cometadata/datacite-rtg-text-other-reclassification-records huggingface dataset:
Self-aggregation of trehalose in the mixed solvents of 1,3-dimethylimidazolium ionic liquid and water
Creators: name: Kan, Zigui
name: Zheng, Dong
name: Ma, Jing
Publisher: name: Taylor & Francis
Year: 2017
Subjects: subject: Biophysics
subject: Biochemistry
subject: Physical Sciences not elsewhere classified
subject: Physiology
subject: FOS: Biological sciences
subject: Biotechnology
subject: Evolutionary Biology
subject: Environmental Sciences not elsewhere classified
subject: Chemical Sciences not elsewhere classified
subject: Biological Sciences not elsewhere classified
subject: Inorganic Chemistry
subject: FOS: Chemical sciences

description: Conformational variations of solvated trehaloses in binary mixtures of 1,3-dialkylimidazolium ([dmim]Cl) ionic liquids and trehalose as well as ternary mixtures of trehalose, [dmim]Cl and water have been studied by molecular dynamics (MD) simulations with and without polarisable force fields. The interaction energy between anion Cl− and water is stronger than that between water itself in the [dmim]Cl-water mixtures. Isolated water clusters were found in the binary [dmim]Cl-water mixtures with 60.0 and 75.0% mole fraction of water, but a continuous water network appears when the concentration of the mixture increases to 99.9%. In the case of binary mixtures of trehalose and [dmim]Cl, both non-polarisable and polarisable models demonstrated that the pyranose rings of trehalose displayed chair conformations. MD simulations with polarisation model could sample larger conformation space than that with non-polarisable model. A self-aggregation behaviour of trehalose was found in the ternary trehalose-[dmim]Cl-water mixtures, which can be rationalised by the stronger non-bonded interaction energy between trehalose molecules and anion Cl− than that between trehalose molecules and water.
Developing software to monitor respiratory rate using wearable sensors
Creators: name: Charlton, Peter H
Publisher: name: Zenodo
Year: 2022
Subjects: wearables
respiratory rate
software
photoplethysmogram
electrocardiogram

description: This talk summarises work towards developing open-source software to estimate respiratory rate from wearables, including: the development of a toolbox of open-source respiratory rate algorithms, a vision for biomedical signal processing software, and pressing questions for future work. Presented on 8 April 2022 at 'Development of Software as a Medical Device', an event organised by the Institute of Physics and Engineering in Medicine.
description: Funded by an EPSRC Impact Acceleration Award, and the British Heart Foundation Grant FS/20/20/34626.
weakERP
Creators: name: Bauer, Robert
Publisher: name: figshare
Year: 2017
Subjects: subject: 90609 Signal Processing
subject: FOS: Electrical engineering, electronic engineering, information engineering

description: Fake ERP generated with MCS STG 4008, the waveform defined by fake_erp.dat and with small amplitude
Validity of a Chinese version of the Mini Asthma Quality of Life Questionnaire (MiniAQLQ) and a comparison of completion by patients and relatives
Creators: name: Qu, Yulan
name: Zhang, Chen
name: Gao, Wei
name: Ning, Yunye
name: Chen, Ruohua
name: Zhang, Shu
name: Sun, Yahong
name: Shang, Yan
name: Bai, Chong
Publisher: name: Taylor & Francis
Year: 2017
Subjects: subject: Medicine
subject: Sociology
subject: FOS: Sociology
subject: Biological Sciences not elsewhere classified
subject: Science Policy

description: Objective: To test the psychometric properties of the Chinese version of the Mini Asthma Quality of Life Questionnaire (MiniAQLQ) and to investigate the differences between the MiniAQLQ completed by patients (p-MiniAQLQ) and by their relatives (r-MiniAQLQ). Methods: One hundred and two asthmatic patients and 45 relatives were recruited. The reliability was evaluated using Cronbach's alpha and intraclass correlation coefficient (ICC). The validity of the MiniAQLQ was assessed by comparing it with the Sydney Asthma Quality of Life Questionnaire (AQLQ-S) and lung function measurements. The mean quality of life scores were compared by gender and smoking history, and the p-MiniAQLQ scores were then compared with the r-MiniAQLQ scores. Results: The MiniAQLQ showed high internal consistency (Cronbach's alpha = 0.901) and a high two-week reproducibility (ICC = 0.863). The cross-sectional correlations between the MiniAQLQ and the AQLQ-S were strong. Correlations between the MiniAQLQ and lung function (predicted FEV1% and PEF) ranged from poor to weak at the total or domain levels. The MiniAQLQ scores were not significantly associated with gender or smoking history. There was poor agreement between the p-MiniAQLQ and r-MiniAQLQ scores at the total or domain levels. Conclusions: The Chinese version of the MiniAQLQ showed good reliability and validity. It is reliable for evaluating the impact of asthma on patients’ quality of life. Relatives of the patients did not have a comprehensive grasp of the patients’ conditions. Physicians should be cautious when patients’ relatives come to the hospital to seek a modified treatment when the patients are not present.
Supplementary Material for: Association Study of Three Gene Polymorphisms Recently Identified by a Genome-Wide Association Study with Obesity-Related Phenotypes in Chinese Children
Creators: name: Q.-Y., Song
name: J.-Y., Song
name: Wang, Yang
name: S., Wang
name: Y.-D., Yang
name: X.-R., Meng
name: J., Ma
name: H.-J., Wang
name: Wang, Yan
Publisher: name: Karger Publishers
Year: 2017
Subjects: Medicine

description: Objective: This study aimed to examine associations of
three single-nucleotide polymorphisms (SNPs) with obesity-related
phenotypes in Chinese children. These SNPs were identified by a recent
genome-wide association (GWA) study among European children. Given that
varied genetic backgrounds across different ethnicity may result in
different association, it is necessary to study these associations in a
different ethnic population. Methods: A total of 3,922
children, including 2,191 normal-weight, 873 overweight and 858 obese
children, from three independent studies were included in the study.
Logistic and linear regressions were performed, and meta-analyses were
conducted to assess the associations between the SNPs and
obesity-related phenotypes. Results: The pooled odds ratios of the A-allele of rs564343 in PACS1 for
 obesity and severe obesity were 1.180 (p = 0.03) and 1.312 (p = 0.004),
 respectively. We also found that rs564343 was nominally associated with
 BMI, BMI standard deviation score (BMI-SDS), waist circumference, and
waist-to-height ratio (p < 0.05). Conclusions: We showed for the first time that the rs564343 in PACS1
 was associated with risk of severe obesity in a non-European
population. This SNP was also found to be associated with common obesity
 and various obesity-related phenotypes in Chinese children, which had
not been reported in the original study. The results demonstrated the
value of conducting genetic researches in populations with different
ethnicity.
The recovery of Sphagnum capillifolium following exposure to temperatures of simulatedmoorland fires: a glasshouse experiment
Creators: name: Taylor, Emily S.
name: Levy, Peter E.
name: Gray, Alan
Publisher: name: Taylor & Francis
Year: 2017
Subjects: subject: Medicine
subject: 59999 Environmental Sciences not elsewhere classified
subject: FOS: Earth and related environmental sciences
subject: Ecology
subject: FOS: Biological sciences

description: Background: In the UK, government legislation allows the use of prescribed fire in peatlands for land management purposes. The use of fire, however, remains controversial, partly because of a distinct lack of data on the response of key peatland species to fire. Sphagnum species are key components of peatland ecosystems, yet a fundamental knowledge gap in the debate is the response of Sphagnum species to fire. Aims: To determine if a widespread species (Sphagnum capillifolium) has the ability to recover from exposure to high temperatures, analogous to those recorded in managed peatland fires. Methods: Samples of S. capillifolium were exposed to a range of temperature treatments. Recovery was monitored using chlorophyll fluorescence, CO2 exchange and physical damage and new growth assessed. Results: We found that the degree of recovery of S. capillifolium was related to the temperature treatment, post-treatment environmental conditions and pre-treatment stem moisture content. The slowest recovery was found when samples were heated to 400°C for 30 s. Conclusions: Our results demonstrate that S. capillifolium has the ability to recover following exposure to the temperatures experienced in prescribed fire, provided that at least some living material remains. Our results suggest that prescribed burning in the spring may allow for a quicker recovery than autumnal fires.
Screening and identification of Monacus strain with high TMP production and statistical optimization of its culture medium composition and liquid state fermentation conditions using response surface methodology (RSM)
Creators: name: Jia, Rui-Bo
name: Guo, Wei-Ling
name: Zhou, Wen-Bin
name: Jiang, Ya-Jun
name: Zhu, Feng-Feng
name: Chen, Jing-Hao
name: Li, Yan
name: Liu, Bin
name: Chen, Shao-Jun
name: Chen, Ji-Cheng
name: Ni, Li
name: Rao, Ping-Fan
name: Lv, Xu-Cong
Publisher: name: Taylor & Francis
Year: 2017
Subjects: subject: Microbiology
subject: FOS: Biological sciences
subject: Pharmacology
subject: Biotechnology
subject: Ecology
subject: Biological Sciences not elsewhere classified

description: Teramethylpyrazine (TMP) is a pyrazine alkaloid with a variety of pharmacological effects and widely used in clinical practice. In this study, Monascus strain M-3 with high TMP and low citrinin productions was screened from red yeast rice collected from different areas of Fujian province in China. Monascus strain M-3 was further identified through molecular biological methods based on the sequencing of different gene regions. Results showed that primer set of β-tubulin-F/β-tubulin-R targeting the β-tubulin gene was more suitable for the identification of Monascus strain M-3. Based on comparative analysis of the results obtained by different primer sets, Monacus strain M-3 was finally identified as Monascus purpureus. Then, the composition of culture medium and liquid state fermentation conditions of Monacus strain M-3 were optimized by single-factor experiment and central composite design of response surface methodology, with the purpose of optimizing the TMP productions. The optimum composition of culture medium and liquid state fermentation conditions are as follows: starch 5.1%, peptone 3.51%, Mg2SO4 0.1%, NaNO3 0.2%, KH2PO4 0.25%, fermentation temperature of 28.23 °C, fermentation time of 9 d, shaker speed of 180 r/min, inoculum size of 7.21% and loading volume of 100 mL/250 mL triangular flask. Under the optimum composition of culture medium and liquid state fermentation conditions, the TMP production of Monacus strain M-3 can reach 13.49 µg/mL. This study is expected to provide a new approach of TMP production through biosynthesis by Monascus strain, and promote the further development of functional foods or medicines from Monascus fermentation products.
Magnon dynamics in a Skyrmion-textured domain wall of antiferromagnets
Creators: name: Lee, Seungho
name: Nakata, Kouki
name: Tchernyshyov, Oleg
name: Kim, Se Kwon
Publisher: name: arXiv
Year: 2022
Subjects: subject: Mesoscale and Nanoscale Physics (cond-mat.mes-hall)
subject: FOS: Physical sciences

description: We theoretically investigate the interaction between magnons and a Skyrmion-textured domain wall in a two-dimensional antiferromagnet and elucidate the resultant properties of magnon transport. Using supersymmetric quantum mechanics, we solve the scattering problem of magnons on top of the domain wall and obtain the exact solutions of propagating and bound magnon modes. Then, we find their properties of reflection and refraction in the Skyrmion-textured domain wall, where magnons experience an emergent magnetic field due to its non-trivial spin texture-induced effective gauge field. Based on the obtained scattering properties of magnons and the domain wall, we show that the thermal transport decreases as the domain wall's chirality increases. Our results suggest that the thermal transport of an antiferromagnet is tunable by modulating the Skyrmion charge density of the domain wall, which might be useful for realizing electrically tunable spin caloritronic devices.
description: 13 pages, 5 figures
Easy preparation of graphite-containing gel electrolytes using a gelator and characterization of their electrochemical properties
Creators: name: Wang, Zhong
name: Fujisawa, Seiya
name: Suzuki, Masahiro
name: Hanabusa, Kenji
Publisher: name: Taylor & Francis
Year: 2017
Subjects: subject: Biochemistry
subject: Space Science
subject: Microbiology
subject: FOS: Biological sciences
subject: Genetics
subject: Chemical Sciences not elsewhere classified
subject: Inorganic Chemistry
subject: FOS: Chemical sciences

description: Cyclo(L-β-3,7-dimethyloctylasparaginyl-L-phenylalanyl) was used as a gelator to synthesize gel electrolytes using 1-butyl-3-methylimidazolium tetrafluoroborate, propylene carbonate (PC), and γ-butyrolactone in 1 M LiBF4. Gel strengths and thermal stabilities were studied with regard to the effect of graphite as a helper additive. Ionic conductivities, activation energies for ionic conductivity, and the electrochemical stabilities of the graphite-containing gel electrolytes were studied.
Soulieoside O, a new cyclolanostane triterpenoid glycoside from Souliea vaginata
Creators: name: Wu, Hai-Feng
name: Li, Peng-Fei
name: Yin-Di Zhu
name: Xiao-Po Zhang
name: Guo-Xu Ma
name: Xu, Xu-Dong
name: Liu, Yi-Lin
name: Luo, Zheng-Hong
name: Di-Zhao Chen
name: Qiong-Yu Zou
name: Zhao, Zi-Jian
Publisher: name: Taylor & Francis
Year: 2017
Subjects: subject: Biochemistry
subject: 29999 Physical Sciences not elsewhere classified
subject: FOS: Physical sciences
subject: Pharmacology
subject: 59999 Environmental Sciences not elsewhere classified
subject: FOS: Earth and related environmental sciences
subject: 39999 Chemical Sciences not elsewhere classified
subject: FOS: Chemical sciences
subject: 69999 Biological Sciences not elsewhere classified
subject: FOS: Biological sciences
subject: Cancer
subject: Inorganic Chemistry

description: A new cyclolanostane triterpenoid glycoside, soulieoside O (1), together with 25-O-acetylcimigenol-3-O-β-d-xylopyranoside (2) and cimigenol-3-O-β-d-xylopyranoside (3), was isolated from the rhizomes of Souliea vaginata. Their structures were characterized by spectroscopic analysis and chemical methods. The new compound showed moderate inhibitory activity against three human cancer cell lines with IC50 values of 9.3–22.5 μM.
Fission stories: using PomBase to understand Schizosaccharomyces pombe biology
Creators: name: Harris, Midori A
name: Rutherford, Kim M
name: Hayles, Jacqueline
name: Lock, Antonia
name: Bähler, Jürg
name: Oliver, Stephen G
name: Mata, Juan
name: Wood, Valerie
Publisher: name: The Francis Crick Institute
Year: 2022
Subjects: Model organisms
Biochemistry & Proteomics
Synthetic Biology
Genetics & Genomics
Cell Biology
Cell Cycle & Chromosomes
Chemical Biology & High Throughput
Computational & Systems Biology

description: PomBase (www.pombase.org), the model organism database (MOD) for the fission yeast Schizosaccharomyces pombe, supports research within and beyond the S. pombe community by integrating and presenting genetic, molecular, and cell biological knowledge into intuitive displays and comprehensive data collections. With new content, novel query capabilities, and biologist-friendly data summaries and visualization, PomBase also drives innovation in the MOD community.
Bayesian Registration of Functions With a Gaussian Process Prior
Creators: name: Lu, Yi
name: Herbei, Radu
name: Kurtek, Sebastian
Publisher: name: Taylor & Francis
Year: 2017
Subjects: subject: Medicine
subject: Immunology
subject: FOS: Clinical medicine
subject: Information Systems not elsewhere classified
subject: Mathematical Sciences not elsewhere classified
subject: Cancer

description: We present a Bayesian framework for registration of real-valued functional data. At the core of our approach is a series of transformations of the data and functional parameters, developed under a differential geometric framework. We aim to avoid discretization of functional objects for as long as possible, thus minimizing the potential pitfalls associated with high-dimensional Bayesian inference. Approximate draws from the posterior distribution are obtained using a novel Markov chain Monte Carlo (MCMC) algorithm, which is well suited for estimation of functions. We illustrate our approach via pairwise and multiple functional data registration, using both simulated and real datasets. Supplementary material for this article is available online.
Bayesian Registration of Functions with a Gaussian Process Prior
Creators: name: Lu, Yi
name: Herbei, Radu
name: Kurtek, Sebastian
Publisher: name: Taylor & Francis
Year: 2017
Subjects: Medicine
Information Systems not elsewhere classified
Mathematical Sciences not elsewhere classified
Cancer
Hematology

description: We present a Bayesian framework for registration of real-valued functional data. At the core of our approach is a series of transformations of the data and functional parameters, developed under a differential geometric framework. We aim to avoid discretization of functional objects for as long as possible, thus minimizing the potential pitfalls associated with high-dimensional Bayesian inference. Approximate draws from the posterior distribution are obtained using a novel Markov chain Monte Carlo (MCMC) algorithm which is well suited for estimation of functions. We illustrate our approach via pairwise and multiple functional data registration, using both simulated and real data sets.
Diversity of mitochondrial plastid DNAs (MTPTs) in seed plants
Creators: name: Wang, Xin-Cun
name: Chen, Haimei
name: Yang, Dan
name: Liu, Chang
Publisher: name: Taylor & Francis
Year: 2017
Subjects: subject: Cell Biology
subject: Genetics
subject: FOS: Biological sciences
subject: Environmental Sciences not elsewhere classified
subject: Ecology
subject: Biological Sciences not elsewhere classified
subject: Plant Biology
subject: Virology

description: Mitochondrial plastid DNAs (MTPTs) refer to plastid-derived DNA fragments in mitochondrial genomes. While the MTPTs have been described for numerous species, its overall patterns have not been examined in details. Here, we carried out a systematic analysis of MTPTs among 73 plant species, including 28 algae, 1 liverwort, 2 moss, 1 lycophyte, 1 gymnosperm, 1 magnoliid, 12 monocots, 26 eudicots and 1 relic angiosperm Amborella trichopoda. A total of 300 MTPT gene clusters were found in 39 seed plants, which represented 144 MTPT gene cluster types. The detected MTPT gene clusters were evaluated in seven aspects, and they were found to be enriched particularly in monocots and asterids of eudicots. Some MTPT gene clusters were found to be shared by closely related species. All chloroplast genes were found in MTPTs, suggesting that there is no functional relevancy for genes that were transferred. However, after calculation of the frequency of the 115 chloroplast genes, five hot spots and three cold spots were discovered in chloroplast genome. In summary, this study demonstrated the high degree of diversity in MTPTs. The discovered MTPTs would facilitate the accurate assembly of chloroplast and mitochondrial genomes as well as the understanding of organelle genome evolution.
Nature and origin of Triassic igneous activity in the Western Qinling Orogen: the Wenquan composite pluton example
Creators: name: Qiu, Kun-Feng
name: Yu, Hao-Cheng
name: Gou, Zong-Yang
name: Liang, Zhi-Lu
name: Zhang, Jia-Lin
name: Zhu, Rui
Publisher: name: Taylor & Francis
Year: 2017
Subjects: Biochemistry
Environmental Sciences not elsewhere classified
Chemical Sciences not elsewhere classified

description: The Western Qinling has been acknowledged to witness superimposed orogeny including north subduction of Paleotethys ocean and collision between North China and South China blocks; however, the precise timing constraints on transition of tectonic regime are remaining enigmatic. The Wenquan composite batholith comprising five phases and mafic enclaves is an ideal example to unlock this puzzle. The host granitoids are felsic, metaluminous to peraluminous, and high-K calc-alkaline to shoshonitic suite with I-type affinity. The mafic enclaves, however, are intermediate, and high-K calc-alkaline to shoshonitic. Zircon ages of multiple phases indicate an episodic growth lasting nearly 30 million years ranging from 238, 228, 218 to 208 Ma, consistent to Triassic igneous activity recording a transition regime from a subduction setting to a syn-collision setting and a post-collision setting in Western Qinling. Lead isotopes of whole-rock and K-feldspar at Wenquan and Lu-Hf isotopes of zircons separated from biotite monzogranite porphyry, porphyritic monzogranite, monzogranite porphyry, and hosted mafic enclaves suggest that the heat and the hot mafic melt initiated by the break-off of the northward subducting South China block lithosphere triggered partial melting of the Mesoproterozoic subcontinental lithospheric mantle to produce mafic magmas, and the underplated mafic magmas caused partial melting of the shallow subducted Mesoproterozoic lower crust generating granitic magmas at Wenquan. Combined our field observations and petrology study with a holistic review on previous geochronological and geochemical data of Triassic granitoids throughout the Western Qinling, we in this contribution proposed that the Triassic igneous activity in the Western Qinling corresponding to superimposed orogeny evolved from the northward subduction of Palaeotethys ocean (250–235 Ma) through syn-collision (228–215 Ma) to post-collision (215–185 Ma) between the North China and South China blocks.
In-Situ Measurement of Fresh Produce Respiration Using a Modular Sensor-Based System
Creators: name: Keshri, Nandita
name: Truppel, Ingo
name: Herppich, Werner B.
name: Geyer, Martin
name: Weltzien, Cornelia
name: Mahajan, Pramod V.
Publisher: name: Technische Universität Berlin
Year: 2020
Subjects: subject: 620 Ingenieurwissenschaften und zugeordnete Tätigkeiten
subject: Dynamic Controlled Atmosphere storage
subject: Respiratory Quotient
subject: DCA-RQ
subject: apples
subject: strawberries
subject: O2 and CO2 sensors

description: In situ, continuous and real-time monitoring of respiration (R) and respiratory quotient (RQ) are crucial for identifying the optimal conditions for the long-term storage of fresh produce. This study reports the application of a gas sensor (RMS88) and a modular respirometer for in situ real-time monitoring of gas concentrations and respiration rates of strawberries during storage in a lab-scale controlled atmosphere chamber (190 L) and of Pinova apples in a commercial storage facility (170 t). The RMS88 consisted of wireless O2 (0% to 25%) and CO2 sensors (0% to 0.5% and 0% to 5%). The modular respirometer (3.3 L for strawberries and 7.4 L for apples) consisted of a leak-proof arrangement with a water-containing base plate and a glass jar on top. Gas concentrations were continuously recorded by the RMS88 at regular intervals of 1 min for strawberries and 5 min for apples and, in real-time, transferred to a terminal program to calculate respiration rates ( RO2 and RCO2 ) and RQ. Respiration measurement was done in cycles of flushing and measurement period. A respiration measurement cycle with a measurement period of 2 h up to 3 h was shown to be useful for strawberries under air at 10 °C. The start of anaerobic respiration of strawberries due to low O2 concentration (1%) could be recorded in real-time. RO2 and RCO2 of Pinova apples were recorded every 5 min during storage and mean values of 1.6 and 2.7 mL kg−1 h−1, respectively, were obtained when controlled atmosphere (CA) conditions (2% O2, 1.3% CO2 and 2 °C) were established. The modular respirometer was found to be useful for in situ real-time monitoring of respiration rate during storage of fresh produce and offers great potential to be incorporated into RQ-based dynamic CA storage system.
The recovery of Sphagnum capillifolium following exposure to temperatures of simulated moorland fires: a glasshouse experiment
Creators: name: Taylor, Emily S.
name: Levy, Peter E.
name: Gray, Alan
Publisher: name: Taylor & Francis
Year: 2017
Subjects: subject: Medicine
subject: 59999 Environmental Sciences not elsewhere classified
subject: FOS: Earth and related environmental sciences
subject: Ecology
subject: FOS: Biological sciences

description: Background: In the UK, government legislation allows the use of prescribed fire in peatlands for land management purposes. The use of fire, however, remains controversial, partly because of a distinct lack of data on the response of key peatland species to fire. Sphagnum species are key components of peatland ecosystems, yet a fundamental knowledge gap in the debate is the response of Sphagnum species to fire. Aims: To determine if a widespread species (Sphagnum capillifolium) has the ability to recover from exposure to high temperatures, analogous to those recorded in managed peatland fires. Methods: Samples of S. capillifolium were exposed to a range of temperature treatments. Recovery was monitored using chlorophyll fluorescence, CO2 exchange and physical damage and new growth assessed. Results: We found that the degree of recovery of S. capillifolium was related to the temperature treatment, post-treatment environmental conditions and pre-treatment stem moisture content. The slowest recovery was found when samples were heated to 400°C for 30 s. Conclusions: Our results demonstrate that S. capillifolium has the ability to recover following exposure to the temperatures experienced in prescribed fire, provided that at least some living material remains. Our results suggest that prescribed burning in the spring may allow for a quicker recovery than autumnal fires.
A FEA-based design of 3D printed scaffolds to assist post-surgical bone growth via tissue engineering
Creators: name: Huang, Xu
name: Jones, Donna
name: Zhu, Zimo
name: Liu, Gui-Rong
name: van Aalst, John A.
name: Soleimani, Sajjad
name: Knorr, Jacob
name: Shan, Zhengyuan
name: Caballero, Montserrat
name: Lin, Chia-Ying James
Publisher: name: figshare
Year: 2017
Subjects: classificationCode: 310299
subject: Bioinformatics and computational biology not elsewhere classified

description: Children with unilateral alveolar clefts undergo surgical repairs that include risks linked to infection, secondary surgical sites, relapse, and facial asymmetry related to unpredictable post-surgical growth. Many clinical trials used scaffolds to alleviate these risks for bone healing. To develop predictable post-surgical growth, three-dimensional (3D) finite element (FE) pig skull model with an alveolar cleft was built to test novel biodegradable scaffold. Because the mineralization rate of osteoblasts is sensitive to strain, asymmetric strain distribution in the skull could unbalance bone growth, strain inside the scaffold also influences de novo bone deposition and resorption. The aim of this study is to generate testable hypotheses to decrease experiments required animals, and to explore how scaffold design may change strain distribution in the skull. We quantified the decreased asymmetric strain distribution produced by the scaffolds, using FE analysis (FEA) to determine which scaffold characteristics best meet the optimal situations for bone repair. We found asymmetric strain distribution was effectively balanced using a scaffold that can be 3D printed with available biodegradable material, and the maximized porosity of scaffold can facilitate cell growth. These results support us to optimize scaffold for in vivo testing and should be transferrable to other tissue engineering applications.
Indices
Creators: name: Lear, Luke
name: Castledine, Meaghan
name: Ramoneda, Josep
name: Dr Matt Lloyd Jones
name: Jones, Matt Lloyd
Publisher: name: OSF Registries
Year: 2021

description: Abundance of the introduced invader will be standardised into an effect size as the decreasing Log Response Ratio (LRR). This index summarises the scale of the decrease of invader abundance in the intervention group (i.e. invasion into a microbial community) relative to the control/comparator group (i.e. invader monoculture). See Effectsize_calculation.pdf for more details.
Effectiveness of a multidisciplinary rehabilitation program for persons with acquired brain injury and executive dysfunction
Creators: name: Poncet, Frédérique
name: Swaine, Bonnie
name: Migeot, Hélène
name: Lamoureux, Julie
name: Picq, Christine
name: Pradat, Pascale
Publisher: name: Taylor & Francis
Year: 2017
Subjects: subject: Medicine
subject: Physiology
subject: FOS: Biological sciences
subject: Pharmacology
subject: Sociology
subject: FOS: Sociology
subject: 69999 Biological Sciences not elsewhere classified
subject: Science Policy
subject: 111714 Mental Health
subject: FOS: Health sciences

description: Purpose: The purpose of this study is to explore the effects of a multidisciplinary acquired brain injury rehabilitation out-patient program (5 d/week for 7 weeks) on improvements to participants’ activity and participation outcomes related to meal preparation and to determine whether gains are maintained at 3 and 6 months post program. Methods: A single case experimental design with repeated measures pre- and post-intervention with 7 adult participants with ABI and executive dysfunction (4 females, mean age 38 ± 10.1 years) was used. Results: A strong improvement effect between pre and post phases was found for number of errors on the Cooking Task for 6/7 participants; four participants showed significant improvement immediately after the program and at 3 and 6 months post. Six out of seven participants improved significantly on the Instrumental Activities of Daily Living Profile and four participants improved between the post and 6 month follow-up. Four out of seven participants showed significantly improved Life Habits scores pre- versus post-program. Conclusions: Significant improvements were observed in activity and participation outcomes related to preparing a meal in adults with ABI and executive dysfunction who participated in a 7-week multidisciplinary rehabilitation out-patient program. Treatment gains were maintained for the majority of participants at 3 and 6 months following the program. Implication of RehabilitationA 7-week multidisciplinary rehabilitation out-patient program appears to improve activities and participation; the effects are sustainable after 6 months.A detailed description of the therapeutic interventions provided during the cooking activity should help clinicians better understand what specific functions are solicited or required during a particular activity.Knowledge from this study may help guide clinicians in their work within this complex area of rehabilitation. A 7-week multidisciplinary rehabilitation out-patient program appears to improve activities and participation; the effects are sustainable after 6 months. A detailed description of the therapeutic interventions provided during the cooking activity should help clinicians better understand what specific functions are solicited or required during a particular activity. Knowledge from this study may help guide clinicians in their work within this complex area of rehabilitation.
Huang et al. 2017.pdf
Creators: name: Huang, Xu
name: Jones, Donna
name: Zhu, Zimo
name: Liu, Gui-Rong
name: van Aalst, John A.
name: Soleimani, Sajjad
name: Knorr, Jacob
name: Shan, Zhengyuan
name: Caballero, Montserrat
name: Lin, Chia-Ying James
Publisher: name: figshare
Year: 2017
Subjects: classificationCode: 310299
subject: Bioinformatics and computational biology not elsewhere classified

description: Children with unilateral alveolar clefts undergo surgical repairs that include risks linked to infection, secondary surgical sites, relapse, and facial asymmetry related to unpredictable post-surgical growth. Many clinical trials used scaffolds to alleviate these risks for bone healing. To develop predictable post-surgical growth, three-dimensional (3D) finite element (FE) pig skull model with an alveolar cleft was built to test novel biodegradable scaffold. Because the mineralization rate of osteoblasts is sensitive to strain, asymmetric strain distribution in the skull could unbalance bone growth, strain inside the scaffold also influences de novo bone deposition and resorption. The aim of this study is to generate testable hypotheses to decrease experiments required animals, and to explore how scaffold design may change strain distribution in the skull. We quantified the decreased asymmetric strain distribution produced by the scaffolds, using FE analysis (FEA) to determine which scaffold characteristics best meet the optimal situations for bone repair. We found asymmetric strain distribution was effectively balanced using a scaffold that can be 3D printed with available biodegradable material, and the maximized porosity of scaffold can facilitate cell growth. These results support us to optimize scaffold for in vivo testing and should be transferrable to other tissue engineering applications.
Automated segmentation of swine skulls for finite element model creation using high resolution μ-CT images
Creators: name: Zhu, Zimo
name: Jones, Donna
name: Liu, Gui-Rong
name: Soleimani, Sajjad
name: Huang, Xu
name: Shan, Zhengyuan
name: Knorr, Jacob
name: Caballero, Montserrat
name: van Aalst, John A.
Publisher: name: figshare
Year: 2017
Subjects: classificationCode: 310299
subject: Bioinformatics and computational biology not elsewhere classified

description: Finite element (FE) analysis has been widely used to investigate bone responses to mechanical loading. Research in long bones has been straight forward because modeling of these bones requires only two material properties. Such an FE model may provide an adequate approximation of the anatomy for many cases. However, a more detailed model of skull bones is needed to accurately capture its complex structure of multiple bone pieces and the various mineral densities distributed throughout these bone pieces. Unfortunately, FE model development incorporating both complex geometries and anatomicallyaccurate material properties is both computationally and labor intensive. In this study, a method is proposed to automatically segment microcomputed tomography (μ-CT) scan images of bone pieces to build an FE model of a full swine hemi-skull. Using the Digital Imaging and Communications in Medicine (DICOM) files from scanned bones, the complete geometry of each bone piece is recreated through seven customized processing algorithms. After assembling the bone pieces to form the skull, experimentally derived Young's modulus values are correlated to grayscale values to produce a detailed FE model for accurate simulation. This detailed skull model can be used to predict strain/stress patterns in response to various loading regimes to facilitate research questionsin fracture healing and growth, as well as bone tissue engineering and bone mineral density loss (e.g. osteoporosis).
Hypotheses
Creators: name: Ramoneda, Josep
name: Castledine, Meaghan
name: Dr Matt Lloyd Jones
name: Jones, Matt Lloyd
name: Lear, Luke
Publisher: name: OSF Registries
Year: 2021

description: The general diversity-invasibility hypothesis states that more diverse communities are more resistant to invasion because more of the available niche space is occupied. More diverse communities are also more likely to contain taxa that are effective at outcompeting invaders.

H1: Resident community diversity will have a negative effect on invasion success.
H2: This effect will be more pronounced at low diversity levels and will follow a saturating trend at higher diversity.
Morphological differentiation in Asian honey bee (Apis cerana) populations in the basin and highlands of southwestern China
Creators: name: Xiangjie Zhu
name: Shujing Zhou
name: Xinjian Xu
name: Jianwen Wang
name: Yinglong Yu
name: Kai-Chieh Yang
name: Luo, Qun
name: Yingying Xu
name: Shunhai Wang
name: Bingfeng Zhou
Publisher: name: Taylor & Francis
Year: 2017
Subjects: subject: Evolutionary Biology
subject: FOS: Biological sciences
subject: 59999 Environmental Sciences not elsewhere classified
subject: FOS: Earth and related environmental sciences
subject: Ecology
subject: 69999 Biological Sciences not elsewhere classified

description: In the evolutionary process, honey bee populations became divergent due to geographical barriers or ecological adaptation, but to date which specific barriers and ecological isolation conditions that blocked the honey bee gene flow remain uncertain. Here, the morphometric divergence of Apis cerana was studied across southwestern China, a region of diverse topography, featuring a low-elevation basin in the east and a high-elevation mountain and plateau in the west. A multivariate morphometric analysis was conducted on 1482 A. cerana individuals from 25 sampling sites across Sichuan province. The populations dwelling in high-elevation areas with larger body sizes and darker coloration were differentiated from the eastern low-elevation basin population. Moreover, the populations dwelling in the Jinshajiang, Yalongjiang, and DaduRiver Valleys showed significant divergence. Our data indicate that the morphometric variation between the high and low altitudes, probably due to the adaptation to the integrated effects of ecological factors such as air temperature, humidity, the nectar and pollen plants, and light intensity etc. Additionally, the mountains with an altitude of more than 3300 m and a honey bee-free zone probably served as a barrier to gene flow between the river valley populations.
Measured variables
Creators: name: Castledine, Meaghan
name: Jones, Matt Lloyd
name: Lear, Luke
name: Dr Matt Lloyd Jones
name: Ramoneda, Josep
Publisher: name: OSF Registries
Year: 2021

description: The included outcomes measured in studies are the abundance of experimentally introduced microbial invaders at the moment of stationary growth in microbial communities of known diversity. See attached PICOS_criteria.pdf for more details. Other metadata relating to the PICOS and other components of the studies will also be extracted. We will prioritise the extraction of data directly related to factors that affect the relationship between invader abundance (invasion success) and local community diversity, as these are key predictors for interpreting the diversity-invasibility relationship that will be included in the planned statistical analyses. See Data_Extraction.pdf for more details. Risk of bias in the outcome(s) will be assessed for each included study using the adapted RoB 2 (experimental studies) tool. See RoB_assessment.pdf for more details.
Impact of combined sewer overflow on urban river hydrodynamic modelling: a case study of the Chicago waterway
Creators: name: Zhenduo Zhu
name: Morales, Viviana
name: Garcia, Marcelo H.
Publisher: name: Taylor & Francis
Year: 2017
Subjects: subject: Space Science
subject: Biotechnology
subject: 59999 Environmental Sciences not elsewhere classified
subject: FOS: Earth and related environmental sciences
subject: 39999 Chemical Sciences not elsewhere classified
subject: FOS: Chemical sciences
subject: Sociology
subject: FOS: Sociology
subject: 69999 Biological Sciences not elsewhere classified
subject: FOS: Biological sciences
subject: Inorganic Chemistry

description: Combined sewer overflow (CSO) can be a critical inflow source for urban rivers during storm events. This paper presents a case study of the Chicago waterway. A three-dimensional (3D) river hydrodynamic model was developed and integrated with an urban rainfall-runoff model using the Open Modelling Interface (OpenMI). Both the effects of CSO discharge on river and river water levels on CSO outlets were considered by the integrated model. A historical storm, which was similar to a 100-year return period rain event, was simulated and compared with field measurements. This study highlights the necessity of quantifying CSO for hydraulic modelling of urban rivers under extreme storm event conditions, and shows that an integrated hydrologic and hydraulic approach can be used to address this challenge. The 3D river hydrodynamic model can deal with the complex hydrodynamics at river confluences and provide better hydrodynamic results for water quality modelling in the future.
Ransomware Attack Detection and Classification Using Machine Learning
Creators: name: Dipak Shid, Parikshit Patil, Shrikrushna Shinde, Himanshu Shinde, Manisha Darak
Publisher: name: Zenodo
Year: 2025

description: Ransomware has become a serious cybersecurity risk, especially in industries like healthcare wherepatient data integrity and confidentiality are crucial. This study examines current approaches to machinelearning-based ransomware detection and categorisation. For data integrity in encrypted contexts, weinvestigate techniques that integrate cryptographic techniques like MD5 and SHA-256 with algorithms likeSupport Vector Machines (SVM) and Random Forests. In hospital settings, where patient data is kept onencrypted local databases, the study focusses on real-time ransomware detection. We highlight potentialresearch directions for improving ransomware defences while discussing issues including model accuracy,data availability, and encryption overheads.
Statistical models
Creators: name: Jones, Matt Lloyd
name: Dr Matt Lloyd Jones
name: Ramoneda, Josep
name: Castledine, Meaghan
name: Lear, Luke
Publisher: name: OSF Registries
Year: 2021

description: We will quantitatively meta-analyse the primary outcomes (invader abundance) in relation to the resident population (microbial communities with different diversity levels). The factors controlling the relationship between invader abundance and community diversity will be systematically reviewed and discussed in a narrative synthesis. This is because our scoping searches suggest there is not enough evidence to permit a quantitative analysis of the environmental factors involved.

We will use multilevel meta-analytic models implemented using the metafor R package (Viechtbauer, 2010) – see Statistical_analysis.pdf for details.
Interaction of gapless spin waves and a domain wall in an easy-cone ferromagnet
Creators: name: Kim, Wooyon
name: Kim, Se Kwon
Publisher: name: arXiv
Year: 2022
Subjects: subject: Mesoscale and Nanoscale Physics (cond-mat.mes-hall)
subject: FOS: Physical sciences

description: We theoretically study the interaction of spin waves and a domain wall in a quasi-one-dimensional easy-cone ferromagnet. The gapless spin waves on top of a domain wall are found to exhibit finite reflection in contrast to the well-known perfect transmission of gapful spin waves in easy-axis magnets. Based on the obtained scattering properties, we study the thermal-magnon-driven dynamics of a domain wall subjected to a thermal bias within the Landau-Büttiker formalism, where transmitted magnons are shown to exert the magnonic torque on the domain wall and thereby drive it with the velocity linear to the applied thermal bias. The peculiar gapless nature of spin waves in easy-cone magnets enables the thermally-driven domain-wall motion even at low temperatures, differing from the easy-axis case where the domain-wall velocity is exponentially suppressed at low temperatures. Our work suggests that easy-cone magnets can serve as a useful platform to study the interaction of gapless spin waves and nonlinear excitations and thereby realize low-temperature magnon-related phenomena.
description: 6 pages, 3 figures
Contribution of the csgA and bcsA genes to Salmonella enterica serovar Pullorum biofilm formation and virulence
Creators: name: Hag, Muhanad El
name: Feng, Zheng
name: Su, Yangyang
name: Wang, Xiao
name: Yassin, Afrah
name: Chen, Sujuan
name: Peng, Daxin
name: Liu, Xiufan
Publisher: name: Taylor & Francis
Year: 2017
Subjects: subject: Microbiology
subject: FOS: Biological sciences
subject: Genetics
subject: Environmental Sciences not elsewhere classified
subject: Ecology
subject: Biological Sciences not elsewhere classified
subject: Infectious Diseases
subject: FOS: Health sciences
subject: Virology

description: Salmonella biofilm formation is important to environmental stress resistance and virulence. However, the roles of the csgA and bcsA genes, which affect curli protein and cellulose production, respectively, in Salmonella enterica serovar Pullorum, are unknown. Here we constructed deletions in the csgA and bcsA genes in S. enterica serovar Pullorum strain S6702 and evaluated several aspects of biofilm formation and virulence. ΔcsgA showed decreased production of curli fimbriae, while ΔbcsA had reduced cellulose production. Both mutants had a reduced ability to form biofilms. ΔcsgA was reduced in adhesion and invasion to HeLa cells and exhibited decreased intracellular proliferation in HD11 macrophages. ΔbcsA exhibited increased proliferation in HD11 cells and replicated better in chicken spleens, as compared to the wild-type strain. ΔcsgA virulence was attenuated in assays involving oral challenge of one-day-old chickens.
Zircon U–Pb geochronology and geochemistry of the post-collisional volcanic rocks in eastern Xinjiang Province, NW China: implications for the tectonic evolution of the Junggar terrane
Creators: name: Du, Qingxiang
name: Han, Zuozhen
name: Shen, Xiaoli
name: Han, Chao
name: Han, Mei
name: Song, Zhigang
name: Gao, Lihua
name: Liu, Hui
name: Zhong, Wenjian
name: Yan, Junlei
Publisher: name: Taylor & Francis
Year: 2017
Subjects: subject: Microbiology
subject: FOS: Biological sciences
subject: Molecular Biology
subject: Biotechnology
subject: Evolutionary Biology
subject: Environmental Sciences not elsewhere classified
subject: Chemical Sciences not elsewhere classified
subject: Ecology
subject: Biological Sciences not elsewhere classified
subject: Developmental Biology
subject: Cancer
subject: Inorganic Chemistry
subject: FOS: Chemical sciences
subject: Virology

description: We report zircon U–Pb geochronologic and geochemical data for the post-collisional volcanic rocks from the Batamayineishan (BS) Formation in the Shuangjingzi area, northwestern China. The zircon U–Pb ages of seven volcanic samples from the BS Formation show that the magmatic activity in the study area occurred during 342–304 Ma in the Carboniferous. The ages also indicate that the Palaeo-Karamaili Ocean had already closed by 342 Ma. Moreover, the volcanic rocks also contained 10 inherited zircons with ages ranging from 565 to 2626 Ma, indicating that Precambrian continental crust or microcontinents with accretionary arcs are two possible interpretations for the basement underlying the East Junggar terrane. The sampled mafic-intermediate rocks belong to the medium-K to high-K calc-alkaline and shoshonitic series, and the formation of these rocks involved fractional crystallization with little crustal contamination. These Carboniferous mafic-intermediate rocks show depletions in Nb and Ta and enrichments in large ion lithophile elements (e.g. Rb, Ba, U, and Th) and light rare earth elements. The low initial 87Sr/86Sr values (0.7034–0.7042) and positive εNd(t) values (+2.63 to +6.46) of these rocks suggest that they formed from depleted mantle material. The mafic-intermediate rocks were most likely generated by 5–10% partial melting of a mantle source composed primarily of spinel lherzolite with minor garnet lherzolite that had been metasomatized by slab-derived fluids and minor slab melts. In contrast, the felsic rocks in the BS Formation are A-type rhyolites with positive εNd(t) values and young model ages. These rocks are interpreted to be derived from the partial melting of juvenile basaltic lower crustal material. Taken together, the mafic-intermediate rocks formed in a post-collisional extensional setting generated by slap breakoff in the early Carboniferous (342–330 Ma) and the A-type rhyolites formed in a post-collisional extensional setting triggered by the upwelling asthenosphere in the late Carboniferous (330–304 Ma).