cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6073/pasta/72b50187fe44d6b3b2c5832374763fb6
title: Linking Xylem Diameter Variations with Sap Flow Measurements at Harvard Forest 2003-2006

description: Measurements of variation in the diameter of tree stems provide a rapid response, high resolution tool for detecting changes in water tension inside the xylem. Water movement inside the xylem is caused by changes in the water tension and theoretically, the sap flow rate should be directly proportional to the water tension gradient and, therefore, also linearly linked to the xylem diameter variations. The coefficient of proportionality describes the water conductivity and elasticity of the conducting tissue. Xylem diameter variation measurements could thus provide an alternative approach for estimating sap flow rates, but currently we lack means for calibration. On the other hand, xylem diameter variation measurements could also be used as a tool for studying xylem structure and function. If we knew both the water tension in the xylem and the sap flow rate, xylem conductivity and/or elasticity could be calculated from the slope of their relationship. In this study we measured diurnal xylem diameter variation simultaneously with sap flow rates (Granier-type thermal method) in six deciduous species (Acer rubrum L., Alnus glutinosa Miller, Betula lenta L., Fagus Sylvatica L. Quercus rubra L., and Tilia vulgaris L.) for 7-91 day periods during summers 2003, 2005 and 2006 and analyzed the relationship between these two measurements. We found that in all species xylem diameter variations and sap flow rate were linearly related in daily scale (daily average R 2 = 0.61-0.87) but there was a significant variation in the daily slopes of the linear regressions. The largest variance in the slopes, however, was found between species, which is encouraging for finding a species specific calibration method for measuring sap flow rates using xylem diameter variations. At a daily timescale, xylem diameter variation and sap flow rate were related to each other via a hysteresis loop. The slopes during the morning and afternoon did not differ statistically significantly from each other, indicating no overall change in the conductivity. Because of the variance in the daily slopes, we tested three different data averaging methods to obtain calibration coefficients. The performance of the averaging methods depended on the source of variance in the data set and none of them performed best for all species. The best estimates of instantaneous sap flow rates were also given by different averaging methods than the best estimates of total daily water use. Using the linear relationship of sap flow rate and xylem diameter variations we calculated the conductance and specific conductivity of the soil-xylem-atmosphere water pathway. The conductance were of the order of magnitude 10-5 kg s-1 MPa-1 for all species, which compares well with measured water fluxes from broadleaved forests. Interestingly, because of the large sap wood area the conductance of Betula was approximately 10 times larger than in other species.
DOI: 10.6084/m9.figshare.14541597
title: Seasonal spectral separation of western snowberry and wolfwillow in grasslands with field spectroradiometer and simulated multispectral bands

description: This data support the paper "Seasonal spectral separation of western snowberry and wolfwillow in grasslands with field spectroradiometer and simulated multispectral bands" by Irini Soubry and Xulin Guo 2021 in the journal of "Environments" by MDPI. It includes spectral signatures that were collected for the shrubs western snowberry (<i>Symphoricarpos occidentalis</i>) and wolfwillow (<i>Elaeagnus commutata</i>) for the growing season of 2020 in spring, summer and fall. Each column represents a wavelength (W_#), and each row a measurement. More information about the data collection location and procedure can be found in the respective manuscript. For all collected spectra, we removed the water absorption regions between 1350-1430 nm, 1750-1980 nm, and 2330-2500 nm, which caused noise in the data.
DOI: 10.25934/00002451.0
title: Data Package for study.

description: Vivli is an independent, non-profit organization that has developed a global data-sharing and analytics platform to serve all elements of the international research community. Our mission is to promote, coordinate, and facilitate scientific sharing and reuse of clinical research data through the creation and implementation of a sustainable global data-sharing enterprise. The Vivli platform includes an independent data repository, in-depth search engine and a cloud-based, secure analytics platform.
DOI: 10.25934/00002451.1
title: IPD datapackage for study 'A Multicenter, Randomized, Double-Blind, Placebo-Controlled Study to Determine the Efficacy and Safety of SYR110322 (SYR-322) Compared With Placebo in Subjects With Type 2 Diabetes' and research request: 'Inferential reproducibility of therapeutic research: a registered report for a cross-sectional study of RCTs available on major data-sharing platforms'

description: Vivli is an independent, non-profit organization that has developed a global data-sharing and analytics platform to serve all elements of the international research community. Our mission is to promote, coordinate, and facilitate scientific sharing and reuse of clinical research data through the creation and implementation of a sustainable global data-sharing enterprise. The Vivli platform includes an independent data repository, in-depth search engine and a cloud-based, secure analytics platform.
DOI: 10.6073/pasta/031d246e8c7d6f6cfb6d1d9c4193a360
title: Soil Respiration in Hemlock Removal Experiment at Harvard Forest 2003-2009

description: Soil respiration (SR) is a combination of autotrophic (root respiration) and heterotrophic (microbial respiration). As a combination of these two belowground processes, separating their relative contributions to SR from is difficult. The hemlock removal experiment provided an opportunity to look at these two components of SR. Girdling and logging result in the death and/or removal of aboveground biomass (trees) and subsequently death of root biomass. As a result the measured respiration in these treatment plots should then be comprised primarily of the microbial respiration component of SR. By measuring SR in control plots, and taking the difference with girdled and logged plots, we may determine the relative contribution of root and microbial respiration.
DOI: 10.6084/m9.figshare.14816241
title: SOX10 Upstream Deletion

description: Chicken plumage color is a complex trait controlled by many genes. Herein, through Rhode Island Red (RIR) and White Leghorn (WL) cross populations, the segregation of plumage color was observed in females, showed white, dark red (DR) and light yellow (LY), respectively. The white has been found to be caused by dominant white alleles (<i>I</i>)<i> </i>and the DR phenotype is attributed to a sex-linked recessive silver allele (<i>s</i>). LY is a derived feather color phenotype and the genetic mechanism of this is unclear. In order to explore genetic basis for LY, we randomly selected 40 DR and 39 LY chickens for paired-end sequencing to obtain the SNP set of all chickens. Then the case-control genome wide association study (GWAS) was performed to identify the phenotype related mutations. The association analysis showed that only one region harboring the SOX10 gene was significantly associated to LY. We furtherly discovered that the sequencing depth of DR chickens upstream of SOX10 is significantly higher than LY chickens. Subsequent diagnostic PCR tests showed that there is a ~7.6 kb deletion in LY chickens and that all LY chickens are homozygous for this deletion, indicating the deletion is causative for LY phenotype.
DOI: 10.6073/pasta/03205dbbbd4ed701eeb97e1e50f5d47d
title: Eastern Redback Salamander Abundance in North Central Massachusetts 2005

description: Throughout the twentieth century several dominant tree species suffered severe decline in the eastern United States due to exotic pests and pathogens, yet little is known of the effects these losses have on ecosystem processes or associated wildlife populations (Orwig 2002). Eastern hemlock (Tsuga canadensis), an important late-successional tree species, is currently threatened throughout its range by the hemlock woolly adelgid (Adelges tsugae; HWA), an invasive insect pest native to Japan (Orwig and Foster 1998). The unique structure and microenvironment of hemlock-dominated forests create critical landscape level heterogeneity, providing habitat for numerous bird and mammal species several of which are strongly associated with hemlock stands in the Northeast (Yamasaki et al. 2000). The effects of hemlock loss on associated wildlife is largely unknown, but is of particular concern for terrestrial salamanders as they are sensitive to microclimatic conditions that are likely to change as hemlocks decline. In this study, populations of eastern red-backed salamanders (Plethodon cinereus), significant contributors to the overall vertebrate biomass in northeastern forests (Burton and Likens 1975a), are compared in hemlock-dominated and mixed deciduous forest. The objectives of this study was to 1) to determine whether the relative abundance, body condition, and size class structure of P. cinereus populations differ in hemlock-dominated forests versus mixed deciduous forests in north-central Massachusetts. A difference in age-class structure in the two forest types may suggest a difference in survivorship, while differences in body condition are driven by differences in the energy expenditure required to obtain food resources and can lead to differences in reproductive success 2) to evaluate how structure and microenvironment differ and determine which variables best predict the variation in relative abundance and body condition of P. cinereus in the two forest types. Results from earlier work as well as evidence that cooler, moister habitat and higher abundance of prey is found in hemlock-dominated forest led me to hypothesize that P. cinereus relative abundance and body condition would be higher in plots in this forest type.
DOI: 10.5281/zenodo.4514860
title: Data of the prospective and randomized placebo-controlled Taurolock study

description: Data of the prospective and randomized placebo-controlled Taurolock study. Published in PlosOne: https://doi.org/10.1371/journal.pone.0251793
DOI: 10.5281/zenodo.4514859
title: Data of the prospective and randomized placebo-controlled Taurolock study

description: Data of the prospective and randomized placebo-controlled Taurolock study. Published in PlosOne: https://doi.org/10.1371/journal.pone.0251793
DOI: 10.5281/zenodo.4997959
title: ML-TOMCAT V1.0: Machine-Learning-Based Satellite-Corrected Global Stratospheric Ozone Profile Dataset

description: MLTOMCAT is 42 years (1979-2020) of gap free ozone profile data sets that is created by correcting biases in a TOMCAT Chemical Transport Model (CTM) simulated ozone profiles. We use Random Forest regression model to correct model biases. Each file contain monthly mean zonal mean ozone profiles. There are 4 data files. MLTOMCAT_1979_2020_72_ht_vmr.nc contains ozone profiles on geometric height levels (1 to 60 km) in mixing ratio units, whereas MLTOMCAT_1979_2020_72_ht_nd.nc contains ozone profile in number density units. Similarly, MLTOMCAT_1979_2020_72_plev_vmr.nc contains ozone profiles on 43 MLS pressure levels (1000 to 0.1 hPa) in mixing ratio units, whereas MLTOMCAT_1979_2020_72_plev_nd.nc contains ozone profile in number density units. Please note that data below 300 hPa (~8km) and 1 hPa (~50 km) should be used with caution. A manuscript describing MLTOMCAT would be published in EESD (Dhomse et al., 2021)
DOI: 10.6084/m9.figshare.14816271
title: Thailand healthcare HIV stigma survey 2019

description: Dataset of Thailand's 2019 national surveillance on HIV-related stigma in healthcare settings
DOI: 10.18746/bmth.data.00000173
title: Composing with Flexible Phrases
DOI: 10.48425/0089981
title: Protocol_V_bird_commun_point_counts_intensive

description: Protocol for the manual bird point transect counts conducted on passerine birds in Tundra
DOI: 10.5281/zenodo.4724823
title: Search for neutrinos in coincidence with gravitational wave events from the LIGO-Virgo O3a Observing Run with the Super-Kamiokande detector - Data release

description: This data release is associated with the publication "Search for neutrinos in coincidence with gravitational wave events from the LIGO-Virgo O3a Observing Run with the Super-Kamiokande detector". It is available on arXiv and submitted to ApJ. The data release contains:<br> - figures from the paper and supplementary figures (e.g. different neutrino flavours for flux/Eiso limits)<br> - CSV file with full results of individual follow-ups (number of observed events, flux/Eiso limits)<br> - ROOT files with Super-Kamiokande detector effective area<br> - instruction file (README.txt) with details on how to read and use the content of the data release <em>The full author list and acknowledgements for the Super-Kamiokande collaboration are described in the article.</em> <strong>Full abstract:</strong> The Super-Kamiokande detector can be used to search for neutrinos in time coincidence with gravitational waves detected by the LIGO-Virgo Collaboration (LVC). Both low-energy (7−100 MeV) and high-energy (0.1−105 GeV) samples were analyzed in order to cover a very wide neutrino spectrum. Follow-ups of 36 (out of 39) gravitational waves reported in the GWTC-2 catalog were examined; no significant excess above the background was observed, with 10 (24) observed neutrinos compared with 4.8 (25.0) expected events in the high-energy (low-energy) samples. A statistical approach was used to compute the significance of potential coincidences. For each observation, p-values were estimated using neutrino direction and LVC skymap; the most significant event (GW190602_175927) is associated with a post-trial p-value of 7.8% (1.4σ). Additionally, flux limits were computed independently for each sample, and by combining the samples. The energy emitted as neutrinos by the identified gravitational wave sources was constrained, both for given flavors as well as for all-flavors assuming equipartition between the different flavors, independently for each trigger and by combining sources of the same nature.
description: For the Super-Kamiokande collaboration
description: {"references": ["Data release associated to arXiv:2104.09196"]}
DOI: 10.5281/zenodo.4724822
title: Search for neutrinos in coincidence with gravitational wave events from the LIGO-Virgo O3a Observing Run with the Super-Kamiokande detector - Data release

description: This data release is associated with the publication "Search for neutrinos in coincidence with gravitational wave events from the LIGO-Virgo O3a Observing Run with the Super-Kamiokande detector". It is available on arXiv and submitted to ApJ. The data release contains:<br> - figures from the paper and supplementary figures (e.g. different neutrino flavours for flux/Eiso limits)<br> - CSV file with full results of individual follow-ups (number of observed events, flux/Eiso limits)<br> - ROOT files with Super-Kamiokande detector effective area<br> - instruction file (README.txt) with details on how to read and use the content of the data release <em>The full author list and acknowledgements for the Super-Kamiokande collaboration are described in the article.</em> <strong>Full abstract:</strong> The Super-Kamiokande detector can be used to search for neutrinos in time coincidence with gravitational waves detected by the LIGO-Virgo Collaboration (LVC). Both low-energy (7−100 MeV) and high-energy (0.1−105 GeV) samples were analyzed in order to cover a very wide neutrino spectrum. Follow-ups of 36 (out of 39) gravitational waves reported in the GWTC-2 catalog were examined; no significant excess above the background was observed, with 10 (24) observed neutrinos compared with 4.8 (25.0) expected events in the high-energy (low-energy) samples. A statistical approach was used to compute the significance of potential coincidences. For each observation, p-values were estimated using neutrino direction and LVC skymap; the most significant event (GW190602_175927) is associated with a post-trial p-value of 7.8% (1.4σ). Additionally, flux limits were computed independently for each sample, and by combining the samples. The energy emitted as neutrinos by the identified gravitational wave sources was constrained, both for given flavors as well as for all-flavors assuming equipartition between the different flavors, independently for each trigger and by combining sources of the same nature.
description: For the Super-Kamiokande collaboration
description: {"references": ["Data release associated to arXiv:2104.09196"]}
DOI: 10.5281/zenodo.5007102
title: Risk for excessive anticoagulation during hemodialysis is associated with type of vascular access and bedside coagulation testing: Results of a cross-sectional study

description: Anonymized dataset of the cross-sectional study assessing (i) heparin dosing within a prevalent hemodialysis cohort, (ii) the anticoagulant effects of the heparinization strategy and (iii) identifying predictive factors of the heparin dosing regimen.
DOI: 10.5281/zenodo.5007101
title: Risk for excessive anticoagulation during hemodialysis is associated with type of vascular access and bedside coagulation testing: Results of a cross-sectional study

description: Anonymized dataset of the cross-sectional study assessing (i) heparin dosing within a prevalent hemodialysis cohort, (ii) the anticoagulant effects of the heparinization strategy and (iii) identifying predictive factors of the heparin dosing regimen.
DOI: 10.48425/0011398
title: Protocol_V_ptarmigan_pellet_abundance_intensive

description: Protocol for fecal pellet counts in meadows and heaths on Varanger and Ifjord (-2017)
DOI: 10.5281/zenodo.4974166
title: Global Surface Blue-sky Albedo Climatology Dataset from 20-year MODIS Products

description: Surface albedo plays a critical role in climate, hydrological, and biogeochemical modeling and weather forecasting. It is usually assigned in models by adjusting climatology data or look-up-maps between albedo and land cover types, however, there are large albedo differences among model predictions partly due to the albedo climatology uncertainty. Therefore, precisely mapping surface albedo climatology globally is necessary to better parameterize environmental systems. The current albedo climatology is mainly produced by the long-term satellite albedo products, while the data quality (accuracy, spatiotemporal resolution, and spatial coverage) is highly affected by the restrictions of large historical data volume and high computational requirement. We generated a new global surface blue-sky albedo climatology dataset from 20-year MODIS products from the Google Earth Engine (GEE). The 500m global surface blue-sky daily albedo climatology dataset is generated, and it follows the basic MODIS product format and employed the sinusoidal projection. After reprojection and aggregation, the global Climate Modeling Grid (CMG) albedo climatology datasets at 0.05° and 0.5° are available at (DOI). All of the published datasets include historical and snow-free blue-sky albedo climatology data. For the application conveniences, the land cover climatology of MODIS product (MCD12Q1) is also generated and attached in the CMG files. The International Geosphere-Biosphere Programme (IGBP) and PFT classification results of MCD12Q1 from 2001 to 2019 were reprojected and aggregated to 0.05° and 0.5° by find mode in each aggregation group. In order to check the heterogeneity of the land cover climatology, the percentage of the dominant type in each aggregation group was also calculated.
description: The 500m surface albedo climatology will be published separately, and the corresponding paper is being submitted to Earth System Science Data (ESSD).
DOI: 10.5519/qd.398y0ant
title: Query on the Natural History Museum Data Portal (data.nhm.ac.uk) (1 records)
DOI: 10.25934/00002450.1
title: IPD datapackage for study 'A Multicenter, Randomized, Double-Blind, Placebo-Controlled Study to Determine the Efficacy and Safety of SYR110322 (SYR-322) When Used in Combination With Metformin in Subjects With Type 2 Diabetes' and research request: 'Inferential reproducibility of therapeutic research: a registered report for a cross-sectional study of RCTs available on major data-sharing platforms'

description: Vivli is an independent, non-profit organization that has developed a global data-sharing and analytics platform to serve all elements of the international research community. Our mission is to promote, coordinate, and facilitate scientific sharing and reuse of clinical research data through the creation and implementation of a sustainable global data-sharing enterprise. The Vivli platform includes an independent data repository, in-depth search engine and a cloud-based, secure analytics platform.
DOI: 10.5281/zenodo.3978041
title: Cantemist corpus: gold standard of oncology clinical cases annotated with CIE-O 3 terminology

description: <strong>Intro:</strong> Cantemist shared task dataset (divided in train, dev1, dev2 and test). In addition, we include here the Cantemist background set. It contains the train, development and test sets of the three subtasks: cantemist-ner, cantemist-norm and cantemist-coding with Gold Standard annotations. In addition, it contains the documents of the background set, without annotations. <strong>Please cite if you use this dataset:</strong> Miranda-Escalada, A., Farré, E., & Krallinger, M. (2020). Named entity recognition, concept normalization and clinical coding: Overview of the cantemist track for cancer text mining in spanish, corpus, guidelines, methods and results. In <em>Proceedings of the Iberian Languages Evaluation Forum (IberLEF 2020), CEUR Workshop Proceedings</em>. <pre><code>@inproceedings{miranda2020named, title={Named entity recognition, concept normalization and clinical coding: Overview of the cantemist track for cancer text mining in spanish, corpus, guidelines, methods and results}, author={Miranda-Escalada, A and Farr{\'e}, E and Krallinger, M}, booktitle={Proceedings of the Iberian Languages Evaluation Forum (IberLEF 2020), CEUR Workshop Proceedings}, year={2020} }</code></pre> <strong>Format:</strong> For subtasks cantemist-norm and cantemist-ner, annotations are distributed in Brat format. See Brat webpage for more information For subtask cantemist-coding, codes are grouped in a TSV file with the following columns (this follows the format used in CodiEsp shared task): filename code <strong>Shared task goal:</strong> In the three subtasks, the goal will be to predict the annotations (either the ANN files or the TSV with the codes) given only the plain text files. <strong>Resources:</strong> <strong>Web</strong> <strong>Citation: </strong>Miranda-Escalada, A., Farré, E., & Krallinger, M. (2020). Named entity recognition, concept normalization and clinical coding: Overview of the cantemist track for cancer text mining in spanish, corpus, guidelines, methods and results. In <em>Proceedings of the Iberian Languages Evaluation Forum (IberLEF 2020), CEUR Workshop Proceedings</em>. <strong>Silver Standard corpus</strong> <strong>Annotation guidelines</strong> <strong>YouTube presentations</strong> <strong>Participant codes</strong> For further information, please visit https://temu.bsc.es/cantemist/ or email us at encargo-pln-life@bsc.es
description: Funded by the Plan de Impulso de las Tecnologías del Lenguaje (Plan TL).