AIMC Topic: Peptides

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Peptide arrays incubated with three collections of human sera from patients infected with mosquito-borne viruses.

F1000Research Nov 7, 2019
Global outbreaks caused by emerging or re-emerging arthropod-borne viruses (arboviruses) are becoming increasingly more common. These pathogens include the mosquito-borne viruses belonging to the and genera. These viruses often cause non-specific ...
Blood Chemical Analysis Enzyme-Linked Immunosorbent Assay Humans Flavivirus Animals Zika Virus Infection Culicidae Zika Virus Peptides Insecta
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DeepHLApan: A Deep Learning Approach for Neoantigen Prediction Considering Both HLA-Peptide Binding and Immunogenicity.

Frontiers in immunology Nov 1, 2019
Neoantigens play important roles in cancer immunotherapy. Current methods used for neoantigen prediction focus on the binding between human leukocyte antigens (HLAs) and peptides, which is insufficient for high-confidence neoantigen prediction. In th...
CD8-Positive T-Lymphocytes Mutation HLA Antigens Peptides Neoplasms Deep Learning Epitopes, T-Lymphocyte Humans Antigens, Neoplasm
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Uncovering Thousands of New Peptides with Sequence-Mask-Search Hybrid Peptide Sequencing Framework.

Molecular & cellular proteomics : MCP Oct 7, 2019
Typical analyses of mass spectrometry data only identify amino acid sequences that exist in reference databases. This restricts the possibility of discovering new peptides such as those that contain uncharacterized mutations or originate from unexpec...
Phosphopeptides Tandem Mass Spectrometry Datasets as Topic Sequence Analysis, Protein Humans HLA Antigens Peptides Amino Acid Sequence Deep Learning
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Fast and Accurate Bacterial Species Identification in Urine Specimens Using LC-MS/MS Mass Spectrometry and Machine Learning.

Molecular & cellular proteomics : MCP Oct 4, 2019
Fast identification of microbial species in clinical samples is essential to provide an appropriate antibiotherapy to the patient and reduce the prescription of broad-spectrum antimicrobials leading to antibioresistances. MALDI-TOF-MS technology has ...
Bacterial Proteins Humans Bacteriuria Machine Learning Peptides Bacteria Tandem Mass Spectrometry Proteomics Spectrometry, Mass, Matrix-Assisted Laser Desorption-Ionization Chromatography, Liquid
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PTPD: predicting therapeutic peptides by deep learning and word2vec.

BMC bioinformatics Sep 6, 2019
*: Background In the search for therapeutic peptides for disease treatments, many efforts have been made to identify various functional peptides from large numbers of peptide sequence databases. In this paper, we propose an effective computational mo...
Peptides Drug Discovery Deep Learning Computational Biology Databases, Nucleic Acid
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Improvement of Epitope Prediction Using Peptide Sequence Descriptors and Machine Learning.

International journal of molecular sciences Sep 5, 2019
In this work, we improved a previous model used for the prediction of proteomes as new B-cell epitopes in vaccine design. The predicted epitope activity of a queried peptide is based on its sequence, a known reference epitope sequence under specific ...
Amino Acid Sequence Epitope Mapping Machine Learning Peptides Humans ROC Curve Structure-Activity Relationship
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Artificial Intelligence Approach to Find Lead Compounds for Treating Tumors.

The journal of physical chemistry letters Jul 22, 2019
It has been demonstrated that MMP13 enzyme is related to most cancer cell tumors. The world's largest traditional Chinese medicine database was applied to screen for structure-based drug design and ligand-based drug design. To predict drug activity, ...
Ligands Proto-Oncogene Proteins c-bcl-2 Tumor Suppressor Protein p53 Binding Sites Databases, Protein Models, Molecular Mutation Matrix Metalloproteinase 13 Proto-Oncogene Proteins c-mdm2 Cyclin-Dependent Kinase 6 Databases, Pharmaceutical Algorithms Peptides Drug Design Cyclin-Dependent Kinase Inhibitor p16 Proteins Antineoplastic Agents Deep Learning Machine Learning
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Identification of a Multiplex Biomarker Panel for Hypertrophic Cardiomyopathy Using Quantitative Proteomics and Machine Learning.

Molecular & cellular proteomics : MCP Jun 26, 2019
Hypertrophic cardiomyopathy (HCM) is defined by pathological left ventricular hypertrophy (LVH). It is the commonest inherited cardiac condition and a significant number of high risk cases still go undetected until a sudden cardiac death (SCD) event....
Phenotype Prospective Studies Biomarkers Young Adult Adult Mutation Female Severity of Illness Index Cardiomyopathy, Hypertrophic Humans Case-Control Studies Sarcomeres Male Aged Hypertrophy, Left Ventricular Proteomics Machine Learning Middle Aged Predictive Value of Tests Peptides
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The Classifying Autoencoder: Gaining Insight into Amyloid Assembly of Peptides and Proteins.

The journal of physical chemistry. B Jun 13, 2019
Despite the importance of amyloid formation in disease pathology, the understanding of the primary structure?activity relationship for amyloid-forming peptides remains elusive. Here we use a new neural-network based method of analysis: the classifyin...
Protein Aggregates Dimerization Amyloidogenic Proteins Amino Acids Amyloid Hydrophobic and Hydrophilic Interactions Databases, Factual Peptides Machine Learning
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MHCSeqNet: a deep neural network model for universal MHC binding prediction.

BMC bioinformatics May 28, 2019
BACKGROUND: Immunotherapy is an emerging approach in cancer treatment that activates the host immune system to destroy cancer cells expressing unique peptide signatures (neoepitopes). Administrations of cancer-specific neoepitopes in the form of synt...
Alleles Histocompatibility Antigens Class I Databases, Protein Humans Area Under Curve Peptides Models, Biological Protein Binding Neural Networks, Computer Mice Software Proteome Animals
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