AIMC Topic: Leukocytes, Mononuclear

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Sparsity-Penalized Stacked Denoising Autoencoders for Imputing Single-Cell RNA-Seq Data.

Genes May 11, 2020
Single-cell RNA-seq (scRNA-seq) is quite prevalent in studying transcriptomes, but it suffers from excessive zeros, some of which are true, but others are false. False zeros, which can be seen as missing data, obstruct the downstream analysis of sing...
Datasets as Topic Fetal Blood Data Compression Humans Computer Simulation Leukocytes, Mononuclear Transcriptome Deep Learning Single-Cell Analysis RNA-Seq Proteins RNA
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Deep learning enables accurate clustering with batch effect removal in single-cell RNA-seq analysis.

Nature communications May 11, 2020
Single-cell RNA sequencing (scRNA-seq) can characterize cell types and states through unsupervised clustering, but the ever increasing number of cells and batch effect impose computational challenges. We present DESC, an unsupervised deep embedding a...
Algorithms Bone Marrow Animals Humans Retina Leukocytes, Mononuclear RNA-Seq Gene Expression Regulation Deep Learning Mice Macaca Single-Cell Analysis Monocytes Islets of Langerhans Cluster Analysis
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Purification of viable peripheral blood mononuclear cells for biobanking using a robotized liquid handling workstation.

Journal of translational medicine Nov 12, 2019
BACKGROUND: The purification of peripheral blood mononuclear cells (PBMCs) by means of density gradient (1.07 g/mL) centrifugation is one of the most commonly used methods in diagnostics and research laboratories as well as in biobanks. Here, we eval...
Robotics Lymphocytes Biological Specimen Banks Erythrocytes Automation Male Middle Aged Leukocytes, Mononuclear Cell Survival Preservation, Biological Erythrocyte Count Specimen Handling Cell Separation Humans Female Reproducibility of Results Aged Aged, 80 and over Adult
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The feasibility of developing biomarkers from peripheral blood mononuclear cell RNAseq data in children with juvenile idiopathic arthritis using machine learning approaches.

Arthritis research & therapy Nov 9, 2019
BACKGROUND: The response to treatment for juvenile idiopathic arthritis (JIA) can be staged using clinical features. However, objective laboratory biomarkers of remission are still lacking. In this study, we used machine learning to predict JIA activ...
Humans Machine Learning Databases, Factual Biomarkers Female Sequence Analysis, RNA Male Biological Products Leukocytes, Mononuclear Feasibility Studies Child Methotrexate Gene Regulatory Networks Arthritis, Juvenile
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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...
Single-Cell Analysis Sequence Analysis, RNA Pancreas Algorithms T-Lymphocytes Leukocytes, Mononuclear Gene Expression Profiling Humans Deep Learning
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scGen predicts single-cell perturbation responses.

Nature methods Jul 29, 2019
Accurately modeling cellular response to perturbations is a central goal of computational biology. While such modeling has been based on statistical, mechanistic and machine learning models in specific settings, no generalization of predictions to ph...
Computational Biology Species Specificity Machine Learning Phagocytes Algorithms Humans Computer Simulation Leukocytes, Mononuclear Animals Gene Expression Profiling Transcriptome Single-Cell Analysis Mice
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Biomedical Image Processing with Containers and Deep Learning: An Automated Analysis Pipeline: Data architecture, artificial intelligence, automated processing, containerization, and clusters orchestration ease the transition from data acquisition to insights in medium-to-large datasets.

BioEssays : news and reviews in molecular, cellular and developmental biology May 16, 2019
Here, a streamlined, scalable, laboratory approach is discussed that enables medium-to-large dataset analysis. The presented approach combines data management, artificial intelligence, containerization, cluster orchestration, and quality control in a...
Humans Data Analysis Leukocytes, Mononuclear Microscopy Deep Learning Information Storage and Retrieval Image Processing, Computer-Assisted Electronic Data Processing Gold Database Management Systems Metal Nanoparticles
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Scalable analysis of cell-type composition from single-cell transcriptomics using deep recurrent learning.

Nature methods Mar 18, 2019
Recent advances in large-scale single-cell RNA-seq enable fine-grained characterization of phenotypically distinct cellular states in heterogeneous tissues. We present scScope, a scalable deep-learning-based approach that can accurately and rapidly i...
Databases, Genetic Cluster Analysis Brain Mapping Principal Component Analysis Retina RNA Mice Computational Biology Phenotype Sequence Analysis, RNA Gene Expression Profiling Computer Simulation Intestines Software Transcriptome Reproducibility of Results Inflammation Algorithms Deep Learning Animals Single-Cell Analysis Leukocytes, Mononuclear
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Morphological profiling using machine learning reveals emergent subpopulations of interferon-γ-stimulated mesenchymal stromal cells that predict immunosuppression.

Cytotherapy Nov 28, 2018
BACKGROUND: Although a preponderance of pre-clinical data demonstrates the immunosuppressive potential of mesenchymal stromal cells (MSCs), significant heterogeneity and lack of critical quality attributes (CQAs) based on immunosuppressive capacity l...
CD4-Positive T-Lymphocytes Lymphocyte Activation Humans Tissue Embedding Mesenchymal Stem Cells Cell Proliferation Machine Learning Cell Plasticity Coculture Techniques CD8-Positive T-Lymphocytes Cells, Cultured Immunosuppression Therapy Interferon-gamma Leukocytes, Mononuclear Stochastic Processes
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Selective cytotoxic and genotoxic activities of 5-(2-bromo-5-methoxybenzylidene)-thiazolidine-2,4-dione against NCI-H292 human lung carcinoma cells.

Pharmacological reports : PR Nov 22, 2017
BACKGROUND: Thiazolidine-2,4-dione ring system is used as a pharmacophore to build various heterocyclic compounds aimed to interact with biological targets. In the present study, benzylidene-2,4-thiazolidinedione derivatives (compounds 2-5) were synt...
Comet Assay Lung Neoplasms Humans Thiazolidinediones Mutagens Apoptosis Leukocytes, Mononuclear HL-60 Cells MCF-7 Cells K562 Cells Antineoplastic Agents DNA Fragmentation Cell Line, Tumor Cytotoxins
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