cometadata/datacite-rtg-text-other-reclassification-records huggingface dataset:
Supplementary materials for Beneficial Microbes: Ligilactobacillus salivarius V4II-90 eradicates Group B Streptococcus colonisation during pregnancy: a randomised, double-blind, placebo-controlled trial
Creators: name: Gálvez, A.
name: Díaz de Terán, E.
name: Espinosa, J.Á.
name: Pérez-Pedregosa, J.
name: Bartha-Rasero, J.L.
name: del Valle, J.G.
name: Cuerva, M.J.
name: Jiménez, E.
name: Badiola, C.
Publisher: name: Brill Online
Year: 2024
Subjects: classificationCode: 321502
subject: Obstetrics and gynaecology

description: Group B Streptococcus (GBS) is the leading cause of bacterial neonatal sepsis. This study aimed to confirm the effect of Ligilactobacillus salivarius V4II-90 on GBS colonisation during pregnancy. A randomised, multicentre, double-blind, placebo-controlled, parallel-group study was conducted in seven hospitals in Madrid, Spain. The sample was broken down into two groups with 20 participants each (n=40) in order to show reduced GBS colonisation frequency in the probiotic versus the placebo group. Pregnant participants positive for vaginal-rectal colonisation before or during the 13th week of gestation were randomly assigned to either the placebo or the probiotic group. The probiotic, L. salivarius V4II-90 at 1×109 cfu/day was administered for 12 weeks, starting at week 21-23 of gestation. The primary outcome was the percentage of participants with vaginal and/or rectal GBS colonisation at the end of the intervention period (35 weeks of gestation). Secondary outcomes were changes in the microbial composition of vaginal and rectal exudates; premature delivery; premature rupture of membranes; intrapartum antibiotics; new-borns with early or late-onset GBS sepsis; adverse events (AE)s; and GBS test results performed at the hospital at week 35 of gestation. Of the 481 participants included, 44 were vaginal-rectal colonised with GBS and randomised. 43 completed the study (20 in the probiotic group and 23 in the placebo group). After intervention, GBS was eradicated in six participants (27%) from the placebo group and in twelve participants (63%) from the probiotic group (P = 0.030). None of the 185 AEs reported were identified as possibly, probably, or definitely related to the investigational product. In conclusion, oral administration of L. salivarius V4II-90 is a safe and successful strategy to significantly decrease the rates of GBS colonisation at the end of pregnancy and, therefore, to reduce the exposure of subjects and their infants to intrapartum antibiotic prophylaxis.Trial registered at ClinicalTrials.gov: number NCT03669094
New C13 lipids from the marine-derived fungus Trichoderma harzianum
Creators: name: Li, Bo
name: Huang, Qi-Xi
name: Gao, Du
name: Liu, Dong
name: Ji, Yu-Bin
name: Liu, Hua-Gang
name: Lin, Wen-Han
Publisher: name: Taylor & Francis
Year: 2015
Subjects: subject: Biological Sciences
subject: Sociology
subject: FOS: Sociology
subject: Chemistry
subject: Earth and Environmental Sciences
subject: Biochemistry
subject: Biophysics

description: Chemical examination of the fermentation broth of a sponge-associated fungus Trichoderma harzinum HMS-15-3 led to the isolation of four pairs of new C13 lipid enantiomers namely harzianumols A–H (1a–4b). Their structures were elucidated on the basis of extensive spectroscopic (IR, MS, 1D, and 2D NMR) data analysis, including the modified Mosher's method for the assignment of their absolute configurations. The new compounds were evaluated for antihyperlipidemic effects in HepG2 cells.
Cumulative advantage, training and application of OS/RRI in policies, principles and practices within academia
Creators: name: Pride, David
name: Knoth, Petr
name: Klebel, Thomas
name: Pontika, Nancy
name: Cancellieri, Matteo
name: Gyawali, Bikash
name: Correia, Antonia
name: Reichmann, Stefan
name: Metzler, Hannah
name: Brinken, Helene
name: Principe, Pedro
name: Fava, Ilaria
name: Rainer, Anja
name: Ross-Hellauer, Tony
Publisher: name: Zenodo
Year: 2022
Subjects: cumulative advantage
training
open science
open access
policies
onmerritifinale

description: The presentation, delivered at the ON-MERRIT final event, wanted to present an overview of the research work performed in the research strand about investigating the academic research culture, support, and incentives by identifying and measuring the impacts of Matthew Effects on scholarly communication, the limitations they impose on access to scientific literature, creation of academic collaborations, careers’ recognition and promotion.
Impact assessment of autonomous DRT systems
Creators: name: Bischoff, Joschka
name: Führer, Karoline
name: Maciejewski, Michał
Publisher: name: Technische Universität Berlin
Year: 2019
Subjects: subject: 380 Handel, Kommunikation, Verkehr
subject: 006 Spezielle Computerverfahren
subject: Mobility as a Service
subject: demand responsive transport
subject: shared autonomous vehicles
subject: MATSim
subject: public transport

description: The market entrance of shared autonomous vehicles (SAV) may have disruptive effects on current transport systems and may lead to their total transformation. For many small and medium-sized cities, a full replacement of public transport services by these systems seems to be possible. For a transport system operator, such a system requires a bigger fleet of vehicles than before, however, vehicles are less expensive and fewer staff is needed for the actual operation. In this paper, we are using a simulation-based approach to evaluate the service quality and operating cost of a demand responsive transit (DRT) system for the city of Cottbus (100 000 inhabitants), Germany. The simulation model used is based on an existing MATSim model of the region that depicts a typical work day. Results suggest, that the current public transport system may be replaced by a system of 300 to 400 DRT vehicles, depending on their operational mode. Compared to previous, schedule based public transport, passengers do not need to transfer, and their overall travel times may be reduced significantly. Results for the cost comparison are preliminary, but results suggest that an autonomous DRT system is not necessarily more expensive than the current public transport system.
Responsible Research Assessment & Open Research. The global state of the art
Creators: name: de Rijcke, Sarah
Publisher: name: Zenodo
Year: 2022
Subjects: Open Research
Responsible Research Assessment
onmerritfinale

description: Keynote speech delivered at the final event of the ON-MERRIT project, "Ensuring Equity in Open Science", on 22 March 2022. In this keynote, Sarah de Rijcke moved from the interdependencies between Responsible Research Assessment (RRA) to Open Research. She discussed key take-aways from current national and international movers and shakers in this domain.
Layer-by-Layer Engineered Superparamagnetic Polyelectrolyte Hybrid Hollow Microspheres With High Magnetic Content as Drug Delivery System
Creators: name: Liu, Peng
name: Li, Xiaorui
Publisher: name: Taylor & Francis
Year: 2015
Subjects: Biological Sciences
Chemistry
Earth and Environmental Sciences
Biotechnology
Pharmacology
Cell Biology
Medicine
Physics
Engineering
Biochemistry
Biophysics

description: Polyelectrolyte hybrid hollow microspheres with sandwich structure of about 450 nm have been accomplished by layer-by-layer self-assembling of two modified ferroferric oxide nanoparticles, lysine modified ferroferric oxide nanoparticles (Fe3O4-LYs) and citrate modified ferroferric oxide nanoparticles (Fe3O4-CA), as the main assembling materials via electrostatic interaction for the first time. They are superparamagnetic with saturation magnetization of 45.69 emu/g, revealing their high magnetic content of 70%. As drug delivery system, they also exhibited pH-stimuli responsive controlled release of an anticancer drug doxorubicin, following the Fickian diffusion model. Their unique structure and high magnetic content make them good candidate for targeted delivery.
Mercury Equation of center, al-Khwarizmi by Suter (Heinrich) (1914) | Type-B (ID n° 418)
Creators: name: Suter, Heinrich
Publisher: name: NAKALA - https://nakala.fr (Huma-Num - CNRS)
publisherIdentifier: https://ror.org/04ces3204
publisherIdentifierScheme: ROR
Year: 2021
Subjects: Astronomy
History of astronomy
DISHAS
Astronomical table

description: This is a type B edition: A type-B edition corresponds to a critical edition of several table witnesses:
 it is based on several different editions, themselves based on tables from different primary sources.
 A type-B edition can be based on type-A, type-B or type-C editions.
You can find it on the DISHAS project website from this link: https://dishas.obspm.fr/table-edition/418
description: Source: Die Astronomischen Taflen des Muhanned Ibn Musa al-Khwarizmi, Suter (Heinrich), 1914
Incorporation of relative biological effectiveness uncertainties into proton plan robustness evaluation
Creators: name: Ödén, Jakob
name: Eriksson, Kjell
name: Toma-Dasu, Iuliana
Publisher: name: Taylor & Francis
Year: 2017
Subjects: subject: Biophysics
subject: Space Science
subject: Medicine
subject: Cell Biology
subject: Molecular Biology
subject: 39999 Chemical Sciences not elsewhere classified
subject: FOS: Chemical sciences
subject: 69999 Biological Sciences not elsewhere classified
subject: FOS: Biological sciences
subject: 19999 Mathematical Sciences not elsewhere classified
subject: FOS: Mathematics
subject: Cancer
subject: Computational Biology

description: Background: The constant relative biological effectiveness (RBE) of 1.1 is typically assumed in proton therapy. This study presents a method of incorporating the variable RBE and its uncertainties into the proton plan robustness evaluation. Material and methods: The robustness evaluation was split into two parts. In part one, the worst-case physical dose was estimated using setup and range errors, including the fractionation dependence. The results were fed into part two, in which the worst-case RBE-weighted doses were estimated using a Monte Carlo method for sampling the input parameters of the chosen RBE model. The method was applied to three prostate, breast and head and neck (H&N) plans for several fractionation schedules using two RBE models. The uncertainties in the model parameters, linear energy transfer and α/β were included. The resulting DVH error bands were compared with the use of a constant RBE without uncertainties. Results: All plans were evaluated as robust using the constant RBE. Applying the proposed methodology using the variable RBE models broadens the DVH error bands for all structures studied. The uncertainty in α/β was the dominant factor. The variable RBE also shifted the nominal DVHs towards higher doses for most OARs, whereas the direction of this shift for the clinical target volumes (CTVs) depended on the treatment site, RBE model and fractionation schedule. The average RBE within the CTV, using one of the RBE models and 2 Gy(RBE) per fraction, varied between 1.11–1.26, 1.06–1.16 and 1.14–1.25 for the breast, H&N and prostate patients, respectively. Conclusions: A method of incorporating RBE uncertainties into the robustness evaluation has been proposed. By disregarding the variable RBE and its uncertainties, the variation in the RBE-weighted CTV and OAR doses may be underestimated. This could be an essential factor to take into account, especially in normal tissue complication probabilities based comparisons between proton and photon plans.
Magnetic resonance only workflow and validation of dose calculations for radiotherapy of prostate cancer
Creators: name: Christiansen, Rasmus L.
name: Jensen, Henrik R.
name: Brink, Carsten
Publisher: name: Taylor & Francis
Year: 2017
Subjects: subject: Biophysics
subject: Space Science
subject: 29999 Physical Sciences not elsewhere classified
subject: FOS: Physical sciences
subject: Medicine
subject: Physiology
subject: FOS: Biological sciences
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: Cancer

description: Background: Current state of the art radiotherapy planning of prostate cancer utilises magnetic resonance (MR) for soft tissue delineation and computed tomography (CT) to provide an electron density map for dose calculation. This dual scan workflow is prone to setup and registration error. This study evaluates the feasibility of an MR-only workflow and the validity of dose calculation from an MR derived pseudo CT. Material and methods: Thirty prostate cancer patients were CT and MR scanned. Clinical treatment plans were generated on CT using a single 18 MV arc volumetric modulated arc therapy (VMAT) with a prescription of 78 Gy/39 fractions. Dose was recalculated on pseudo CT and assuming uniform water density. Pseudo CT and uniform density based dose calculations were compared to CT dose calculations by gamma analysis. One patient was treated with a plan based solely on MR and pseudo CT including daily image guided radiotherapy (IGRT) performed by manual match of implanted gold markers. Results: A pseudo CT was generated for 29 of the 30 patients. Median gamma pass rates for 1%/1 mm passing criteria for dose calculated on pseudo CT when compared to CT were 100% for most evaluated structures. Dose calculated on uniform density also yielded high median pass rates, but with a higher occurrence of pass rates below 95%. Cases of pass rate below 95% on pseudo CT proved to originate from the presence of rectal air on CT, not represented by the pseudo CT. Treatment based on MR alone was successfully delivered to one patient, including manually performed daily IGRT. Conclusions: Median gamma pass rates were high for pseudo CT and proved superior to uniform density. Local differences in dose calculations were concluded not to have clinical relevance. Feasibility of the MR-only workflow was demonstrated through successful delivery of a treatment course planned based on MR alone.
PEGylated Poly(3-hydroxybutyrate) Scaffold for Hydration-Driven Cell Infiltration, Neo-Tissue Ingrowth, and Osteogenic Potential
Creators: name: Yao, Chao-Ling
name: Zheng, Jie
name: Chang, Yung
name: Sin, Mei-Chan
name: Sun, Yi-Ming
name: Chou, Chung-Jung
name: Tseng, Hsueh-Wei
Publisher: name: Taylor & Francis
Year: 2015
Subjects: subject: Developmental Biology
subject: Biological Sciences
subject: Chemistry
subject: Earth and Environmental Sciences
subject: Biotechnology
subject: Physiology
subject: FOS: Biological sciences
subject: Cell Biology
subject: Engineering
subject: Biochemistry

description: When poly(3-hydroxybutyrate) (PHB) scaffold was surface PEGylated with poly(ethylene glycol) methacrylate-block-polystyrene (PS-b-PEGMA), human MG63 osteoblast and HT1080 fibroblast unattached to the PEGylated PHB fibers, but diffusely infiltrated into the hydrated microfibrous scaffold matrix. These cells could grow at reduced cytoskeleton and proliferate within the spatially microenvironment, in which early buildup of neo-tissue construct was stimulated. Biofouling of PEGylated PHB scaffold was controlled, with a remarkably reduction of 90–98% in protein and biological cells adhesions. Besides retaining the original good cytocompatibility, this circumstance was able to activate osteoblast aggregates in the scaffold to up-regulate expression of osteogenesis-related genes, boosting osteogenic differentiation.
Comparison of two Monte Carlo-based codes for small-field dose calculations in external beam radiotherapy
Creators: name: Partanen, Mari
name: Ojala, Jarkko
name: Niemelä, Jarkko
name: Björkqvist, Mikko
name: Keyriläinen, Jani
name: Kapanen, Mika
Publisher: name: Taylor & Francis
Year: 2017
Subjects: subject: Biophysics
subject: 29999 Physical Sciences not elsewhere classified
subject: FOS: Physical sciences
subject: Medicine
subject: Microbiology
subject: FOS: Biological sciences
subject: Cell Biology
subject: Physiology
subject: 39999 Chemical Sciences not elsewhere classified
subject: FOS: Chemical sciences
subject: 19999 Mathematical Sciences not elsewhere classified
subject: FOS: Mathematics
subject: Cancer
subject: Inorganic Chemistry
subject: 110309 Infectious Diseases
subject: FOS: Health sciences

description: Comparison of two Monte Carlo-based codes for small-field dose calculations in external beam radiotherapy
Hydrophilic Interaction Ultra-High Performance Liquid Chromatography Coupled with Triple-Quadrupole Mass Spectrometry for Determination of Nucleosides and Nucleobases in Animal Horns
Creators: name: Liu, Rui
name: Guo, Sheng
name: Wang, Xinzhi
name: Zhang, Yang
name: Wu, Hao
name: Zhou, Mei
name: Chen, Tianbao
name: Shaw, Chris
name: Duan, Jin-ao
name: Chai, Chuan
name: Wen, Hongmei
Publisher: name: Taylor & Francis
Year: 2015
Subjects: subject: Science Policy
subject: Biological Sciences
subject: Immunology
subject: FOS: Clinical medicine
subject: Chemistry
subject: Biotechnology
subject: Physiology
subject: FOS: Biological sciences
subject: Microbiology
subject: Biochemistry

description: Traditional Chinese Medicines (TCMs) derived from animal horns are one of the most important types of Chinese medicine. In the present study, a fast and sensitive analytical method was established for qualitative and quantitative determination of 14 nucleosides and nucleobases in animal horns using hydrophilic interaction ultra-high performance liquid chromatography coupled with triple-quadruple tandem mass spectrometry (HILIC-UPLC–QQQ-MS/MS) in selective reaction monitoring (SRM) mode. The method was optimized and validated, and showed good linearity, precision, repeatability, and accuracy. The method was successfully used to determine contents of the 14 nucleosides and nucleobases in 25 animal horn samples. Hierarchical clustering analysis (HCA) and principal component analysis (PCA) were performed and the 25 samples were thereby divided into two groups, which agreed with taxonomy. The method may enable quick and effective search of substitutes for precious horns.
Downregulation of Low-density lipoprotein receptor-related protein 1B (LRP1B) inhibits the progression of hepatocellular carcinoma cells by activating the endoplasmic reticulum stress signaling pathway
Creators: name: Zhen, Zili
name: Shen, Zhemin
name: Sun, Peilong
Publisher: name: Taylor & Francis
Year: 2022
Subjects: subject: Medicine
subject: Genetics
subject: FOS: Biological sciences
subject: Molecular Biology
subject: 39999 Chemical Sciences not elsewhere classified
subject: FOS: Chemical sciences
subject: 69999 Biological Sciences not elsewhere classified
subject: Cancer

description: Hepatocellular carcinoma (HCC) has a high recurrence rate and mortality rate even after surgery. Low-density lipoprotein receptor-related protein 1B (LRP1B) has proven to be involved in tumor development and progression of multiple malignancies. However, the function of LRP1B in HCC progression has not been fully elucidated. Thus, we conducted this study to explore the relationship between LRP1B and HCC. Bioinformatic analyses implied that LRP1B was highly expressed in HCC tissues. High LRP1B expression was shown to be related to poor outcomes and the determination of HCC patients’ tumor stage. LRP1B deletion impeded the proliferation, migration, and invasion of HCC cells. Further investigation demonstrated that silencing LRP1B expression enhanced the sensitivity of HCC cells to doxorubicin. LRP1B deletion inhibited HCC progression by regulating the PERK-ATF4-CHOP signaling pathway. Additionally, we probed the genomic alterations of LRP1B in HCC and the impact on the prognosis of patients. Collectively, our results suggest that LRP1B plays an essential role in the promotion of HCC progression by regulating the PERK-ATF4-CHOP signaling pathway, which is a potential prognostic biomarker and a promising therapeutic target of HCC.
Impact of beam angle choice on pencil beam scanning breath-hold proton therapy for lung lesions
Creators: name: Gorgisyan, Jenny
name: Perrin, Rosalind
name: Lomax, Antony J.
name: Persson, Gitte F.
name: Josipovic, Mirjana
name: Engelholm, Svend Aage
name: Weber, Damien C.
name: Rosenschold, Per Munck Af
Publisher: name: Taylor & Francis
Year: 2017
Subjects: subject: 29999 Physical Sciences not elsewhere classified
subject: FOS: Physical sciences
subject: Medicine
subject: Cell Biology
subject: Molecular Biology
subject: Physiology
subject: FOS: Biological sciences
subject: Pharmacology
subject: Cancer
subject: 110309 Infectious Diseases
subject: FOS: Health sciences

description: Introduction: The breath-hold technique inter alia has been suggested to mitigate the detrimental effect of motion on pencil beam scanned (PBS) proton therapy dose distributions. The aim of this study was to evaluate the robustness of incident proton beam angles to day-to-day anatomical variations in breath-hold. Materials and methods: Single field PBS plans at five degrees increments in the transversal plane were made and water-equivalent path lengths (WEPLs) were derived on the planning breath-hold CT (BHCT) for 30 patients diagnosed with locally-advanced non-small cell lung cancer (NSCLC), early stage NSCLC or lung metastasis. Our treatment planning system was subsequently used to recalculate the plans and derive WEPL on a BHCT scan acquired at the end of the treatment. Changes to the V95%, D95 and mean target dose were evaluated. Results: The difference in WEPL as a function of the beam angle was highly patient specific, with a median of 3.3 mm (range: 0.0–41.1 mm). Slightly larger WEPL differences were located around the lateral or lateral anterior/posterior beam angles. Linear models revealed that changes in dose were associated to the changes in WEPL and the tumor baseline shift (p Conclusions: WEPL changes and tumor baseline shift can serve as reasonable surrogates for dosimetric uncertainty of the target coverage and are well-suited for routine evaluation of plan robustness. The two lateral beam angles are not recommended to use for PBS proton therapy of lung cancer patients treated in breath-hold, due to the poor robustness for several of the patients evaluated.
D-JRP7-3.1 Resistance profiles to biocide and antibiotics for the 200 Listeria monocytogenes strains (Listadapt)
Creators: name: Listadapt
Publisher: name: Zenodo
Year: 2020

description: D-JRP7-3.1 Resistance profiles to biocide and antibiotics for the 200 Listeria monocytogenes strains OHEJP project (Listadapt) Deliverable
A systematic study of normalization methods for Infinium 450K methylation data using whole-genome bisulfite sequencing data
Creators: name: Wang, Ting
name: Guan, Weihua
name: Lin, Jerome
name: Boutaoui, Nadia
name: Canino, Glorisa
name: Luo, Jianhua
name: Carlos Celedón, Juan
name: Chen, Wei
Publisher: name: Taylor & Francis
Year: 2015
Subjects: subject: Mathematics
subject: FOS: Mathematics
subject: Biological Sciences
subject: Chemistry
subject: Molecular Biology
subject: Genetics
subject: FOS: Biological sciences
subject: Biochemistry

description: DNA methylation plays an important role in disease etiology. The Illumina Infinium HumanMethylation450 (450K) BeadChip is a widely used platform in large-scale epidemiologic studies. This platform can efficiently and simultaneously measure methylation levels at ∼480,000 CpG sites in the human genome in multiple study samples. Due to the intrinsic chip design of 2 types of chemistry probes, data normalization or preprocessing is a critical step to consider before data analysis. To date, numerous methods and pipelines have been developed for this purpose, and some studies have been conducted to evaluate different methods. However, validation studies have often been limited to a small number of CpG sites to reduce the variability in technical replicates. In this study, we measured methylation on a set of samples using both whole-genome bisulfite sequencing (WGBS) and 450K chips. We used WGBS data as a gold standard of true methylation states in cells to compare the performances of 8 normalization methods for 450K data on a genome-wide scale. Analyses on our dataset indicate that the most effective methods are peak-based correction (PBC) and quantile normalization plus β-mixture quantile normalization (QN.BMIQ). To our knowledge, this is the first study to systematically compare existing normalization methods for Illumina 450K data using novel WGBS data. Our results provide a benchmark reference for the analysis of DNA methylation chip data, particularly in white blood cells.
MAPA COMPORTAMENTAL - ES
Creators: name: Costa, Patricia Luíza
name: Bernardino, Geraldir Eustáquio
Publisher: name: figshare
Year: 2022
Subjects: subject: Organizational Behavioral Psychology
subject: 179999 Psychology and Cognitive Sciences not elsewhere classified
subject: FOS: Psychology
subject: 170112 Sensory Processes, Perception and Performance
subject: 170113 Social and Community Psychology

description: Mapeamento do comportamento humano com base nas informações sobre PNL.
A systematic study of normalization methods for Infinium 450 K methylation data using whole-genome bisulfite sequencing data
Creators: name: Wang, Ting
name: Guan, Weihua
name: Lin, Jerome
name: Boutaoui, Nadia
name: Canino, Glorisa
name: Luo, Jianhua
name: Carlos Celedón, Juan
name: Chen, Wei
Publisher: name: Taylor & Francis
Year: 2015
Subjects: subject: Mathematics
subject: FOS: Mathematics
subject: Biological Sciences
subject: Chemistry
subject: Molecular Biology
subject: Genetics
subject: FOS: Biological sciences
subject: Biochemistry

description: DNA methylation plays an important role in disease etiology. The Illumina Infinium HumanMethylation450 (450 K) BeadChip is a widely used platform in large-scale epidemiologic studies. This platform can efficiently and simultaneously measure methylation levels at ˜480,000 CpG sites in the human genome in multiple study samples. Due to the intrinsic chip design of two types of chemistry probes, data normalization or preprocessing is a critical step to consider before data analysis. To date, numerous methods and pipelines have been developed for this purpose, and some studies have been conducted to evaluate different methods. However, validation studies have often been limited to a small number of CpG sites to reduce the variability in technical replicates. In this study, we measured methylation on a set of samples using both whole-genome bisulfite sequencing (WGBS) and 450 K chips. We used WGBS data as a gold standard of true methylation states in cells to compare the performances of eight normalization methods for 450 K data on a genome-wide scale. Analyses on our dataset indicate that the most effective methods are peak-based correction (PBC) and quantile normalization plus β-mixture quantile normalization (QN.BMIQ). To our knowledge, this is the first study to systematically compare existing normalization methods for Illumina 450 K data using novel WGBS data. Our results provide a benchmark reference for the analysis of DNA methylation chip data, particularly in white blood cells.
Spanish American War Veterans at the 250th East Hampton Anniversary Parade
Creators: name: (:Unas)
Publisher: name: Unknown
Year: 1899
Subjects: Parades & processions
East Hampton
Veterans
Anniversaries

description: This image shows six men seated at the East Hampton 250th Anniversary parade in 1899. The men are, from left to right: Percy Moran, Hyram Sherrill, John Mulligan, William Wheelock, J. Edward Huntting and Charles Butler. These men are all veterans of the Spanish American War.
The Response of Archaeal Tetraether Membrane Lipids in Surface Soils to Temperature: A Potential Paleothermometer in Paleosols
Creators: name: Yang, Huan
name: Pancost, Richard D.
name: Jia, Chengling
name: Xie, Shucheng
Publisher: name: Taylor & Francis
Year: 2015
Subjects: subject: Biochemistry
subject: Cell Biology
subject: Environmental Sciences not elsewhere classified
subject: Ecology
subject: FOS: Biological sciences
subject: Plant Biology

description: Isoprenoid glycerol dialkyl glycerol tetraethers (iGDGTs), major membrane lipids in some Archaea, have been widely used to examine past archaeal activity and infer ancient paleotemperature in aquatic environments. However, it is still unclear whether soil thaumarchaeotal iGDGTs also record temperature, and how thaumarchaeotal iGDGTs in the different climatic zones respond to temperature. Here we investigated iGDGTs in soils along an altitudinal transect of Mt. Shennongjia in central China, and determined the response of thaumarchaeotal membrane lipids to temperature in soils from a typical subtropical region. The TEX86 proxy, reflecting the number of GDGT cyclopentyl moieties, in these soils is significantly correlated with mean annual air temperature (MAT) at a given site, apparently recording a temperature response by Thaumarchaeota that dominate in soils. However, the TEX86 values are similar both at Mt. Shennongjia where a warm and humid climate prevails and at Mt. Xiangpi where a cold and dry climate is predominant. This could result from the seasonality of thaumarchaeotal production in soils from cold and (or) dry regions, and a local calibration is required if the TEX86 proxy is to be applied to reconstruct paleoaltimetry or paleotemperature in paleosols from cold and (or) dry regions. The TEX86 for soils from Mt. Rungwe (Tanzania), Mt. Jianfengling (China) and another climatic transect generally follows the rising trend of TEX86 vs. MAT for Mt. Shennongjia, suggesting that the thaumarchaeotal iGDGTs in soils from subtropical and tropical regions respond to temperature similarly among sites. However, the different calibrations of TEX86 paleothermometer among sites also reveal factors other than MAT may affect the TEX86 values in soils.
title: 1958-1959_CHAPPEY Guy_Une chapelle du souvenir
Creators: name: Chappey, Guy
Publisher: name: NAKALA - https://nakala.fr (Huma-Num - CNRS)
publisherIdentifier: https://ror.org/04ces3204
publisherIdentifierScheme: ROR
Year: 2023
Subjects: subject: Diplôme d'architecte

description: Prix du meilleur diplôme décerné par la SADG.
The response of archaeal tetraether membrane lipids in surface soils to temperature: a potential paleothermometer in paleosols
Creators: name: Yang, Huan
name: Pancost, Richard D.
name: Jia, Chengling
name: Xie, Shucheng
Publisher: name: Taylor & Francis
Year: 2015
Subjects: subject: Plant Biology
subject: FOS: Biological sciences
subject: Biological Sciences
subject: Ecology
subject: Chemistry
subject: Earth and Environmental Sciences
subject: Cell Biology
subject: Biochemistry

description: ABSTRACTIsoprenoid glycerol dialkyl glycerol tetraethers (iGDGTs), major membrane lipids in some Archaea, have been widely used to examine past archaeal activity and infer ancient paleotemperature in aquatic environments. However, it is still unclear whether soil thaumarchaeotal iGDGTs also record temperature, and how thaumarchaeotal iGDGTs in the different climatic zones respond to temperature. Here we investigated iGDGTs in soils along an altitudinal transect of Mt. Shennongjia in central China, and determined the response of thaumarchaeotal membrane lipids to temperature in soils from a typical subtropical region. The TEX86 proxy, reflecting the number of GDGT cyclopentyl moieties, in these soils is significantly correlated with mean annual air temperature (MAT) at a given site, apparently recording a temperature response by Thaumarchaeota that dominate in soils. However, the TEX86 values are similar both at Mt. Shennongjia where a warm and humid climate prevails and at Mt. Xiangpi where a cold and dry climate is predominant. This could result from the seasonality of thaumarchaeotal production in soils from cold and (or) dry regions, and a local calibration is required if the TEX86 proxy is to be applied to reconstruct paleoaltimetry or paleotemperature in paleosols from cold and (or) dry regions. The TEX86 for soils from Mt. Rungwe (Tanzania), Mt. Jianfengling (China) and another climatic transect generally follows the rising trend of TEX86 vs. MAT for Mt. Shennongjia, suggesting that the thaumarchaeotal iGDGTs in soils from subtropical and tropical regions respond to temperature similarly among sites. However, the different calibrations of TEX86 paleothermometer among sites also reveal factors other than MAT may affect the TEX86 values in soils.
DNA methylation levels and long-term trihalomethane exposure in drinking water: an epigenome-wide association study
Creators: name: A Salas, Lucas
name: Bustamante, Mariona
name: R Gonzalez, Juan
name: Gracia-Lavedan, Esther
name: Moreno, Victor
name: Kogevinas, Manolis
name: M Villanueva, Cristina
Publisher: name: Taylor & Francis
Year: 2015
Subjects: subject: Science Policy
subject: Inorganic Chemistry
subject: FOS: Chemical sciences
subject: Cancer
subject: Biological Sciences
subject: Chemistry
subject: Earth and Environmental Sciences
subject: Molecular Biology
subject: Genetics
subject: FOS: Biological sciences
subject: Cell Biology
subject: Medicine

description: Trihalomethanes (THM) are undesired disinfection byproducts (DBPs) formed during water treatment. Mice exposed to DBPs showed global DNA hypomethylation and c-myc and c-jun gene-specific hypomethylation, while evidence of epigenetic effects in humans is scarce. We explored the association between lifetime THM exposure and DNA methylation through an epigenome-wide association study. We selected 138 population-based controls from a case-control study of colorectal cancer conducted in Barcelona, Spain, exposed to average lifetime THM levels ≤85 μg/L vs. >85 μg/L (N = 68 and N = 70, respectively). Mean age of participants was 70 years, and 54% were male. Average lifetime THM level in the exposure groups was 64 and 130 µg/L, respectively. DNA was extracted from whole blood and was bisulphite converted to measure DNA methylation levels using the Illumina HumanMethylation450 BeadChip. Data preprocessing was performed using RnBeads. Methylation was compared between exposure groups using empirical Bayes moderated linear regression for CpG sites and Gaussian kernel for CpG regions. ConsensusPathDB was used for gene set enrichment. Statistically significant differences in methylation between exposure groups was found in 140 CpG sites and 30 gene-related regions, after false discovery rate <0.05 and adjustment for age, sex, methylation first principal component, and blood cell proportion. The annotated genes were localized to several cancer pathways. Among them, 29 CpGs had methylation levels associated with THM levels (|Δβ|≥0.05) located in 11 genes associated with cancer in other studies. Our results suggest that THM exposure may affect DNA methylation in genes related to tumors, including colorectal and bladder cancers. Future confirmation studies are required.
https://mapas.parimpar.com.br/es-o-seu-perfil
Creators: name: Costa, Patricia Luíza
name: Bernardino, Geraldir Eustáquio
Publisher: name: figshare
Year: 2022
Subjects: subject: Organizational Behavioral Psychology
subject: 179999 Psychology and Cognitive Sciences not elsewhere classified
subject: FOS: Psychology
subject: 170112 Sensory Processes, Perception and Performance
subject: 170113 Social and Community Psychology

description: Mapeamento do comportamento humano com base nas informações sobre PNL.
title: Работа с цифровыми документами в открытом архиве научного центра
title: Digital publications in the open archive of the scientific center
Creators: name: Ковязина, Елена
name: "Корпоративные библиотечные системы: технологии и инновации", международная научно-практическая конференция (18; 2019; Санкт-Петербург, Хельсинки)
Publisher: name: ПОЛИТЕХ-ПРЕСС
Year: 2019
Subjects: архив открытого доступа
цифровые репозитории
цифровые документы

description: Наличие полнотекстового архива публикаций сотрудников научного центра позволяет вести их учет и продвижение, обеспечить открытость результатов научных исследований для мирового сообщества. Однако цифровые документы имеют ряд качественных особенностей по сравнению с традиционными печатными документами. В докладе представлена попытка определить проблемы обеспечения ссылочной и содержательной целостности цифровых документов в открытом архиве и возможные пути их решения.
description: The presence of a full-text archive of employee publications at a research center allows them to be kept in record and advance, and to ensure the openness of research results to the global community. However, digital documents have a number of qualitative features in comparison with traditional printed documents. Аn attempt to determine the problems of ensuring the linking and content integrity of digital documents and possible solutions is presented in this report.
DNA methylation levels and long-term trihalomethane exposure in drinking water: An epigenome-wide association study
Creators: name: A Salas, Lucas
name: Bustamante, Mariona
name: R Gonzalez, Juan
name: Gracia-Lavedan, Esther
name: Moreno, Victor
name: Kogevinas, Manolis
name: M Villanueva, Cristina
Publisher: name: Taylor & Francis
Year: 2015
Subjects: subject: Science Policy
subject: Inorganic Chemistry
subject: FOS: Chemical sciences
subject: Cancer
subject: Biological Sciences
subject: Chemistry
subject: Earth and Environmental Sciences
subject: Molecular Biology
subject: Genetics
subject: FOS: Biological sciences
subject: Cell Biology
subject: Medicine

description: Trihalomethanes (THM) are undesired disinfection byproducts (DBPs) formed during water treatment. Mice exposed to DBPs showed global DNA hypomethylation and c-myc and c-jun gene-specific hypomethylation, while evidence of epigenetic effects in humans is scarce. We explored the association between lifetime THM exposure and DNA methylation through an epigenome-wide association study. We selected 138 population-based controls from a case-control study of colorectal cancer conducted in Barcelona, Spain, exposed to average lifetime THM levels ≤85 μg/L vs. >85 μg/L (N=68 and N=70, respectively). Mean age of participants was 70 years, and 54% were male. Average lifetime THM level in the exposure groups was 64 and 130 μg/L, respectively. DNA was extracted from whole blood and was bisulphite converted to measure DNA methylation levels using the Illumina HumanMethylation450 BeadChip. Data preprocessing was performed using RnBeads. Methylation was compared between exposure groups using empirical Bayes moderated linear regression for CpG sites and Gaussian kernel for CpG regions. ConsensusPathDB was used for gene set enrichment. Statistically significant differences in methylation between exposure groups was found in 140 CpG sites and 30 gene-related regions, after false discovery rate <0.05 and adjustment for age, sex, methylation first principal component, and blood cell proportion. The annotated genes were localized to several cancer pathways. Among them, 29 CpGs had methylation levels associated with THM levels (|Δβ|≥0.05) located in eleven genes associated with cancer in other studies. Our results suggest that THM exposure may affect DNA methylation in genes related to tumors, including colorectal and bladder cancers. Future confirmation studies are required.
C. Lewis Edwards and Other Grand Army of the Republic Veterans Preparing for the East Hampton 250th Anniversary Parade
Creators: name: (:Unas)
Publisher: name: Unknown
Year: 1899
Subjects: Parades & processions
Anniversaries
East Hampton
Veterans
Veterans' organizations
Civil War, 1861-1865

description: This image shows seven men, one being C. Lewis Edward, standing together at the East Hampton 250th Anniversary Parade in 1899. These men are all Civil War Union Army veterans and are members of the Grand Army of the Republic.
description: The Grand Army of the Republic was an advocacy group for Civil War veterans who fought for the Union.
Evaluating the influence of organ motion during photon vs. proton therapy for locally advanced prostate cancer using biological models
Creators: name: Busch, Kia
name: Andersen, Andreas G.
name: Casares-Magaz, Oscar
name: Petersen, Jørgen B. B.
name: Bentzen, Lise
name: Thörnqvist, Sara
name: Muren, Ludvig P.
Publisher: name: Taylor & Francis
Year: 2017
Subjects: subject: Space Science
subject: 29999 Physical Sciences not elsewhere classified
subject: FOS: Physical sciences
subject: Medicine
subject: Cell Biology
subject: Molecular Biology
subject: 69999 Biological Sciences not elsewhere classified
subject: FOS: Biological sciences
subject: Cancer
subject: 110309 Infectious Diseases
subject: FOS: Health sciences

description: Background: Proton therapy (PT) may have a normal tissue sparing potential when co-irradiating pelvic lymph nodes in patients with locally advanced prostate cancer, but may also be more sensitive towards organ motion in the pelvis. Building upon a previous study identifying motion-robust proton beam angles for pelvic irradiation, we aimed to evaluate the influence of organ motion for PT using biological models, and to compare this with contemporary photon-based RT. Material and methods: Eight locally advanced prostate cancer patients with a planning CT (pCT) and 8–9 repeated CT scans (rCTs) were included. Two PT plans were created, one using two lateral opposed beams at gantry angles of 90°/270° and the other using two lateral oblique beams at 35°/325°; these were compared with volumetric modulated arc therapy (VMAT) plans. All plans were optimised on the pCT and subsequently re-calculated on each rCT (following rigid alignment on the prostate). Dose distributions in organs at risk (OARs) were evaluated using mean dose, generalized equivalent uniform doses (gEUDs) and normal tissue complication probabilities (NTCPs), while mean dose and the volume receiving 98% of the dose (V98%) were used for the targets. Results: PT significantly reduced the mean dose to the OARs and a correlation was seen in the pCTs between the prostate PTV overlapping the relevant OAR and OAR NTCPs, as was also the case for the VMAT plans. The best prostate target coverage across the rCTs for the IMPT plans were seen with two lateral opposed beams, although a poor coverage of the lymph node target was apparent based on V98% compared to the VMAT plans. Conclusions: PT reduced the mean dose to normal tissues in the irradiation of pelvic lymph nodes and a strong association between the volume overlap and NTCPs in the pCTs were found.
title: 01_1704
Creators: name: Wesley Baldwin, John
name: Baldwin, John W.
Publisher: name: NAKALA - https://nakala.fr (Huma-Num - CNRS)
publisherIdentifier: https://ror.org/04ces3204
publisherIdentifierScheme: ROR
Year: 2018
Subjects: subject: LaMOP
subject: Laboratoire de Médiévistique Occidentale de Paris

description: L'ensemble de ces notes ont été crée par John Baldwin lors d'une de ses premières périodes de résidence à Paris. Ces documents comprennent tous les magistri qu’il avait pu rencontrer dans ses sources. Aux XIIème et XIIIème siècles, les universités n'existant pas encore, le titre de magister s'il évoque certainement une compétence n'est pas rattaché de façon systématique au passage par les écoles. De surcroît, les magistris sont le plus souvent désignés par leur seul prénom. La lecture de ces données est donc difficile et suppose un long travail pour tenter d'identifier un individu auquel on pourrait rattacher plusieurs mentions. John Baldwin avait donc renoncé à utiliser ces données pour donner un prolongement à sa magnifique étude sur les gradués d'université et leur emploi par les Capétiens et les Plantagenêts. Néanmoins, il a conservé ces données et elles sont potentiellement très utile dans le cadre de Studium, comme le sont toutes les mentions dans les volumes des Fasti Ecclesiae Gallicanae de chanoines portant ce titre de magister sans autres précisions. L'ampleur des dépouillements rend ces données très utiles et nous devons une grande reconnaissance à John Baldwin pour avoir pris la peine de faire photocopier ses fiches et de nous les avoir transmises amicalement.
Les données ainsi que les images des fiches sont accessibles sur le site Internet à l'adresse suivante : http://studium-baldwin.lamop.fr/.
Les transcriptions des fiches ont été effectuées par des étudiants de Paris 1 Panthéon - Sorbonne mais elles n'ont pas été corrigées par la suite.
description: Relation: https://lamop.hypotheses.org/
title: Τα εμπορευματοκιβώτια - ψυγεία στην εφοδιαστική αλυσίδα. Τάσεις και εξελίξεις
title: Reefer containers within the supply chain. Trends and prospects
titleType: AlternativeTitle
Creators: name: Μανιουδάκης, Ευστράτιος
Publisher: name: Πανεπιστήμιο Πειραιώς
Year: 2022
Subjects: subject: Εμπορευματοκιβώτια
subject: Εμπορευματοκιβώτια - ψυγεία
subject: Πλοίο - ψυγείο
subject: Ψυχρή αλυσίδα
subject: Reefer container
subject: Reefer
subject: Cold chain

description: H «ψυχρή» εφοδιαστική αλυσίδα, η οποία όπως και η πλειοψηφία του διεθνούς εμπορίου εξυπηρετείται σε μεγάλο βαθμό από τις θαλάσσιες μεταφορές, αναπτύσσεται ταχύτατα. Στην παρούσα εργασία γίνεται διερεύνηση μέσω της βιβλιογραφίας των πιο δημοφιλών μέσων μεταφοράς ευπαθών προϊόντων σήμερα, όπως είναι το εμπορευματοκιβώτιο-ψυγείο και το πλοίο ψυγείο. Με τη χρήση της μεθόδου SWOT analysis παρουσιάζονται τα δυνατά και αδύνατα σημεία του κάθε μέσου, καθώς επίσης οι απειλές και οι ευκαιρίες που παρουσιάζονται για το καθένα. Τέλος, αναφέρονται και αναλύονται οι τάσεις, οι προοπτικές και οι προκλήσεις που διαφαίνεται ότι για την περαιτέρω ανάπτυξη των εμπορευματοκιβωτίων-ψυγείων στο εγγύς μέλλον.
Combined sorptional–photocatalytic remediation of dyes by polyaniline Zr(IV) selenotungstophosphate nanocomposite
Creators: name: Pathania, Deepak
name: Sharma, Gaurav
name: Kumar, Amit
name: Naushad, Mu.
name: Kalia, Susheel
name: Sharma, Anu
name: Abdullah ALOthman, Zeid
Publisher: name: Taylor & Francis
Year: 2015
Subjects: subject: Virology
subject: Biological Sciences
subject: Chemistry
subject: Earth and Environmental Sciences
subject: Biotechnology
subject: Microbiology
subject: FOS: Biological sciences
subject: Engineering
subject: Biochemistry

description: A polyaniline Zr(IV) selenotungstophosphate nanocomposite was prepared via sol-gel method and characterized by thermogravimetric analysis, scanning electron microscopy, energy dispersive X-ray spectroscopy, and transmission electron microscopy. The combined sorptional–photocatalytic activity of the nanocomposite for degradation of methylene blue and malachite green was investigated and was found to be more efficient than separate adsorption in the dark followed by photocatalysis. The dyes were degraded in 3 h by 96% and 89% by the combined process, as compared to 86% and 72% by the two-step process in 5 h. The nanocomposite material showed antimicrobial activity against Staphylococcus aureus and Escherichia coli.