Publications by authors named "Valkiers S"

Article Synopsis
  • T cells and their receptors (TCRs) are essential for understanding immune responses but are often overlooked in single-cell analysis, which typically focuses on gene expression.
  • The authors created a comprehensive T cell atlas from 12 major studies, involving 500,000 T cells across various diseases, and found challenges in accurately labeling cell types using standard methods.
  • They propose a TCR-first approach, using a semi-supervised method, to better identify T cell characteristics and dynamics, potentially enhancing immunotherapy and diagnostic strategies.
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The role of T cell receptor (TCR) diversity in infectious disease susceptibility is not well understood. We use a systems immunology approach on three cohorts of herpes zoster (HZ) patients and controls to investigate whether TCR diversity against varicella-zoster virus (VZV) influences the risk of HZ. We show that CD4 T cell TCR diversity against VZV glycoprotein E (gE) and immediate early 63 protein (IE63) after 1-week culture is more restricted in HZ patients.

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Article Synopsis
  • Single-cell RNA sequencing (scRNA-seq) is a powerful technique for analyzing gene expression diversity in cells, particularly useful for studying complex cell populations like T cells.
  • Unlike bulk RNA sequencing, scRNA-seq can identify specific subtypes within these populations and recently enables simultaneous analysis of T-cell receptor (TCR) sequences alongside gene expression.
  • However, the analysis of scRNA-seq data faces challenges due to the lack of reliable methods for accurately annotating T-cell subtypes, as existing tools struggle to differentiate between the various T-cell populations effectively.
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Article Synopsis
  • The diversity of T cell receptors (TCRs) plays a key role in the immune response against various pathogens and is vital for the adaptive immune system.
  • When T cells encounter infections, they activate to fight these intruders, making the TCR repertoire a valuable source of information about past and current infections as well as vaccine responses.
  • The study utilizes machine learning techniques to analyze TCR data, specifically focusing on a yellow fever virus vaccination study, to identify specific TCRs that respond to the virus before and after vaccination.
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Article Synopsis
  • Scientists created a new tool called ClusTCR to help group T-cell receptors (TCRs) more quickly and efficiently, even when there are millions of them.
  • ClusTCR works really fast and is as accurate as other methods, helping researchers understand how T-cells recognize different parts of viruses or bacteria.
  • You can get ClusTCR for free online, and it works with Python, making it easy for scientists to use in their studies.
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The Avogadro constant links the atomic and the macroscopic properties of matter. Since the molar Planck constant is well known via the measurement of the Rydberg constant, it is also closely related to the Planck constant. In addition, its accurate determination is of paramount importance for a definition of the kilogram in terms of a fundamental constant.

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Results are reported of a study concerning the variation in isotopic composition of a limited number of neon samples of commercial origin and the resulting influence on the temperature of the triple point of this element. All seven neon samples investigated were found to contain more 22Ne than neon in air, and the amount fraction of 22Ne varied by as much as 0.2% from sample to sample.

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In IMEP-8, two samples of high purity CO(2)(g), with different carbon and oxygen isotope ratios were distributed to 27 participants, originating from 14 countries and from various isotopic measurement domains (geochemistry, atmospheric and food chemistry), but particularly set up for food laboratories. In total 19 laboratories reported results. The outcome of this comparison exercise shows that the laboratories reported carbon and oxygen isotope results in good agreement with the reference values across the domains.

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Down-scaling of a cocondensation method to produce volatile pentakis(trifluorophosphine)iron(0) for measuring isotope ratios by gas source mass spectrometry is described. Starting from 10 mg of iron, this method allows synthesis of a sufficient amount of Fe(PF(3))(5) that can be used to measure iron content and/or isotope ratios in real-life samples. The advantage over thermal ionisation mass spectrometry is that more precise determinations of ratios/amounts are possible.

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New isotope abundance and relative atomic mass (atomic weight) values - with low, hitherto unattained uncertainty - are reported for two previously described silicon reference materials using a well-known method with an improved isotope-ratio mass spectrometer. These new values are directly traceable to the SI, more specifically to the unit for amount of substance, the mole, and independent of the SI unit of mass and of the Avogadro constant. Besides the residual mass-spectrometric uncertainties, these new values depend in effect only on a recently published direct comparison of the cyclotron frequency in a Penning trap of Si with that of C.

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This paper proposes a scheme of measurement sequences that has been used for the redetermination of the molar mass (atomic weight) of silicon at the Central Bureau for Nuclear Measurements (now Institute for Reference Materials and Measurements). This scheme avoids correlations among the measured ratios caused by normalizing all ion current measurements to that of the largest ion current. It also provides additional information for checking on the consistency of these ratios within a cycle of scans.

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In a series of gas mass-spectrometric measurements performed near the highest attainable accuracy, samples from two highly homogeneous batches of silicon crystals and silica powder were compared directly with a synthetic mixture of the three stable isotopes of silicon. Thereby, this work not only established the "absolute" atomic weight of these batches, but also makes portions of these batches available as an Isotopie Reference Material for accurate isotopic abundance measurements in geochemical and other isotope-abundance studies of silicon.

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