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A systematic comparison of FOSL1, FOSL2 and BATF-mediated transcriptional regulation during early human Th17 differentiation
Th17 cells are essential for protection against extracellular pathogens, but their aberrant activity can cause autoimmunity. Molecular mechanisms that dictate Th17 cell-differentiation have been extensively studied using ...
Pancreas Whole Tissue Transcriptomics Highlights the Role of the Exocrine Pancreas in Patients With Recently Diagnosed Type 1 Diabetes
<p>Although type 1 diabetes (T1D) is primarily a disease of the pancreatic beta-cells, understanding of the disease-associated alterations in the whole pancreas could be important for the improved treatment or the prevention ...
Statistical and machine learning methods to study human CD4+ T cell proteome profiles
Mass spectrometry proteomics has become an important part of modern immunology, making major contributions to understanding protein expression levels, subcellular localizations, posttranslational modifications, and ...
Quantitative genome-scale metabolic modeling of human CD4+ T cell differentiation reveals subset-specific regulation of glycosphingolipid pathways
<p>T cell activation, proliferation, and differentiation involve metabolic reprogramming resulting from the interplay of genes, <a href="https://www.sciencedirect.com/topics/neuroscience/proteome" title="Learn more about proteins from ScienceDirect's AI-generated Topic Pages">proteins</a>, and metabolites. Here, we aim to understand the <a href="https://www.sciencedirect.com/topics/biochemistry-genetics-and-molecular-biology/metabolic-pathways" title="Learn more about metabolic pathways from ScienceDirect's AI-generated Topic Pages">metabolic pathways</a> involved in the activation and functional differentiation of human CD4<sup>+</sup> T cell subsets (T helper [Th]1, Th2, Th17, and induced regulatory T [iTreg] cells). Here, we combine genome-scale metabolic modeling, gene expression data, and targeted and non-targeted <a href="https://www.sciencedirect.com/topics/biochemistry-genetics-and-molecular-biology/lipidomics" title="Learn more about lipidomics from ScienceDirect's AI-generated Topic Pages">lipidomics</a> experiments, together with in vitro <a href="https://www.sciencedirect.com/topics/immunology-and-microbiology/gene-knockdown" title="Learn more about gene knockdown from ScienceDirect's AI-generated Topic Pages">gene knockdown</a> experiments, and show that human CD4<sup>+</sup> T cells undergo specific metabolic changes during activation and functional differentiation. In addition, we confirm the importance of <a href="https://www.sciencedirect.com/topics/agricultural-and-biological-sciences/ceramide" title="Learn more about ceramide from ScienceDirect's AI-generated Topic Pages">ceramide</a> and <a href="https://www.sciencedirect.com/topics/agricultural-and-biological-sciences/glycosphingolipid" title="Learn more about glycosphingolipid from ScienceDirect's AI-generated Topic Pages">glycosphingolipid</a> <a href="https://www.sciencedirect.com/topics/biochemistry-genetics-and-molecular-biology/anabolism" title="Learn more about biosynthesis from ScienceDirect's AI-generated Topic Pages">biosynthesis</a> pathways in Th17 differentiation and effector functions. Through in vitro gene knockdown experiments, we substantiate the requirement of <a href="https://www.sciencedirect.com/topics/neuroscience/serine-palmitoyltransferase" title="Learn more about serine palmitoyltransferase from ScienceDirect's AI-generated Topic Pages">serine palmitoyltransferase</a> (SPT), a de novo <a href="https://www.sciencedirect.com/topics/agricultural-and-biological-sciences/sphingolipid" title="Learn more about sphingolipid from ScienceDirect's AI-generated Topic Pages">sphingolipid</a> pathway in the expression of <a href="https://www.sciencedirect.com/topics/immunology-and-microbiology/proinflammatory-cytokine" title="Learn more about proinflammatory cytokines from ScienceDirect's AI-generated Topic Pages">proinflammatory cytokines</a> (interleukin [IL]-17A and IL17F) by <a href="https://www.sciencedirect.com/topics/immunology-and-microbiology/th17-cell" title="Learn more about Th17 cells from ScienceDirect's AI-generated Topic Pages">Th17 cells</a>. Our findings provide a comprehensive resource for selective manipulation of CD4<sup>+</sup> T cells under disease conditions characterized by an imbalance of Th17/natural Treg (nTreg) cells.</p>...
Umbilical cord blood DNA methylation in children who later develop type 1 diabetes
<p><strong>Aims/hypothesis:</strong> Distinct DNA methylation patterns have recently been observed to precede type 1 diabetes in whole blood collected from young children. Our aim was to determine whether perinatal DNA ...
An Infancy-Onset 20-Year Dietary Counselling Intervention and Gut Microbiota Composition in Adulthood
The randomized controlled Special Turku Coronary Risk Factor Intervention Project (STRIP) has completed a 20-year infancy-onset dietary counselling intervention to reduce exposure to atherosclerotic cardiovascular disease ...
Long Intergenic Noncoding RNA MIAT as a Regulator of Human Th17 Cell Differentiation
T helper 17 (Th17) cells protect against fungal and bacterial infections and are implicated in autoimmunity. Several long intergenic noncoding RNAs (lincRNA) are induced during Th17 differentiation, however, their contribution ...
COVID-19-specific transcriptomic signature detectable in blood across multiple cohorts
The coronavirus disease 2019 (COVID-19) caused by the severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) is spreading across the world despite vast global vaccination efforts. Consequently, many studies have ...
Tool evaluation for the detection of variably sized indels from next generation whole genome and targeted sequencing data
<p>Insertions and deletions (indels) in human genomes are associated with a wide range of phenotypes, including various clinical disorders. High-throughput, next generation sequencing (NGS) technologies enable the detection ...