| 1. |
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| 2. |
- 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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| 3. |
- Tang, J, et al.
(författare)
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Cancer cells escape p53's tumor suppression through ablation of ZDHHC1-mediated p53 palmitoylation
- 2021
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Ingår i: Oncogene. - : Springer Science and Business Media LLC. - 1476-5594 .- 0950-9232. ; 40:35, s. 5416-5426
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Tidskriftsartikel (refereegranskat)abstract
- The inactivation of tumor-suppressor genes contributes heavily to oncogenesis. The mutation of TP53 has been well-studied and recognized as a major factor in the development of tumors. Yet other means of p53 inactivation has not been well-elucidated. We previously identified a hypermethylated gene ZDHHC1 that suppresses tumor growth when the expression was restored, but the specific mechanism was yet to be found. The protein product of ZDHHC1 is an S-palmitoyltransferase and we have identified p53 as a substrate for ZDHHC1-mediated palmitoylation, specifically at the C135, C176, and C275 residues. The novel form of post-translational modification of p53 is required for the nuclear translocation of the tumor suppressor. p53 recruited DNMT3A to ZDHHC1 promoter and is responsible for the hypermethylation of ZDHHC1. The epigenetic feedback loop formed by ZDHHC1 and p53 sheds light on the inactivation of p53 without the presence of genetic mutations.
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| 4. |
- Cao, Hongru, et al.
(författare)
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Unsupervised domain-share CNN for machine fault transfer diagnosis from steady speeds to time-varying speeds
- 2022
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Ingår i: Journal of manufacturing systems. - : Elsevier. - 0278-6125 .- 1878-6642. ; 62, s. 186-198
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Tidskriftsartikel (refereegranskat)abstract
- The existing deep transfer learning-based intelligent fault diagnosis studies for machinery mainly consider steady speed scenarios, and there exists a problem of low diagnosis efficiency. In order to overcome these limitations, an unsupervised domain-share convolutional neural network (CNN) is proposed for efficient fault transfer diagnosis of machines from steady speeds to time-varying speeds. First, a Cauchy kernel-induced maximum mean discrepancy based on unbiased estimation is developed for improving the efficiency and robustness of feature adaptation. Secondly, an unsupervised domain-share CNN is constructed to simultaneously extract the domain-invariant features from the source domain and the target domain. Finally, adjustable and segmented balance factors are designed to flexibly weigh the distribution-adaptation loss and cross-entropy loss to improve diagnosis accuracy and transferability. The proposed method analyzes raw vibration signals collected from bearings and gears under different rotating speeds. Results of case studies show that the proposed method can achieve higher diagnosis accuracy, faster convergence, and better robustness than the reported methods, which demonstrates its potential applications in machine fault transfer diagnosis from a steady speed condition to a time-varying speed condition.
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| 5. |
- Deng, Huan, et al.
(författare)
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Altered Expression of the Hedgehog Pathway Proteins BMP2, BMP4, SHH, and IHH Involved in Knee Cartilage Damage of Patients With Osteoarthritis and Kashin-Beck Disease
- 2022
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Ingår i: Cartilage. - : Sage Publications. - 1947-6035 .- 1947-6043. ; 13:1
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Tidskriftsartikel (refereegranskat)abstract
- OBJECTIVE: To investigate the expression of Hedgehog (HH) signaling pathway proteins in knee articular cartilage from Kashin-Beck disease (KBD) and osteoarthritis (OA) patients.METHODS: Knee articular cartilage samples were collected from normal (N), OA, and KBD adults (aged 38-60 years) and divided into 3 groups with 6 subjects in each group. The localization of the HH pathway proteins bone morphogenetic protein 2 (BMP2), bone morphogenetic protein 4 (BMP4), Sonic hedgehog (SHH), and Indian hedgehog (IHH) was observed with the microscope after immunohistochemical (IHC) staining. Positive staining cell rates of each proteins were compared.RESULTS: The strongest stainings of all proteins were observed in the middle zones of all 3 groups. The positive staining rates of BMP4 and IHH were significantly lower in the OA and KBD groups than those in the N group in all 3 zones. The positive staining rates of BMP2 and SHH tend to be lower in the OA and KBD groups than those in the N group in the deep zone, while higher in the OA and KBD groups than those in the N group in superficial and middle zones.CONCLUSIONS: Altered expression of the HH pathway proteins BMP2, BMP4, SHH, and IHH was found in OA and KBD articular cartilage. There seemed to be a compensatory effect between SHH and IHH in cartilage damage. Further studies on the pathogenesis of OA and KBD may be carried out from these aspects in the future.
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| 6. |
- Deng, Shuiguang, et al.
(författare)
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Dynamical Resource Allocation in Edge for Trustable Internet-of-Things Systems : A Reinforcement Learning Method
- 2020
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Ingår i: IEEE Transactions on Industrial Informatics. - : Institute of Electrical and Electronics Engineers (IEEE). - 1551-3203 .- 1941-0050. ; 16:9, s. 6103-6113
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Tidskriftsartikel (refereegranskat)abstract
- Edge computing (EC) is now emerging as a key paradigm to handle the increasing Internet-of-Things (IoT) devices connected to the edge of the network. By using the services deployed on the service provisioning system which is made up of edge servers nearby, these IoT devices are enabled to fulfill complex tasks effectively. Nevertheless, it also brings challenges in trustworthiness management. The volatile environment will make it difficult to comply with the service-level agreement (SLA), which is an important index of trustworthiness declared by these IoT services. In this article, by denoting the trustworthiness gain with how well the SLA can comply, we first encode the state of the service provisioning system and the resource allocation scheme and model the adjustment of allocated resources for services as a Markov decision process (MDP). Based on these, we get a trained resource allocating policy with the help of the reinforcement learning (RL) method. The trained policy can always maximize the services' trustworthiness gain by generating appropriate resource allocation schemes dynamically according to the system states. By conducting a series of experiments on the YouTube request dataset, we show that the edge service provisioning system using our approach has 21.72% better performance at least compared to baselines.
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| 7. |
- Deng, Shuiguang, et al.
(författare)
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Optimal Application Deployment in Resource Constrained Distributed Edges
- 2021
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Ingår i: IEEE Transactions on Mobile Computing. - : IEEE Computer Society. - 1536-1233 .- 1558-0660. ; 20:5, s. 1907-1923
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Tidskriftsartikel (refereegranskat)abstract
- The dramatically increasing of mobile applications make it convenient for users to complete complex tasks on their mobile devices. However, the latency brought by unstable wireless networks and the computation failures caused by constrained resources limit the development of mobile computing. A popular approach to solve this problem is to establish a mobile service provisioning system based on a mobile edge computing (MEC) paradigm. In the MEC paradigm, plenty of machines are placed at the edge of the network so that the performance of applications can be optimized by using the involved microservice instances deployed on them. In this paper, we explore the deployment problem of microserivce-based applications in the MEC environment and propose an approach to help to optimize the cost of application deployment with the constraints of resources and the requirement of performance. We conduct a series of experiments to evaluate the performance of our approach. The result shows that our approach can improve the average response time of mobile services.
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| 8. |
- Deng, Yucheng, et al.
(författare)
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A numerical study on the levitation system for droplet preparation in a fuel-coolant interaction experiment
- 2023
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Ingår i: Progress in nuclear energy (New series). - : Elsevier BV. - 0149-1970 .- 1878-4224. ; 159
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Tidskriftsartikel (refereegranskat)abstract
- The MISTEE facility at KTH was designed to investigate the process and phenomena of a molten droplet falling into a water pool that may be encountered in fuel-coolant interactions (FCI) during a severe accident of light water reactors. An aerodynamic levitation mechanism is proposed to hold the molten droplet during its preparation (melting and heating up to a prescribed temperature) in an induction furnace. The crucible is flushed with argon through an injection nozzle at the bottom to prevent the droplet from falling out of the crucible. A numerical simulation of the aerodynamic levitation system is performed in the present study with the objective of determining and optimizing the design. The problem was simplified as an isothermal two-phase flow in an axisymmetric geometry. The simulation is realized through ANSYS Fluent v17 platform, which employs the VOF method to track interfaces between two phases and the SST k-omega model to describe turbulence flow of argon gas. The numerical model is validated against tests performed in the MISTEE facility after mesh sensitivity study. It is then applied to investigate the impacts of various parameters on the facility levitation capability and the droplet stability. According to the simulation results, stable molten droplets can be obtained in the designed experimental setup. The simulation also provides the appropriate values of argon inlet velocity and sample mass at which a stable droplet can be obtained inside the crucible before its discharge. Either higher or lower inlet velocity will destabilize the formation of the droplet. Considering the temperature-dependent melt properties, both surface tension and viscosity affect the movement and deformation of the molten droplet. The wettability of melt on the crucible wall is critical to droplet formation, and it is found that a poor wettability can ensure the levitation of droplet.
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| 9. |
- Deng, Yucheng, et al.
(författare)
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An experimental study on droplet quench and steam explosion in boric acid solutions
- 2023
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Ingår i: Progress in nuclear energy (New series). - : Elsevier BV. - 0149-1970 .- 1878-4224. ; 166
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Tidskriftsartikel (refereegranskat)abstract
- Boric acid (H3BO3) is widely adopted as an additive in the coolant of light water reactors for reactivity control, but its effect on fuel coolant interactions (FCI) during severe accidents (especially on steam explosion) was rarely investigated. To examine the effect of the boric acid additive in coolant on steam explosion, a series of molten droplet-coolant interaction tests using H3BO3 solutions (with concentration ranging from 0-3.2% by weight) is carried out in the present study. The characteristics of melt-coolant interactions are the occurrence probability of typical phenomena (no fragmentation, minor fragmentation, or spontaneous steam explosion), lateral deformation ratio, quench depth, pressure impulse and debris particle size distribution. The statistical data of such characteristics are obtained through repeating 20 runs of the same test category. The experimental results show that the H3BO3 addition in coolant has various impacts on the above-mentioned characteristics of melt-coolant interactions, depending on the H3BO3 concentration. In particular, the probability of steam explosion sightly decreases as the H3BO3 concentration increases from zero to 1.2 wt.%, but significantly increases as the H3BO3 concentration further increases to 3.2 wt.% trough 2.2 wt.%. Namely, the inhibiting effect of boric acid on steam explosion is diminishing with increasing H3BO3 concentration beyond 1.2 wt.%. It is also found that both melt and coolant temperatures are crucial parameters impacting the likelihood and energetics of steam explosion.
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| 10. |
- Deng, Yucheng, et al.
(författare)
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An Experimental study on steam explosion of multiple droplets in different chemical solutions
- 2024
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Ingår i: International Journal of Heat and Mass Transfer. - : Elsevier BV. - 0017-9310 .- 1879-2189. ; 226
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Tidskriftsartikel (refereegranskat)abstract
- Motivated by the interest in steam explosion in chemical solutions and seawater, a series of tests were carried out in the MISTEE facility at KTH to investigate steam explosion characteristics as multiple molten droplets of tin were falling through a coolant pool containing deionized water, boric acid solution, neutral solution of boric acid and sodium phosphate, and seawater, separately. The experimental results revealed distinct and complex characteristics of steam explosion of multiple droplets, which were not observed in previous single-droplet steam explosion experiments. The tin melt samples of 5 g and 20 g were employed to formulate different numbers of multiple droplets. In the test with 5 g melt, steam explosion was more energetic at a deeper explosion location − a similar trend found in the single-droplet steam explosion test with 1 g melt. However, the test of 20 g melt did not show a clear trend in a wide range of explosion depth. The peak pressure and impulse increased with increasing mass of melt sample. The steam explosion occurred more closely to the coolant pool surfaces in the seawater and chemical solutions than in deionized water. Steam explosion intensity was significantly reduced in a neutral solution containing 1.2 wt.% boric acid and sodium phosphate. The influence of the chemical solutions on steam explosion was diminishing in the tests with multiple droplets.
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