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Standardized whole-blood transcriptional profiling enables the deconvolution of complex induced immune responses

ABSTRACT: The study employs a standardized whole-blood stimulation systems to test the hypothesis that responses to Toll-like receptor ligands or whole microbes can be defined by the combined transcriptional signatures of key effector cytokines.

ORGANISM(S): Homo sapiens

PROVIDER: GSE85176 | GEO | 2016/08/04

SECONDARY ACCESSION(S): PRJNA336434

REPOSITORIES: GEO

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Standardized whole-blood transcriptional profiling enables the deconvolution of complex induced immune responses

Project description:The study employs a standardized whole-blood stimulation systems to test the hypothesis that responses to Toll-like receptor ligands or whole microbes can be defined by the combined transcriptional signatures of key effector cytokines. The study encompasses the analysis of 21 distinct whole blood stimulations from 25 healthy donors from the Milieu Interieur Cohort (www.clinicaltrials.gov identifier: NCT01699893)

2016-08-04 | E-GEOD-85176 | biostudies-arrayexpress

DNA methylation profiles for Standardized control samples

Project description:Genome-wide DNA methylation profiling of Standardized control samples were use to evaluate whether measurement reliability can be improved at probe level by various preprocessing pipelines

2021-05-14 | GSE174390 | GEO

DNA methylation profiles for Standardized control samples

Project description:DNA methylation profiles for Standardized control samples

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Transcription profiling of rainbow trout liver in response to standardized handling stress

Project description:We constructed a targeted cDNA microarray consisting of 147 rainbow trout (Oncorhynchus mykiss) genes with known function to examine the transcriptional response to a standardized handling stress.

2006-01-31 | E-MEXP-622 | biostudies-arrayexpress

Comparison of gene expression in macrophages tolerised by different toll-like receptor ligands

Project description:To investigate the similarity of toll-like receptor tolerance in macrophages stimulated with different toll-like receptor ligands we stimulated naïve or tolerant macrophages with ligands for TLR4, TLR2, TLR3 and TLR9. The data identifies a core set of genes that are tolerised by all ligands and genes that show TLR specific patterns.

2018-05-30 | GSE81291 | GEO

Genome-wide profiling of whole blood from patients with defects in Toll-like receptors (TLRs) and IL-1Rs (the TIR pathway) signaling

Project description:The objective of this study is to: 1) Characterize the innate immune responsiveness of patients with inborn errors in Toll-IL1 receptor signaling pathway (IRAK4, MyD88 deficiencies) compared to healthy subjects, through the analysis of blood leukocytes' transcriptional profiles after stimulation with ligands for the whole set of Toll-like receptors and IL-1Rs plus whole bacteria. 2) Understand the redundancies in TLR pathway in humans. 3) Explore the use of blood profiling approaches to assess the immune status of an individual by using Primary Immune Deficiencies as a proof of principle.

2014-10-26 | GSE25742 | GEO

BALF secretome and exosome proteomics

Project description:A systems-level pharmacoproteomics study of a standardized murine model of toll-like receptor (TLR)3-NFκB/RelA innated inflammation in the absence or presence of a highly selective Brd4 (ZL0454) or nonselective Bromodomain and Extraterminal domain inhibitor (JQ1).

2019-07-16 | PXD012060 | Pride

Generation and standardized, systemic phenotypic analysis of Kctd1 mutant mice

Project description:Increased levels of blood plasma urea were used as phenotypic parameter for establishing novel mouse models for kidney diseases on the genetic background of C3H inbred mice in the phenotype-driven Munich ENU mouse mutagenesis project. The phenotypically mutant line HST014 was established and further analyzed. The causative mutation was detected in the gene Kctd1 which leads to the amino acid exchange Kctd1I27N thereby affecting the functional BTB domain of the protein. This line is the first mouse model harbouring a Kctd1 mutation. Kctd1I27N homozygous mutant mice die perinatally. Standardized, systemic phenotypic analysis of heterozygous mutants was carried out in the German Mouse Clinic. Systematic morphological investigation of the external physical appearance found no mutation-specific differences. Main phenotypic changes were kidney dysfunction, minor cardiovascular and neurological alterations as well as low plasma corticosterone levels. Genome-wide RNA expression analysis at the age of 4 months revealed few regulated genes in brain and heart, and over 100 significantly regulated genes in kidneys of heterozygous mutants. Total RNA obtained from 4 mutant and 5 wild type control mice

2014-05-02 | E-GEOD-47005 | biostudies-arrayexpress

Generation and standardized, systemic phenotypic analysis of Kctd1 mutant mice

2014-05-02 | GSE47005 | GEO

Transcription profiling of mouse splenic and small intestine lamina propria macrophages

Project description:The intestinal immune system must elicit robust immunity against harmful pathogens but restrain immune responses directed against commensal microbes and dietary antigens. The mechanisms that maintain this dichotomy are poorly understood. Here we describe a population of CD11b+F4/80+CD11câ?? macrophages in the lamina propria (LP) that express several anti-inflammatory molecules including interleukin 10 (IL-10), but little or no pro-inflammatory cytokines, even upon stimulation with Toll-like receptor (TLR) ligands. These macrophages induced, in a manner dependent on IL-10, retinoic acid and exogenous transforming growth factor-Î², differentiation of FoxP3+ regulatory T cells. In contrast, LP CD11b+ dendritic cells elicited IL-17 production. This IL-17 production was suppressed by LP macrophages, indicating that a dynamic interplay between these subsets may influence the balance between immune activation and tolerance. Splenic or small intestine lamina propria CD11b+11c- cells were isolated for RNA extraction and hybridization on Affymetrix microarrays. We sought to determine the unique genetic profile of small intestine lamina propria CD11b+11c- cells. Experiment Overall Design: 4 samples analyzed, 2 spleen and 2 intestine

2008-06-16 | E-GEOD-8868 | biostudies-arrayexpress

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