I) binding affinity between wild ...
Ghorani, E, Lynch, M, McGranahan, N, Peggs, KS, Quezada, SA, Reading, JL, Rosenthal, R, Swanton, C   +7 more
core  

Challenges for the immunoglobulin and T cell receptor gene nomenclatures in the modern genomics era

ImmunoInformatics
For over thirty years, an approach to the nomenclatures of human immunoglobulin (IG) and T cell receptor (TR) genes has operated successfully and has been widely supported by the research community. The principles behind the human nomenclatures were then
Andrew M. Collins, Corey T. Watson, Henk-Jan van den Ham, Luc Teyton, Elisa Rosati, Yana Safonova   +5 more
doaj   +1 more source

Kernel methods in genomics and computational biology

, 2005
Support vector machines and kernel methods are increasingly popular in genomics and computational biology, due to their good performance in real-world applications and strong modularity that makes them suitable to a wide range of problems, from the ...
Vert, Jean-Philippe
core   +1 more source

Lessons learned from the IMMREP23 TCR-epitope prediction challenge

ImmunoInformatics
Here, we present the findings from IMMREP23, the second benchmark competition focused on predicting the specificity of TCR-pMHC interactions.The interaction of T cell receptors (TCR) towards their pMHC target is a cornerstone of the cellular immune ...
Morten Nielsen, Anne Eugster, Mathias Fynbo Jensen, Manisha Goel, Andreas Tiffeau-Mayer, Aurelien Pelissier, Sebastiaan Valkiers, María Rodríguez Martínez, Barthélémy Meynard-Piganeeau, Victor Greiff, Thierry Mora, Aleksandra M. Walczak, Giancarlo Croce, Dana L Moreno, David Gfeller, Pieter Meysman, Justin Barton   +16 more
doaj   +1 more source

Data mining antibody sequences for database searching in bottom-up proteomics

ImmunoInformatics
Mass spectrometry-based proteomics facilitates the identification and quantification of thousands of proteins but encounters challenges in measuring human antibodies due to their vast diversity.
Xuan-Tung Trinh, Rebecca Freitag, Konrad Krawczyk, Veit Schwämmle   +3 more
doaj   +1 more source

The gremlin in the works: why T cell receptor researchers need to pay more attention to germline reference sequences

ImmunoInformatics
The rise of T cell receptor (TCR) sequencing technologies is driving both new understandings of the immune system and the development of novel clinical platforms. Such analyses rely on comparing recombined TCR sequences to unrearranged germline reference
James M. Heather, Ayelet Peres, Gur Yaari, William Lees   +3 more
doaj   +1 more source

Building immune digital twins: An international and transdisciplinary community effort

ImmunoInformatics
Digital twins, initially developed for industrial applications, are set to make significant advancements in medicine and healthcare. They have demonstrated promising potential for drug development and personalised care, especially in cardiovascular ...
Anna Niarakis, Gary An, Luiz Ladeira, Noriko F. Hiroi, Athina Papadopoulou, Francis P. Crawley, Niloofar Nikaein, Laurence Calzone, Eirini Tsirvouli, Hasan Balci, Marina Esteban Medina, Lorenzo Veschini, Ozan Ozisik, Francesco Messina, Malvina Marku, Van Du T. Tran, Arnau Montagud, Nikola Schlosserova, Yashwanth Subbannayya, Martina Kutmon, Michael L. Blinov, Rahuman S Malik Sheriff, Robert Phair, Peter Hunter, Kristin Reiche, Jasmin Fisher, Liesbet Geris, Yaron Ilan, James A. Glazier, Philippe Moingeon, Reinhard Laubenbacher   +30 more
doaj   +1 more source

IApred: A versatile open-source tool for predicting protein antigenicity across diverse pathogens

ImmunoInformatics
Accurate prediction of protein antigenicity is crucial for vaccine development, diagnostic test design, and therapeutic protein engineering. However, existing tools face limitations in accessibility, computational efficiency, and pathogen diversity. Here,
Sebastian Miles, Gonzalo Menafra, Andrés Iriarte, Jose Alejandro Chabalgoity   +3 more
doaj   +1 more source

Where single-cell transcriptomics fails T cells: The misuse of unsupervised clustering for T-cell annotationThis perspective used publicly available data (DOI: 10.5281/zenodo.12569981; ).

ImmunoInformatics
The current state of single-cell transcriptomic interrogation typically consists of using an unsupervised clustering approach followed by expert opinion-based annotation.
Kerry A. Mullan, Sebastiaan Valkiers, Nicky de Vrij, Chen Li, Sara Verbandt, Ting Pu, Pieter Meysman   +6 more
doaj   +1 more source