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| 2. |
- Yang, Yang, et al.
(författare)
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Pon-tstab : Protein variant stability predictor. importance of training data quality
- 2018
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Ingår i: International Journal of Molecular Sciences. - : MDPI AG. - 1661-6596 .- 1422-0067. ; 19:4
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Tidskriftsartikel (refereegranskat)abstract
- Several methods have been developed to predict effects of amino acid substitutions on protein stability. Benchmark datasets are essential for method training and testing and have numerous requirements including that the data is representative for the investigated phenomenon. Available machine learning algorithms for variant stability have all been trained with ProTherm data. We noticed a number of issues with the contents, quality and relevance of the database. There were errors, but also features that had not been clearly communicated. Consequently, all machine learning variant stability predictors have been trained on biased and incorrect data. We obtained a corrected dataset and trained a random forests-based tool, PON-tstab, applicable to variants in any organism. Our results highlight the importance of the benchmark quality, suitability and appropriateness. Predictions are provided for three categories: stability decreasing, increasing and those not affecting stability.
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| 3. |
- Yang, Yang, et al.
(författare)
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ProTstab - Predictor for cellular protein stability
- 2019
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Ingår i: BMC Genomics. - : Springer Science and Business Media LLC. - 1471-2164. ; 20:1
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Tidskriftsartikel (refereegranskat)abstract
- Background: Stability is one of the most fundamental intrinsic characteristics of proteins and can be determined with various methods. Characterization of protein properties does not keep pace with increase in new sequence data and therefore even basic properties are not known for far majority of identified proteins. There have been some attempts to develop predictors for protein stabilities; however, they have suffered from small numbers of known examples. Results: We took benefit of results from a recently developed cellular stability method, which is based on limited proteolysis and mass spectrometry, and developed a machine learning method using gradient boosting of regression trees. ProTstab method has high performance and is well suited for large scale prediction of protein stabilities. Conclusions: The Pearson's correlation coefficient was 0.793 in 10-fold cross validation and 0.763 in independent blind test. The corresponding values for mean absolute error are 0.024 and 0.036, respectively. Comparison with a previously published method indicated ProTstab to have superior performance. We used the method to predict stabilities of all the remaining proteins in the entire human proteome and then correlated the predicted stabilities to protein chain lengths of isoforms and to localizations of proteins.
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| 4. |
- Cai, Xuesong, et al.
(författare)
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Dynamic mmWave Channel Emulation in a Cost-Effective MPAC with Dominant-Cluster Concept
- 2021
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Ingår i: IEEE Transactions on Antennas and Propagation. - 0018-926X.
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Tidskriftsartikel (refereegranskat)abstract
- Millimeter-Wave (mmWave) massive multiple-input multiple-output (MIMO) has been considered as a key enabler for the fifth-generation (5G) communications. It is essential to design and test mmWave 5G devices under various realisticscenarios since the radio propagation channels pose intrinsic limitations on the performance. This requires emulating realistic dynamic mmWave channels in a reproducible manner in laboratories, which is the goal of this paper. In this contribution, we first illustrate the dominant-cluster(s) concept, where thenon-dominant clusters in the mmWave channels are pruned, for mmWave 5G devices applying massive MIMO beamforming. This demonstrates the importance and necessity to accurately emulate the mmWave channels at a cluster level rather than the composite-channel level. Thus, an over-the-air (OTA) emulationstrategy for dynamic mmWave channels is proposed based on the concept of dominant-cluster(s) in a sectored multiprobe anechoic chamber (SMPAC). The key design parameters including the probe number and the angular spacing of probes are investigated through comprehensive simulations. A cost-effective switch circuit is also designed for this purpose and validated in the simulation. Furthermore, a dynamic mmWave channel measured in an indoor scenario at 28-30 GHz is presented, where the proposed emulation strategy is also validated by reproducing the measured reality.
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| 5. |
- Ma, Chunyu, et al.
(författare)
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Plasmon-enhanced organic solar cells with solution-processed three-dimensional Ag nanosheets
- 2013
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Ingår i: Solar Energy Materials and Solar Cells. - : ELSEVIER SCIENCE BV, PO BOX 211, 1000 AE AMSTERDAM, NETHERLANDS. - 0927-0248 .- 1879-3398. ; 109, s. 227-232
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Tidskriftsartikel (refereegranskat)abstract
- The silver nanosheets (AgNSs) prepared via normal silver mirror reaction were used to improve the performance of organic solar cells. AgNSs with a size of about 100 nm in width and 10 nm in thickness formed a 3-D network on an indium tin oxide (ITO) surface. Organic solar cells with a structure of ITO/AgNSs/poly(3,4-ethylene dioxythiophene) poly(styrenesulfonate) (PEDOT:PSS)/poly(3-hexylthiophene) and [6,6]-phenyl C-61 butyric acid methyl ester (P3HT:PC61BM)/LiF/Al exhibited an open circuit voltage (V-oc) of 0.60 +/- 0.01 V, short circuit current density (J(sc)) of 11.16 +/- 0.08 mA/cm(2), a fill factor (FF) of 53.69 +/- 0.92%, and power conversion efficiency (PCE) of 3.60 +/- 0.06%. The PCEs of organic solar cells with 3-D AgNSs layers were 1.29 times that of the control device without 3-D AgNSs layer. We attributed the improvement of the efficiency to localized surface plasmon resonance (LSPR) induced by the 3-D network of AgNSs, which enhanced the light harvest of active layers, increased the probability of exciton generation and dissociation.
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| 6. |
- Sun, Ya-Nan, et al.
(författare)
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Synergetic contribution of nitrogen and fluorine species in porous carbons as metal-free and bifunctional oxygen electrocatalysts for zinc-air batteries
- 2021
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Ingår i: Applied Catalysis B. - : Elsevier BV. - 0926-3373 .- 1873-3883. ; 297
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Tidskriftsartikel (refereegranskat)abstract
- High-efficient bifunctional catalysts for oxygen reduction reaction (ORR) and oxygen evolution reaction (OER) are critical to the practical application of zinc–air batteries. Herein, a comprehensive investigation on the synergetic contribution of nitrogen (N) and fluorine (F) species in porous carbon for ORR/OER catalyses is firstly conducted. The metal-free N, F co-doped porous carbon (NFPC) possesses appealing catalytic activities in zinc–air batteries and is superior to many other catalysts. Combined with the careful exploration of N and F dopants, seventeen optimized carbon cluster structures with all possible co-doping of N and F species are considered for density functional theory calculations. It can be inferred that the F doping with graphitic and pyridinic N triggers active paramagnetic centers. The co-doping of covalent F and graphitic N especially gives the lowest free energy barrier for both ORR/OER, which could account for the notable performance of NFPC catalysts in zinc–air batteries.
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| 7. |
- Yang, Xi, et al.
(författare)
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Power Scaling Laws for Massive MIMO Relay Systems with Linear Transceivers
- 2016
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Ingår i: 2015 IEEE Global Conference on Signal and Information Processing, GlobalSIP 2015. Orlando; United States; 13-16 December 2015. - 9781479975914 ; , s. 7416932, Pages 38-42
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Konferensbidrag (refereegranskat)abstract
- In this paper, we study the uplink of a relay- assisted multiuser massive MIMO system. The relay station (RS) equipped with M1 antennas processes the received signal from K single-antenna users, using maximum ratio combining (MRC)/zero-forcing (ZF) detection, and then forwards the post- processed signal to the base station (BS) with M2 antennas, according to the all-pass relay protocol. In particular, we derive closed-form approximations of the ergodic achievable rate lower bounds, assuming that MRC/ZF combining is performed at the BS. Furthermore, we examine the power scaling law of the proposed system, and find that the transmit powers of relay or users can be reduced in proportion to M1 or M2, respectively, without any loss in the achievable rate.
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