Advances in high-throughput sequencing(HTS)have fostered rapid developments in the field of microbiome research,and massive microbiome datasets are now being generated.However,the diversity of software tools and the c...Advances in high-throughput sequencing(HTS)have fostered rapid developments in the field of microbiome research,and massive microbiome datasets are now being generated.However,the diversity of software tools and the complexity of analysis pipelines make it difficult to access this field.Here,we systematically summarize the advantages and limitations of microbiome methods.Then,we recommend specific pipelines for amplicon and metagenomic analyses,and describe commonly-used software and databases,to help researchers select the appropriate tools.Furthermore,we introduce statistical and visualization methods suitable for microbiome analysis,including alpha-and betadiversity,taxonomic composition,difference comparisons,correlation,networks,machine learning,evolution,source tracing,and common visualization styles to help researchers make informed choices.Finally,a stepby-step reproducible analysis guide is introduced.We hope this review will allow researchers to carry out data analysis more effectively and to quickly select the appropriate tools in order to efficiently mine the biological significance behind the data.展开更多
It is essential to prepare highly-efficiency reproducible adsorbent for purifying industrial dye wastewater. In this work, biscuit with a layered porous structure as a template is applied to prepare a photocatalytic r...It is essential to prepare highly-efficiency reproducible adsorbent for purifying industrial dye wastewater. In this work, biscuit with a layered porous structure as a template is applied to prepare a photocatalytic recyclable adsorbent of BiFeO3/Carbon nanocomposites for purifying simulative industrial dye wastewater. It is found that the structure of the prepared BiFeO3/Carbon nanocomposite is related to the natural structure of the biscuit, annealing temperatures and immersing times, demonstrated by XRD, TEM, UV-Vis and adsorptive activities. Kinetics data shows that the adsorption rate of the adsorbent to the dye is rapid and fitted well with the pseudo-second-order model, that more than 80% of dyes can be removed in the beginning 30 min. The adsorption isotherm can be perfectly described by the Langmuir model as well. It can be seen from the adsorption data that the adsorption performance can reach over 90% at pH ? 2–12, which can imply its universal utilization. The prepared BiFeO_3/Carbon nanocomposites have also displayed excellent capacities(over 90% within 30 min) for adsorption of seven different dyes and their mixed one. According to the five times photocatalytic reproducible experiments, it is proved that BiFeO_3/Carbon nanocomposites show the excellent stability and reproduction for purifying simulative industrial dyes, even the sample have been placed for one year. These research results indicate that the adsorbent BiFeO_3/Carbon can be a suitable material used in treating industrial dye wastewater potentially.展开更多
General noise cost functions have been recently proposed for support vector regression(SVR). When applied to tasks whose underlying noise distribution is similar to the one assumed for the cost function, these models ...General noise cost functions have been recently proposed for support vector regression(SVR). When applied to tasks whose underlying noise distribution is similar to the one assumed for the cost function, these models should perform better than classical -SVR. On the other hand, uncertainty estimates for SVR have received a somewhat limited attention in the literature until now and still have unaddressed problems. Keeping this in mind,three main goals are addressed here. First, we propose a framework that uses a combination of general noise SVR models with naive online R minimization algorithm(NORMA) as optimization method, and then gives nonconstant error intervals dependent upon input data aided by the use of clustering techniques. We give theoretical details required to implement this framework for Laplace, Gaussian, Beta, Weibull and Marshall–Olkin generalized exponential distributions. Second, we test the proposed framework in two real-world regression problems using data of two public competitions about solar energy. Results show the validity of our models and an improvement over classical -SVR. Finally, in accordance with the principle of reproducible research, we make sure that data and model implementations used for the experiments are easily and publicly accessible.展开更多
Radial Basis Function methods for scattered data interpolation and for the numerical solution of PDEs were originally implemented in a global manner. Subsequently, it was realized that the methods could be implemented...Radial Basis Function methods for scattered data interpolation and for the numerical solution of PDEs were originally implemented in a global manner. Subsequently, it was realized that the methods could be implemented more efficiently in a local manner and that the local approaches could match or even surpass the accuracy of the global implementations. In this work, three localization approaches are compared: a local RBF method, a partition of unity method, and a recently introduced modified partition of unity method. A simple shape parameter selection method is introduced and the application of artificial viscosity to stabilize each of the local methods when approximating time-dependent PDEs is reviewed. Additionally, a new type of quasi-random center is introduced which may be better choices than other quasi-random points that are commonly used with RBF methods. All the results within the manuscript are reproducible as they are included as examples in the freely available Python Radial Basis Function Toolbox.展开更多
This paper introduces reproducible research(RR),and explains its importance,benefits,and challenges.Some important tools for conducting RR in Transportation Research are also introduced.Moreover,the source code for ge...This paper introduces reproducible research(RR),and explains its importance,benefits,and challenges.Some important tools for conducting RR in Transportation Research are also introduced.Moreover,the source code for generating this paper has been designed in a way so that it can be used as a template for researchers to write their future journal papers as dynamic and reproducible documents.展开更多
Objective:To develop the reproducible in vitro propagation protocols for the medicinally important plants viz.,Achyranthes aspera(A.aspera)L.and Achyranthes bidentata(A.bidentata)Blume using nodal segments as explants...Objective:To develop the reproducible in vitro propagation protocols for the medicinally important plants viz.,Achyranthes aspera(A.aspera)L.and Achyranthes bidentata(A.bidentata)Blume using nodal segments as explants.Methods:Young shoots of A.aspera and A.bidentata were harvested and washed with running tap water and treated with 0.1%bavistin and rinsed twice with distilled water.Then the explants were surface sterilized with 0.1%(w/v)HgCl_2 solutions for I min.After rinsing with sterile distilled water for 3-4 times,nodal segments were cut into smaller segments(1 cm)and used as the explants.The explants were placed horizontally as well as vertically on solid basal Murashige and Skoog(MS)medium supplemented with 3%sucrose,0.6%(w/v)agar(HiMedia,Mumbai)and different concentration and combination of 6-benzyl amino purine(BAP),kinetin(Kin),naphthalene acetic acid(NAA)and indole acetic acid(IAA)for direct regeneration.Results:Adventitious proliferation was obtained from A.aspera and A.bidentata nodal segments inoculated on MS basal medium with 3%sucrose and augmented with BAP and Kin with varied frequency.MS medium augmented with 3.0 mg/L of BAP showed the highest percentage(93.60±0.71)of shootlets formation for A.aspera and(94.70±0.53)percentages for A.bidentata.Maximum number of shoots/explants(10.60±0.36)for A.aspera and(9.50±0.56)for A.bidentata was observed in MS medium fortified with 5.0 mg/L of BAP.For A.aspera,maximum mean length(5.50±0.34)of shootlets was obtained in MS medium augmented with 3.0 mg/L of Kin and for A.bidentata(5.40±0.61)was observed in the very same concentration.The highest percentage,maximum number of rootlets/shootlet and mean length of rootlets were observed in 1/2 MS medium supplemented with 1.0 mg/L of 1BA.Seventy percentages of plants were successfully established in polycups.Sixty eight percentages of plants were well established in the green house condition.Sixty five percentages of plants were established in the field.Conclusions:The results have shown that use of nodal buds 展开更多
Bio-memristor can address the inherent limitations of conventional memory components in artificial perceptual systems due to their biocompatibility with biological tissue.The actual deployment of bio-memristor is rest...Bio-memristor can address the inherent limitations of conventional memory components in artificial perceptual systems due to their biocompatibility with biological tissue.The actual deployment of bio-memristor is restricted by the lack of reproducibility,high power consumption,and insufficient storage capacity.Here,a reproducible and low-power multistate biomemristor is developed by designing the chitosan(CS)-reduced graphene oxide(rGO)interpenetrating network electrolyte.The interpenetrating network structure of the CS-rGO electrolyte reinforces structural stability and improves ionic conductivity.The bio-memristor equipped with CS-rGO active layer shows stable bipolar resistive switching up to 100 consecutive cycles,reproducible multistate storage with six different memory states,and low programming power of 9.4μW.The fabricated biocompatible CS-rGO device also exhibits deformation stability of memory operation over 103 bending cycles,high biocompatibility with HEK293 cells,and skin adhesion.This work provides an enlightening design strategy to develop highperformance bio-memristors for applications in artificial perceptual systems.展开更多
In recent years, with the rapid development of large-scale distributed wireless sensor systems and micro-power devices, the disadvantages of traditional chemical battery power supply mode are becoming more and more ob...In recent years, with the rapid development of large-scale distributed wireless sensor systems and micro-power devices, the disadvantages of traditional chemical battery power supply mode are becoming more and more obvious. Piezoelectric energy collector has attracted wide attention because of its simple structure, no heating, no electromagnetic interference, environmental protection and easy miniaturization. Wind energy is a reproducible resource. Wind energy harvester based on piezoelectric intelligent material can be named piezoelectric wind energy harvesting which converts wind energy into electric power and will have great application prospect. To promote the development of piezoelectric wind energy harvesting technology, research statuses on piezoelectric wind energy harvesting technology are reviewed. The existing problem and development direction about piezoelectric wind energy harvester in the future are discussed. The study will be helpful for researchers engaged in piezoelectric wind energy harvesting.展开更多
基金This work was supported by grants from the Strategic Priority Research Program of the Chinese Academy of Sciences(Precision Seed Design and Breeding,XDA24020104)the Key Research Program of Frontier Sciences of the Chinese Academy of Science(grant nos.QYZDB-SSW-SMC021)the National Natural Science Foundation of China(grant nos.31772400).
文摘Advances in high-throughput sequencing(HTS)have fostered rapid developments in the field of microbiome research,and massive microbiome datasets are now being generated.However,the diversity of software tools and the complexity of analysis pipelines make it difficult to access this field.Here,we systematically summarize the advantages and limitations of microbiome methods.Then,we recommend specific pipelines for amplicon and metagenomic analyses,and describe commonly-used software and databases,to help researchers select the appropriate tools.Furthermore,we introduce statistical and visualization methods suitable for microbiome analysis,including alpha-and betadiversity,taxonomic composition,difference comparisons,correlation,networks,machine learning,evolution,source tracing,and common visualization styles to help researchers make informed choices.Finally,a stepby-step reproducible analysis guide is introduced.We hope this review will allow researchers to carry out data analysis more effectively and to quickly select the appropriate tools in order to efficiently mine the biological significance behind the data.
基金financial support from the NSFC project(21501052 and 91622119)the China Postdoctoral Science Foundation(2015M570304)+2 种基金Special Funding for Postdoctoral of Heilongjiang Province(LBH-TZ06019)the Science Foundation for Excellent Youth of Harbin City of China(2016RQQXJ099)UNPYSCT-2016173
文摘It is essential to prepare highly-efficiency reproducible adsorbent for purifying industrial dye wastewater. In this work, biscuit with a layered porous structure as a template is applied to prepare a photocatalytic recyclable adsorbent of BiFeO3/Carbon nanocomposites for purifying simulative industrial dye wastewater. It is found that the structure of the prepared BiFeO3/Carbon nanocomposite is related to the natural structure of the biscuit, annealing temperatures and immersing times, demonstrated by XRD, TEM, UV-Vis and adsorptive activities. Kinetics data shows that the adsorption rate of the adsorbent to the dye is rapid and fitted well with the pseudo-second-order model, that more than 80% of dyes can be removed in the beginning 30 min. The adsorption isotherm can be perfectly described by the Langmuir model as well. It can be seen from the adsorption data that the adsorption performance can reach over 90% at pH ? 2–12, which can imply its universal utilization. The prepared BiFeO_3/Carbon nanocomposites have also displayed excellent capacities(over 90% within 30 min) for adsorption of seven different dyes and their mixed one. According to the five times photocatalytic reproducible experiments, it is proved that BiFeO_3/Carbon nanocomposites show the excellent stability and reproduction for purifying simulative industrial dyes, even the sample have been placed for one year. These research results indicate that the adsorbent BiFeO_3/Carbon can be a suitable material used in treating industrial dye wastewater potentially.
基金With partial support from Spain’s grants TIN2013-42351-P, TIN2016-76406-P, TIN2015-70308-REDT, as well as S2013/ICE-2845 CASI-CAM-CMsupported also by project FACIL–Ayudas Fundación BBVA a Equipos de Investigación Científica 2016
文摘General noise cost functions have been recently proposed for support vector regression(SVR). When applied to tasks whose underlying noise distribution is similar to the one assumed for the cost function, these models should perform better than classical -SVR. On the other hand, uncertainty estimates for SVR have received a somewhat limited attention in the literature until now and still have unaddressed problems. Keeping this in mind,three main goals are addressed here. First, we propose a framework that uses a combination of general noise SVR models with naive online R minimization algorithm(NORMA) as optimization method, and then gives nonconstant error intervals dependent upon input data aided by the use of clustering techniques. We give theoretical details required to implement this framework for Laplace, Gaussian, Beta, Weibull and Marshall–Olkin generalized exponential distributions. Second, we test the proposed framework in two real-world regression problems using data of two public competitions about solar energy. Results show the validity of our models and an improvement over classical -SVR. Finally, in accordance with the principle of reproducible research, we make sure that data and model implementations used for the experiments are easily and publicly accessible.
文摘Radial Basis Function methods for scattered data interpolation and for the numerical solution of PDEs were originally implemented in a global manner. Subsequently, it was realized that the methods could be implemented more efficiently in a local manner and that the local approaches could match or even surpass the accuracy of the global implementations. In this work, three localization approaches are compared: a local RBF method, a partition of unity method, and a recently introduced modified partition of unity method. A simple shape parameter selection method is introduced and the application of artificial viscosity to stabilize each of the local methods when approximating time-dependent PDEs is reviewed. Additionally, a new type of quasi-random center is introduced which may be better choices than other quasi-random points that are commonly used with RBF methods. All the results within the manuscript are reproducible as they are included as examples in the freely available Python Radial Basis Function Toolbox.
基金financially supported by the Key Basic and Applied Research Program of Guangdong Province,China(2019B030302010)the National Key Research and Development Program of China(2018YFA0703605)+1 种基金the National Science Foundation of China(52122105,51971150)the Science and Technology Innovation Commission Shenzhen(RCJC20221008092730037,20220804091920001)。
文摘This paper introduces reproducible research(RR),and explains its importance,benefits,and challenges.Some important tools for conducting RR in Transportation Research are also introduced.Moreover,the source code for generating this paper has been designed in a way so that it can be used as a template for researchers to write their future journal papers as dynamic and reproducible documents.
文摘Objective:To develop the reproducible in vitro propagation protocols for the medicinally important plants viz.,Achyranthes aspera(A.aspera)L.and Achyranthes bidentata(A.bidentata)Blume using nodal segments as explants.Methods:Young shoots of A.aspera and A.bidentata were harvested and washed with running tap water and treated with 0.1%bavistin and rinsed twice with distilled water.Then the explants were surface sterilized with 0.1%(w/v)HgCl_2 solutions for I min.After rinsing with sterile distilled water for 3-4 times,nodal segments were cut into smaller segments(1 cm)and used as the explants.The explants were placed horizontally as well as vertically on solid basal Murashige and Skoog(MS)medium supplemented with 3%sucrose,0.6%(w/v)agar(HiMedia,Mumbai)and different concentration and combination of 6-benzyl amino purine(BAP),kinetin(Kin),naphthalene acetic acid(NAA)and indole acetic acid(IAA)for direct regeneration.Results:Adventitious proliferation was obtained from A.aspera and A.bidentata nodal segments inoculated on MS basal medium with 3%sucrose and augmented with BAP and Kin with varied frequency.MS medium augmented with 3.0 mg/L of BAP showed the highest percentage(93.60±0.71)of shootlets formation for A.aspera and(94.70±0.53)percentages for A.bidentata.Maximum number of shoots/explants(10.60±0.36)for A.aspera and(9.50±0.56)for A.bidentata was observed in MS medium fortified with 5.0 mg/L of BAP.For A.aspera,maximum mean length(5.50±0.34)of shootlets was obtained in MS medium augmented with 3.0 mg/L of Kin and for A.bidentata(5.40±0.61)was observed in the very same concentration.The highest percentage,maximum number of rootlets/shootlet and mean length of rootlets were observed in 1/2 MS medium supplemented with 1.0 mg/L of 1BA.Seventy percentages of plants were successfully established in polycups.Sixty eight percentages of plants were well established in the green house condition.Sixty five percentages of plants were established in the field.Conclusions:The results have shown that use of nodal buds
基金the National Key Research and Development Program of China,Grant/Award Number:2018YFA0703500National Natural Science Foundation of China,Grant/Award Numbers:51991340,51991342,52072029,52102153,52188101+2 种基金the Overseas Expertise Introduction Projects for Discipline Innovation,Grant/Award Number:B14003the China Postdoctoral Science Foundation,Grant/Award Number:2021M700379the Fundamental Research Funds for Central Universities,Grant/Award Number:FRFTP-18-001C1。
文摘Bio-memristor can address the inherent limitations of conventional memory components in artificial perceptual systems due to their biocompatibility with biological tissue.The actual deployment of bio-memristor is restricted by the lack of reproducibility,high power consumption,and insufficient storage capacity.Here,a reproducible and low-power multistate biomemristor is developed by designing the chitosan(CS)-reduced graphene oxide(rGO)interpenetrating network electrolyte.The interpenetrating network structure of the CS-rGO electrolyte reinforces structural stability and improves ionic conductivity.The bio-memristor equipped with CS-rGO active layer shows stable bipolar resistive switching up to 100 consecutive cycles,reproducible multistate storage with six different memory states,and low programming power of 9.4μW.The fabricated biocompatible CS-rGO device also exhibits deformation stability of memory operation over 103 bending cycles,high biocompatibility with HEK293 cells,and skin adhesion.This work provides an enlightening design strategy to develop highperformance bio-memristors for applications in artificial perceptual systems.
文摘In recent years, with the rapid development of large-scale distributed wireless sensor systems and micro-power devices, the disadvantages of traditional chemical battery power supply mode are becoming more and more obvious. Piezoelectric energy collector has attracted wide attention because of its simple structure, no heating, no electromagnetic interference, environmental protection and easy miniaturization. Wind energy is a reproducible resource. Wind energy harvester based on piezoelectric intelligent material can be named piezoelectric wind energy harvesting which converts wind energy into electric power and will have great application prospect. To promote the development of piezoelectric wind energy harvesting technology, research statuses on piezoelectric wind energy harvesting technology are reviewed. The existing problem and development direction about piezoelectric wind energy harvester in the future are discussed. The study will be helpful for researchers engaged in piezoelectric wind energy harvesting.
