cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.14375030.v1
title: Data and code from: Nestedness patterns and the dual nature of community reassembly in California streams: a multivariate permutation‐based approach

description: Many factors contribute to the nonrandom processes of extinctions and invasions that are changing the structure of ecological communities worldwide. These factors include the attributes of the species, their abiotic environment, and the interactions and feedbacks between them. The relative importance of these factors has been difficult to quantify. We used nested subset theory and a novel permutation‐based extension of gradient analysis to disentangle the direct and indirect pathways by which these factors affect the metacommunity structure of freshwater fishes inhabiting the streams tributary to the San Francisco Bay. Our analyses provide quantitative measures of how species and stream attributes may influence extinction vulnerability and invasion risk, highlight the need for considering the multiple interacting drivers of community change concurrently, and indicate that the ongoing disassembly and assembly of Bay Area freshwater fish communities are not fully symmetric processes. Fish communities are being taken apart and put back together in only partially analogous trajectories of extinction and invasion for which no single explanatory hypothesis is sufficient. Our study thereby contributes to the forecasting of continued community change and its effects on the functioning of freshwater ecosystems.<br><br>The R code implements a permutation-based multivariate approach to gradient analysis for inferring the relative importance of putative drivers of matrix nestedness. (Previous univariate methods of gradient analysis assume that explanatory variables are uncorrelated.) In the paper we used a structural equation model (path analysis) to disentangle the direct and indirect influences of the row- and column-specific variables (since many variables were causally dependent), but multiple regression can also be used if no indirect effects are suspected.
DOI: 10.6073/pasta/64d9d98a7aa3d8c32f8b926afe21f7b4
title: Jornada Basin LTER Cross-scale Interactions Study (CSIS) Block 15 meteorological station: 5-minute summary wind and air temperature data: 2013 - ongoing

description: This data package contains 5-minute air temperature and wind summary data from Jornada Basin LTER Cross Scale Interactions Study (CSIS) Block-15 met station. Average air temperature, wind speed, and wind direction are measured and calculated at an automated meteorological station connected to a 900 MHz spread spectrum wireless network. Wind speed is measured at 37cm, 75 cm, 150 cm, and 300 cm, wind direction at approximately 3m, and air temperature and relative humidity at approximate 2.5m. This is a subset of baseline weather data collected at the 15 Jornada Basin LTER CSIS study blocks, New Mexico. Measurements are aggregated at intervals of 5, 30, 60 minutes and daily, with precipitation additionally provided with 1 second aggregation during precipitation events. The met station variables measured include air temperature, precipitation, relative humidity, wind direction, wind speed. Precipitation is not measured at Block 1 and Block 12 because of proximity to Block 2 and Block 13, respectively . This is an ONGOING dataset.
DOI: 10.6073/pasta/ae1a142838b8f393556f9084be54374e
title: Jornada Basin LTER Cross-scale Interactions Study (CSIS) Block 15 meteorological station: 1-hour summary data: 2017 - ongoing

description: This data package contains hourly air temperature, relative humidity, wind speed, wind direction, and precipitation summary data from Jornada Basin LTER Cross Scale Interactions Study (CSIS) Block-15 met station. Air temperature, relative humidity, wind speed, wind direction, and precipitation are measured and calculated at an automated meteorological station connected to a 900 MHz spread spectrum wireless network. Wind speed is measured at 37cm, 75 cm, 150 cm, and 300 cm, wind direction at approximately 3m, and air temperature and relative humidity at approximate 2.5m. Measurements are aggregated at intervals of 5, 30, 60 minutes and daily, with precipitation additionally provided with 1 second aggregation during precipitation events. Precipitation is not measured at Block 1 and Block 12 because of proximity to Block 2 and Block 13, respectively . This is an ONGOING dataset.
DOI: 10.6084/m9.figshare.11961063.v38
title: Dimensions COVID-19 publications, datasets and clinical trials

description: This file contains all relevant publications, datasets and clinical trials from Dimensions that are related to COVID-19. The content has been exported from Dimensions using a query in the openly accessible Dimensions application, which you can access at https://covid-19.dimensions.ai/. Dimensions is updated once every 24 hours, so the latest research can be viewed alongside existing information. With its range of research outputs including datasets and clinical trials, both of which are just as important as journal articles in the face of a potential pandemic, Dimensions is a one-stop shop for all COVID-19 related information. <br>Please share this information with anyone you think would benefit from it. If you have any suggestions as to how we can improve our search terms to maximise the volume of research related to COVID-19, please contact us at support@dimensions.ai.
DOI: 10.3886/e120321v6-83100
title: Global Reactions to COVID-19 on Twitter: A Labelled Dataset with Latent Topic, Sentiment and Emotion Attributes

description: This project aims to present a large dataset for researchers to discover public conversation on Twitter surrounding the COVID-19 pandemic. As strong concerns and emotions are expressed in the publicly available tweets, we annotated seventeen latent semantic attributes for each public tweet using natural language processing techniques and machine-learning based algorithms. The latent semantic attributes include: 1) ten attributes indicating the tweet’s relevance to ten detected topics, 2) five quantitative attributes indicating the degree of intensity in the valence (i.e., unpleasantness/pleasantness) and emotional intensities across four primary emotions of fear, anger, sadness and joy, and 3) two qualitative attributes indicating the sentiment category and the most dominant emotion category, respectively.
description: Twitter posts.
DOI: 10.5281/zenodo.4663578
title: The ScanBank Dataset

description: A Benchmark Dataset for Figure Extraction from Scanned Electronic Theses and Dissertations
DOI: 10.5281/zenodo.4663577
title: The ScanBank Dataset

description: A Benchmark Dataset for Figure Extraction from Scanned Electronic Theses and Dissertations
DOI: 10.6073/pasta/4f409f1cbdec44b48faec2a71e3cf579
title: Jornada Basin LTER Cross-scale Interactions Study (CSIS) Block 15 meteorological station: 30-minute soil volumetric water content data: 2013 - ongoing

description: 30-minute Soil Moisture data at 10 cm at CSIS Block-15. Collection of soil volumetric water content data at Jornada LTER Cross-scale Interactions Study (CSIS) blocks, New Mexico, supports the environmental monitoring objectives of the Jornada LTER monitoring program that look at plant-soil water dynamics. Soil volumetric water content is measured at 10 cm depth at 3 locations at each of the 4 plots per block. The locations in each plot are under bare soil, under perennial grass, and under shrub. Volumetric water content, bulk electrical conductivity, soil temperature, and bulk dielectric permittivity are recorded every 30 minutes at an automated meteorological station installed at Jornada LTER CSIS Block-15 site. This is an ONGOING dataset.
DOI: 10.6073/pasta/b42cd40186e838adc5dbb0e31da84ba1
title: Jornada Basin LTER Cross-scale Interactions Study (CSIS) Block 15 meteorological station: Daily average soil volumetric water content data: 2013 - ongoing

description: Daily Average of 30-minute Soil Volumetric Water Content data at 10 cm at CSIS Block-15. Collection of soil water content data at Jornada LTER Cross-scale Interactions Study (CSIS) blocks, New Mexico, supports the environmental monitoring objectives of the Jornada LTER monitoring program that look at plant-soil water dynamics. Soil volumetric water content is measured every 30 minutes at 10 cm depth at 3 locations at each of the 4 plots per block and averaged for the daily value. The locations in each plot are under bare soil, under perennial grass, and under shrub. Volumetric water content, bulk electrical conductivity, soil temperature, and bulk dielectric permittivity are recorded at an automated meteorological station installed at Jornada LTER CSIS Block-15 site. This is an ONGOING dataset.
DOI: 10.6073/pasta/3bd9aa1429fd14c332f3180499fc3913
title: Jornada Basin LTER Cross-scale Interactions Study (CSIS) Block 15 meteorological station: Daily summary data: 2013 - ongoing

description: This data package contains hourly air temperature, relative humidity, wind speed, wind direction, and precipitation summary data from Jornada Basin LTER Cross Scale Interactions Study (CSIS) Block-15 met station. Air temperature, relative humidity, wind speed, wind direction, and precipitation are measured and calculated at an automated meteorological station connected to a 900 MHz spread spectrum wireless network. Wind speed is measured at 37cm, 75 cm, 150 cm, and 300 cm, wind direction at approximately 3m, and air temperature and relative humidity at approximate 2.5m. Measurements are aggregated at intervals of 5, 30, 60 minutes and daily, with precipitation additionally provided with 1 second aggregation during precipitation events. The met station variables measured include air temperature, precipitation, relative humidity, wind direction, wind speed. Precipitation is not measured at Block 1 and Block 12 because of proximity to Block 2 and Block 13, respectively . This is an ONGOING dataset.
DOI: 10.15151/esrf-es-404440984
title: Structural biology of gap junctions and related hemichannels and their modulation by cellular factors

description: Large pore channels facilitate the exchange of biological material across intercellular channels that are referred to as gap junctions. Connexins are the conventional intercellular channels that mediate electrical neurotransmission across synapses and are modulated by several intracellular factors like calmodulin. On the other hand, other members of the family resemble the structural organisation of connexin hemichannels, but are primarily involved in the efflux of ATP from cells. The ATP-release channels are also called Pannexins and are vital to mediate apoptotic cell death and inflammation processes. The ATP release is mediated by the C-terminus of the Pannexin channels that control entry into the channel pore and cleavage of the C-terminus leads to large efflux of ATP from cells. Several inhibitors block Pannexin activity including carbenoxolone, probenecid and trovafloxacin and the proposal aims to study the binding sites of these inhibitors and ATP within pannexins.
DOI: 10.6073/pasta/ae24447a7cdcec2e6c05857029c93235
title: Jornada Basin LTER Cross-scale Interactions Study (CSIS) Block 15 meteorological station: 1-second summary precipitation data: 2017 - ongoing

description: 1-second summary precipitation data at CSIS Block-15 met station. Total precipitation per second is recorded only if there is measurable precipitation. This is recorded at an automated meteorological station installed at Jornada LTER CSIS Block-15 site.. This climate station is operated by the Jornada LTER Program. This is an ONGOING dataset. IMPORTANT: Rainfall is only recorded when a bucket tip occurs on the tipping bucket rain gauge. If there is missing data due to equipment or other problems, there will be no indication of this within this dataset. The user needs to review precipitation values in the 30 minute or hourly summary datasets to determine if there are missing data in this 1 second detailed precipitation dataset.
DOI: 10.6073/pasta/f30688637a78f488c7a36e474f21769a
title: Jornada Basin LTER Cross-scale Interactions Study (CSIS) Block 1 meteorological station: 30-minute summary data: 2017 - ongoing

description: This data package contains 30-minute air temperature, relative humidity, and wind summary data from Jornada Basin LTER Cross Scale Interactions Study (CSIS) Block-1 met station. Average air temperature, relative humidity, wind speed and wind direction are measured and calculated at an automated meteorological station connected to a 900 MHz spread spectrum wireless network. Wind speed is measured at 37cm, 75 cm, 150 cm, and 300 cm, wind direction at approximately 3m, and air temperature and relative humidity at approximate 2.5m. Measurements are aggregated at intervals of 5, 30, 60 minutes and daily, with precipitation additionally provided with 1 second aggregation during precipitation events. The met station variables measured include air temperature, precipitation, relative humidity, wind direction, wind speed. Precipitation is not measured at Block 1 and Block 12 because of proximity to Block 2 and Block 13, respectively. This is an ONGOING dataset.
DOI: 10.6084/m9.figshare.14375366
title: Supplementary Material for: The Use of Patient-Reported Outcome Measures in Phase I Oncology Clinical Trials

description: <b><i>Objective:</i></b> To investigate patient-reported outcome (PRO) usage in phase I oncology clinical trials, including types of PRO measures and changes over time. <b><i>Methods:</i></b> We analyzed ClinicalTrials.gov records of phase I oncology clinical trials completed by December 2019. <b><i>Results:</i></b> Of all eligible trials, 2.3% (129/5,515) reported ≥1 PRO, totaling 181 instances of PRO usage. PRO usage increased over time, from 0.6% (trials initiated before 2000) to 3.4% (trials starting between 2015 and 2019). The most common PRO measures were unspecified (29%), tumor-specific (24%), and generic cancer (19%). <b><i>Conclusion:</i></b> Although uncommon in phase I oncology clinical trials, PRO usage is increasing over time. PRO measures were often unspecified on ClinicalTrials.gov, suggesting that more precise reporting and standardization are needed.
DOI: 10.6084/m9.figshare.14375267
title: Supplementary Material for: Drug Development for Target Ribosomal Protein rpL35/uL29 for Repair of LAMB3R635X in Rare Skin Disease Epidermolysis Bullosa

description: <b><i>Introduction:</i></b> Epidermolysis bullosa (EB) describes a family of rare genetic blistering skin disorders. Various subtypes are clinically and genetically heterogeneous, and a lethal postpartum form of EB is the generalized severe junctional EB (gs-JEB). gs-JEB is mainly caused by premature termination codon (PTC) mutations in the skin anchor protein LAMB3 (laminin subunit beta-3) gene. The ribosome in majority of translational reads of LAMB3PTC mRNA aborts protein synthesis at the PTC signal, with production of a truncated, nonfunctional protein. This leaves an endogenous readthrough mechanism needed for production of functional full-length Lamb3 protein albeit at insufficient levels. Here, we report on the development of drugs targeting ribosomal protein L35 (rpL35), a ribosomal modifier for customized increase in production of full-length Lamb3 protein from a LAMB3PTC mRNA. <b><i>Methods:</i></b> Molecular docking studies were employed to identify small molecules binding to human rpL35. Molecular determinants of small molecule binding to rpL35 were further characterized by titration of the protein with these ligands as monitored by nuclear magnetic resonance (NMR) spectroscopy in solution. Changes in NMR chemical shifts were used to map the docking sites for small molecules onto the 3D structure of the rpL35. <b><i>Results:</i></b> Molecular docking studies identified 2 FDA-approved drugs, atazanavir and artesunate, as candidate small-molecule binders of rpL35. Molecular interaction studies predicted several binding clusters for both compounds scattered throughout the rpL35 structure. NMR titration studies identified the amino acids participating in the ligand interaction. Combining docking predictions for atazanavir and artesunate with rpL35 and NMR analysis of rpL35 ligand interaction, one binding cluster located near the N-terminus of rpL35 was identified. In this region, the nonidentical binding sites for atazanavir and artesunate overlap and are accessible when rpL35 is integrated in its natural ribosomal environment. <b><i>Conclusion:</i></b> Atazanavir and artesunate were identified as candidate compounds binding to ribosomal protein rpL35 and may now be tested for their potential to trigger a rpL35 ribosomal switch to increase production of full-length Lamb3 protein from a LAMB3PTC mRNA for targeted systemic therapy in treating gs-JEB.
DOI: 10.6084/m9.figshare.14375267.v1
title: Supplementary Material for: Drug Development for Target Ribosomal Protein rpL35/uL29 for Repair of LAMB3R635X in Rare Skin Disease Epidermolysis Bullosa

description: <b><i>Introduction:</i></b> Epidermolysis bullosa (EB) describes a family of rare genetic blistering skin disorders. Various subtypes are clinically and genetically heterogeneous, and a lethal postpartum form of EB is the generalized severe junctional EB (gs-JEB). gs-JEB is mainly caused by premature termination codon (PTC) mutations in the skin anchor protein LAMB3 (laminin subunit beta-3) gene. The ribosome in majority of translational reads of LAMB3PTC mRNA aborts protein synthesis at the PTC signal, with production of a truncated, nonfunctional protein. This leaves an endogenous readthrough mechanism needed for production of functional full-length Lamb3 protein albeit at insufficient levels. Here, we report on the development of drugs targeting ribosomal protein L35 (rpL35), a ribosomal modifier for customized increase in production of full-length Lamb3 protein from a LAMB3PTC mRNA. <b><i>Methods:</i></b> Molecular docking studies were employed to identify small molecules binding to human rpL35. Molecular determinants of small molecule binding to rpL35 were further characterized by titration of the protein with these ligands as monitored by nuclear magnetic resonance (NMR) spectroscopy in solution. Changes in NMR chemical shifts were used to map the docking sites for small molecules onto the 3D structure of the rpL35. <b><i>Results:</i></b> Molecular docking studies identified 2 FDA-approved drugs, atazanavir and artesunate, as candidate small-molecule binders of rpL35. Molecular interaction studies predicted several binding clusters for both compounds scattered throughout the rpL35 structure. NMR titration studies identified the amino acids participating in the ligand interaction. Combining docking predictions for atazanavir and artesunate with rpL35 and NMR analysis of rpL35 ligand interaction, one binding cluster located near the N-terminus of rpL35 was identified. In this region, the nonidentical binding sites for atazanavir and artesunate overlap and are accessible when rpL35 is integrated in its natural ribosomal environment. <b><i>Conclusion:</i></b> Atazanavir and artesunate were identified as candidate compounds binding to ribosomal protein rpL35 and may now be tested for their potential to trigger a rpL35 ribosomal switch to increase production of full-length Lamb3 protein from a LAMB3PTC mRNA for targeted systemic therapy in treating gs-JEB.
DOI: 10.6084/m9.figshare.14375033
title: Supplementary Material for: Pharmacological Treatment of Osteoporosis in Elderly People: A Systematic Review and Meta-Analysis

description: <b><i>Background:</i></b> The evidence supporting the use of antiresorptive and anabolic agents for fracture prevention in elderly patients is still inconclusive. Whether it is too late to alter the course of the disease in this age-group has remained uncertain. <b><i>Objectives:</i></b> The objective of this study was to determine the efficacy and safety of antiresorptive and anabolic agents in elderly patients. <b><i>Methods:</i></b> PubMed, Web of Science, MEDLINE, and the Cochrane Central Register of Controlled Trials were searched for randomized controlled trials (RCTs) and post hoc analyses of RCTs reporting efficacy outcomes or adverse events of antiresorptive and anabolic agents in elderly patients. Statistical heterogeneity was assessed with the Cochran <i>Q</i> χ<sup>2</sup> test and <i>I</i><sup>2</sup> statistic. All results were expressed as relative risk (RR) with 95% confidence intervals (CIs). <b><i>Results:</i></b> The meta-analysis included 1 RCT and 11 post hoc analyses of data from 10 double-blind placebo-controlled RCTs. Antiresorptive therapy significantly reduced the pooled incidence of vertebral fractures (RR = 0.43; 95% CI = 0.35–0.53; and <i>p</i> &lt; 0.001). It was also associated with lower risk of nonvertebral and hip fractures (RR = 0.84; 95% CI = 0.74–0.96; and <i>p</i> = 0.009 and RR = 0.75; 95% CI = 0.58–0.97; and <i>p</i> = 0.028, respectively). For any adverse events, no difference was observed between antiresorptive agents and placebo groups (RR = 1.01; 95% CI = 1.00–1.02; and <i>p</i> = 0.23). <b><i>Conclusions:</i></b> Both antiresorptive and anabolic agents represented potentially important osteoporosis treatments, showing significant effects on reducing vertebral, nonvertebral, or hip fracture risk, and were well-tolerated by elderly patients. Even in the elderly, maybe it is not too late to alter the course of the disease.
DOI: 10.6073/pasta/c169f4da90e249eeb760ad3a601b58af
title: Jornada Basin LTER Cross-scale Interactions Study (CSIS) Block 1 meteorological station: 5-minute summary wind and air temperature data: 2013 - ongoing

description: This data package contains 5-minute air temperature and wind summary data from Jornada Basin LTER Cross Scale Interactions Study (CSIS) Block-1 met station. Average air temperature, wind speed, and wind direction are measured and calculated at an automated meteorological station connected to a 900 MHz spread spectrum wireless network. Wind speed is measured at 37cm, 75 cm, 150 cm, and 300 cm, wind direction at approximately 3m, and air temperature and relative humidity at approximate 2.5m. This is a subset of baseline weather data collected at the 15 Jornada Basin LTER CSIS study blocks, New Mexico. Measurements are aggregated at intervals of 5, 30, 60 minutes and daily, with precipitation additionally provided with 1 second aggregation during precipitation events. The met station variables measured include air temperature, precipitation, relative humidity, wind direction, wind speed. Precipitation is not measured at Block 1 and Block 12 because of proximity to Block 2 and Block 13, respectively . This is an ONGOING dataset.
DOI: 10.6073/pasta/04d5988e54b0c0ff5aa1f441eb95404f
title: Jornada Basin LTER Cross-scale Interactions Study (CSIS) Block 1 meteorological station: 1-hour summary data: 2017 - ongoing

description: This data package contains hourly air temperature, relative humidity, wind speed, and wind direction summary data from Jornada Basin LTER Cross Scale Interactions Study (CSIS) Block-1 met station. Air temperature, relative humidity, wind speed and wind direction are measured and calculated at an automated meteorological station connected to a 900 MHz spread spectrum wireless network. Wind speed is measured at 37cm, 75 cm, 150 cm, and 300 cm, wind direction at approximately 3m, and air temperature and relative humidity at approximate 2.5m. Measurements are aggregated at intervals of 5, 30, 60 minutes and daily, with precipitation additionally provided with 1 second aggregation during precipitation events. Precipitation is not measured at Block 1 and Block 12 because of proximity to Block 2 and Block 13, respectively . This is an ONGOING dataset.