cometadata/datacite-rtg-text-other-reclassification-records huggingface dataset:
Fast Bayesian Factor Analysis via Automatic Rotations to Sparsity
Creators: name: Ročková, Veronika
name: George, Edward I.
Publisher: name: Taylor & Francis
Year: 2019
Subjects: subject: Space Science
subject: Genetics
subject: FOS: Biological sciences
subject: Pharmacology
subject: 19999 Mathematical Sciences not elsewhere classified
subject: FOS: Mathematics
subject: Developmental Biology
subject: 111714 Mental Health
subject: FOS: Health sciences
subject: 110309 Infectious Diseases

description: Rotational post hoc transformations have traditionally played a key role in enhancing the interpretability of factor analysis. Regularization methods also serve to achieve this goal by prioritizing sparse loading matrices. In this work, we bridge these two paradigms with a unifying Bayesian framework. Our approach deploys intermediate factor rotations throughout the learning process, greatly enhancing the effectiveness of sparsity inducing priors. These automatic rotations to sparsity are embedded within a PXL-EM algorithm, a Bayesian variant of parameter-expanded EM for posterior mode detection. By iterating between soft-thresholding of small factor loadings and transformations of the factor basis, we obtain (a) dramatic accelerations, (b) robustness against poor initializations, and (c) better oriented sparse solutions. To avoid the prespecification of the factor cardinality, we extend the loading matrix to have infinitely many columns with the Indian buffet process (IBP) prior. The factor dimensionality is learned from the posterior, which is shown to concentrate on sparse matrices. Our deployment of PXL-EM performs a dynamic posterior exploration, outputting a solution path indexed by a sequence of spike-and-slab priors. For accurate recovery of the factor loadings, we deploy the spike-and-slab LASSO prior, a two-component refinement of the Laplace prior. A companion criterion, motivated as an integral lower bound, is provided to effectively select the best recovery. The potential of the proposed procedure is demonstrated on both simulated and real high-dimensional data, which would render posterior simulation impractical. Supplementary materials for this article are available online.
Fast Bayesian Factor Analysis via Automatic Rotations to Sparsity
Creators: name: Ročková, Veronika
name: George, Edward I.
Publisher: name: Taylor & Francis
Year: 2017
Subjects: subject: Space Science
subject: Genetics
subject: FOS: Biological sciences
subject: Pharmacology
subject: 19999 Mathematical Sciences not elsewhere classified
subject: FOS: Mathematics
subject: Developmental Biology
subject: 111714 Mental Health
subject: FOS: Health sciences
subject: 110309 Infectious Diseases

description: Rotational post hoc transformations have traditionally played a key role in enhancing the interpretability of factor analysis. Regularization methods also serve to achieve this goal by prioritizing sparse loading matrices. In this work, we bridge these two paradigms with a unifying Bayesian framework. Our approach deploys intermediate factor rotations throughout the learning process, greatly enhancing the effectiveness of sparsity inducing priors. These automatic rotations to sparsity are embedded within a PXL-EM algorithm, a Bayesian variant of parameter-expanded EM for posterior mode detection. By iterating between soft-thresholding of small factor loadings and transformations of the factor basis, we obtain (a) dramatic accelerations, (b) robustness against poor initializations, and (c) better oriented sparse solutions. To avoid the prespecification of the factor cardinality, we extend the loading matrix to have infinitely many columns with the Indian buffet process (IBP) prior. The factor dimensionality is learned from the posterior, which is shown to concentrate on sparse matrices. Our deployment of PXL-EM performs a dynamic posterior exploration, outputting a solution path indexed by a sequence of spike-and-slab priors. For accurate recovery of the factor loadings, we deploy the spike-and-slab LASSO prior, a two-component refinement of the Laplace prior. A companion criterion, motivated as an integral lower bound, is provided to effectively select the best recovery. The potential of the proposed procedure is demonstrated on both simulated and real high-dimensional data, which would render posterior simulation impractical. Supplementary materials for this article are available online.
Identifiability of Normal and Normal Mixture Models With Nonignorable Missing Data
Creators: name: Ding, Peng
name: Geng, Zhi
name: Miao, Wang
Publisher: name: Taylor & Francis
Year: 2015
Subjects: subject: Hematology
subject: Science Policy
subject: Mathematics
subject: FOS: Mathematics
subject: Information and Computing Sciences
subject: Biological Sciences
subject: Astronomy, Astrophysics, Space Science
subject: Biotechnology
subject: Molecular Biology
subject: Cell Biology
subject: Medicine

description: Missing data problems arise in many applied research studies. They may jeopardize statistical inference of the model of interest, if the missing mechanism is nonignorable, that is, the missing mechanism depends on the missing values themselves even conditional on the observed data. With a nonignorable missing mechanism, the model of interest is often not identifiable without imposing further assumptions. We find that even if the missing mechanism has a known parametric form, the model is not identifiable without specifying a parametric outcome distribution. Although it is fundamental for valid statistical inference, identifiability under nonignorable missing mechanisms is not established for many commonly-used models. In this paper, we first demonstrate identifiability of the normal distribution under monotone missing mechanisms. We then extend it to the normal mixture and t mixture models with non-monotone missing mechanisms. We discover that models under the Logistic missing mechanism are less identifiable than those under the Probit missing mechanism. We give necessary and sufficient conditions for identifiability of models under the Logistic missing mechanism, which sometimes can be checked in real data analysis. We illustrate our methods using a series of simulations, and apply them to a real-life dataset.
Interdigitated Terahertz Metamaterial Sensors: Design with the Dielectric Perturbation Theory
Creators: name: Cao, Lei
name: Meng, Fanqi
name: Özdemir, Esra
name: Loth, Yannik
name: Richter, Merle
name: Wigger, Anna Katharina
name: Sosa, Maira Pérez
name: Jumaah, Alaa Jabbar
name: Al-Daffaie, Shihab
name: Bolívar, Peter Haring
name: Roskos, Hartmut G.
Publisher: name: arXiv
Year: 2023
Subjects: subject: Optics (physics.optics)
subject: Instrumentation and Detectors (physics.ins-det)
subject: FOS: Physical sciences

description: Designing terahertz sensors with high sensitivity to detect nanoscale thin films and single biomolecule presents a significant challenge, and addressing these obstacles is crucial for unlocking their full potential in scientific research and advanced applications. This work presents a strategy for the design optimization of metamaterial sensors employed in the detection of small amounts of dielectric materials. The sensors usually utilize the shift of the resonance frequency as an indicator of the presence of the analyte. The amount of shifting depends on intrinsic properties (electric field distribution, quality factor, and mode volume) of the bare cavity, as well as the overlap volume of its high-electric-field zone(s) and the analyte. Guided by the simplified dielectric perturbation theory, interdigitated electric split-ring resonators (ID-eSRR) are devised to significantly enhance the detection sensitivity for thin-film analytes compared to eSRRs without interdigitated fingers in the SRR gap region. The fingers of the ID-eSRR metamaterial sensor redistribute the electric field, creating strongly localized field enhancements that substantially boost the interaction with the analyte. Additionally, the periodic change of the orientation of the inherent anti-phase electric field in the interdigitated structure reduces radiation loss, leading to a higher Q-factor. Experiments with e-beam-fabricated ID-eSRR sensors operating at around 300 GHz demonstrate a remarkable frequency shift of 33.5 GHz upon deposition of a SiO2 layer with a thickness of 150 nm as an analyte simulant. The figure of merit (FOM) improves by over 50 times compared to structures without interdigitated fingers. This rational design option opens a promising avenue for highly sensitive detection of thin films and trace biomolecules.
description: 16pages, 6 figures
Accelerating Asymptotically Exact MCMC for Computationally Intensive Models via Local Approximations
Creators: name: Conrad, Patrick R.
name: Marzouk, Youssef M.
name: Natesh S. Pillai
name: Smith, Aaron
Publisher: name: Taylor & Francis
Year: 2019
Subjects: subject: Neuroscience
subject: Immunology
subject: FOS: Clinical medicine
subject: 69999 Biological Sciences not elsewhere classified
subject: FOS: Biological sciences
subject: 19999 Mathematical Sciences not elsewhere classified
subject: FOS: Mathematics
subject: 111714 Mental Health
subject: FOS: Health sciences

description: We construct a new framework for accelerating Markov chain Monte Carlo in posterior sampling problems where standard methods are limited by the computational cost of the likelihood, or of numerical models embedded therein. Our approach introduces local approximations of these models into the Metropolis–Hastings kernel, borrowing ideas from deterministic approximation theory, optimization, and experimental design. Previous efforts at integrating approximate models into inference typically sacrifice either the sampler’s exactness or efficiency; our work seeks to address these limitations by exploiting useful convergence characteristics of local approximations. We prove the ergodicity of our approximate Markov chain, showing that it samples asymptotically from the exact posterior distribution of interest. We describe variations of the algorithm that employ either local polynomial approximations or local Gaussian process regressors. Our theoretical results reinforce the key observation underlying this article: when the likelihood has some local regularity, the number of model evaluations per Markov chain Monte Carlo (MCMC) step can be greatly reduced without biasing the Monte Carlo average. Numerical experiments demonstrate multiple order-of-magnitude reductions in the number of forward model evaluations used in representative ordinary differential equation (ODE) and partial differential equation (PDE) inference problems, with both synthetic and real data. Supplementary materials for this article are available online.
Decoding Social Sentiment in DAO: A Comparative Analysis of Blockchain Governance Communities
Creators: name: Quan, Yutong
name: Wu, Xintong
name: Deng, Wanlin
name: Zhang, Luyao
Publisher: name: arXiv
Year: 2023
Subjects: subject: Computers and Society (cs.CY)
subject: Cryptography and Security (cs.CR)
subject: Human-Computer Interaction (cs.HC)
subject: General Economics (econ.GN)
subject: Applications (stat.AP)
subject: FOS: Computer and information sciences
subject: FOS: Economics and business

description: Blockchain technology is leading a revolutionary transformation across diverse industries, with effective governance being critical for the success and sustainability of blockchain projects. Community forums, pivotal in engaging decentralized autonomous organizations (DAOs), significantly impact blockchain governance decisions. Concurrently, Natural Language Processing (NLP), particularly sentiment analysis, provides powerful insights from textual data. While prior research has explored the potential of NLP tools in social media sentiment analysis, there is a gap in understanding the sentiment landscape of blockchain governance communities. The evolving discourse and sentiment dynamics on the forums of top DAOs remain largely unknown. This paper delves deep into the evolving discourse and sentiment dynamics on the public forums of leading DeFi projects: Aave, Uniswap, Curve DAO, Yearn.finance, Merit Circle, and Balancer, focusing primarily on discussions related to governance issues. Our study shows that participants in decentralized communities generally express positive sentiments during Discord discussions. Furthermore, there is a potential interaction between discussion intensity and sentiment dynamics; higher discussion volume may contribute to a more stable sentiment from code analysis. The insights gained from this study are valuable for decision-makers in blockchain governance, underscoring the pivotal role of sentiment analysis in interpreting community emotions and its evolving impact on the landscape of blockchain governance. This research significantly contributes to the interdisciplinary exploration of the intersection of blockchain and society, specifically emphasizing the decentralized blockchain governance ecosystem. We provide our data and code for replicability as open access on GitHub.
Using Ranked Set Sampling With Cluster Randomized Designs for Improved Inference on Treatment Effects
Creators: name: Xinlei Wang
name: Lim, Johan
name: Stokes, Lynne
Publisher: name: Taylor & Francis
Year: 2017
Subjects: subject: Biotechnology
subject: 69999 Biological Sciences not elsewhere classified
subject: FOS: Biological sciences
subject: 19999 Mathematical Sciences not elsewhere classified
subject: FOS: Mathematics
subject: Cancer

description: This article examines the use of ranked set sampling (RSS) with cluster randomized designs (CRDs), for potential improvement in estimation and detection of treatment or intervention effects. Outcome data in cluster randomized studies typically have nested structures, where hierarchical linear models (HLMs) become a natural choice for data analysis. However, nearly all theoretical developments in RSS to date are within the structure of one-level models. Thus, implementation of RSS at one or more levels of an HLM will require development of new theory and methods. Under RSS-structured CRDs developed to incorporate RSS at different levels, a nonparametric estimator of the treatment effect is proposed; and its theoretical properties are studied under a general HLM that has almost no distributional assumptions. We formally quantify the magnitude of the improvement from using RSS over SRS (simple random sampling), investigate the relationship between design parameters and relative efficiency, and establish connections with one-level RSS under completely balanced CRDs, as well as studying the impact of clustering and imperfect ranking. Further, based on the proposed RSS estimator, a new test is constructed to detect treatment effects, which is distribution-free and easy to use. Simulation studies confirm that in general, the proposed test is more powerful than the conventional F-test for the original CRDs, especially for small or medium effect sizes. Two empirical studies, one using data from educational research (i.e., the motivating application) and the other using human dental data, show that our methods work well in real-world settings and our theory provides useful predictions at the stage of experimental design, and that substantial gains may be obtained from using RSS at either level. Supplementary materials for this article are available online.
Benthic macrofaunal assemblage in seagrass-mangrove complex and adjacent ecosystems of Punang-Sari Estuary, Lawas, Sarawak, Malaysia
Creators: name: Al-Asif, Abdulla
Publisher: name: figshare
Year: 2022
Subjects: subject: 60205 Marine and Estuarine Ecology (incl. Marine Ichthyology)
subject: FOS: Biological sciences
subject: Marine Biology
subject: 60202 Community Ecology (excl. Invasive Species Ecology)
subject: 50104 Landscape Ecology
subject: FOS: Earth and related environmental sciences
subject: 50199 Ecological Applications not elsewhere classified
subject: 60411 Population, Ecological and Evolutionary Genetics
subject: 50101 Ecological Impacts of Climate Change
subject: Ecology
subject: 60207 Population Ecology
subject: 60299 Ecology not elsewhere classified
subject: 50103 Invasive Species Ecology

description: Present study dealt with the on faunal and in faunal assemblage from seagrass bed, mangrove area, and adjacent non-mangrove and seagrass (NMS) in Punang-Sari estuary, Lawas, Sarawak, Malaysia. Samples were collected from June to July 2019 using quadrates and handpicking from the outside the sampling area to know the real checklist of surface macrofauna in this area. A ten-meter transect line was settled in three habitat areas where sampling was performed by putting three quadrates (0.35m×0.35m). Epifauna and infauna samples were collected from inside the quadrate and sieved using 0.4 mm mesh size sieve. A total of 111 species of gastropod (87 species from 30 families), bivalve (18 species from 9 families), Polychaeta (2 species), echinoderms (1 species), and crustacean (3 species) were recorded during the study period. Seagrass meadows comprised most diverse and abundant faunal (50 species) assemblage followed by mangrove habitats (48 species), and NMS (20 species). The dendrogram revealed two significant habitats in the sampling site. PCA analysis revealed, seagrass habitat sheltered a higher number of species followed by mangrove and NMS area. Jaccard similarity index revealed seagrass and mangrove habitats (0.42) contains the highest similar species amongst all habitats compared to mangrove and non-seagrass-mangrove area (0.26). Out of total species recorded (101), only ten species were reported as least concern, and 2 species hold deficient data status, and the rest are not evaluated. Bio-assemblage in seagrass habitat was found rich compared to other habitats, which could be useful for future ecological investigation and marine ranching.
Accelerating Asymptotically Exact MCMC for Computationally Intensive Models via Local Approximations
Creators: name: Conrad, Patrick R.
name: Marzouk, Youssef M.
name: Natesh S. Pillai
name: Smith, Aaron
Publisher: name: Taylor & Francis
Year: 2015
Subjects: subject: Neuroscience
subject: Immunology
subject: FOS: Clinical medicine
subject: 69999 Biological Sciences not elsewhere classified
subject: FOS: Biological sciences
subject: 19999 Mathematical Sciences not elsewhere classified
subject: FOS: Mathematics
subject: 111714 Mental Health
subject: FOS: Health sciences

description: We construct a new framework for accelerating Markov chain Monte Carlo in posterior sampling problems where standard methods are limited by the computational cost of the likelihood, or of numerical models embedded therein. Our approach introduces local approximations of these models into the Metropolis–Hastings kernel, borrowing ideas from deterministic approximation theory, optimization, and experimental design. Previous efforts at integrating approximate models into inference typically sacrifice either the sampler’s exactness or efficiency; our work seeks to address these limitations by exploiting useful convergence characteristics of local approximations. We prove the ergodicity of our approximate Markov chain, showing that it samples asymptotically from the exact posterior distribution of interest. We describe variations of the algorithm that employ either local polynomial approximations or local Gaussian process regressors. Our theoretical results reinforce the key observation underlying this article: when the likelihood has some local regularity, the number of model evaluations per Markov chain Monte Carlo (MCMC) step can be greatly reduced without biasing the Monte Carlo average. Numerical experiments demonstrate multiple order-of-magnitude reductions in the number of forward model evaluations used in representative ordinary differential equation (ODE) and partial differential equation (PDE) inference problems, with both synthetic and real data. Supplementary materials for this article are available online.
Extraction and detection of mitragynine in Kratom leaves by high-performance liquid chromatography
Creators: name: Ng, Karno
name: Ha, Taehoon
Publisher: name: Taylor & Francis
Year: 2024
Subjects: subject: Biochemistry
subject: Environmental Sciences not elsewhere classified
subject: Chemical Sciences not elsewhere classified
subject: Ecology
subject: FOS: Biological sciences
subject: Biological Sciences not elsewhere classified
subject: Science Policy

description: Mitragyna speciosa, also known as Kratom, is an evergreen tree native to Southeast Asia that has been used in traditional medicine to relieve pain. The primary active alkaloid, mitragynine, found in Kratom leaves affects the same µ-receptor as the opioids. The potential effects of Kratom leaves on humans draw international concerns. The purpose of this study is to develop an efficient extraction method for mitragynine from dried Kratom leaves. Mitragynine was extracted from grounded Kratom leaves by liquid-liquid extraction and detected by an HPLC system with a C-18 column. The extracted sample was eluted with a mobile phase of 0.05% formic acid and acetonitrile (50:50, v/v), flow rate = 1.0 mL/min. Mitragynine was detected at 223 nm. The amount of mitragynine in four different strains of Kratom leaves was determined (wt/wt). Intra-day (n = 3) and inter-day(n = 3) studies show excellent precision with RSD < 2.1% and RSD < 3.6% respectively.
OsATG7 is required for autophagy-dependent lipid metabolism in rice postmeiotic anther development
Creators: name: Takamitsu Kurusu
name: Hanamata, Shigeru
name: Yagi, Chikako
name: Nagata, Noriko
name: Yamamoto, Takashi
name: Kitahata, Nobutaka
name: Miyao, Akio
name: Hirochika, Hirohiko
name: Shimada, Hiroaki
name: Amane Makino
name: Saito, Kazuki
name: Ishida, Hiroyuki
name: Kinoshita, Tetsu
name: Kurata, Nori
name: Kuchitsu, Kazuyuki
name: Koyano, Tomoko
name: Kubo, Takahiko
name: Noguchi, Yuhei
name: Ohnishi, Takayuki
name: Yozo Okazaki
name: Ando, Daichi
name: Ishikawa, Masaya
name: Wada, Shinya
Publisher: name: Taylor & Francis
Year: 2014
Subjects: subject: Developmental Biology
subject: Biological Sciences
subject: Ecology
subject: FOS: Biological sciences
subject: Earth and Environmental Sciences
subject: Physiology
subject: Molecular Biology
subject: Genetics
subject: Cell Biology
subject: Biochemistry

description: In flowering plants, the tapetum, the innermost layer of the anther, provides both nutrient and lipid components to developing microspores, pollen grains, and the pollen coat. Though the programmed cell death of the tapetum is one of the most critical and sensitive steps for fertility and is affected by various environmental stresses, its regulatory mechanisms remain mostly unknown. Here we show that autophagy is required for the metabolic regulation and nutrient supply in anthers and that autophagic degradation within tapetum cells is essential for postmeiotic anther development in rice. Autophagosome-like structures and several vacuole-enclosed lipid bodies were observed in postmeiotic tapetum cells specifically at the uninucleate stage during pollen development, which were completely abolished in a retrotransposon-insertional OsATG7 (autophagy-related 7)-knockout mutant defective in autophagy, suggesting that autophagy is induced in tapetum cells. Surprisingly, the mutant showed complete sporophytic male sterility, failed to accumulate lipidic and starch components in pollen grains at the flowering stage, showed reduced pollen germination activity, and had limited anther dehiscence. Lipidomic analyses suggested impairment of editing of phosphatidylcholines and lipid desaturation in the mutant during pollen maturation. These results indicate a critical involvement of autophagy in a reproductive developmental process of rice, and shed light on the novel autophagy-mediated regulation of lipid metabolism in eukaryotic cells.
The synergies of SMAP enhanced and MODIS products in a random forest regression for estimating 1 km soil moisture over Africa using Google Earth Engine
Creators: name: Mohseni, Farzane
name: Ahrari, Amirhossein
name: Haunert, Jan-Henrik
name: Montzka, Carsten
Publisher: name: Taylor & Francis
Year: 2023
Subjects: subject: Biotechnology
subject: Information Systems not elsewhere classified
subject: Inorganic Chemistry
subject: FOS: Chemical sciences
subject: Plant Biology
subject: FOS: Biological sciences

description: Due to the coarse scale of soil moisture products retrieved from passive microwave observations (SMPMW), several downscaling methods have been developed to enable regional scale applications. However, it can be challenging for users to access final data products and algorithms, as well as managing different data sources and formats, various data processing methods, and the complexity of the workflows from raw data to information products. Here, the Google Earth Engine (GEE), which as of late offers SMPMW, is used to implement a workflow for retrieving 1 km SM at a depth of 0–5 cm using MODIS optical/thermal measurements, the SMPMW coarse scale product, and a random forest regression. The proposed method was implemented on the African continent to estimate weekly SM maps. The results of this study were evaluated against in-situ measurements of three validation networks. Overall, in comparison to the original SMPMW product, which was limited by a spatial resolution of only 9 km, this method is able to estimate SM at 1 km spatial resolution with acceptable accuracy (an average correlation coefficient of 0.64 and a ubRMSD of 0.069 m3/m3). The results show that the proposed method in GEE provides a precise estimation of SM with a higher spatial resolution across the entire continent.
Annotations on Avisblatt 1746, Issue 1
Creators: name: University of Basel
Publisher: name: hasdai.org
Year: 2024
Subjects: Annotated

description: This Zenodo record is an infrastructure proof-of-concept, presenting research using an InvenioRDM corpus repository comprising the complete issues of the Basel Avisblatt, which was published between 1729 and 1845. That repository, containing annotated digital imagery together with background about the Printed Markets project which produced it is available at https://avisblatt.dg-basel.hasdai.org/  Printed Markets developed optical recognition (OCR) for the multiple typefaces and languages appearing in the Avisblatt, using a neural network approach in collaboration with the Transkribus project. Manual annotations were made by scholars using the Data Futures annostor application, in order to provide training data for the neural network to produce a transcription of the corpus. Further training datasets identifying individual advertisements in the Avisblatt were then generated in the same way, enabling another neural network to define the boundaries of all advertisements.

This record presents annotations of advertisments which appeared in issue 1 of Avisblatt in 1746 using an alternate Zenodo previewer, which provides zooming of the high-resolution page imagery via IIIF, and interactive display of advertisement transcriptions as Web Annotation Data Model (WADM) anotations. Approximately 800,000 such annotations are available in the Avisblatt corpus repository.
Enhance the contribution of small indigenous fish production: Emphasis mola (Amblypharyngodon mola) with carps in North-West of Bangladesh
Creators: name: Al-Asif, Abdulla
Publisher: name: figshare
Year: 2022
Subjects: subject: 70401 Aquaculture
subject: FOS: Agriculture, forestry and fisheries
subject: 70402 Aquatic Ecosystem Studies and Stock Assessment
subject: 70403 Fisheries Management
subject: 70406 Post-Harvest Fisheries Technologies (incl. Transportation)
subject: 70499 Fisheries Sciences not elsewhere classified
subject: 70404 Fish Pests and Diseases
subject: 70405 Fish Physiology and Genetics

description: Abstract: Background and Objective: Eco-climatic condition is highly favorable to conduct the aquaculture farm operation in Riverine Bangladesh and recently aquaculture became a profitable and nutritious source of agriculture and this study conducted to enhance the production of small indigenous fish with carps in Bangladesh. Materials and Methods: An on-farm experiment was carried on 240 days during April-December, 2012 at North-west Bangladesh to produce more small fish with the carps. All of the household ponds (200-600 m2) were stocked with the fingerlings of Labeo rohita, Catla catla, Cirrhinus cirrhosus, Hypophthalmichthys molitrix, Ctenopharyngodon idella, Labeo bata and Amblypharyngodon mola at different rate. There were three treatments and interfering the period of culture varied the production frequency of mola which produced more or less in the experimental ponds. Results: All the recorded water quality parameters varied significantly differences (p>0.05) among the treatments except transparency and dissolved oxygen. The growth performance of all the carps, silver carp was the first growing and bata was the lowest. The total fish production was the highest (3783.30 kg ha–1) in early stocking (EST) and the lowest (2836.61 kg ha–1) in existing stocking (EXST) treatment, but the total small fish production (55%) was higher in the EXST ponds than seasonal stocking (SST) and EST ponds. The highest SGR and the rate of survival of carps were higher in SST than the other treatments. Conclusion: Poly-culture of carps with mola can provide additional nutritional and economic benefits; field level household culture is highly suggested in Bangladeshi pond.
A dataset of lake level changes in China between 2002 and 2023 using multi-altimeter data
Creators: name: Ma, Shanmu
name: Liao, Jingjuan
name: Jing, Ruofan
name: Chen, Jiaming
Publisher: name: Taylor & Francis
Year: 2024
Subjects: subject: Biochemistry
subject: Environmental Sciences not elsewhere classified
subject: Ecology
subject: FOS: Biological sciences
subject: Science Policy
subject: Biological Sciences not elsewhere classified
subject: Inorganic Chemistry
subject: FOS: Chemical sciences

description: Lake water levels are an important indicator of water balance and water cycles, and are essential for climate and environmental change studies and water resource evaluation. Currently, lake level measurements are scarce or inconsistent throughout the country, and traditional gauge measurements of many lakes are not feasible, so satellite altimetry is a vital alternative to gauge lake levels. However, the accuracy and sampling frequency of lake level time series are usually low because of time and space coverage limitations; therefore, it is necessary to utilize multi-altimeter data to monitor lake levels and obtain lake level changes over long time series. In this study, we extracted the water level changes in 988 lakes (>10 km2) in China between 2002 and 2023 based on ICESat/-2, Cryosat-2, Jason-1/2/3, and Sentinel-3A/3B altimetry data using waveform retracking, lake level extraction, lake level time series construction, the fusion of multi-altimeter lake level time series, and outlier removal. A total of 55% of the lakes in this dataset have been monitored for more than 10 years, and 34% have more than 12 times the annual average water level monitoring. At the same time, in situ data from 21 lakes were used for validation, and the average root mean square error (RMSE) for each of the datasets of ICESat/-2, Cryosat-2, Jason-1/2/3, and Sentinel-3A/3B versus the in situ lake levels are 0.223 m, 0.163 m, 0.207 m, 0.596 m, 0.295 m, 0.275 m, 0.243 m, and 0.317 m, respectively, and the mean RMSE of the fused lake levels reaches 0.332 m. During the monitoring period, the water levels in Chinese lakes generally increased. The overall annual average rate of change at the 20 and 10-year scales was 0.123 m/a and 0.151 m/a, respectively, among which the overall water levels in large lakes increased significantly. The lakes with a faster rate of decline in the water level were primarily small. The water storage in each lake region in China shows an upward trend, with the most significant increase in the Tibetan Plateau region, where the average annual water level change rate has remained above 0.15 m/a over the past two decades. This dataset has high spatiotemporal coverage and accuracy and can support the estimation of changes in lake water storage, analysis of lake level trends, plateau flooding, and the relationship between lake ecosystems and water resources.
OʻZBEK, RUS VA QORAQALPOQ TILLARIDA OLMOSH SO'Z TURKUMI
Creators: name: Usanova, Qademay
name: Xudayarova, M.
Publisher: name: Zenodo
Year: 2024

description: Mazkur maqolada o‘zbek, rus va qoraqalpoq tillarida olmosh so‘z turkumining qiyosi, o‘xshash va farqli tomonlari tadqiq etildi.
Quantifying the impacts of the COVID-19 pandemic lockdown and the armed conflict with Russia on Sentinel 5P TROPOMI NO2 changes in Ukraine
Creators: name: Phan, Anh
name: Fukui, Hiromichi
Publisher: name: Taylor & Francis
Year: 2023
Subjects: subject: Medicine
subject: Neuroscience
subject: Environmental Sciences not elsewhere classified
subject: Sociology
subject: FOS: Sociology
subject: Biological Sciences not elsewhere classified

description: This study investigated variations in nitrogen dioxide (NO2) levels in Ukraine during two significant periods: the COVID-19 pandemic lockdown in 2020 and the armed conflict with Russia in 2022. Original and reprocessed Sentinel 5P data products were utilized for the analysis. A machine learning model was employed to generate a business-as-usual NO2 time series that accounted for meteorological variability. For the nine most populous cities in Ukraine, during the lockdown in 2020 we observed a moderation of increases in NO2 levels during the lockdown compared to the pre-lockdown levels. Looking at the same months during the conflict period in 2022, we identified much more significant reductions in NO2 level in these cities, averaging 12.1% for original and 18.1% for reprocessed datasets. Besides our examination of major urban areas, we observed reductions in NO2 levels in areas surrounding coal power plants damaged or destroyed by the conflict. For the major urban areas in Ukraine, we conclude that changes in daily anthropogenic activities due to the conflict-related events had more substantial impacts on NO2 levels than did COVID-19 lockdown.
Evidence for the involvement of GD3 ganglioside in autophagosome formation and maturation
Creators: name: Matarrese, Paola
name: Garofalo, Tina
name: Manganelli, Valeria
name: Gambardella, Lucrezia
name: Tinari, Antonella
name: Misasi, Roberta
name: Malorni, Walter
name: Sorice, Maurizio
name: Marconi, Matteo
name: Grasso, Maria
Publisher: name: Taylor & Francis
Year: 2014
Subjects: subject: Hematology
subject: Biological Sciences
subject: Chemistry
subject: Physiology
subject: FOS: Biological sciences
subject: Molecular Biology
subject: Genetics
subject: Cell Biology
subject: Microbiology
subject: Biochemistry
subject: Biophysics

description: Sphingolipids are structural lipid components of cell membranes, including membrane of organelles, such as mitochondria or endoplasmic reticulum, playing a role in signal transduction as well as in the transport and intermixing of cell membranes. Sphingolipid microdomains, also called lipid rafts, participate in several metabolic and catabolic cell processes, including apoptosis. However, the defined role of lipid rafts in the autophagic flux is still unknown. In the present study we analyzed the role of gangliosides, a class of sphingolipids, in autolysosome morphogenesis in human and murine primary fibroblasts by means of biochemical and analytical cytology methods. Upon induction of autophagy, by using amino acid deprivation as well as tunicamycin, we found that GD3 ganglioside, considered as a paradigmatic raft constituent, actively contributed to the biogenesis and maturation of autophagic vacuoles. In particular, fluorescence resonance energy transfer (FRET) and coimmunoprecipitation analyses revealed that this ganglioside interacts with phosphatidylinositol 3-phosphate and can be detected in immature autophagosomes in association with LC3-II as well as in autolysosomes associated with LAMP1. Hence, it appears as a structural component of autophagic flux. Accordingly, we found that autophagy was significantly impaired by knocking down ST8SIA1/GD3 synthase (ST8 α-N-acetyl-neuraminide α-2,8-sialyltransferase 1) or by altering sphingolipid metabolism with fumonisin B1. Interestingly, exogenous administration of GD3 ganglioside was capable of reactivating the autophagic process inhibited by fumonisin B1. Altogether, these results suggest that gangliosides, via their molecular interaction with autophagy-associated molecules, could be recruited to autophagosome and contribute to morphogenic remodeling, e.g., to changes of membrane curvature and fluidity, finally leading to mature autolysosome formation.
Isolation and potential culture of phytoplankton live feed for freshwater mussels Sinanodonta woodiana (Lea, 1834)
Creators: name: Al-Asif, Abdulla
Publisher: name: figshare
Year: 2022
Subjects: subject: 60203 Ecological Physiology
subject: FOS: Biological sciences
subject: 60411 Population, Ecological and Evolutionary Genetics
subject: 50199 Ecological Applications not elsewhere classified
subject: FOS: Earth and related environmental sciences
subject: 50101 Ecological Impacts of Climate Change
subject: 60202 Community Ecology (excl. Invasive Species Ecology)
subject: 60205 Marine and Estuarine Ecology (incl. Marine Ichthyology)
subject: 60204 Freshwater Ecology
subject: 60299 Ecology not elsewhere classified
subject: 60207 Population Ecology
subject: 70402 Aquatic Ecosystem Studies and Stock Assessment
subject: FOS: Agriculture, forestry and fisheries
subject: 70401 Aquaculture

description: Gastropod and Bivalves are widely known as filter feeders which used to feed the phytoplankton and other micro creatures. This study was conducted to identify, isolate and determine the potential culture of phytoplankton species for mussel culture. Materials and Methods: The phytoplankton identification and the culture of phytoplankton in ponds in UPMKB, Sarawak, Malaysia were studied for a period of 3 months from February 2019 to May 2019. Three genera were recorded from the ponds namely Selenastrum sp. followed by Licmophora sp. and Gloeocapsa sp. The highest abundant genus was Licmophora sp. due to their presence in every pond while the highest composition in culture condition was Selenastrum sp. because every treatment had this genus. The impact of physicochemical parameters on phytoplankton compositions and abundances in four ponds in UPMKB was assessed. Water quality parameters, such as temperature, dissolved oxygen, pH and conductivity were measured in situ from the ponds. Phytoplankton compositions and abundances were analyzed in the laboratory. ANOVA result of the physicochemical parameters showed the presence of significant difference among pH and temperature between ponds. The study concluded that the presence of the Selenastrum sp. genus could be the biological indicator of the water quality ponds. The best culture of phytoplankton shown by using the fertilizer treatment which was NPK fertilizer that improves the distribution of the culture of the phytoplankton.
Deficiency of the exportomer components Pex1, Pex6, and Pex15 causes enhanced pexophagy in Saccharomyces cerevisiae
Creators: name: Nuttall, James M
name: Motley, Alison M
name: Hettema, Ewald H
Publisher: name: Taylor & Francis
Year: 2014
Subjects: subject: 60506 Virology
subject: FOS: Biological sciences
subject: Cancer
subject: Biological Sciences
subject: Earth and Environmental Sciences
subject: Molecular Biology
subject: Genetics
subject: Cell Biology
subject: Biochemistry

description: Turnover of damaged, dysfunctional, or excess organelles is critical to cellular homeostasis. We screened mutants disturbed in peroxisomal protein import, and found that a deficiency in the exportomer subunits Pex1, Pex6, and Pex15 results in enhanced turnover of peroxisomal membrane structures compared with other mutants. Strikingly, almost all peroxisomal membranes were associated with phagophore assembly sites in pex1Δ atg1Δ cells. Degradation depended on Atg11 and the pexophagy receptor Atg36, which mediates degradation of superfluous peroxisomes. Mutants of PEX1, PEX6, and PEX15 accumulate ubiquitinated receptors at the peroxisomal membrane. This accumulation has been suggested to trigger pexophagy in mammalian cells. We show by genetic analysis that preventing this accumulation does not abolish pexophagy in Saccharomyces cerevisiae. We find Atg36 is modified in pex1Δ cells even when Atg11 binding is prevented, suggesting Atg36 modification is an early event in the degradation of dysfunctional peroxisomal structures in pex1Δ cells via pexophagy.
Hybrid Higher-Order Skin Topological Modes in the Two-Dimensional Su-Schrieffer-Heeger Model with Nonreciprocal Hoppings
Creators: name: Wakao, Hiromasa
Publisher: name: arXiv
Year: 2023
Subjects: subject: Mesoscale and Nanoscale Physics (cond-mat.mes-hall)
subject: FOS: Physical sciences

description: The coexistence of edge states and skin effects provides the topologically protected localized states at the corners of two-dimensional systems. In this paper, we realize such corner states in the two-dimensional Su-Schrieffer-Heeger model with the nonreciprocal hoppings. For the characterization of the real line gap topology, we introduce the $\mathbb{Z}_4$ Berry phase protected by generalized four-fold rotational symmetry. From the physical picture of the adiabatic connection, we find that the value of the $\mathbb{Z}_4$ Berry phase predicts the position of edge states. Additionally, by using the winding number, we characterize the point gap topology of the edge spectra. From the results of these characterizations by the first-order topological invariants, we find that the pair of values of the $\mathbb{Z}_4$ Berry phase and the winding number yields the position of the topologically protected localized states.
description: 11 pages, 8 figures
A mediation system for continuous spatial queries on a unified schema using Apache Spark
Creators: name: Ngo, Thi Thu Trang
name: Pinet, François
name: Sarramia, David
name: Kang, Myoung-Ah
Publisher: name: Taylor & Francis
Year: 2024
Subjects: subject: Medicine
subject: Microbiology
subject: FOS: Biological sciences
subject: Genetics
subject: Immunology
subject: FOS: Clinical medicine
subject: Biological Sciences not elsewhere classified
subject: Information Systems not elsewhere classified
subject: Mathematical Sciences not elsewhere classified

description: Recent advances in big and streaming data systems have enabled real-time analysis of data generated by Internet of Things (IoT) systems and sensors in various domains. In this context, many applications require integrating data from several heterogeneous sources, either stream or static sources. Frameworks such as Apache Spark are able to integrate and process large datasets from different sources. However, these frameworks are hard to use when the data sources are heterogeneous and numerous. To address this issue, we propose a system based on mediation techniques for integrating stream and static data sources. The integration process of our system consists of three main steps: configuration, query expression and query execution. In the configuration step, an administrator designs a mediated schema and defines mapping between the mediated schema and local data sources. In the query expression step, users express queries using customized SQL grammar on the mediated schema. Finally, our system rewrites the query into an optimized Spark application and submits the application to a Spark cluster. The results are continuously returned to users. Our experiments show that our optimizations can improve query execution time by up to one order of magnitude, making complex streaming and spatial data analysis more accessible.
Refusals in English as a Lingua Franca: An Investigation of Chinese and Indonesian Speakers of English
Creators: name: FANG, XIANMING
Publisher: name: Monash University
Year: 2024
Subjects: classificationCode: 470401
subject: Applied linguistics and educational linguistics
classificationCode: 470405
subject: Discourse and pragmatics
classificationCode: 470411
subject: Sociolinguistics

description: This thesis explores refusals in the ELF context made by Chinese and Indonesian English speakers. It examines the illocutionary, discursive, multimodal, and metapragmatic aspects of ELF refusals. Drawing on role-play and interview data, my results show the importance of rapport management, interactional negotiation, and endonormative orientations in ELF refusals. The findings advance our understanding of pragmatic acts in the ELF context and also provide methodological and pedagogical implications for future research.
Mori_Factory_Tour_Event_RENEW_and_Design_for_Autonomous_Regional_Transformation.pdf
Creators: name: Mori, Kazuki
Publisher: name: figshare
Year: 2022
Subjects: subject: 120302 Design Innovation
subject: FOS: Arts (arts, history of arts, performing arts, music)
subject: 120508 Urban Design
subject: FOS: Social and economic geography
subject: Design

description: 本稿は「地域の人々が自律的に地域を変容させる状況を後押しするために，私たちはどのよう なデザイン介入ができるか」を問いに掲げ，産業観光イベント「RENEW」の分析を通じて，地 域の内発的な実践を拡大・促進するための関与プロセスの提示を試みるものである.2015 年より 福井県鯖江市・越前市・越前町で開催される「RENEW」は，地域事業所を一斉開放し，工房見 学やワークショップなどを楽しめるイベントだが，6 年間にわたる実践は，参加事業者らによる 約 30 の新規施設の開設などに発展し，地域の変容をもたらしてきた.本稿ではこれを内発的発展 として位置づけ，CoDesignおよびイタリアのデザイン理論家Ezio Manziniの議論を下敷きに考 察することで，地域の人々による内発的な実践をエンパワーする関与の枠組みを抽出した.整理 の結果，「可能空間の可視化」「足場の架設」「実験空間の創出」「参加の促進」の四つのプロセス からなる「内発的実践のエンパワメント」のモデルを提示し，地域へのデザイン介入を通じて， 地域の人々の主体的な参加・実践による地域変容の実現が可能であることを示した.
 (This paper is an attempt to articulate a design intervention process, based on a case analysis, to enhance a regional transformation led by local inhabitants. Having been held in Sabae City, Echizen City, and Echizen Town since 2015, RENEW is an industrial tourism event in which local businesses open their studios and factories to the public for guided tours, workshops and more. This annual event has resulted in approximately 30 new shops, inns, galleries, and factories being opened by participating local companies, which has changed the landscape and culture of the region. By analysing this movement, underpinned by Tsurumi’s endogenous development theory and by Ezio Manzini’s design for social innovation theory, I propose a model called “empowerment for endogenous practice”. This model consists of four processes: visualisation of the possible space, scaffolding, the creation of the experimental space, and the promotion of participation. In addition, it can enable regional transformation through local residents’ participation and utilisation. * This English abstract is not peer-reviewed)