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ProteomicsMetabolic labelling and LC-MS/MS-based identification of IL-1α-induced secreted proteomes from epithelial cells in the presence or absence of serum
The unbiased identification of cytokine-induced, secreted proteins from cells cultured in serum-containing medium is challenging. Here, we describe an experimental and bioinformatics workflow to label IL-1α-regulated proteins in living cells with the methionine analogue L-homopropargylglycine (L-HPG...
ORGANISM(S): Homo sapiens (Human) 
2023-03-21 | PXD040974 | Pride
Lc-msms Affinity proteomics Metabolic labeling Il-1 alpha Hpg-labeling Secretome 
TranscriptomicsTranslation value of the bleomycin rat model for the treatment of patients with Idiopathic Pulmonary Fibrosis (IPF)
Intratracheal application of bleomycin is known to induce inflammatory and fibrotic reactions in the lung within a short period of time and histological features include infiltration of inflammatory cells, collagen deposition and obliteration of alveolar spaces. Because some of these features are fo...
ORGANISM(S): Rattus norvegicus 
2014-10-28 | E-GEOD-48455 | biostudies-arrayexpress
ProteomicsDynamic proximity based interactome of the transcription factor RELA to identify gene-regulatory networks revealed
Using p65-miniTurbo fusion proteins in HeLa cells, we identified by biotin tagging > 350 RELA interactors from untreated and IL-1a-stimulated cells, including many TFs (47 % of all interactors) and > 50 epigenetic regulators belonging to different classes of chromatin remodeling complexes.
ORGANISM(S): Homo sapiens (Human) 
2024-11-04 | PXD045888 | Pride
Lc-msms Rela Affinity proteomics Turbo id Genetic networks P65 nf-kb Interactome 
TranscriptomicsCyclin-dependent kinase 6 is a chromatin-bound cofactor for nuclear factor kappaB-dependent gene expression [Agilent]
Given the intimate link between inflammation and dysregulated cell proliferation in cancer we investigated cytokine-triggered gene expression in different cell cycle stages. High density microarray analysis revealed that G1 release primes and cooperates with the cytokine-driven gene response. This e...
ORGANISM(S): Homo sapiens 
2013-12-31 | E-GEOD-52465 | biostudies-arrayexpress
TranscriptomicsMyeloid cell expression of COMMD1 is required to restrain pro-inflammatory gene expression and tissue inflammation
Inflammation is a hallmark of multiple disease processes, including inflammatory bowel disease (IBD). The transcription factor NF-kappaB plays a critical role in this response through its effects on pro-inflammatory gene expression. Consequently, homeostatic mechanisms that control NF-kappaB activit...
ORGANISM(S): Mus musculus 
2014-05-19 | E-GEOD-53368 | biostudies-arrayexpress
TranscriptomicsIntegrative phenotypic and transcriptomic validation of an alveolar-like macrophage model reveals early host–pathogen dynamics during Aspergillus fumigatus infection
The saprophytic mold Aspergillus fumigatus produces small (2-3 µm) airborne spores (conidia) that can reach the lung alveoli upon inhalation. There, they encounter the surfactant-rich environment of the alveolar epithelium and initiate swelling and germination. Primary alveolar macrophages are essen...
ORGANISM(S): Homo sapiens 
2026-10-02 | E-MTAB-17130 | biostudies-arrayexpress
TranscriptomicsThe activation of IL-1-induced enhancers depends on TAK1 kinase activity and NF-kappaB p65 II
The inflammatory gene response requires activation of the protein kinase TAK1, but it is currently unknown how TAK1-derived signals coordinate transcriptional programs in the genome. We determined the genome-wide binding of the TAK1-controlled NF-M-NM-:B subunit p65 in relation to active enhancers a...
ORGANISM(S): Homo sapiens 
2014-12-17 | E-GEOD-64237 | biostudies-arrayexpress
TranscriptomicsThe activation of IL-1-induced enhancers depends on TAK1 kinase activity and NF-kappaB p65 I
The inflammatory gene response requires activation of the protein kinase TAK1, but it is currently unknown how TAK1-derived signals coordinate transcriptional programs in the genome. We determined the genome-wide binding of the TAK1-controlled NF-M-NM-:B subunit p65 in relation to active enhancers a...
ORGANISM(S): Homo sapiens 
2014-12-17 | E-GEOD-64201 | biostudies-arrayexpress
UnknownThe proximity-based protein interactome and regulatory logics of the transcription factor p65 NF-kappaB / RELA
Not available
S-SCDT-10_1038-S44319-024-00339-8 | biostudies-other
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