Dataset Information

Proteomic studies of mechanism of action of apigenin in stromal cells by five proteomic experiments

ABSTRACT: The present studies consist of five proteomic experiments: proteomic profiling treated by apigenin; DARTS coupled MS analysis to identify the potential directed proteins targets of apigenin; Identification of the potential directed protein targets of biotin-apigenin by pull-down coupled MS analysis; proteomic profiling of senescent cells upon treatment with MJ33; Identification of the proteins interacting with PRDX6 by Co-IP coupled MS analysis.

ORGANISM(S): Homo Sapiens

SUBMITTER: Yu Sun

PROVIDER: PXD055761 | iProX | Mon Jan 20 00:00:00 GMT 2025

REPOSITORIES: iProX

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Publications

Targeting Senescence with Apigenin Improves Chemotherapeutic Efficacy and Ameliorates Age-Related Conditions in Mice.

Zhang Hongwei H Xu Qixia Q Jiang Zhirui Z Sun Rong R Wang Qun Q Liu Sanhong S Luan Xin X Campisi Judith J Kirkland James L JL Zhang Weidong W Sun Yu Y

Advanced science (Weinheim, Baden-Wurttemberg, Germany) 20250423 20

Cellular senescence is a cell fate triggered by stressful stimuli and displays a hypersecretory feature, the senescence-associated secretory phenotype (SASP). Senescent cell burden increases with aging and contributes to age-related organ dysfunction and multiple chronic disorders. In this study, a large scale screening of a natural product library for senotherapeutic candidates is performed. Apigenin, a dietary flavonoid previously reported with antioxidant and anti-inflammatory activities, exh ...[more]

PMID: 40265973

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Project description:Cetinkaya2017 - Engineering targets for Komagataella phaffii This model is described in the article: Metabolic modelling to identify engineering targets for Komagataella phaffii: The effect of biomass composition on gene target identification Ayca Cankorur-Cetinkaya, Duygu Dikicioglu, Stephen G. Oliver Biotechnology and Bioengineering Abstract: Genome-scale metabolic models are valuable tools for the design of novel strains of industrial microorganisms, such as Komagataella phaffii (syn. Pichia pastoris). However, as is the case for many industrial microbes, there is no executable metabolic model for K. phaffiii that confirms to current standards by providing the metabolite and reactions IDs, to facilitate model extension and reuse, and gene-reaction associations to enable identification of targets for genetic manipulation. In order to remedy this deficiency, we decided to reconstruct the genome-scale metabolic model of K. phaffii by reconciling the extant models and performing extensive manual curation in order to construct an executable model (Kp.1.0) that conforms to current standards. We then used this model to study the effect of biomass composition on the predictive success of the model. Twelve different biomass compositions obtained from published empirical data obtained under a range of growth conditions were employed in this investigation. We found that the success of Kp1.0 in predicting both gene essentiality and growth characteristics was relatively unaffected by biomass composition. However, we found that biomass composition had a profound effect on the distribution of the fluxes involved in lipid, DNA and steroid biosynthetic processes, cellular alcohol metabolic process and oxidation-reduction process. Further, we investigated the effect of biomass composition on the identification of suitable target genes for strain development. The analyses revealed that around 40% of the predictions of the effect of gene overexpression or deletion changed depending on the representation of biomass composition in the model. Considering the robustness of the in silico flux distributions to the changing biomass representations enables better interpretation of experimental results, reduces the risk of wrong target identification, and so both speeds and improves the process of directed strain development. This model is hosted on BioModels Database and identified by: MODEL1703150000. To cite BioModels Database, please use: BioModels Database: An enhanced, curated and annotated resource for published quantitative kinetic models. 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 CC0 Public Domain Dedication for more information.

Dataset Information

Proteomic studies of mechanism of action of apigenin in stromal cells by five proteomic experiments

Publications

Targeting Senescence with Apigenin Improves Chemotherapeutic Efficacy and Ameliorates Age-Related Conditions in Mice.

Similar Datasets

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