AIMC Topic: Peptides
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Utilizing Computational Machine Learning Tools to Understand Immunogenic Breadth in the Context of a CD8 T-Cell Mediated HIV Response.
Frontiers in immunology
Feb 18, 2021
Predictive models are becoming more and more commonplace as tools for candidate antigen discovery to meet the challenges of enabling epitope mapping of cohorts with diverse HLA properties. Here we build on the concept of using two key parameters, div...
TAP 1.0: A robust immunoinformatic tool for the prediction of tumor T-cell antigens based on AAindex properties.
Computational biology and chemistry
Feb 8, 2021
Immunotherapy is a research area with great potential in drug discovery for cancer treatment. Because of the capacity of tumor antigens to activate the immune response and promote the destruction of tumor cells, they are considered excellent immunoth...
MATHLA: a robust framework for HLA-peptide binding prediction integrating bidirectional LSTM and multiple head attention mechanism.
BMC bioinformatics
Jan 6, 2021
BACKGROUND: Accurate prediction of binding between class I human leukocyte antigen (HLA) and neoepitope is critical for target identification within personalized T-cell based immunotherapy. Many recent prediction tools developed upon the deep learnin...
Energy-dependent protein folding: modeling how a protein folding machine may work.
F1000Research
Jan 5, 2021
Proteins fold robustly and reproducibly , but many cannot fold in isolation from cellular components. Despite the remarkable progress that has been achieved by the artificial intelligence approaches in predicting the protein native conformations, t...
Semi-supervised learning for somatic variant calling and peptide identification in personalized cancer immunotherapy.
BMC bioinformatics
Dec 30, 2020
BACKGROUND: Personalized cancer vaccines are emerging as one of the most promising approaches to immunotherapy of advanced cancers. However, only a small proportion of the neoepitopes generated by somatic DNA mutations in cancer cells lead to tumor r...
AnOxPePred: using deep learning for the prediction of antioxidative properties of peptides.
Scientific reports
Dec 8, 2020
Dietary antioxidants are an important preservative in food and have been suggested to help in disease prevention. With consumer demands for less synthetic and safer additives in food products, the food industry is searching for antioxidants that can ...
ENNAACT is a novel tool which employs neural networks for anticancer activity classification for therapeutic peptides.
Biomedicine & pharmacotherapy = Biomedecine & pharmacotherapie
Nov 27, 2020
The prevalence of cancer as a threat to human life, responsible for 9.6 million deaths worldwide in 2018, motivates the search for new anticancer agents. While many options are currently available for treatment, these are often expensive and impact t...
Noninvasive diagnostic of periprosthetic joint infection by urinary peptide markers: A preliminary study.
Journal of orthopaedic research : official publication of the Orthopaedic Research Society
Nov 25, 2020
Previous immunohistochemical analyses revealed altered protein expression in the periprosthetic membranes of patients with periprosthetic joint infection (PJI). Proteins are degraded to peptides that may pass the blood-kidney barrier depending on the...
Identification and validation of 174 COVID-19 vaccine candidate epitopes reveals low performance of common epitope prediction tools.
Scientific reports
Nov 24, 2020
The outbreak of SARS-CoV-2 (2019-nCoV) virus has highlighted the need for fast and efficacious vaccine development. Stimulation of a proper immune response that leads to protection is highly dependent on presentation of epitopes to circulating T-cell...
Better understanding and prediction of antiviral peptides through primary and secondary structure feature importance.
Scientific reports
Nov 6, 2020
The emergence of viral epidemics throughout the world is of concern due to the scarcity of available effective antiviral therapeutics. The discovery of new antiviral therapies is imperative to address this challenge, and antiviral peptides (AVPs) rep...
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