AIMC Topic: HLA Antigens

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Cross-organ hierarchy of HLA molecular mismatches in donor-specific antibody development in solid organ transplantations.

Cell reports. Medicine May 30, 2025
Donor-specific antibodies (DSAs) against human leukocyte antigen (HLA) play a crucial role in antibody-mediated rejection, a major barrier to successful organ transplantation. Donor-recipient HLA molecular incompatibility critically influences DSA su...
T-Lymphocytes Male Middle Aged Humans Female HLA Antigens Isoantibodies Histocompatibility Testing Graft Rejection Organ Transplantation Tissue Donors
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Machine learning enhanced immunologic risk assessments for solid organ transplantation.

Scientific reports Mar 7, 2025
The purpose of this study was to enhance the prediction of solid-organ recipient and donor crossmatch compatibility by applying machine learning (ML). Prediction of crossmatch compatibility is complex and requires an understanding of the recipient an...
Tissue Donors Organ Transplantation HLA Antigens Machine Learning Humans Risk Assessment Alleles ROC Curve Histocompatibility Testing
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LRMAHpan: a novel tool for multi-allelic HLA presentation prediction using Resnet-based and LSTM-based neural networks.

Frontiers in immunology Nov 28, 2024
INTRODUCTION: The identification of peptides eluted from HLA complexes by mass spectrometry (MS) can provide critical data for deep learning models of antigen presentation prediction and promote neoantigen vaccine design. A major challenge remains in...
HLA Antigens Alleles Antigen Presentation Antigens, Neoplasm Mass Spectrometry Neural Networks, Computer Software Deep Learning Computational Biology Peptides Humans
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Cancer Immunotherapies Ignited by a Thorough Machine Learning-Based Selection of Neoantigens.

Advanced biology Jul 6, 2024
Identification of neoantigens, derived from somatic DNA alterations, emerges as a promising strategy for cancer immunotherapies. However, not all somatic mutations result in immunogenicity, hence, efficient tools to predict the immunogenicity of neoe...
Humans Receptors, Antigen, T-Cell Immunotherapy Antigens, Neoplasm Machine Learning Neoplasms HLA Antigens
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Fragment ion intensity prediction improves the identification rate of non-tryptic peptides in timsTOF.

Nature communications May 10, 2024
Immunopeptidomics is crucial for immunotherapy and vaccine development. Because the generation of immunopeptides from their parent proteins does not adhere to clear-cut rules, rather than being able to use known digestion patterns, every possible pro...
Tandem Mass Spectrometry Ions Databases, Protein HLA Antigens Humans Software Deep Learning Proteomics Peptides
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DeepHLAPred: a deep learning-based method for non-classical HLA binder prediction.

BMC genomics Nov 23, 2023
Human leukocyte antigen (HLA) is closely involved in regulating the human immune system. Despite great advance in detecting classical HLA Class I binders, there are few methods or toolkits for recognizing non-classical HLA Class I binders. To fill in...
Humans Neural Networks, Computer Histocompatibility Antigens Class I Deep Learning Histocompatibility Antigens Class II HLA Antigens
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HLA-II immunopeptidome profiling and deep learning reveal features of antigenicity to inform antigen discovery.

Immunity Jun 9, 2023
CD4+ T cell responses are exquisitely antigen specific and directed toward peptide epitopes displayed by human leukocyte antigen class II (HLA-II) on antigen-presenting cells. Underrepresentation of diverse alleles in ligand databases and an incomple...
Deep Learning HLA Antigens Captan SARS-CoV-2 Epitopes, T-Lymphocyte Peptides Humans COVID-19
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DapNet-HLA: Adaptive dual-attention mechanism network based on deep learning to predict non-classical HLA binding sites.

Analytical biochemistry Feb 3, 2023
Human leukocyte antigen (HLA) plays a vital role in immunomodulatory function. Studies have shown that immunotherapy based on non-classical HLA has essential applications in cancer, COVID-19, and allergic diseases. However, there are few deep learnin...
Humans HLA Antigens Histocompatibility Antigens Class I COVID-19 Binding Sites Deep Learning
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DeepSeqPanII: An Interpretable Recurrent Neural Network Model With Attention Mechanism for Peptide-HLA Class II Binding Prediction.

IEEE/ACM transactions on computational biology and bioinformatics Aug 8, 2022
Human leukocyte antigen (HLA) complex molecules play an essential role in immune interactions by presenting peptides on the cell surface to T cells. With significant deep learning progress, a series of neural network-based models have been proposed a...
HLA Antigens Histocompatibility Antigens Class I Peptides Protein Binding Humans Neural Networks, Computer
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Snowflake: A deep learning-based human leukocyte antigen matching algorithm considering allele-specific surface accessibility.

Frontiers in immunology Jul 29, 2022
Histocompatibility in solid-organ transplantation has a strong impact on long-term graft survival. Although recent advances in matching of both B-cell epitopes and T-cell epitopes have improved understanding of allorecognition, the immunogenic determ...
Humans Deep Learning HLA Antigens Algorithms Alleles Epitopes, B-Lymphocyte Solvents HLA-A Antigens
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