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      Hepatoprotective effect of water bamboo shoot ( Zizania latifolia) extracts against acute alcoholic liver injury in a mice model and screening of bioactive phytochemicals

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          Abstract

          In this study, the hepatoprotective effect of alkali extract (NE) of water bamboo shoot (WBS) against acute alcoholic liver injury (ALI) in mice was evaluated, and its underlying mechanisms were explored. Animal experiment demonstrated that NE exhibited hepatoprotective effect on alcoholic intake‐induced ALI via significantly enhancing the hepatic activities of alcohol dehydrogenase (ADH), acetaldehyde dehydrogenase (ALDH), superoxide dismutase (SOD), glutathione peroxidase (GSH‐Px), and catalase (CAT), whereas significantly attenuated hepatic levels of malondialdehyde (MDA), interleukin‐1β (IL‐1β), interleukin‐6 (IL‐6), and tumor necrosis factor‐α (TNF‐α). The potential molecular mechanism and bioactive compounds of NE against ALI were explored by bioinformatics analysis and isosinensetin was found to be the major bioactive compounds in NE against ALI. The western blot analysis showed that NE inhibited phosphorylation of p65 and IκBα to suppress the NF‐κB pathway. Overall our result indicated that WBS possesses potential hepatoprotective effects against ALI.

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          Metascape provides a biologist-oriented resource for the analysis of systems-level datasets

          Yingyao Zhou, Bin Zhou, Lars Pache … (2019)
          A critical component in the interpretation of systems-level studies is the inference of enriched biological pathways and protein complexes contained within OMICs datasets. Successful analysis requires the integration of a broad set of current biological databases and the application of a robust analytical pipeline to produce readily interpretable results. Metascape is a web-based portal designed to provide a comprehensive gene list annotation and analysis resource for experimental biologists. In terms of design features, Metascape combines functional enrichment, interactome analysis, gene annotation, and membership search to leverage over 40 independent knowledgebases within one integrated portal. Additionally, it facilitates comparative analyses of datasets across multiple independent and orthogonal experiments. Metascape provides a significantly simplified user experience through a one-click Express Analysis interface to generate interpretable outputs. Taken together, Metascape is an effective and efficient tool for experimental biologists to comprehensively analyze and interpret OMICs-based studies in the big data era.
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            The GeneCards Suite: From Gene Data Mining to Disease Genome Sequence Analyses.

            Gil Stelzer, Naomi Rosen, Inbar Plaschkes … (2016)
            GeneCards, the human gene compendium, enables researchers to effectively navigate and inter-relate the wide universe of human genes, diseases, variants, proteins, cells, and biological pathways. Our recently launched Version 4 has a revamped infrastructure facilitating faster data updates, better-targeted data queries, and friendlier user experience. It also provides a stronger foundation for the GeneCards suite of companion databases and analysis tools. Improved data unification includes gene-disease links via MalaCards and merged biological pathways via PathCards, as well as drug information and proteome expression. VarElect, another suite member, is a phenotype prioritizer for next-generation sequencing, leveraging the GeneCards and MalaCards knowledgebase. It automatically infers direct and indirect scored associations between hundreds or even thousands of variant-containing genes and disease phenotype terms. VarElect's capabilities, either independently or within TGex, our comprehensive variant analysis pipeline, help prepare for the challenge of clinical projects that involve thousands of exome/genome NGS analyses. © 2016 by John Wiley & Sons, Inc.
            Article 0 comments Cited 1254 times – based on 0 reviews     Review now
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              SwissTargetPrediction: updated data and new features for efficient prediction of protein targets of small molecules

              Antoine Daina, Olivier Michielin, Vincent Zoete (2019)
              Abstract SwissTargetPrediction is a web tool, on-line since 2014, that aims to predict the most probable protein targets of small molecules. Predictions are based on the similarity principle, through reverse screening. Here, we describe the 2019 version, which represents a major update in terms of underlying data, backend and web interface. The bioactivity data were updated, the model retrained and similarity thresholds redefined. In the new version, the predictions are performed by searching for similar molecules, in 2D and 3D, within a larger collection of 376 342 compounds known to be experimentally active on an extended set of 3068 macromolecular targets. An efficient backend implementation allows to speed up the process that returns results for a druglike molecule on human proteins in 15–20 s. The refreshed web interface enhances user experience with new features for easy input and improved analysis. Interoperability capacity enables straightforward submission of any input or output molecule to other on-line computer-aided drug design tools, developed by the SIB Swiss Institute of Bioinformatics. High levels of predictive performance were maintained despite more extended biological and chemical spaces to be explored, e.g. achieving at least one correct human target in the top 15 predictions for >70% of external compounds. The new SwissTargetPrediction is available free of charge (www.swisstargetprediction.ch).
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                Author and article information

                Contributors
                Journal
                Title: Food Frontiers
                Abbreviated Title: Food Frontiers
                Publisher: Wiley
                ISSN (Print): 2643-8429
                ISSN (Electronic): 2643-8429
                Publication date Created: September 2023
                Publication date (Electronic): March 27 2023
                Publication date (Print): September 2023
                Volume: 4
                Issue: 3
                Pages: 1362-1371
                Affiliations
                [1 ] Key Laboratory of Post‐Harvest Handling of Fruits, Key Laboratory of Fruits and Vegetables Postharvest and Processing Technology Research of Zhejiang Province, Key Laboratory of Postharvest Preservation and Processing of Fruits and Vegetables, China National Light Industry, Key Laboratory of Postharvest Preservation and Processing of Vegetables (Co‐construction by Ministry and Province), Ministry of Agriculture and Rural Affairs, Institute of Food Science Zhejiang Academy of Agricultural Sciences ...
                [2 ] School of Biological and Chemical Engineering Zhejiang University of Science and Technology Hangzhou China
                [3 ] Faculty of Sciences, Nutrition and Bromatology Group, Department of Analytical and Food Chemistry Universidade de Vigo Ourense Spain
                Article
                DOI: 10.1002/fft2.217
                SO-VID: ece9e81b-8f4b-4008-beea-02b5aafcfcb6
                Copyright © © 2023
                License:

                http://creativecommons.org/licenses/by-nc-nd/4.0/

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