Journal ArticleDOI
Small intestinal resident eosinophils maintain gut homeostasis following microbial colonization
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TLDR
The colonization of GF mice activated small intestinal eosinophils as mentioned in this paper , which led to the activation of colonized mice in response to microbes regulated villous size alterations, macrophage maturation, epithelial barrier integrity and intestinal transit.About:
This article is published in Immunity.The article was published on 2022-07-01. It has received 13 citations till now. The article focuses on the topics: Lamina propria & Biology.read more
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Faecalibaculum rodentium remodels retinoic acid signaling to govern eosinophil-dependent intestinal epithelial homeostasis.
Y. Grace Cao,Sena Bae,Jannely Villarreal,M. Louis Moy,Eunyoung Chun,Monia Michaud,Jessica K. Lang,Jonathan N. Glickman,Lior Lobel,Wendy S. Garrett +9 more
TL;DR: In this paper , the authors identify a retinoic acid-eosinophil-interferon-γ-dependent circuit by which the microbiota modulates duodenal epithelial homeostasis.
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Active eosinophils regulate host defence and immune responses in colitis
Alessandra Gurtner,Costanza Borrelli,Ignacio Gonzalez-Perez,Karsten Bach,Ilhan Erkin Acar,Nicolás Gonzalo Núñez,Daniel Crepaz,Kristina Handler,Vivian Vu,Atefeh Lafzi,Kristin Stirm,Deeksha Raju,J. Gschwend,Konrad Basler,Christoph Schneider,Emma Slack,Tomas Valenta,Burkhard Becher,Philippe Krebs,Andreas E. Moor,Isabelle C. Arnold +20 more
TL;DR: In this paper , a comprehensive single-cell transcriptomic profiling of mouse eosinophils is presented, which reveals a mechanism by which interleukin-33 (IL-33) and interferon-γ (IFNγ) induce the accumulation of active eosINophils in the inflamed colon.
Journal ArticleDOI
Innate lymphoid cells: More than just immune cells
TL;DR: How ILCs participate in the physiologic function of the tissue in which they reside and how physiological cues, in particular neural inputs control their homeostatic activity are highlighted.
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IL-4 and IL-13: Regulators and Effectors of Wound Repair.
TL;DR: In this article , the authors discuss the evidence that the canonical type-2 cytokines, IL-4 and IL-13, are integral to the tissue repair process through two main pathways.
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Regulation of innate immune system function by the microbiome: Consequences for tumor immunity and cancer immunotherapy.
TL;DR: In this article , the authors considered the current knowledge on the role of the microbiota in shaping host innate immune responses in cancer and found that the microbiota can mediate the priming of innate cells at mucosal tissues and determine the strength of immune responses mediated by such cells when they migrate to non-mucosal tissues, having an impact on cancer.
References
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NIH Image to ImageJ: 25 years of image analysis
TL;DR: The origins, challenges and solutions of NIH Image and ImageJ software are discussed, and how their history can serve to advise and inform other software projects.
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edgeR: a Bioconductor package for differential expression analysis of digital gene expression data.
TL;DR: EdgeR as mentioned in this paper is a Bioconductor software package for examining differential expression of replicated count data, which uses an overdispersed Poisson model to account for both biological and technical variability and empirical Bayes methods are used to moderate the degree of overdispersion across transcripts, improving the reliability of inference.
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limma powers differential expression analyses for RNA-sequencing and microarray studies
Matthew E. Ritchie,Belinda Phipson,Di Wu,Yifang Hu,Charity W. Law,Wei Shi,Gordon K. Smyth,Gordon K. Smyth +7 more
TL;DR: The philosophy and design of the limma package is reviewed, summarizing both new and historical features, with an emphasis on recent enhancements and features that have not been previously described.
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DADA2: High-resolution sample inference from Illumina amplicon data
Benjamin J. Callahan,Paul J. McMurdie,Michael J. Rosen,Andrew W. Han,Amy Jo A. Johnson,Susan Holmes +5 more
TL;DR: The open-source software package DADA2 for modeling and correcting Illumina-sequenced amplicon errors is presented, revealing a diversity of previously undetected Lactobacillus crispatus variants.
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MaxQuant enables high peptide identification rates, individualized p.p.b.-range mass accuracies and proteome-wide protein quantification.
Jiirgen Cox,Matthias Mann +1 more
TL;DR: MaxQuant, an integrated suite of algorithms specifically developed for high-resolution, quantitative MS data, detects peaks, isotope clusters and stable amino acid isotope–labeled (SILAC) peptide pairs as three-dimensional objects in m/z, elution time and signal intensity space and achieves mass accuracy in the p.p.b. range.