| 1. |
- Lensink, Marc F., et al.
(författare)
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Impact of AlphaFold on structure prediction of protein complexes: The CASP15-CAPRI experiment
- 2023
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Ingår i: Proteins. - : WILEY. - 0887-3585 .- 1097-0134.
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Tidskriftsartikel (refereegranskat)abstract
- We present the results for CAPRI Round 54, the 5th joint CASP-CAPRI protein assembly prediction challenge. The Round offered 37 targets, including 14 homodimers, 3 homo-trimers, 13 heterodimers including 3 antibody-antigen complexes, and 7 large assemblies. On average similar to 70 CASP and CAPRI predictor groups, including more than 20 automatics servers, submitted models for each target. A total of 21 941 models submitted by these groups and by 15 CAPRI scorer groups were evaluated using the CAPRI model quality measures and the DockQ score consolidating these measures. The prediction performance was quantified by a weighted score based on the number of models of acceptable quality or higher submitted by each group among their five best models. Results show substantial progress achieved across a significant fraction of the 60+ participating groups. High-quality models were produced for about 40% of the targets compared to 8% two years earlier. This remarkable improvement is due to the wide use of the AlphaFold2 and AlphaFold2-Multimer software and the confidence metrics they provide. Notably, expanded sampling of candidate solutions by manipulating these deep learning inference engines, enriching multiple sequence alignments, or integration of advanced modeling tools, enabled top performing groups to exceed the performance of a standard AlphaFold2-Multimer version used as a yard stick. This notwithstanding, performance remained poor for complexes with antibodies and nanobodies, where evolutionary relationships between the binding partners are lacking, and for complexes featuring conformational flexibility, clearly indicating that the prediction of protein complexes remains a challenging problem.
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| 2. |
- Ding, Zheli, et al.
(författare)
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Production of biochar from tropical fruit tree residues and ecofriendly applications – A review
- 2023
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Ingår i: Bioresource Technology. - : Elsevier. - 0960-8524 .- 1873-2976. ; 376
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Forskningsöversikt (refereegranskat)abstract
- Environmental contamination is considered a major issue with the growing urbanization and industrialization. In this context, the scientific society is engaged in searching for a sustainable, safe, and eco-friendly solution. Sustainable materials such as biochar play an important role in environmental contamination. It has some specific properties such as micropores which increase the surface area to bind the pollutants. This review endeavors to analyze the potential of fruit wastes especially tropical fruit tree residues as potential candidates for producing highly efficient biochar materials. The review discusses various aspects of biochar production viz. pyrolysis, torrefaction, hydrothermal carbonization, and gasification. In addition, it discusses biochar use as an adsorbent, wastewater treatment, catalyst, energy storage, carbon sequestration and animal feed. The review put forward a critical discussion about key aspects of applying biochar to the environment.
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| 3. |
- Ding, Zheli, et al.
(författare)
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Valorization of tropical fruits waste for production of commercial biorefinery products : A review
- 2023
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Ingår i: Bioresource Technology. - : Elsevier BV. - 0960-8524 .- 1873-2976. ; 374
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Forskningsöversikt (refereegranskat)abstract
- Tropical fruit wastes (TFW) are considered as the major source of food and nutrition in the topical countries. In the recent years, modernization of agriculture has increased the tropical fruit production. Higher fruit production led to an increasing abundance in the tropical fruit waste. In general, the tropical fruit waste has no economic value and ends up in landfill. But in recent years it was observed that the tropical fruit waste can be valorized to produce value-added products ranging from compost, phytochemicals, and food products to biofuels. The tropical fruit waste has great potential to produce useful products in tropical areas. This review literature is an endeavor to understand the major tropical fruit wastes and their composition. The review presents a detailed investigation on tropical fruit waste composition, its conversion potential, role of microbes in waste valorization, production of commercially valuable products and future perspectives in waste valorization.
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