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- 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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| 4. |
- Jin, Ying-Hui, et al.
(författare)
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Chemoprophylaxis, diagnosis, treatments, and discharge management of COVID-19 : An evidence-based clinical practice guideline (updated version)
- 2020
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Ingår i: Military Medical Research. - : Springer Science and Business Media LLC. - 2054-9369. ; 7:1
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Tidskriftsartikel (refereegranskat)abstract
- The novel severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) is the cause of a rapidly spreading illness, coronavirus disease 2019 (COVID-19), affecting more than seventeen million people around the world. Diagnosis and treatment guidelines for clinicians caring for patients are needed. In the early stage, we have issued "A rapid advice guideline for the diagnosis and treatment of 2019 novel coronavirus (2019-nCoV) infected pneumonia (standard version)"; now there are many direct evidences emerged and may change some of previous recommendations and it is ripe for develop an evidence-based guideline. We formed a working group of clinical experts and methodologists. The steering group members proposed 29 questions that are relevant to the management of COVID-19 covering the following areas: chemoprophylaxis, diagnosis, treatments, and discharge management. We searched the literature for direct evidence on the management of COVID-19, and assessed its certainty generated recommendations using the Grading of Recommendations, Assessment, Development and Evaluation (GRADE) approach. Recommendations were either strong or weak, or in the form of ungraded consensus-based statement. Finally, we issued 34 statements. Among them, 6 were strong recommendations for, 14 were weak recommendations for, 3 were weak recommendations against and 11 were ungraded consensus-based statement. They covered topics of chemoprophylaxis (including agents and Traditional Chinese Medicine (TCM) agents), diagnosis (including clinical manifestations, reverse transcription-polymerase chain reaction (RT-PCR), respiratory tract specimens, IgM and IgG antibody tests, chest computed tomography, chest x-ray, and CT features of asymptomatic infections), treatments (including lopinavir-ritonavir, umifenovir, favipiravir, interferon, remdesivir, combination of antiviral drugs, hydroxychloroquine/chloroquine, interleukin-6 inhibitors, interleukin-1 inhibitors, glucocorticoid, qingfei paidu decoction, lianhua qingwen granules/capsules, convalescent plasma, lung transplantation, invasive or noninvasive ventilation, and extracorporeal membrane oxygenation (ECMO)), and discharge management (including discharge criteria and management plan in patients whose RT-PCR retesting shows SARS-CoV-2 positive after discharge). We also created two figures of these recommendations for the implementation purpose. We hope these recommendations can help support healthcare workers caring for COVID-19 patients.
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- Klionsky, Daniel J., et al.
(författare)
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Guidelines for the use and interpretation of assays for monitoring autophagy
- 2012
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Ingår i: Autophagy. - : Informa UK Limited. - 1554-8635 .- 1554-8627. ; 8:4, s. 445-544
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Forskningsöversikt (refereegranskat)abstract
- In 2008 we published the first set of guidelines for standardizing research in autophagy. Since then, research on this topic has continued to accelerate, and many new scientists have entered the field. Our knowledge base and relevant new technologies have also been expanding. Accordingly, it is important to update these guidelines for monitoring autophagy in different organisms. Various reviews have described the range of assays that have been used for this purpose. Nevertheless, there continues to be confusion regarding acceptable methods to measure autophagy, especially in multicellular eukaryotes. A key point that needs to be emphasized is that there is a difference between measurements that monitor the numbers or volume of autophagic elements (e.g., autophagosomes or autolysosomes) at any stage of the autophagic process vs. those that measure flux through the autophagy pathway (i.e., the complete process); thus, a block in macroautophagy that results in autophagosome accumulation needs to be differentiated from stimuli that result in increased autophagic activity, defined as increased autophagy induction coupled with increased delivery to, and degradation within, lysosomes (in most higher eukaryotes and some protists such as Dictyostelium) or the vacuole (in plants and fungi). In other words, it is especially important that investigators new to the field understand that the appearance of more autophagosomes does not necessarily equate with more autophagy. In fact, in many cases, autophagosomes accumulate because of a block in trafficking to lysosomes without a concomitant change in autophagosome biogenesis, whereas an increase in autolysosomes may reflect a reduction in degradative activity. Here, we present a set of guidelines for the selection and interpretation of methods for use by investigators who aim to examine macroautophagy and related processes, as well as for reviewers who need to provide realistic and reasonable critiques of papers that are focused on these processes. These guidelines are not meant to be a formulaic set of rules, because the appropriate assays depend in part on the question being asked and the system being used. In addition, we emphasize that no individual assay is guaranteed to be the most appropriate one in every situation, and we strongly recommend the use of multiple assays to monitor autophagy. In these guidelines, we consider these various methods of assessing autophagy and what information can, or cannot, be obtained from them. Finally, by discussing the merits and limits of particular autophagy assays, we hope to encourage technical innovation in the field.
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- Dan, Lilin, et al.
(författare)
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Design of Offset Spatial Modulation OFDM
- 2021
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Ingår i: IEEE Transactions on Communications. - : Institute of Electrical and Electronics Engineers (IEEE). - 0090-6778 .- 1558-0857. ; 69:9, s. 6267-6280
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Tidskriftsartikel (refereegranskat)abstract
- In this paper, the idea of offset spatial modulation (OSM) is integrated with orthogonal frequency division multiplexing (OFDM), toward an efficient design to bridge their advantages. Compared to its conventional counterpart as spatial modulation (SM)-OFDM, the proposed OSM-OFDM scheme aims at providing a simplified implementation structure with less number of radio frequency (RF) chains, by introducing an offset between the RF chain and the index of the activated transmit antenna on each subcarrier. Specifically, three types of offset antenna selection (OAS) methods are developed to meet different scene requirements for different number of available RF chains. Furthermore, through theoretical analysis, we quantify the bit error rate upper bounds of OSM-OFDM with different types of OAS methods. Finally, extensive computer simulations demonstrate that OSM-OFDM provides a flexible tradeoff among implementation cost, computation complexity and error performance.
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| 7. |
- Fang, Shu, et al.
(författare)
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Offset Spatial Modulation and Offset Space Shift Keying : Efficient Designs for Single-RF MIMO Systems
- 2019
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Ingår i: IEEE Transactions on Communications. - : IEEE-INST ELECTRICAL ELECTRONICS ENGINEERS INC. - 0090-6778 .- 1558-0857. ; 67:8, s. 5434-5444
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Tidskriftsartikel (refereegranskat)abstract
- Spatial modulation (SM) and space shift keying (SSK) techniques have the unique advantages of their single-radio-frequency (RF) structures compared with conventional multiple-input-multiple-output (MIMO) techniques. However, the transmission rates of these techniques are decided by the maximal switching frequency or by the minimal switching time between the RF chain and transmit antennas, which has been a bottleneck for their applications in future broadband wireless communications. To alleviate this problem, we propose a class of novel offset SM (OSM) and offset SSK (OSSK) schemes, with the aid of channel state information (CSI) at the transmitter. Compared with conventional SM and SSK, the proposed OSM and OSSK schemes can reduce the switching frequency of the RF chain, by introducing an offset between the connected RF chain and the index of the spatial modulated antenna. In extreme conditions, the proposed OSM and OSSK can work without RF switching while maintaining the single-RF advantage of conventional SM and SSK schemes. Through theoretical analysis, we also develop the bit-error rate (BER) performance bounds for the proposed two schemes. Finally, our simulation results demonstrate that the proposed OSM and OSSK outperform their counterparts, including conventional SM, SSK, CSI-aided SM, and CSI-aided SSK, while having a simplified RF-switching structure.
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| 8. |
- Gao, Yulan, et al.
(författare)
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Dynamic Social-Aware Peer Selection for Cooperative Relay Management With D2D Communications
- 2019
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Ingår i: IEEE Transactions on Communications. - : IEEE-INST ELECTRICAL ELECTRONICS ENGINEERS INC. - 0090-6778 .- 1558-0857. ; 67:5, s. 3124-3139
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Tidskriftsartikel (refereegranskat)abstract
- In this paper, we investigate the optimal dynamic social-aware peer selection with spectrum-power trading to maximize the average sum energy efficiency (EE) of cellular users (CUs) for uplink transmission for an orthogonal frequency division multiple access cellular network with device-to-device (D2D) communications. Different from the previous studies, which mostly focus on how to exploit social ties in human social networks to construct the permutation of all the feasible peers, we consider dynamic peer selection with social awareness-aided spectrum-power trading in D2D overlaying communications. Specifically, the amount of transmit power from the D2D transmitters to relay the CUs for uplink transmission is determined by their social trust levels. Likewise, the D2D transmitters can gain the corresponding amount of spectrum from the CUs for D2D pair link communications, which can be regarded as the compensation of the power consumption for relaying CUs. We formulate the dynamic peer selection problems with social awareness-aided spectrum-power trading in cooperative D2D communications into the infinite-horizon time-average renewal-reward problems subject to time average constraints on a collection of penalty processes. And the Lyapunov optimization concepts-based drift-plus-penalty algorithms are proposed to solve them. The simulation results demonstrate the effectiveness of the proposed dynamic peer selection algorithms. And further performance comparison indicates that the proposed dynamic peer selection algorithms not only maximize the average EE of CUs but also guarantee higher privacy protection.
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| 9. |
- Gao, Yulan, et al.
(författare)
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Energy Efficient Power Allocation With Demand Side Coordination for OFDMA Downlink Transmissions
- 2019
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Ingår i: IEEE Transactions on Wireless Communications. - : IEEE-INST ELECTRICAL ELECTRONICS ENGINEERS INC. - 1536-1276 .- 1558-2248. ; 18:4, s. 2141-2155
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Tidskriftsartikel (refereegranskat)abstract
- We investigate the energy-efficient power allocation for downlink transmission in orthogonal frequency division multiple access-based long term evolution systems. Aiming at realizing on-demand power allocation in cellular networks, we explore the available coordination between the base station and multiple users, and propose a new performance merit, namely, the demand side coordination energy efficiency (DSC-EE), which captures the system normalized EE and the demand side information. The proposed DSC-EE is designed to exploit individual disparities from both the entire system and the individual own expected utility perspectives. Our goal is to maximize the DSC-EE of the system via power allocation with a constraint on the maximum transmit power. Specifically, the objective function of DSC-EE maximization problem in a fractional form can be transformed into a subtractive form that is more tractable based on the fractional programming theory. The convergence property of the proposed algorithms and the meaningfulness of the proposed performance merit related to the EE are demonstrated by simulations. The comparison of four EE metrics, the EE and the rate fairness, global-EE, Sum-EE, and DSC-EE, shows that the DSC-EE maximization tends to achieve high implementation level of on-demand power allocation while ensuring the EE of the system. In addition, when the minimum rate replaces the expected rate in the DSC-EE, further performance comparison indicates the necessity and impact of the expected rate in the tolerable quality of service bias function.
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| 10. |
- Gao, Yulan, et al.
(författare)
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Game Theory-Based Anti-Jamming Strategies for Frequency Hopping Wireless Communications
- 2018
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Ingår i: IEEE Transactions on Wireless Communications. - : Institute of Electrical and Electronics Engineers (IEEE). - 1536-1276 .- 1558-2248. ; 17:8, s. 5314-5326
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Tidskriftsartikel (refereegranskat)abstract
- In frequency hopping (FH) wireless communications, finding an effective transmission strategy to properly mitigate jamming has been recently considered as a critical issue, due to the inherent broadcast nature of wireless communications. Recently, game theory has been proposed as a powerful tool for dealing with the jamming problem, which can be considered as a player (jammer) playing against a user (transmitter). Different from existing results, in this paper, a bimatrix game framework is developed for modeling the interaction process between the transmitter and the jammer, and the sufficient and necessary conditions for Nash equilibrium (NE) strategy of the game are obtained under the linear constraints. Furthermore, the relationship between the NE solution and the global optimal solution of the corresponding quadratic programming is presented. In addition, a special analysis case is developed based on the continuous game framework in which each player has a continuum of strategies. Finally, we show that the performance can be improved based on our game theoretic framework, which is verified by numerical investigations.
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