cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5281/zenodo.6534540
title: Developmental timing of programmed DNA elimination in Paramecium tetraurelia recapitulates germline transposon evolutionary dynamics

description: With its nuclear dualism, the ciliate <em>Paramecium</em> constitutes an original model to study how host genomes cope with transposable elements (TEs). <em>P. tetraurelia</em> harbors two germline micronuclei (MIC) and a polyploid somatic macronucleus (MAC) that develops from the MIC at each sexual cycle. Throughout evolution, the MIC genome has been continuously colonized by TEs and related sequences that are removed from the somatic genome during MAC development. Whereas TE elimination is generally imprecise, excision of ~45000 TE-derived Internal Eliminated Sequences (IESs) is precise, allowing for functional gene assembly. Programmed DNA elimination is concomitant with genome amplification. It is guided by non-coding RNAs and repressive chromatin marks. A subset of IESs are excised independently of this epigenetic control, raising the question of how they are targeted for elimination. To gain insight into the determinants of IES excision, we determined the developmental timing of DNA elimination genome-wide by combining fluorescence-assisted nuclear sorting with next-generation sequencing. Essentially all IESs are excised within one endoduplication round only (32C to 64C), while TEs are eliminated at a later stage. We show that time, rather than replication, controls the progression of DNA elimination. Further analyses defined four IES classes according to excision timing and revealed that the earliest excised IESs tend to be independent of epigenetic factors, display strong sequence signals at their ends and originate from the most ancient integration events. We conclude that old IESs have been optimized during evolution for early and accurate excision, by acquiring stronger sequence determinants and escaping epigenetic control.
description: This study was also supported by grants from the Agence Nationale de la Recherche (ANR-21-CE12-0019-01) and the Fondation pour la Recherche Médicale (FRM EQU202103012766).
DOI: 10.5281/zenodo.7127788
title: Developmental timing of programmed DNA elimination in Paramecium tetraurelia recapitulates germline transposon evolutionary dynamics

description: With its nuclear dualism, the ciliate <em>Paramecium</em> constitutes an original model to study how host genomes cope with transposable elements (TEs). <em>P. tetraurelia</em> harbors two germline micronuclei (MIC) and a polyploid somatic macronucleus (MAC) that develops from the MIC at each sexual cycle. Throughout evolution, the MIC genome has been continuously colonized by TEs and related sequences that are removed from the somatic genome during MAC development. Whereas TE elimination is generally imprecise, excision of ~45000 TE-derived Internal Eliminated Sequences (IESs) is precise, allowing for functional gene assembly. Programmed DNA elimination is concomitant with genome amplification. It is guided by non-coding RNAs and repressive chromatin marks. A subset of IESs are excised independently of this epigenetic control, raising the question of how they are targeted for elimination. To gain insight into the determinants of IES excision, we determined the developmental timing of DNA elimination genome-wide by combining fluorescence-assisted nuclear sorting with next-generation sequencing. Essentially all IESs are excised within one endoduplication round only (32C to 64C), while TEs are eliminated at a later stage. We show that time, rather than replication, controls the progression of DNA elimination. Further analyses defined four IES classes according to excision timing and revealed that the earliest excised IESs tend to be independent of epigenetic factors, display strong sequence signals at their ends and originate from the most ancient integration events. We conclude that old IESs have been optimized during evolution for early and accurate excision, by acquiring stronger sequence determinants and escaping epigenetic control.
description: This study was also supported by grants from the Agence Nationale de la Recherche (ANR-21-CE12-0019-01) and the Fondation pour la Recherche Médicale (FRM EQU202103012766).
DOI: 10.6084/m9.figshare.21252123
title: HSSInfo

description: We take the com-amazon datasets as an example. There are three steps for data preprocessing. First, <br> 1. the input graph: com-amazon.ungraph.txt 2. the input graph without repeated edges: com-amazon.ungraph.once.txt 3. the dict for
DOI: 10.6084/m9.figshare.21252123.v2
title: HSSInfo

description: We take the com-amazon datasets as an example. There are three steps for data preprocessing. First, <br> 1. the input graph: com-amazon.ungraph.txt 2. the input graph without repeated edges: com-amazon.ungraph.once.txt 3. the dict for
DOI: 10.6084/m9.figshare.21252123.v1
title: The outputs of HSSInfo and ground-truth communities

description: We take the com-amazon datasets as an example. There are three steps for data preprocessing. First, <br> 1. the input graph: com-amazon.ungraph.txt 2. the input graph without repeated edges: com-amazon.ungraph.once.txt 3. the dict for
DOI: 10.5281/zenodo.7126483
title: Data to support the publication "Impact of agricultural management on soil aggregates and associated organic carbon fractions: Analysis of long-term experiments in Europe"

description: <strong>Raw data:</strong> Experimental plot ids and information, mass distribution of all aggregate fractions after wet sieving, Sand content of each fraction to conduct the sand correction, mass distribution of all fractions after isolating the micro-aggregates held within the macroaggregates, yields per treatment, carbon content per fraction (raw data) <strong>All data per plot: </strong>SOC content, MAOM and POM content of each fraction presented in the fractionation scheme included in the manuscript, together with the mass of the relative fractions.
DOI: 10.5281/zenodo.7096195
title: The ancestral origin of the critically endangered Quadricorna sheep as revealed by genome-wide analysis.

description: These data were used in "The ancestral origin of the critically endangered Quadricorna sheep as revealed by genome-wide analysis" by Senczuk et al. ARSIAL.ped and ARSIAL.map contains genotypes information (64.734 SNPs) of 47 individuals of the Quadricorna breed in Plink ped format.
DOI: 10.5281/zenodo.7096194
title: The ancestral origin of the critically endangered Quadricorna sheep as revealed by genome-wide analysis.

description: These data were used in "The ancestral origin of the critically endangered Quadricorna sheep as revealed by genome-wide analysis" by Senczuk et al. ARSIAL.ped and ARSIAL.map contains genotypes information (64.734 SNPs) of 47 individuals of the Quadricorna breed in Plink ped format.
DOI: 10.6084/m9.figshare.21252162.v1
title: Supplementary Material for: Hemorrhagic Macular Cysts in Patients with Terson’s Syndrome Observed through an Ophthalmic Surgical Microscope

description: The characteristics of hemorrhagic macular cysts (HMCs) in patients with Terson’s syndrome, focusing on the vitreoretinal interface observed through an ophthalmic surgical microscope, are described. Between May 2015 and February 2022, 19 eyes (17 patients) with vitreous hemorrhage (VH) occurring after subarachnoid hemorrhage underwent pars plana vitrectomy. After removing dense VH, 2 of 19 eyes had HMCs. In both cases with HMCs, they formed a dome-like shape and were located beneath the internal limiting membrane (ILM), lying beyond the clean posterior precortical vitreous pocket (PPVP) without hemorrhage despite the severe VH. Based on the microsurgical findings, it appears that two types of HMCs consisting of subhyaloid and sub-ILM hemorrhages in Terson’s syndrome may be involved in the impairment of adhesion of the posterior border of the PPVP and the ILM surface of the macula due to micro bleeding, and that the PPVP may prevent the sub-ILM type of HMC from breaking into the subhyaloid space and transforming into the subhyaloid type. In conclusion, the PPVP may play an important role in the formation of HMCs in Terson’s syndrome.
DOI: 10.5281/zenodo.7128177
title: Predicting emotion from music videos: exploring the relative contribution of visual and auditory information to affective responses.

description: The dataset to accompany the paper by Phoebe Chua, Dr. Dimos Makris, Prof. Dorien Herremans, Prof. Gemma Roig, and Prof. Kat Agres on Predicting emotion from music videos: exploring the relative contribution of visual and auditory information on affective responses.
DOI: 10.5281/zenodo.7128176
title: Predicting emotion from music videos: exploring the relative contribution of visual and auditory information to affective responses.

description: The dataset to accompany the paper by Phoebe Chua, Dr. Dimos Makris, Prof. Dorien Herremans, Prof. Gemma Roig, and Prof. Kat Agres on Predicting emotion from music videos: exploring the relative contribution of visual and auditory information on affective responses.
DOI: 10.34740/kaggle/dsv/4266883
title: Food and Nutrient Dataset | Zip File
DOI: 10.5281/zenodo.7043819
title: Data for the publication "Control of electronic topology in a strongly correlated electron system"

description: Data sets of the figures in the publication "Control of electronic topology in a strongly correlated electron system"
DOI: 10.5281/zenodo.7043820
title: Data for the publication "Control of electronic topology in a strongly correlated electron system"

description: Data sets of the figures in the publication "Control of electronic topology in a strongly correlated electron system"
DOI: 10.6084/m9.figshare.21252192
title: Supplementary Data 1 NMR and HRMS.docx

description: The 1H-, 13C- and 19F-NMR as well as HRMS spectra of a series of 5-substituted hexahydro-1H-1,4-methanocarbazoles
DOI: 10.34740/kaggle/dsv/4267050
title: AutoXGB
DOI: 10.6084/m9.figshare.21252234
title: Supplementary Data 2 DFT calculations

description: Cartesian coordinates of all the structures reported and their absolute energies in Hartree
DOI: 10.15785/sbgrid/884
title: X-Ray Diffraction data from S1 nuclease in complex with uridine, source of 7QTA structure

description: native dataset
DOI: 10.15785/sbgrid/885
title: X-Ray Diffraction data from S1 nuclease in complex with cytidine-5'-monophosphate, source of 7QTB structure

description: native datasets
DOI: 10.6084/m9.figshare.19625196.v4
title: Repository Data of Analysis of Contact Tracing Surveillance for COVID-19 among Healthcare Workers in Secondary Referral Hospital, Indonesia

description: This data set comprises general characteristics, clinical condition, PPE used, swab result, and the vaccination status.
DOI: 10.6084/m9.figshare.20167382
title: Supplementary Material for: Interaction Competencies with Children – Entwicklung und Wirkmechanismen einer präventiven Intervention für Lehrkräfte im Kontext gesellschaftlich akzeptierter Gewalt

description: Gewalt gegen Kinder ist ein globales Problem und hat massive negative individuelle und gesellschaftliche Folgen. In vielen Ländern ist Gewalt in der Erziehung gesellschaftlich akzeptiert und weit verbreitet. Gewalt gegen Kinder hat vielfältige gesellschaftliche und individuelle Ursachen sowie aufrechterhaltende Faktoren. Auch in Schulen sind Kinder andauernder Gewalt ausgesetzt, was für die Notwendigkeit präventiver schul-basierter Programme spricht. Die Zielgruppe präventiver Programme sollten vor allem die Personen sein, von denen die Gewalt ausgeht – in diesem Kontext: Lehrer/innen. Die ursächlichen Faktoren sollten möglichst umfassend adressiert werden, wobei der oftmals ressourcenarme Kontext berücksichtigt werden muss. In diesem Übersichtsartikel wird die präventive Intervention <i>Interaction Competencies with Children – for Teachers</i> beschrieben und deren Wirkmechanismen diskutiert. Die Intervention ist ein 5,5-tägiges Training für Lehrer/innen in Gesellschaften, in denen Gewalt als Disziplinierungsmaßnahme akzeptiert ist. Ziel der Intervention ist eine Verhaltensveränderung der Lehrer/innen. Ein zentraler Wirkfaktor ist die Dynamik der Intervention, durch die zunächst eine Verände­rungsbereitschaft, dann eine Handlungskompetenz und Handlungsmotivation bewirkt wird. Des Weiteren wirkt die Intervention auf verschiedenen Ebenen und adressiert normative Aspekte, die sowohl das System Schule betreffen, als auch individuelle Faktoren. Wie die verschiedenen Metho­den und Themen auf individueller und schulischer Ebene wirken und miteinander interagieren, sollte zukünftig durch eine Evaluation des Veränderungsprozesses beantwortet werden.
DOI: 10.6084/m9.figshare.20281902
title: Stability and asynchrony of local communities but less so diversity increase regional stability of Inner Mongolian grassland

description: Data sets, R codes and details in analyses for "Stability and asynchrony of local communities but less so diversity increase regional stability of Inner Mongolian grassland"
DOI: 10.6084/m9.figshare.21228641
title: Supplementary Material for: Investigating the Link between Later-Life Brain Volume and Cardiorespiratory Fitness after Mild Traumatic Brain Injury Exposure

description: <b><i>Introduction:</i></b> Evidence suggests that maintaining a higher level of cardiorespiratory fitness (CRF) later in life can offer some protection against brain volume loss as we age. By contrast, mild traumatic brain injury (mTBI) could accelerate age-related cortical atrophy. The current study sought to examine whether variations in the CRF level modified the association between mTBI history and brain volumetric measures in a sample of older adults. <b><i>Methods:</i></b> Seventy-nine community-dwelling older adults (mean age 68.7 ± 4.3 years, 54.4% female) were assessed for their mTBI history: 25 participants (32%) reported sustaining at least one lifetime mTBI. Participants also underwent a CRF assessment and magnetic resonance imaging (MRI) to obtain global and region-of-interest volumes. <b><i>Results:</i></b> Analysis of covariance, controlling for age, sex, education, and apolipoprotein <i>(APOE)</i> ε4 allele carriage, revealed that participants with a history of mTBI had a significantly larger total mean grey matter volume (582.21 ± 12.46 cm<sup>3</sup>) in comparison to participants with no mTBI history (571.08 ± 17.21 cm<sup>3</sup>, <i>p =</i> 0.01 after correction for multiple comparisons). However, no differences between groups based on mTBI history were found for total white matter volume or in any other cortical or subcortical structures examined. A subsequent moderation analysis found that CRF was predominantly non-influential on the association between mTBI history and the MRI-quantified measures of brain volume. <b><i>Conclusion:</i></b> While unexpected, the findings suggest that a history of mTBI can lead to grey matter alterations in the ageing brain. However, concurrent variations in the CRF level did not influence the differences in brain volume found based on mTBI exposure status.
DOI: 10.17632/bj46kgstfx.2
title: Rain events Norway maple and small leaved lime

description: This dataset features the measured interception, throughfall and stemflow data of the paper 'The importance of city trees for reducing rainfall' by Smets et al. (2019).
DOI: 10.5281/zenodo.6521865
title: Influence of hillslope flow on hydroclimatic evolution under climate change - Dataset

description: Dataset used for analyses in the paper "<strong>Influence of hillslope flow on hydroclimatic evolution under climate change".</strong>
DOI: 10.6084/m9.figshare.20169842
title: Supplementary Material for: Diagnostic value of sST2, VCAM-1 and adiponectin in patients with breast cancer to predict anti-tumor treatment-related cardiac events: A pilot study

description: Aim The present exploratory study investigated the diagnostic value of inflammatory markers in patients with breast cancer to predict anti-tumour treatment-related cardiac events. Methods Twenty-one patients with breast cancer were enrolled in this prospective observational study and followed over 6 months. Transthoracic echocardiography and measurement of cardiac (N terminal prohormone of brain natriuretic peptide (NT proBNP), Troponin I (TnI)) and inflammatory biomarkers (vascular adhesion molecule 1 (VCAM-1), soluble suppression of tumorigenesis-2 (sST2), adiponectin) was performed at 3-month intervals (baseline, follow-up, final visit). Cardiac events were defined as decrease in left ventricular ejection fraction (LVEF, decrease by 10 % or &lt; 50 %) or increase in global longitudinal strain (GLS, increase by 15 % or &gt; 16 %), as a more sensitive marker of LV function. Results Cardiac deterioration was observed in nine out of 21 patients (event group). While LVEF did not differ significantly between the two groups (event vs no event) at any visit, GLS was significantly higher during follow-up (follow-up: event -16 ± 3.3 % vs no event -18 ± 1.6 %, p = 0.04, final visit: event -16 ± 2.1 % vs no event -19 ± 1.9 %, p = 0.003). NT-proBNP was numerically higher in patients with a cardiac event during all visits, with NT-proBNP negatively correlated with LVEF and MAPSE (both r = -0.33, p = 0.02), whereas GLS (r = 0.40, p = 0.006), TnI (r = 0.44, p = 0.001), and VCAM-1 (r = 0.48, p = 0.003) showed a positive association with NT-proBNP. In comparison, higher VCAM 1 and sST2 concentrations were detected in the event group at both baseline and the final visit, with a significant difference for baseline (VCAM-1: p = 0.02; sST2: p = 0.03). Adiponectin was also lower in patients with a treatment-related event. Thresholds for VCAM 1 &gt; 762 ng/ml and sST2 &gt; 18.7 ng/ml, as detected by ROC analysis, correlated best with the primary endpoint. Conclusion Cardiac events during anti-tumour treatment in patients with breast cancer are relatively common. Inflammatory markers such as VCAM-1 or sST2 were associated with an increased likelihood for occurrence of a treatment-related event, which may therefore hold the promise to better identify patients at high risk.
DOI: 10.17632/bbs7dc6yh5.1
title: Data for "Nociceptive sensitivity without damage in Manduca sexta"

description: Data for paper "Nociceptive sensitivity without damage in Manduca sexta"
DOI: 10.48443/4e6x-v373
title: Dust and particulate size distribution (DP1.00017.001)
title: RELEASE-2021

description: By deploying optical particulate matter analyzers at a total of 6 sites across three Domains (10, 13, and 15) NEON’s aim is to help the scientific community gain insight on the regional dust transport across the Rocky Mountain region. Aerosol dust can be composed of numerous inorganic and organic elements; everything from biological components such as pollen to the byproducts of incomplete combustion.

Latency:
Data collected in any given month are published during the second full week of the following month.
description: The particulate size analyzer has two main components, the DustTrak sensor (TSI DustTrak 8533EP) and its supporting infrastructure, which shelters the sensor from the environment, and provides an flow rate for the sampler that complies with EPA recommendations. Instrumentation: TSI DustTrak model: 8533EP
DOI: 10.48443/jnwy-b177
title: IR biological temperature (DP1.00005.001)
title: RELEASE-2021

description: Infrared Biological Temperature (i.e., surface temperature) is available as one- and thirty-minute averages of 1 Hz observations.  Biological temperature can be used in conjunction with other measurements to draw conclusions on topics such as plant respiration, evapotranspiration rates, and stomatal conductance.

Latency:
Data collected in any given month are published during the second full week of the following month.
description: Biological temperature (i.e., surface temperature) is measured via IR temperature sensors located in the soil array and on the tower infrastructure. Instrumentation: Apogee SI-111 infrared (IR) temperature sensor
DOI: 10.48443/nygx-dm71
title: Tick pathogen status (DP1.10092.001)
title: RELEASE-2022

description: This data product contains the quality-controlled, native sampling resolution data derived from NEON's tick pathogen testing. Products resulting from this sampling include results of testing individual ticks collected during NEON tick sampling for pathogen presence/absence. See NEON Product Ticks sampled using drag cloths (DP1.10093.001) for data on the abundance and diversity of ticks collected at NEON sites. Following collection, tick samples are sent to a professional taxonomist where ticks are identified to species and sex. A subset of positively-identified nymphal ticks are tested for the presence of bacterial and protozoan pathogens. For additional details, see the user guide, protocols, and science design listed in the Documentation section in this data product's details webpage.

Latency:
The expected time from data and/or sample collection in the field to data publication is as follows, for each of the data tables (in days) in the downloaded data package. See the Data Product User Guide for more information.

tck_pathogen:  390

tck_pathogenqa:  390
description: A target of 130 individual ticks per site per year are selected for pathogen testing, with the total numbers tested in a given site-year dependent on availability. Ixodes scapularis and Ixodes pacificus (if available beyond what is used for archive) nymphs are targeted for testing of Anaplasma phagocytophilum, Babesia microti, Ehrlichia muris-like agent, Borrelia burgdorferi sensu lato, Borrelia miyamotoi, and Borrelia mayonii. Nymphs in the genera Amblyomma and Dermacentor (if available beyond what is used for archive) are targeted for testing of Francisella tularensis, Rickettsia rickettsia, Anaplasma phagocytophilum, Ehrlichia chaffeensis, Ehrlichia ewingii, and Borrelia lonestari.
DOI: 10.48443/rxr7-pp32
title: Barometric pressure (DP1.00004.001)
title: RELEASE-2021

description: Barometric pressure, or static atmospheric pressure, is a vital measurement for NEON. Barometric pressure is significant in influencing weather conditions as well as aqueous chemistry (e.g. the amount of gas that can dissolve in solution). Recording static atmospheric pressure will allow atmospheric gas mixing ratios to be converted into mass quantities. Barometric pressure will be recorded over NEON’s entire operational range.

Latency:
Data collected in any given month are published during the second full week of the following month.
description: Barometric pressure will be recorded at a rate of 0.1 Hz for L0 DPs, and these L0 DPs will be used to calculate the L1 DPs, one- and thirty-minute averages of station and sea level pressure, as well as one- minute averages of soil plot pressure. Instrumentation: Vaisala - BAROCAP Digital Barometer PTB330
DOI: 10.48443/s9ya-zc81
title: 2D wind speed and direction (DP1.00001.001)
title: RELEASE-2021

description: Wind plays an important role in atmospheric and environmental sciences. A function of differential heating of Earth’s surface and subsequent pressure gradients, horizontal and vertical winds are responsible for advection of atmospheric pollutants, moisture, heat and momentum (Stull 1988). As such, horizontal and vertical winds will be measured throughout the Observatory.

Latency:
Data collected in any given month are published during the second full week of the following month.
description: Multiple 2D anemometers are deployed at tower sites. They are located on each boom arm below the tower-top level at terrestrial sites. A single 2D anemometer is located at the top of the aquatic met station at a standard height of 3m above ground level. Two- and thirty-minute averages of horizontal wind speed and direction are calculated. Each 2D anemometer represents the point at which it is placed on the tower infrastructure. Instrumentation: Gill - Wind Observer II; Extreme Weather Wind Observer