Praia tianmunica
Ontology highlight
ABSTRACT:
PROVIDER: PRJNA662150 | ENA |
REPOSITORIES: ENA
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Project description:Background. The mechanisms by which environmental risk factors (eg, stress) predispose to symptoms and gastric emptying (GE) disturbances in non-ulcer dyspepsia (NUD) is unknown. Our aims were to compare the circulating leukocytes’ epigenome between NUD patients with normal versus delayed and normal versus rapid GE. Methods. In 24 NUD patients, we evaluated gastrointestinal symptoms, GE (scintigraphy) and 3 promoter/enhancer-associated histone modifications (H3K4me3, H3K9ac, and H3K27ac) by chromatin immunoprecipitation-sequencing in buffy coats, then compared the genome-wide binding of histone marks between patients with normal versus delayed and normal versus rapid GE. Key results. GE was normal (9 patients), delayed (6 patients), or rapid (9 patients). Compared to normal GE, there was differential binding of H3K4me3, which marks active promoters, at 100 genes in delayed and 233 genes in rapid GE (FDR < 0.05). Delayed GE was associated with increased H3K4me3 binding at several genes that regulate T cell functions (eg, CD247, IL2RA, CD69, CD96, ICOS, ITK, and GRAP2); conversely, binding was reduced at genes that regulate neuronal synapses (ie, SYT6, SYT12, CDH2, CDH11, EFNB3, CAMK2B, and SHISA6) and neuronal nitric oxide synthase (NOS1). In rapid GE, genes related to opioid signaling (OPRD1, MAPK4, CAMK2B, and PDE1C), neuronal development, and synaptic functions bound less H3K4me3. No or few genes were differentially enriched with H3K9ac and H3K27ac. Conclusions. H3K4me3 discriminates among patients with normal, rapid, and delayed GE. Delayed GE is associated with alterations that suggest increased T-cell functions. Rapid GE is associated with changes suggesting reduced opioid signaling.
2021-12-26 | GSE139166 | GEO
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2020-12-16 | GSE131568 | GEO
Project description:This is genome-scale metabolic model of Saccharomyces cerevisiae as the representative yeast species for the clade Saccharomycetaceae. This model was generated through homology search using a fungal pan-GEM largely based on Yeast8 for Saccharomyces cerevisiae, in addition to manual curation. This model has been produced by the Yeast-Species-GEMs project from Sysbio (www.sysbio.se). This is model version 1.0.0 accompanying the publication (DOI: 10.15252/msb.202110427), currently hosted on BioModels Database and identified by MODEL2109130010. Further curations of this model will be tracked in the GitHub repository: https://github.com/SysBioChalmers/Yeast-Species-GEMs Models for species of the same clade includes: Ashbya aceri; Candida glabrata; Eremothecium coryli; Eremothecium cymbalariae; Eremothecium gossypii; Eremothecium sinecaudum; Kazachstania africana; Kazachstania naganishii; Kluyveromyces lactis; Kluyveromyces marxianus; Lachancea cidri; Lachancea dasiensis; Lachancea fantastica nom. nud.; Lachancea fermentati; Lachancea kluyveri; Lachancea lanzarotensis; Lachancea meyersii; Lachancea mirantina; Lachancea nothofagi; Lachancea quebecensis; Lachancea thermotolerans; Lachancea waltii; Nakaseomyces bacillisporus; Candida bracarensis; Candida castellii; Nakaseomyces delphensis; Candida nivariensis; Naumovozyma castellii; Naumovozyma dairenensis; Saccharomyces arboricola; Saccharomyces cerevisiae; Saccharomyces eubayanus; Saccharomyces kudriavzevii; Saccharomyces mikatae; Saccharomyces paradoxus; Saccharomyces uvarum; Tetrapisispora blattae; Tetrapisispora phaffii; Torulaspora delbrueckii; Vanderwaltozyma polyspora; Zygosaccharomyces bailii; Zygosaccharomyces rouxii; Kazachstania martiniae; Kazachstania unispora; Kazachstania turicensis; Kazachstania bromeliacearum; Kazachstania siamensis; Kazachstania taianensis; Kazachstania intestinalis; Kazachstania rosinii; Kazachstania transvaalensis; Kazachstania spencerorum; Kazachstania viticola; Kazachstania solicola; Kazachstania kunashirensis; Kazachstania aerobia; Kazachstania yakushimaensis; Torulaspora franciscae; Zygotorulaspora mrakii; Kluyveromyces aestuarii; Kluyveromyces dobzhanskii; Zygotorulaspora florentina; Zygosaccharomyces kombuchaensis; Zygosaccharomyces bisporus; Tetrapisispora fleetii; Tetrapisispora iriomotensis; Tetrapisispora namnaonensis; Torulaspora pretoriensis; Yueomyces sinensis; Torulaspora microellipsoides; Torulaspora maleeae. These models are available in the zip file. To cite BioModels, please use: V Chelliah et al; BioModels: ten-year anniversary. Nucleic Acids Res 2015; 43 (D1): D542-D548. To the extent possible under law, all copyright and related or neighbouring rights to this encoded model have been dedicated to the public domain worldwide. Please refer to MIT License for more information.
2021-11-01 | MODEL2109130010 | BioModels