cometadata/datacite-rtg-text-other-reclassification-records huggingface dataset:
Additional file 1 of Value of [68Ga]Ga-somatostatin receptor PET/CT in the grading of pulmonary neuroendocrine (carcinoid) tumours and the detection of disseminated disease: single-centre pathology-based analysis and review of the literature
Creators: name: Deleu, Anne-Leen
name: Laenen, Annouschka
name: Decaluwé, Herbert
name: Weynand, Birgit
name: Dooms, Christophe
name: De Wever, Walter
name: Jentjens, Sander
name: Goffin, Karolien
name: Vansteenkiste, Johan
name: Van Laere, Koen
name: De Leyn, Paul
name: Nackaerts, Kristiaan
name: Deroose, Christophe M.
Publisher: name: figshare
Year: 2022
Subjects: subject: Space Science
subject: Medicine
subject: Cell Biology
subject: Molecular Biology
subject: 59999 Environmental Sciences not elsewhere classified
subject: FOS: Earth and related environmental sciences
subject: Cancer
subject: 111714 Mental Health
subject: FOS: Health sciences

description: Additional file 1. Supplementary Figures.
A Potential Role for HUWE1 in Modulating Cisplatin Sensitivity
Creators: name: Wenmaekers, Stijn
name: Viergever, Bastiaan J.
name: Kumar, Gunjan
name: Kranenburg, Onno
name: Black, Peter C.
name: Daugaard, Mads
name: Meijer, Richard P.
Publisher: name: Multidisciplinary Digital Publishing Institute
Year: 2021

description: Cisplatin is a widely used antineoplastic agent, whose efficacy is limited by primary and acquired therapeutic resistance. Recently, a bladder cancer genome-wide CRISPR/Cas9 knock-out screen correlated cisplatin sensitivity to multiple genetic biomarkers. Among the screen’s top hits was the HECT domain-containing ubiquitin E3 ligase (HUWE1). In this review, HUWE1 is postulated as a therapeutic response modulator, affecting the collision between platinum-DNA adducts and the replication fork, the primary cytotoxic action of platins. HUWE1 can alter the cytotoxic response to platins by targeting essential components of the DNA damage response including BRCA1, p53, and Mcl-1. Deficiency of HUWE1 could lead to enhanced DNA damage repair and a dysfunctional apoptotic apparatus, thereby inducing resistance to platins. Future research on the relationship between HUWE1 and platins could generate new mechanistic insights into therapy resistance. Ultimately, HUWE1 might serve as a clinical biomarker to tailor cancer treatment strategies, thereby improving cancer care and patient outcomes.
Additional file 1 of RNA-seq analysis of galaninergic neurons from ventrolateral preoptic nucleus identifies expression changes between sleep and wake
Creators: name: Xiaofeng Guo
name: Xiaoling Gao
name: Keenan, Brendan T.
name: Jingxu Zhu
name: Sarantopoulou, Dimitra
name: Lian, Jie
name: Galante, Raymond J.
name: Grant, Gregory R.
name: Pack, Allan I.
Publisher: name: figshare
Year: 2020
Subjects: subject: Genetics
subject: FOS: Biological sciences

description: Additional file 1: Figure S1. Distribution of galanin neurons in VLPO in post-fix mouse brain. Galanin neurons have been shown to be distributed in a few different structures besides the VLPO core (VLPOc). These include the medial (VLPOem) and dorsal (VLPOed) extensions, as well as the median (MnPO), medial (MPO), and periventricular preoptic (PvPO) nuclei [28]. A shows a reference galanin neuron distribution at around Bregma + 0.14, for which the brain was prepared using perfusion with 10% formalin. B shows a brain slide at approximately the same location from a brain sample prepared using 5 min post-fix with 4% formaldehyde, the same as the samples used for LCM in this study. C shows the enlarged image containing the GFP-labeled galanin neurons. The different structures were drawn based on the reference image. The outlines were drawn in the absence of Nissl staining and were for illustration only. As shown in the images (B and C), the short post-fix allowed well penetration of formalin (fix the GFP protein) primarily in the VLPO-core but not deep enough to reach the dorsal extension (VLPOed), MPO, MnPO, or the dorsal part of the PvPO. AC, Anterior commissure; 3 V, 3rd ventricle; OC, Optic chiasm. Figure S2. Identification and dissociation of eGFP-galanin neurons from VLPO core using LCM. A shows a representative brain section at approximately + 0.15 Bregma under fluorescence with the different structures illustrated based on the reference image shown in Supplementary figure 1. The outlines were drawn in the absence of Nissl staining and were for illustration only. B shows the same brain slide after the eGFP (+)-galanin cells being removed in the VLPO core structure. Care was taken to avoid selecting other eGFP(+) cells in the surrounding structures and regions. The purple circles indicate the exact location where the cells were dissociated. The image is directly taken from the LCM instrument. C shows the captured cells on the CapSure HS cap.
Provision of Research Assessment Services in Academic Health Sciences Libraries
Creators: name: Zhang, Yingting
Publisher: name: Rutgers University
Year: 2018
Subjects: Academic health sciences libraries
Bibliometric services
Bibliometrics
Research assessment services
Research evaluation services
Research metrics
Research support

description: Background/Objective: Academic health sciences libraries have been providing research support services. However, most did not include research assessment services until recently when such services become demanded. This study aims to investigate if, what, and how research assessment services are provided by academic health sciences libraries. The findings will help librarians develop effective research assessment services to meet researchers’ needs. Method: A list of health sciences libraries (N=150) was downloaded from AAHSL Membership Directory at http://www.aahsl.org/index.php?option=com_community&view=search&searchId=117383 in January 2018. Data were extracted from their websites mainly in the areas of research services, classes, workshops, special programs and library guides aiming to answer these questions: 1) Are research assessment services being provided? 2) If yes, what levels of assessment services are provided? 3) How are the research assessment services provided? 4) What other research support services are provided? When a website did not post enough or clear information, contacting listed point persons was pursued to acquire additional information and clarification about the service. Data collected were recorded in an excel file and analyzed accordingly. Results: The study revealed that 60 out of 150 libraries (n=150, 40%) provide research assessment services at various levels. Among them, 21 libraries provided basic level with a brief guide on research metrics; 22 offered intermediary level with detailed guides/workshops to measure research impact; 17 provided formal services by designated professionals and special programs. 18 (n=150, 12%) have access to the services provided by other libraries in their systems. 67 libraries (n=150, 45%) did not have such services; 5 (n=150, 3%) were excluded due to various reasons. The study also showed other research services offered in the studied libraries. Conclusion: More academic health sciences libraries than expected provided information on research assessment in addition to many other types of research support services. However, most libraries provided the research assessment services at a very limited level except a small number of libraries that offer very formal bibliometric services to their users. It would be beneficial for these providers to share what lessons they learned and what programs proved to be effective. Probably the subsequent study is to survey these libraries and service providers to make recommendations on best practices.
Liquid-based stationary phase for deterministic lateral displacement separation in microfluidics
Creators: name: Du, Siqi
name: Shojaei-Zadeh, Shahab
name: Drazer, German
Publisher: name: Rutgers University
Year: 2017

description: Deterministic lateral displacement (DLD) is a promising separation scheme in microfluidic systems. In traditional DLD, a periodic array of solid posts induces the separative migration of suspended particles moving through the system. Here, we present a radical departure from traditional DLD systems and use an array of anchored liquid-bridges as the stationary phase in the DLD device. The liquid-bridges are created between two parallel plates and anchored to the bottom one by cylindrical wells. We show that the non-linear particle dynamics observed in traditional DLD systems is also present in the anchored-liquid case, enabling analogous size-based separation of suspended particles. The use of liquid-bridges as the stationary phase presents additional possibilities in separation technologies, potentially eliminating or significantly reducing clogging, enabling renewable and/or reconfigurable systems, allowing a different set of fabrication methods and providing alternative ways to separate particles based on their interaction with liquid–liquid interfaces. Some of these advantages could also extend to filtration methods based on similar liquid-based stationary phases.
Additional file 1 of The effect of TGF-β1 polymorphisms on pulmonary disease progression in patients with cystic fibrosis
Creators: name: Trojan, T.
name: Alejandre Alcazar, Miguel A.
name: Fink, G.
name: Thomassen, J. C.
name: Maessenhausen, M. V.
name: Rietschel, E.
name: Schneider, P. M.
name: van Koningsbruggen-Rietschel, S.
Publisher: name: figshare
Year: 2022
Subjects: subject: Medicine
subject: Genetics
subject: FOS: Biological sciences
subject: 39999 Chemical Sciences not elsewhere classified
subject: FOS: Chemical sciences
subject: Ecology
subject: Immunology
subject: FOS: Clinical medicine
subject: 69999 Biological Sciences not elsewhere classified
subject: Cancer
subject: 110309 Infectious Diseases
subject: FOS: Health sciences

description: Additional file 1. Contains Figures A, B, C, D and E as referred to in the manuscript text above. Figure A shows an exemplary capillary electrophoresis result of a CF-patient in our cohort used to determine the genotype at all three investigated TGF-β1 polymorphism loci. Figure B shows a summary of all FEV1slope subgroups and categorizations used for more detailed analysis of slope associations with SNPs and TGF-β1 levels. Figure C shows a summary of FEV1 subgroups, according to best FEV1 in the final year of their 5-year observation period. Figure D shows a summary of mean average FEV1 slope for different SNP genotype groups at all three investigated TGF-β1 SNP loci. Figure E shows a summary of all TGF-β1 SNP genotypes and mean average concentrations of investigated inflammatory markers.
“What’s not in a name?” Initial Explorations of a Structural Approach to Integrating Large Concept Knowledge-Bases
Creators: name: Borgida, Alex
name: Küsters, Ralf
Publisher: name: Rutgers University
Year: 1999

description: We are interested in providing semi-automatic support for the task of integrating large knowledge bases (KBs) through the use of structural information in description logics. For that reason we set up a formal framework for the integration of KBs which enables us to investigate the potential and limits of using structural information (in contrast to just thesaurus information involving identifier strings). Structurally similar concept descriptions (role chains) are related by integration mappings, which must satisfy a previously proposed notion of ”conflict-freeness”. It turns out that computing integration mappings is closely related to unification and matching of concept descriptions (and is intractable even for simple description logics). As a formal basis for the limitations of structural information we introduce the notion of indistinguishable concepts. We state the connection between indistinguishable concepts and integration mappings theoretically and also evaluate the problem empirically, by looking for indistinguishable concepts in a sizeable ontology (galen), and integration mappings fromgalen to itself. An interesting discovery is that roughly two thirds of the concepts are distinguishable by their structural properties, indicating that semantic information is indeed being encoded in the knowledge representation, not just in the name.
Effects of Tele-Rehabilitation Compared with Home-Based in-Person Rehabilitation for Older Adult’s Function after Hip Fracture
Creators: name: Ortiz-Piña, Mariana
name: Molina-Garcia, Pablo
name: Femia, Pedro
name: Ashe, Maureen C.
name: Martín-Martín, Lydia
name: Salazar-Graván, Susana
name: Salas-Fariña, Zeus
name: Prieto-Moreno, Rafael
name: Castellote-Caballero, Yolanda
name: Estevez-Lopez, Fernando
name: Ariza-Vega, Patrocinio
Publisher: name: Multidisciplinary Digital Publishing Institute
Year: 2021

description: This study aimed to examine the effect of a multidisciplinary tele-rehabilitation program on functional recovery of older adults with hip fracture compared with home-based in-person rehabilitation. In this single-blinded, non-randomized clinical trial, we included older with hip fracture. The tele-rehabilitation group received a 12-week tele-rehabilitation program (supervised by their family caregivers). The control group received the usual postoperative rehabilitation provided by the Andalusian health system (Spain). The primary outcome was the patient-reported functional status assessed with the Functional Independence Measure. We also measured performance-based functional recovery using the Timed Up and Go Test and Short Physical Performance Battery. We performed both a per-protocol (62 participants; 28 tele-rehabilitation and 34 control groups) and an intention-to-treat analysis (71 participants; 35 tele-rehabilitation and 36 control groups). Participants who used the tele-rehabilitation program had higher Functional Independence Measure scores (high effect size: 0.98 Cohen’s d; p < 0.001) and better performance in the Timed Up and Go Test (medium effect size: 0.63 Cohen’s d; p = 0.025) compared with the control group. Differences between groups post-intervention were not statistically significant in the Short Physical Performance Battery. The tele-rehabilitation intervention proposed in this study is a valuable treatment option in the recovery process for older adults with hip fracture. ClinicalTrials.gov Identifier: NCT02968589.
Additional file 1 of Association of vitamin D receptor gene rs739837 polymorphism with type 2 diabetes and gestational diabetes mellitus susceptibility: a systematic review and meta-analysis
Creators: name: Zeng, Qiaoli
name: Zou, Dehua
name: Wei, Yue
name: Ouyang, Yingguang
name: Lao, Zhaohang
name: Guo, Runmin
Publisher: name: figshare
Year: 2022
Subjects: subject: Genetics
subject: FOS: Biological sciences

description: Additional file 1: Table S1 Begg’s and Egger’s tests in overall analysis. Table S2 Begg’s and Egger’s tests in T2DM subgroup analysis. Table S3 Begg’s and Egger’s tests in GDM subgroup analysis.
Building geodemographic regions: commuting, productivity and uneven spatial development in England and Wales
Creators: name: Hincks, Stephen
name: Arbabi, Hadi
name: Hamilton, Ruth
Publisher: name: Taylor & Francis
Year: 2025
Subjects: subject: Environmental Sciences not elsewhere classified
subject: Sociology
subject: FOS: Sociology
subject: Information Systems not elsewhere classified
subject: Developmental Biology
subject: Marine Biology
subject: Science Policy
subject: Plant Biology
subject: FOS: Biological sciences

description: We develop and apply a novel geodemographic classification of commuting flows to delineate 486 functional labour market areas (LMAs) across six commuter groups in England and Wales. Framed by the north–south divide, we then use settlement scaling to examine how economic and infrastructural agglomeration influence productivity, using the geodemographic LMAs as our base units. We find that disparities in mobility and infrastructure contribute to spatial productivity differences, with poorer intra-city connectivity in northern regions. Even among LMAs with similar commuter profiles, productivity diverges across the divide, highlighting how economic and infrastructural inequalities reinforce commuting interactions and regional productivity gaps.
Investigation and monitoring of suspended sediment in Port Phillip Bay, Victoria, by means of satellite observations and numerical modelling
Creators: name: Belski, Anne
Publisher: name: Swinburne
Year: 2024

description: Ocean circulation models have been widely used to study the formation and distribution of surface sediments. In the present study a sediment transport model coupled with a hydrodynamic model and a wave model have been applied to the region of Port Phillip Bay in Victoria, Australia. Port Phillip Bay houses the largest container port in Australia, the Port of Melbourne. As a result it becomes increasingly important to understand and model or predict the behaviour of sediment in coastal areas and the Bay. The study couples a hydrodynamic model and a wave model with a sediment transport model in order to model suspended particulate matter at the surface.
Additional file 1 of Analysis of genetic diversity and population structure in Asparagus species using SSR markers
Creators: name: Kapoor, Manish
name: Mawal, Pooja
name: Sharma, Vikas
name: Raghbir Chand Gupta
Publisher: name: figshare
Year: 2020
Subjects: subject: Genetics
subject: FOS: Biological sciences
subject: Evolutionary Biology
subject: 59999 Environmental Sciences not elsewhere classified
subject: FOS: Earth and related environmental sciences
subject: Ecology
subject: 69999 Biological Sciences not elsewhere classified
subject: Marine Biology
subject: Plant Biology

description: Additional file 1: Supplementary Table 1.. Accession numbers of the specimens deposited in Herbaria of Punjabi University, Patiala (PUN). Supplementary Table 2. Details of each Primer showing null alleles in different accessions
Additional file 1 of Short-term survival rates of 1397 horses referred for colic from 2010 to 2018
Creators: name: Dybkjær, Emma
name: Steffensen, Kirstine Fleng
name: Honoré, Marie Louise
name: Dinesen, Mathias Ankjær
name: Christophersen, Mogens Teken
name: Pihl, Tina Holberg
Publisher: name: figshare
Year: 2022
Subjects: subject: Medicine
subject: 59999 Environmental Sciences not elsewhere classified
subject: FOS: Earth and related environmental sciences
subject: Sociology
subject: FOS: Sociology
subject: Immunology
subject: FOS: Clinical medicine
subject: Cancer
subject: 110309 Infectious Diseases
subject: FOS: Health sciences

description: Additional file 1. Distribution of age (years), bodyweight (kg), sex, breed and type for all horses referred to the hospital due to colic.
A cluster randomized controlled trial comparing the effectiveness of two school-based interventions for autistic youth with anxiety
Creators: name: Reaven, Judy
name: Pickard, Katherine
name: Maddox, Brenna
name: Boles, Richard
Publisher: name: Springer Nature
Year: 2024

description: Background Recent systematic reviews have indicated that cognitive behavioral therapy (CBT) is effective in reducing anxiety symptoms for autistic and non-autistic children. However, the vast majority of CBT research for autistic youth has been implemented within university settings and primarily by mental health providers. Schools hold great promise to equitably manage the mental health symptoms of autistic youth. Although preliminary research evaluating CBT within schools has been promising, CBT has not yet been compared to another readily available school mental health program. The goal of this protocol paper is to describe a multi-site study comparing two school-based interventions, Facing Your Fears-School Based (FYF-SB) and Zones of Regulation (ZOR) via a cluster randomized controlled type 1 hybrid effectiveness-implementation trial to determine which of the two interventions will best support autistic youth with anxiety in schools. Methods Up to 100 elementary and middle schools will be randomized into FYF-SB or ZOR. Once schools are randomized, a minimum of two interdisciplinary school providers at each school will be trained to deliver either FYF-SB or ZOR over the course of 12 weeks to groups of 2–5 autistic students ages 8–14 years. Over the course of two years, a total of 200 autistic students will receive either ZOR or FYF-SB. The primary outcome of this trial is child anxiety, as rated by masked evaluators and via caregiver- and student-report, which will be measured at baseline, post-treatment, and 6-month follow-up. Semi-structured interviews will also be conducted with a purposive sample of students, caregivers, and school providers to understand the acceptability, appropriateness, and feasibility of either ZOR or FYF-SB. Stakeholder engagement is a central component of this project via two stakeholder advisory boards that will directly inform and oversee the project. Discussion Results of this study will provide evidence about the relative impact of two school-based mental health interventions on outcomes reported as meaningful by caregivers and school providers. The additional focus on evaluating factors that support the implementation of FYF-SB and ZOR will allow future studies to test targeted implementation strategies that support mental health programming uptake and implementation within public schools. Trial registration This trial is registered with clinicaltrials.gov (NCT05863520).
Genome analysis of Thauera chlorobenzoica strain 3CB-1(T), a halobenzoate-degrading bacterium isolated from aquatic sediment
Creators: name: Louie, Tiffany S.
name: Pavlik, Elizabeth Jane
name: Häggblom, Max M.
Publisher: name: Springer
Year: 2021
Subjects: subject: Life Sciences & Biomedicine
subject: Science & Technology
subject: Microbiology
subject: FOS: Biological sciences

description: The genus Thauera is characterized by several species and strains with the ability to degrade a variety of aromatic compounds under denitrifying conditions. Thauera chlorobenzoica strain 3CB-1(T), isolated from river sediment, has the unique ability to degrade a variety of halobenzoates, such as 3-chlorobenzoate, 3-bromobenzoate, 3-iodobenzoate, and 2-fluorobenzoate, coupled to nitrate reduction. The genome of T. chlorobenzoica strain 3CB-1(T) has been sequenced, allowing us to gain insights into the molecular basis for the anaerobic degradation of (halo)aromatic compounds. The 3.77-Mb genome contains 3584 genes; 3514 are protein-coding genes of which 198 are likely associated with degradation of aromatic compounds. It has a G + C content of 67.25%. The genome contains two sets of CoA reductase gene clusters, both belonging to class I benzoate-CoA reductases (BCRs). The genes in one of the two clusters differ from the typical BCRs, with low sequence identities, suggesting they might have different substrate specificities. The genome also contains four benzoate-CoA ligase genes. One likely encodes a 3-hydroxybenzoate-CoA ligase, and two others group together with benzoate-CoA ligases from Thauera aromatica. The fourth has a 77% identity to the mbdA gene from Azoarcus sp. CIB, is absent in the T. aromatica genome, and potentially encodes a halobenzoate-CoA ligase. 3-Chlorobenzoate is reductively dechlorinated in T. chlorobenzoica by a benzoyl-CoA reductase.
Regulation of gene expression by 17β-estradiol in the arcuate nucleus of the mouse through ERE-dependent and ERE-independent mechanisms
Creators: name: Yang, Jennifer A.
name: Mamounis, Kyle
name: Yasrebi, Ali
name: Roepke, Troy A.
Publisher: name: Rutgers University
Year: 2016
Subjects: 17β-Estradiol
Ovariectomy
ERα
Arcuate nucleus

description: 17β-Estradiol (E2) modulates gene expression in the hypothalamic arcuate nucleus (ARC) to control homeostatic functions. In the ARC, estrogen receptor (ER) α is highly expressed and is an important contributor to E2's actions, controlling gene expression through estrogen response element (ERE)-dependent and -independent mechanisms. The objective of this study was to determine if known E2-regulated genes are regulated through these mechanisms. The selected genes have been shown to regulate homeostasis and have been separated into three subsections: channels, receptors, and neuropeptides. To determine if ERE-dependent or ERE-independent mechanisms regulate gene expression, two transgenic mouse models, an ERα knock-out (ERKO) and an ERα knock-in/knock-out (KIKO), which lacks a functional ERE binding domain, were used in addition to their wild-type littermates. Females of all genotypes were ovariectomized and injected with oil or estradiol benzoate (E2B). Our results suggest that E2B regulates multiple genes through these mechanisms. Of note, Cacna1g and Kcnmb1 channel expression was increased by E2B in WT females only, suggesting an ERE-dependent regulation. Furthermore, the NKB receptor, Tac3r, was suppressed by E2B in WT and KIKO females but not ERKO females, suggesting that ERα-dependent, ERE-independent signaling is necessary for Tac3r regulation. The adrenergic receptor Adra1b was suppressed by E2B in all genotypes indicating that ERα is not the primary receptor for E2B's actions. The neuropeptide Tac2 was suppressed by E2B through ERE-dependent mechanisms. These results indicate that E2B activates both ERα-dependent and independent signaling in the ARC through ERE-dependent and ERE-independent mechanisms to control gene expression.
EGU25-16240 Evidence for gamma-ray glows observed in the relativistic feedback regime during the ALOFT 2023 campaign
Creators: name: David, Sarria
name: and others
Publisher: name: Zenodo
Year: 2024

description: THIS IS STILL WORK IN PROGRESS THAT COULD CHANGE SIGNIFICANTLY AT A LATER STAGE.

EGU 2025 Poster EGU25-16240: "Evidence of gamma-ray glows observed in the relativistic feedback regime during the ALOFT 2023 flight campaign"
Additional file 1 of Off-targetP ML: an open source machine learning framework for off-target panel safety assessment of small molecules
Creators: name: Naga, Doha
name: Muster, Wolfgang
name: Musvasva, Eunice
name: Ecker, Gerhard F.
Publisher: name: figshare
Year: 2022
Subjects: subject: Biochemistry
subject: Space Science
subject: Medicine
subject: Pharmacology
subject: Sociology
subject: FOS: Sociology
subject: 69999 Biological Sciences not elsewhere classified
subject: FOS: Biological sciences
subject: 80699 Information Systems not elsewhere classified
subject: FOS: Computer and information sciences

description: Additional file 1: Table S1.A Ranges of the molecular descriptors used for the applicability domain. Table S1.B List of CDK descriptors used for the PCA and UMAP. Supplementary paragraph on training steps for H2O and AutoGluon Tabular. Table S2. Neural networks performance metrics for the three target excluded from the analysis due to their poor performance.
Additional file 1 of MasterPATH: network analysis of functional genomics screening data
Creators: name: Rubanova, Natalia
name: Pinna, Guillaume
name: Kropp, Jeremie
name: Campalans, Anna
name: Radicella, Juan Pablo
name: Polesskaya, Anna
name: Harel-Bellan, Annick
name: Morozova, Nadya
Publisher: name: figshare
Year: 2020
Subjects: subject: Genetics
subject: FOS: Biological sciences

description: Additional file 1: Supplementary note 1. Table S1. Hit genes for miRNA loss-of-function screen of human muscle differentiation process. Table S2. Hit genes for transcriptome profiling of human muscle differentiation process. Table S3. Hit genes for human oxidative DNA damage recognition loss-of-function screen. Table S4. Topological features of the integrated and PPI networks.
MassConf: Automatic Configuration Tuning By Leveraging User Community Information
Creators: name: Zheng, Wei
name: Bianchini, Ricardo
name: Nguyen, Thu
Publisher: name: Rutgers University
Year: 2010

description: Configuring modern enterprise software can be extremely difficult, because its behavior often depends on large numbers of configuration parameters. We argue that vendors can simplify the configuration process for new users of their software by collecting and using configuration information from the existing user community. Our proposed approach is based on the observations that (1) a “good” configuration may work well for many different users, and (2) multiple good configurations may work well for each user. We demonstrate our idea by designing MassConf, a system that collects and uses existing configurations to automatically configure new software installations. To evaluate MassConf, we use it to configure the Apache Web server to achieve a response-time target. Our results confirm our observations and show that MassConf successfully reaches the targets of many more new installations than an existing efficient optimization algorithm. Even when we consider only the installations that can be configured with this efficient algorithm, our results show that MassConf reaches the desired targets running many fewer experiments on average.
Additional file 2 of Off-targetP ML: an open source machine learning framework for off-target panel safety assessment of small molecules
Creators: name: Naga, Doha
name: Muster, Wolfgang
name: Musvasva, Eunice
name: Ecker, Gerhard F.
Publisher: name: figshare
Year: 2022
Subjects: subject: Biochemistry
subject: Space Science
subject: Medicine
subject: Pharmacology
subject: Sociology
subject: FOS: Sociology
subject: 69999 Biological Sciences not elsewhere classified
subject: FOS: Biological sciences
subject: 80699 Information Systems not elsewhere classified
subject: FOS: Computer and information sciences

description: Additional file 2: Table S3.A–E Comparison of different performance metrics for the Neural Networks, H2O, AutoGluon, RandomForest and AutoSklearn methods respectively.
Additional file 1 of Studies on sugar transporter CRT1 reveal new characteristics that are critical for cellulase induction in Trichoderma reesei
Creators: name: Havukainen, Sami
name: Valkonen, Mari
name: Koivuranta, Kari
name: Landowski, Christopher P.
Publisher: name: figshare
Year: 2020
Subjects: subject: Genetics
subject: FOS: Biological sciences

description: Additional file 1. Additional Figures. Additional figures to the article.
Auswirkungen des Klimawandels auf allergische Erkrankungen in Deutschland
Creators: name: Bergmann, Karl-Christian
name: Brehler, Randolf
name: Endler, Christina
name: Höflich, Conny
Publisher: name: My University
Year: 2023
Subjects: Klimaänderung
Allergie
Pollen
Monitoring

description: Hintergrund: Allergische Erkrankungen, vor allem Inhalationsallergien, haben ein epidemisches Ausmaß erreicht, und Umweltfaktoren spielen eine wichtige Rolle bei ihrer Entstehung. Der Klimawandel beeinflusst Auftreten, Häufigkeit und Schwere allergischer Erkrankungen. Methode: Die Inhalte dieses Artikels wurden durch die Autorinnen und Autoren ausgewählt und entsprechend ihren Expertisen nach dem aktuellen Wissensstand kapitelweise erarbeitet. Die Kapitel wurden anschließend mit allen Autorinnen und Autoren diskutiert und abgestimmt. Ergebnisse: Der Artikel beleuchtet direkte und indirekte Effekte des Klimawandels auf Allergien. Er geht näher auf Zusammenhänge zwischen Klimawandel und (neuen) Pollenallergenen sowie (neuen) beruflichen Inhalationsallergenen ein, erläutert Auswirkungen des Klimawandels auf das Krankheitsbild der Neurodermitis, geht auf Zusammenhänge zwischen Luftschadstoffen und Allergien ein und informiert über das Phänomen des Gewitterasthmas. Schlussfolgerungen: Es besteht unter anderem Handlungsbedarf für die Bereiche Pollen- und Schimmelpilzsporenmonitoring, Allergie- und Sensibilisierungsmonitoring, Städteplanung unter allergologischen Gesichtspunkten und Veränderungen der Arbeitswelt. Quelle: Artikel
The effects of estrogen deficiency on cortical bone microporosity and mineralization
Creators: name: Palacio-Mancheno, Paolo E.
name: Gatti, Vittorio
name: Sharma, Divya
name: Larriera, Adriana I.
name: Fritton, J. Christopher
name: Bromage, Timothy G.
name: Cardoso, Luis
name: Fritton, Susannah P.
name: Doty, Stephen B.
Publisher: name: Rutgers University
Year: 2019
Subjects: Cortical porosity
Vascular porosity
Osteocyte lacunar porosity
Bone mechanotransduction
Osteoporosis

description: Recent studies have demonstrated matrix-mineral alterations in bone tissue surrounding osteocytes in estrogen-deficient animals.While cortical bone porosity has been shown to be a contributor to the mechanical properties of bone tissue, little analysis has been done to investigate the effects of estrogen deficiency on bone's microporosities, including the vascular and osteocyte lacunar porosities. In this study we examined alterations in cortical bone microporosity, mineralization, and cancellous bone architecture due to estrogen deficiency in the ovariectomized rat model of postmenopausal osteoporosis. Twenty-week-old female Sprague–Dawley rats were subjected to either ovariectomy or sham surgery. Six weeks post-surgery tibiae were analyzed using high-resolution micro-CT, backscattered electron imaging, nanoindentation, and dynamic histomorphometry. Estrogen deficiency caused an increase in cortical bone vascular porosity, with enlarged vascular pores and little change in tissue mineral density in the proximal tibial metaphysis. Measurements of cancellous architecture corresponded to previous studies reporting a decrease in bone volume fraction, an increase in trabecular separation, and a decrease in trabecular number in the proximal tibia due to estrogen deficiency. Nanoindentation results showed no differences in matrix stiffness in osteocyte-rich areas of the proximal tibia of estrogen-deficient rats, and bone labeling and backscattered electron imaging showed no significant changes in mineralization around the vascular pores. The findings demonstrate local surface alterations of vascular pores due to estrogen deficiency. An increase in cortical vascular porosity may diminish bone strength as well as alter bone mechanotransduction via interstitial fluid flow, both of which could contribute to bone fragility during postmenopausal osteoporosis.
Scholarly Communication and Open Access: Concepts and Current Trends
Creators: name: Marker, Rhonda J.
Publisher: name: Rutgers University
Year: 2014
Subjects: Scholarly communication
Open access publishing
Open access publications
Authors and publishers
Copyright
Institutional repositories

description: Presentation for the International Workshop on Community Health and Environmental Exposures, at College of Public Health Sciences, Chulalongkorn University, Bangkok, Thailand, January 10, 2012.
description: Presented at International Workshop on Community Health and Environmental Exposures, sponsored by Thai Fogarty International Training and Research in Environmental and Occupational Health (ITREOH) Center, Rutgers University School of Environmental and Biological Sciences, and College of Public Health Sciences at Chulalongkorn University, Bangkok, Thailand, January 10, 2012.
Mucosal‐associated invariant T cells modulate innate immune cells and inhibit colon cancer growth
Creators: name: Lebish, Eric J.
name: Jensen, Owen
name: Cacioppo, Jackson G.
name: Jacenik, Damian
name: Trivedi, Shubhanshi
name: Aubé, Jeffrey
name: Beswick, Ellen J.
name: Cheng, Olivia J.
name: Leung, Daniel T.
Publisher: name: Wiley
Year: 2024

description: Mucosal-associated invariant T (MAIT) cells are innate-like T cells that can be activated by microbial antigens and cytokines and are abundant in mucosal tissues including the colon. MAIT cells have cytotoxic and pro-inflammatory functions and have potentials for use as adoptive cell therapy. However, studies into their anti-cancer activity, including their role in colon cancer, are limited. Using an animal model of colon cancer, we showed that peritumoral injection of in vivo-expanded MAIT cells into RAG1-/- mice with MC38-derived tumours inhibits tumour growth compared to control. Multiplex cytokine analyses showed that tumours from the MAIT cell-treated group have higher expression of markers for eosinophil-activating cytokines, suggesting a potential association between eosinophil recruitment and tumour inhibition. In a human peripheral leukocyte co-culture model, we showed that leukocytes stimulated with MAIT ligand showed an increase in eotaxin-1 production and activation of eosinophils, associated with increased cancer cell killing. In conclusion, we showed that MAIT cells have a protective role in a murine colon cancer model, associated with modulation of the immune response to cancer, potentially involving eosinophil-associated mechanisms. Our results highlight the potential of MAIT cells for non-donor restricted colon cancer immunotherapy.
Additional file 3 of Off-targetP ML: an open source machine learning framework for off-target panel safety assessment of small molecules
Creators: name: Naga, Doha
name: Muster, Wolfgang
name: Musvasva, Eunice
name: Ecker, Gerhard F.
Publisher: name: figshare
Year: 2022
Subjects: subject: Biochemistry
subject: Space Science
subject: Medicine
subject: Pharmacology
subject: Sociology
subject: FOS: Sociology
subject: 69999 Biological Sciences not elsewhere classified
subject: FOS: Biological sciences
subject: 80699 Information Systems not elsewhere classified
subject: FOS: Computer and information sciences

description: Additional file 3: Fig. S1. Lollipop chart representing the F1 values of each target model for each method. Fig. S2. Box plots comparing the overall F1 values for the high and low hit percent target groups, with respect to (a) machine learning methods and (b) Target protein classes. Fig. S3. PCA of the Roche-Excape combined datasets for thefour targets (a) ABL1 (b) ADRB1 (c) AGTR1 (d) MAOA. Supplementary paragraph on Uniform Manifold Approximation and Projection (UMAP). Fig. S4. Umap of the Roche-Excape combined datasets for the six case studies. Table S4. Comparison of different performance metrics for the Excape models. Table S5. Comparison of different performance metrics for the combined Roche-Excape models.
Changes in Oral Health Policies and Guidelines During the COVID-19 Pandemic
Creators: name: Jiang, Chloe Meng
name: Duangthip, Duangporn
name: Auychai, Prim
name: Chiba, Mirei
name: Folayan, Morenike Oluwatoyin
name: Hamama, Hamdi Hosni Hamdan
name: Kamnoedboon, Porawit
name: Lyons, Karl
name: Matangkasombut, Oranart
name: Mathu-Muju, Kavita
name: Mathur, Vijay Prakash
name: Mei, May Lei
name: Morgan, Mike
name: Poolthong, Suchit
name: Rahul, Morankar
name: Srinivasan, Murali
name: Takahashi, Tetsu
name: Yaklai, Sanicha
name: Zhang, Shinan
name: Zou, Xin Chun
name: Chu, Chun Hung
name: Lo, Edward Chin Man
Publisher: name: Frontiers Media S.A.
Year: 2021

description: The aim of this study was to describe the changes in oral health policies and guidelines in response to the Coronavirus disease 2019 (COVID-19) pandemic in different countries and regions around the world. Information on oral health policies and guidelines from 9 countries (Canada, China including Hong Kong, Egypt, India, Japan, New Zealand, Nigeria, Switzerland, and Thailand) were summarized, and sources of the information were mostly the national or regional health authorities and/or dental council/associations. The changes made to the oral health guidelines depended on the severity of the COVID-19 pandemic. This included suspension of non-emergency dental care services at the peak of the COVID-19 outbreak, and easing the restrictions on non-essential and elective dental care when the pandemic became under control. The COVID-19 risk mitigation strategies include strict adherence to infection control practices (use of hand sanitizers, facemask and maintaining social distancing), reducing the amount of aerosol production in the dental setting, and managing the quality of air in the dental treatment rooms by reducing the use of air conditioners and improving air exchange. The COVID- 19 pandemic has shown a major impact on dental practice. Dental professionals are trying to adapt to the new norms, while the medium to long-term impact of COVID-19 on dentistry needs further investigation.
Additional file 19 of Characterization of codon usage pattern in SARS-CoV-2
Creators: name: Hou, Wei
Publisher: name: figshare
Year: 2020
Subjects: subject: Genetics
subject: FOS: Biological sciences

description: Additional file 19: Table S2. RSCU values in human coronaviruses analyzed in this study.
Compiler-Directed Dynamic Voltage/Frequency Scheduling for Energy Reduction in Microprocessors
Creators: name: Hsu, Chung-Hsing
name: Kremer, Ulrich
name: Hsiao, Michael
Publisher: name: Rutgers University
Year: 2001

description: Dynamic voltage and frequency scaling of the CPU has been identified as one of the most effective ways to reduce energy consumption of a program. This paper discusses a compilation strategy that identifies scaling opportunities without significant overall performance penalty. Simulation results show CPU energy savings of 3.97%- 23.75% for the SPECfp95 benchmark suite with a performance penalty of at most 2.53%.
TCP Servers: A TCP/IP offloading architecture for internet servers, using memory-mapped communication
Creators: name: Banerjee, Kalpana
Publisher: name: Rutgers University
Year: 2002

description: TCP Server is a system architecture aiming to offload network processing from the host(s) running an Internet server. The TCP Server can be executed on a dedicated processor, node or intelligent network interface using low-overhead, non-intrusive communication between it and the host(s) running the server application. In this thesis, we present and evaluate an implementation of the TCP Server architecture for Internet servers on clusters built around a memory-mapped communication interconnect. We have quantified the impact of offloading on the performance of Internet servers for our TCP Server implementation, using a server application with realistic workloads. We were able to achieve performance gains of up to 30% due to offloading for the scenarios studied. Based on our experience and results, we conclude that offloading the network processing from the host processor using a TCP Server architecture is beneficial to server performance when the server is overloaded. A complete offloading of TCP/IP processing demands substantial computing resources on the TCP Server. Depending on the application workload, either the host processor, or the TCP Server, can become the bottleneck indicating the need for an adaptive scheme to balance the load between the host and the TCP Server.
Entrepreneurs can help bring new thinking to manufacturing
Creators: name: Dembek, Krzysztof
Publisher: name: Swinburne
Year: 2024

description: With major employers heading offshore and employment numbers decimated, what will emerge from the ashes of Australia’s manufacturing industry? And what role should manufacturing play in the federal government’s competitiveness agenda? In this Reinventing Manufacturing series, we look at the case for retaining the industry, and how it can transform itself into a high performance, advanced and productive sector.
Scientific research needs a radical restructuring: An exploitative system has made STEM unappealing to would-be academics
Creators: name: Salzman, Hal
name: Benderly, Beryl Lieff
Publisher: name: Rutgers University
Year: 2024
Subjects: Economic Policy
Higher Education
Public Policy
STEM Education
Technology

description: For decades, politicians, policy makers, and industry leaders have told a disturbing narrative: An inferior educational system, this account goes, prevents many young Americans from entering STEM (science, technology, engineering, and mathematics) fields, weakening the nation’s innovation and scientific enterprise. The resulting talent shortage, it reasons, can only be overcome by admitting larger numbers of foreign nationals who have the required skills. But this narrative misrepresents what actually drives large numbers of capable, ambitious, well-educated Americans away from STEM fields and toward careers in business, law, medicine, and other nonacademic endeavors: a university labor system that exploits would-be scientists.
Additional file 20 of Characterization of codon usage pattern in SARS-CoV-2
Creators: name: Hou, Wei
Publisher: name: figshare
Year: 2020
Subjects: subject: Genetics
subject: FOS: Biological sciences

description: Additional file 20: Table S3. 100 complete genome of SARS-CoV-2 isolates analyzed in this study.
Additional file 1 of Rehabilitation for life: the effect on physical function of rehabilitation and care in older adults after hip fracture—study protocol for a cluster-randomised stepped-wedge trial
Creators: name: Ipsen, Jonas Ammundsen
name: Pedersen, Lars T.
name: Viberg, Bjarke
name: Nørgaard, Birgitte
name: Suetta, Charlotte
name: Bruun, Inge H.
Publisher: name: figshare
Year: 2022
Subjects: subject: Medicine
subject: Physiology
subject: FOS: Biological sciences
subject: Developmental Biology
subject: Science Policy
subject: 60506 Virology

description: Additional file 1. Checklist for protocol of a clinical trial.
Tolkien: Maker of Middle-earth, edited by Catherine McIlwaine; The Complete Fairy Tales by Charles Perrault, edited by Christopher Betts; The Mabinogion, translated by Sioned Davies
Creators: name: Croft, Janet Brennan
Publisher: name: Rutgers University
Year: 2018
Subjects: J.R.R. Tolkien
Charles Perrault
Mabinogion
Fairy tales
Welsh myth

description: Reviews of three items
Ökodesign als Kaufkriterium bei Verbraucherinnen und Verbrauchern stärken
Creators: name: Fischer, Corinna
name: Prieß, Rasmus
name: Quack, Dietlinde
Publisher: name: My University
Year: 2019
Subjects: subject: Ökodesign
subject: Nachhaltiger Konsum
subject: Ökologisches Design
subject: Nachhaltiges Design
subject: Verbraucher
subject: Nachhaltige Produkte
subject: Wirtschaft | Konsum

description: Das Forschungsvorhaben geht der Frage nach, wie sich nachhaltiges Design als Kaufkriterium bei Verbraucherinnen und Verbrauchern verankern lässt. Dazu wurden Verbrauchererwartungen an Produkte erfasst und mit wissenschaftlichen Kriterien der nachhaltigen Produktgestaltung abgeglichen Ansätze der nutzerintegrierenden Produktentwicklung im Rahmen eines Workshops ausgewertetHandlungsempfehlungen für Unternehmen zur Berücksichtigung von Nutzererwartungen bei der Gestaltung von nachhaltigen Produkten sowie zur besseren Kommunikation als Textbausteine für das „Ecodesign Kit“ entwickeltVorschläge entwickelt, um die Verbraucherperspektive im Bundespreis Ecodesign stärker einzubeziehen.
Marine assemblages respond rapidly to winter climate variability
Creators: name: Pinsky, Malin L.
name: Morley, James W.
name: Batt, Ryan D.
Publisher: name: Rutgers University
Year: 2017
Subjects: Distribution
Fisheries
Range shifts
Temperature
Winter
Climate Change

description: Even species within the same assemblage have varied responses to climate change, and there is a poor understanding for why some taxa are more sensitive to climate than others. In addition, multiple mechanisms can drive species’ responses, and responses may be specific to certain life stages or times of year. To test how marine species respond to climate variability, we analyzed 73 diverse taxa off the southeast US coast in 26 years of scientific trawl survey data and determined how changes in distribution and biomass relate to temperature. We found that winter temperatures were particularly useful for explaining interannual variation in species’ distribution and biomass, although the direction and magnitude of the response varied among species from strongly negative, to little response, to strongly positive. Across species, the response to winter temperature varied greatly, with much of this variation being explained by thermal preference. A separate analysis of annual commercial fishery landings revealed that winter temperatures may also impact several important fisheries in the southeast United States. Based on the life stages of the species surveyed, winter temperature appears to act through overwinter mortality of juveniles or as a cue for migration timing. We predict that this assemblage will be responsive to projected increases in temperature and that winter temperature may be broadly important for species relationships with climate on a global scale.