AIMC Topic: T-Lymphocytes

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Exploring single-cell data with deep multitasking neural networks.

Nature methods Oct 7, 2019
It is currently challenging to analyze single-cell data consisting of many cells and samples, and to address variations arising from batch effects and different sample preparations. For this purpose, we present SAUCIE, a deep neural network that comb...
T-Lymphocytes Single-Cell Analysis Cluster Analysis Dengue Humans Neural Networks, Computer
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BERMUDA: a novel deep transfer learning method for single-cell RNA sequencing batch correction reveals hidden high-resolution cellular subtypes.

Genome biology Aug 12, 2019
To fully utilize the power of single-cell RNA sequencing (scRNA-seq) technologies for identifying cell lineages and bona fide transcriptional signals, it is necessary to combine data from multiple experiments. We present BERMUDA (Batch Effect ReMoval...
Gene Expression Profiling Deep Learning Single-Cell Analysis Sequence Analysis, RNA Algorithms T-Lymphocytes Leukocytes, Mononuclear Pancreas Humans
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Cellular frustration algorithms for anomaly detection applications.

PloS one Jul 8, 2019
Cellular frustrated models have been developed to describe how the adaptive immune system works. They are composed by independent agents that continuously pair and unpair depending on the information that one sub-set of these agents display. The emer...
Data Mining Immune System Adaptive Immunity Support Vector Machine Models, Statistical Models, Biological Algorithms T-Lymphocytes Humans Artificial Intelligence
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Quantitative Prediction of the Landscape of T Cell Epitope Immunogenicity in Sequence Space.

Frontiers in immunology Apr 16, 2019
Immunodominant T cell epitopes preferentially targeted in multiple individuals are the critical element of successful vaccines and targeted immunotherapies. However, the underlying principles of this "convergence" of adaptive immunity among different...
Antigen Presentation Immunodominant Epitopes Adaptive Immunity Thermodynamics Major Histocompatibility Complex Machine Learning Computer Simulation T-Lymphocytes Computational Biology Datasets as Topic Epitopes, T-Lymphocyte Receptors, Antigen, T-Cell Humans
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Generating automated kidney transplant biopsy reports combining molecular measurements with ensembles of machine learning classifiers.

American journal of transplantation : official journal of the American Society of Transplantation and the American Society of Transplant Surgeons Apr 10, 2019
We previously reported a system for assessing rejection in kidney transplant biopsies using microarray-based gene expression data, the Molecular Microscope Diagnostic System (MMDx). The present study was designed to optimize the accuracy and stabilit...
Humans Machine Learning Female Aged Aged, 80 and over Young Adult Algorithms Kidney Transplantation Prognosis Child Follow-Up Studies Middle Aged Graft Rejection Gene Expression Profiling Adolescent Isoantibodies Adult Cohort Studies T-Lymphocytes Kidney Failure, Chronic Male Automation
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Diagnosis of T-cell-mediated kidney rejection in formalin-fixed, paraffin-embedded tissues using RNA-Seq-based machine learning algorithms.

Human pathology Oct 6, 2018
Molecular diagnosis is being increasingly used in transplant pathology to render more objective and quantitative determinations that also provide mechanistic and prognostic insights. This study performed RNA-Seq on biopsies from kidneys with stable f...
Humans Machine Learning Female Aged Algorithms Kidney Transplantation Formaldehyde Male Middle Aged Young Adult Sequence Analysis, RNA Adult Graft Rejection T-Lymphocytes Tissue Fixation Paraffin Embedding
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Towards the development of robot immune system: A combined approach involving innate immune cells and T-lymphocytes.

Bio Systems Aug 10, 2018
Mobile robots in uncertain and unstructuredenvironments frequently encounter faults. Therefore, an effective fault detection and recovery mechanism is required. One can possibly investigate natural systems to seek inspiration to develop systems that ...
Models, Immunological Immunity, Innate Robotics Biomimetics Equipment Failure Analysis Humans Algorithms Artificial Intelligence Computer Simulation Software T-Lymphocytes
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Using OWL reasoning to support the generation of novel gene sets for enrichment analysis.

Journal of biomedical semantics Feb 14, 2018
BACKGROUND: The Gene Ontology (GO) consists of over 40,000 terms for biological processes, cell components and gene product activities linked into a graph structure by over 90,000 relationships. It has been used to annotate the functions and cellular...
T-Lymphocytes Data Mining Neurotransmitter Agents Databases, Genetic Synapses Gene Ontology
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What Is the most Important for Elite Control: Genetic Background of Patient, Genetic Background of Partner, both or neither? Description of Complete Natural History within a Couple of MSM.

EBioMedicine Dec 7, 2017
BACKGROUND: We describe a homosexual man who strongly controlled HIV-1 for ten years despite lack of protective genetic background.
HIV-1 Male Homosexuality, Male Genetic Background Phylogeny Sexual Partners Humans HIV Infections Adult T-Lymphocytes
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Ab-initio conformational epitope structure prediction using genetic algorithm and SVM for vaccine design.

Computer methods and programs in biomedicine Oct 12, 2017
BACKGROUND AND OBJECTIVE: T-cell epitope structure identification is a significant challenging immunoinformatic problem within epitope-based vaccine design. Epitopes or antigenic peptides are a set of amino acids that bind with the Major Histocompati...
ROC Curve Algorithms Epitopes Humans Support Vector Machine T-Lymphocytes Vaccines Area Under Curve
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