| 1. |
- Beal, Jacob, et al.
(författare)
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Robust estimation of bacterial cell count from optical density
- 2020
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Ingår i: Communications Biology. - : Springer Science and Business Media LLC. - 2399-3642. ; 3:1
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Tidskriftsartikel (refereegranskat)abstract
- Optical density (OD) is widely used to estimate the density of cells in liquid culture, but cannot be compared between instruments without a standardized calibration protocol and is challenging to relate to actual cell count. We address this with an interlaboratory study comparing three simple, low-cost, and highly accessible OD calibration protocols across 244 laboratories, applied to eight strains of constitutive GFP-expressing E. coli. Based on our results, we recommend calibrating OD to estimated cell count using serial dilution of silica microspheres, which produces highly precise calibration (95.5% of residuals <1.2-fold), is easily assessed for quality control, also assesses instrument effective linear range, and can be combined with fluorescence calibration to obtain units of Molecules of Equivalent Fluorescein (MEFL) per cell, allowing direct comparison and data fusion with flow cytometry measurements: in our study, fluorescence per cell measurements showed only a 1.07-fold mean difference between plate reader and flow cytometry data.
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| 2. |
- Chen, Yangyang, et al.
(författare)
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Wood-derived scaffolds decorating with nickel cobalt phosphate nanosheets and carbon nanotubes used as monolithic electrodes for assembling high-performance asymmetric supercapacitor
- 2023
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Ingår i: Chemical Engineering Journal. - : Elsevier BV. - 1385-8947 .- 1873-3212. ; 454
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Tidskriftsartikel (refereegranskat)abstract
- Lightweight carbonized wood (CW) loaded with pseudocapacitive materials has demonstrated excellent energy density. However, the direct loading of active materials usually results in poor rate performance and cycling stability. Herein, we fabricated a CW electrode with high loading of active materials and conductivity through chemical vapor deposition (CVD) and electrodeposition to sequentially incorporate carbon nanotubes (CNTs) and nickel-cobalt phosphate (NiCo-P) nanosheets. This integrated NiCo-P/CNT/CW electrode exhibited a promising areal capacitance of 11.2F cm-2 at a current density of 10 mA cm-2, and a notable capacitance retention rate of 86.6 % at 60 mA cm-2. The asymmetric supercapacitor (ASC) device assembled with the prepared electrode as anode and the self-activated carbonized wood (SCW) electrode as cathode delivers outstanding energy density of 5.74 mWh cm-3 (12.1 Wh kg -1) at power density of 18.75 mW cm-3 (39.5 W kg -1) while maintaining a high capacitance retention of 92.4 % after 10,000 charge-discharge cycles. This work provides an advanced approach for constructing supercapacitors with remarkable energy density and rate performance from the natural wood derived electrodes.
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| 3. |
- Hu, Xiangzhao, et al.
(författare)
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Boosting Industrial-Level CO2 Electroreduction of N-Doped Carbon Nanofibers with Confined Tin-Nitrogen Active Sites via Accelerating Proton Transport Kinetics
- 2023
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Ingår i: Advanced Functional Materials. - : John Wiley and Sons Inc. - 1616-301X .- 1616-3028. ; 33:4
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Tidskriftsartikel (refereegranskat)abstract
- The development of highly efficient robust electrocatalysts with low overpotential and industrial-level current density is of great significance for CO2 electroreduction (CO2ER), however the low proton transport rate during the CO2ER remains a challenge. Herein, a porous N-doped carbon nanofiber confined with tin-nitrogen sites (Sn/NCNFs) catalyst is developed, which is prepared through an integrated electrospinning and pyrolysis strategy. The optimized Sn/NCNFs catalyst exhibits an outstanding CO2ER activity with the maximum CO FE of 96.5%, low onset potential of −0.3 V, and small Tafel slope of 68.8 mV dec−1. In a flow cell, an industrial-level CO partial current density of 100.6 mA cm−2 is achieved. In situ spectroscopic analysis unveil the isolated Sn-N site acted as active center for accelerating water dissociation and subsequent proton transport process, thus promoting the formation of intermediate *COOH in the rate-determining step for CO2ER. Theoretical calculations validate pyrrolic N atom adjacent to the Sn-N active species assisted reducing the energy barrier for *COOH formation, thus boosting the CO2ER kinetics. A Zn-CO2 battery is designed with the cathode of Sn/NCNFs, which delivers a maximum power density of 1.38 mW cm−2 and long-term stability.
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| 4. |
- 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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| 5. |
- Luo, Yiqi, et al.
(författare)
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Matrix Approach to Land Carbon Cycle Modeling
- 2022
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Ingår i: Journal of Advances in Modeling Earth Systems. - 1942-2466. ; 14:7
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Forskningsöversikt (refereegranskat)abstract
- Land ecosystems contribute to climate change mitigation by taking up approximately 30% of anthropogenically emitted carbon. However, estimates of the amount and distribution of carbon uptake across the world's ecosystems or biomes display great uncertainty. The latter hinders a full understanding of the mechanisms and drivers of land carbon uptake, and predictions of the future fate of the land carbon sink. The latter is needed as evidence to inform climate mitigation strategies such as afforestation schemes. To advance land carbon cycle modeling, we have developed a matrix approach. Land carbon cycle models use carbon balance equations to represent carbon exchanges among pools. Our approach organizes this set of equations into a single matrix equation without altering any processes of the original model. The matrix equation enables the development of a theoretical framework for understanding the general, transient behavior of the land carbon cycle. While carbon input and residence time are used to quantify carbon storage capacity at steady state, a third quantity, carbon storage potential, integrates fluxes with time to define dynamic disequilibrium of the carbon cycle under global change. The matrix approach can help address critical contemporary issues in modeling, including pinpointing sources of model uncertainty and accelerating spin-up of land carbon cycle models by tens of times. The accelerated spin-up liberates models from the computational burden that hinders comprehensive parameter sensitivity analysis and assimilation of observational data to improve model accuracy. Such computational efficiency offered by the matrix approach enables substantial improvement of model predictions using ever-increasing data availability. Overall, the matrix approach offers a step change forward for understanding and modeling the land carbon cycle.
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| 6. |
- Zhai, Panlong, et al.
(författare)
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Regulating electronic states of nitride/hydroxide to accelerate kinetics for oxygen evolution at large current density
- 2023
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Ingår i: Nature Communications. - : Springer Nature. - 2041-1723. ; 14:1
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Tidskriftsartikel (refereegranskat)abstract
- Rational design efficient transition metal-based electrocatalysts for oxygen evolution reaction (OER) is critical for water splitting. However, industrial water-alkali electrolysis requires large current densities at low overpotentials, always limited by intrinsic activity. Herein, we report hierarchical bimetal nitride/hydroxide (NiMoN/NiFe LDH) array as model catalyst, regulating the electronic states and tracking the relationship of structure-activity. As-activated NiMoN/NiFe LDH exhibits the industrially required current density of 1000 mA cm(-2) at overpotential of 266 mV with 250 h stability for OER. Especially, in-situ electrochemical spectroscopic reveals that heterointerface facilitates dynamic structure evolution to optimize electronic structure. Operando electrochemical impedance spectroscopy implies accelerated OER kinetics and intermediate evolution due to fast charge transport. The OER mechanism is revealed by the combination of theoretical and experimental studies, indicating as-activated NiMoN/NiFe LDH follows lattice oxygen oxidation mechanism with accelerated kinetics. This work paves an avenue to develop efficient catalysts for industrial water electrolysis via tuning electronic states. Rational design of efficient electrocatalysts for oxygen evolution reaction is critical for water-alkali electrolysis. Here, the authors fabricate a NiMoN/NiFe layered double hydroxide and show the accelerated oxygen evolution kinetics are due to the heterointerface.
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