cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.15468/vgppgb
title: Taxonomic notes on Onobrychis sect. Onobrychis subsect. Macropterae (Fabaceae) from Iran

description: This dataset contains the digitized treatments in Plazi based on the original journal article Ranjbar, Massoud, Karamian, Roya, Hadadi, Anahita, Joharchi, Mohammadreza (2012): Taxonomic notes on Onobrychis sect. Onobrychis subsect. Macropterae (Fabaceae) from Iran. Phytotaxa 39: 51-60, DOI: 10.11646/phytotaxa.39.1.5, URL: http://biotaxa.org/Phytotaxa/article/view/phytotaxa.39.1.5
DOI: 10.5281/zenodo.4926621
title: Modified SSP2-4.5 near-surface methane mixing ratios for 2015 - 2019

description: The original set of near-surface methane concentrations for SSP2-4.5 (Meinshausen et al., 2020) were modified to more closely follow the observed methane concentrations for 2015 - 2019. Data from the NOAA Global Monitoring Laboratory and the World Meteorological Organization (WMO) Global Atmospheric Watch (as published in the WMO Annual Greenhouse Gas Bulletin) were used. Global scaling factors were calculated to modify the values in the original files to the 2015 - 2019 observed values. Four variations of the original files of methane mixing ratio were provided through input4MIPS (https://esgf-node.llnl.gov/projects/input4mips/) with different temporal and spatial resolution. Modified versions of these same four variations have been produced following the same scaling process. Meinshausen, M., Z. R. J. Nicholls, J. Lewis, M. J. Gidden, E. Vogel, M. Freund, U. Beyerle, C. Gessner, A. Nauels, N. Bauer, J. G. Canadell, J. S. Daniel, A. John, P. B. Krummel, G. Luderer, N. Meinshausen, S. A. Montzka, P. J. Rayner, S. Reimann, S. J. Smith, M. van den Berg, G. J. M. Velders, M. K. Vollmer and R. H. J. Wang, The shared socio-economic pathway (SSP) greenhouse gas concentrations and their extensions to 2500, Geosci. Mod. Dev., 13, 3571 – 3605, doi:10.5194/gmd-13-3571-2020, 2020.
DOI: 10.5281/zenodo.4926620
title: Modified SSP2-4.5 near-surface methane mixing ratios for 2015 - 2019

description: The original set of near-surface methane concentrations for SSP2-4.5 (Meinshausen et al., 2020) were modified to more closely follow the observed methane concentrations for 2015 - 2019. Data from the NOAA Global Monitoring Laboratory and the World Meteorological Organization (WMO) Global Atmospheric Watch (as published in the WMO Annual Greenhouse Gas Bulletin) were used. Global scaling factors were calculated to modify the values in the original files to the 2015 - 2019 observed values. Four variations of the original files of methane mixing ratio were provided through input4MIPS (https://esgf-node.llnl.gov/projects/input4mips/) with different temporal and spatial resolution. Modified versions of these same four variations have been produced following the same scaling process. Meinshausen, M., Z. R. J. Nicholls, J. Lewis, M. J. Gidden, E. Vogel, M. Freund, U. Beyerle, C. Gessner, A. Nauels, N. Bauer, J. G. Canadell, J. S. Daniel, A. John, P. B. Krummel, G. Luderer, N. Meinshausen, S. A. Montzka, P. J. Rayner, S. Reimann, S. J. Smith, M. van den Berg, G. J. M. Velders, M. K. Vollmer and R. H. J. Wang, The shared socio-economic pathway (SSP) greenhouse gas concentrations and their extensions to 2500, Geosci. Mod. Dev., 13, 3571 – 3605, doi:10.5194/gmd-13-3571-2020, 2020.
DOI: 10.6073/pasta/ffe71b68e05aede42ccbe29ba14467c4
title: Carbon Biogeochemistry of Forested Headwater Streams at Harvard Forest 2006-2007

description: Headwater streams make up greater than 80% of total channel length in the United States and play important roles in regulating nutrient, organic matter, and sediment fluxes from terrestrial to downstream ecosystems. Headwater streams are common features of many upland-forested watersheds in New England, yet are not explicitly factored into forest water, carbon, and nutrient budgets. Here we report on recent efforts to examine terrestrial and stream ecosystem linkages in carbon biogeochemistry in a hemlock-dominated watershed. A prototype stream biogeochemical system (SBS) was tested at the Harvard Forest LTER. The SBS allows a suite of stream water properties to be characterized in real-time over extended periods of time thus allowing questions to be asked at a wide range of time scales. The prototype SBS was field-tested in Bigelow Brook West on the Prospect Hill research tract at Harvard Forest. Bigelow Brook West was selected because the watershed’s hydrology, stream ecology, forest composition, land-use history, and carbon sequestration have been characterized, thus aiding the interpretation of SBS data and facilitating multi-disciplinary research. The prototype system monitors stream and air temperature, pCO2 , colored dissolved organic matter, total suspended sediments, PAR, water depth, pH, and dissolved O2. Independent estimates of organic and inorganic water chemistry were used to validate and interpret SBS data. Here we report on preliminary findings from the pilot SBS at Harvard Forest to highlight the usefulness of headwater stream chemistry data to a wide-diversity of ecosystem scientists. 1) Low pH constrains dissolved inorganic carbon solute fluxes to downstream ecosystems. 2) CO2 concentrations were always supersaturated in Bigelow Brook, averaging about 6x atmospheric values in summer, thus the stream is an important source of CO2 to the atmosphere. Variation in CO2 appears to be linked to multiple mechanisms including changes in stream temperature, soil CO2, and in-stream processes. 3) Diurnal variation in stream dissolved oxygen concentrations is linked to both in situ stream processes and watershed processes, such as evapotranspiration. 4) Colored dissolved organic matter (CDOM) concentrations were tightly linked to discharge with concentrations increasing with discharge. The surprising additive effect of increasing DOC concentration with discharge cause DOC fluxes to increase non-linearly with water fluxes in Bigelow Brook. 5) Low inorganic N and P concentrations suggest that organic N and P may account for a disproportionate fraction of N and P fluxes to downstream ecosystems. Preliminary SBS data have already altered our conceptual model regarding terrestrial and aquatic linkages in the Bigelow Brook watershed and have illuminated a fundamental lack of understanding of the mechanisms regulating diurnal and storm-driven stream water chemistry in hemlock-dominated watersheds.
DOI: 10.15468/tw4yvn
title: A new species of Macroclinium (Orchidaceae: Oncidiinae) from Andean Venezuela with brief comments on the biogeography of the genus

description: This dataset contains the digitized treatments in Plazi based on the original journal article Fernández-Concha, German Carnevali, Cetzal-Ix, William (2012): A new species of Macroclinium (Orchidaceae: Oncidiinae) from Andean Venezuela with brief comments on the biogeography of the genus. Phytotaxa 40: 12-20, DOI: 10.11646/phytotaxa.40.1.2, URL: http://biotaxa.org/Phytotaxa/article/view/phytotaxa.40.1.2
DOI: 10.15468/zvvh9j
title: The discovery of Lacandonia (Triuridaceae) in Brazil

description: This dataset contains the digitized treatments in Plazi based on the original journal article Melo, Aline, Alves, Marccus (2012): The discovery of Lacandonia (Triuridaceae) in Brazil. Phytotaxa 40: 21-25, DOI: 10.11646/phytotaxa.40.1.3, URL: http://biotaxa.org/Phytotaxa/article/view/phytotaxa.40.1.3
DOI: 10.25345/c5wz54
title: MassIVE MSV000087615 - A novel Toxoplasma IMC sutures-associated protein regulates suture protein targeting and colocalizes with membrane trafficking machinery
title: The 202220-BioID2 experiment consisted of streptavidin purification of two biological replicates of the experiment plus biotin. The untagged parent strain RHdeltaku80 plus biotin was used as a control. To focus on cytoskeletal targets, all samples were subjected to detergent fractionation prior to streptavidin purification
DOI: 10.15468/5vwvd5
title: Encyclia fimbriata (Orchidaceae: Laeliinae), a new large-flowered species from Bahia, Brazil

description: This dataset contains the digitized treatments in Plazi based on the original journal article Bastos, Cláudia A., Berg, Cássio Van Den, Meneguzzo, Thiago E. C. (2012): Encyclia fimbriata (Orchidaceae: Laeliinae), a new large-flowered species from Bahia, Brazil. Phytotaxa 40: 26-40, DOI: 10.11646/phytotaxa.40.1.4
DOI: 10.5281/zenodo.4926901
title: Data and replication code for "Forced Migration and Human Capital: Evidence from Post-WWII Population Transfers" (AER 2020)

description: The data and replication code for "Forced Migration and Human Capital: Evidence from Post-WWII Population Transfers" AMERICAN ECONOMIC REVIEW, VOL. 110, NO. 5, MAY 2020 (pp. 1430-63) Sascha O. Becker, Irena Grosfeld, Pauline Grosjean, Nico Voigtländer and Ekaterina Zhuravskaya
DOI: 10.5281/zenodo.4926900
title: Data and replication code for "Forced Migration and Human Capital: Evidence from Post-WWII Population Transfers" (AER 2020)

description: The data and replication code for "Forced Migration and Human Capital: Evidence from Post-WWII Population Transfers" AMERICAN ECONOMIC REVIEW, VOL. 110, NO. 5, MAY 2020 (pp. 1430-63) Sascha O. Becker, Irena Grosfeld, Pauline Grosjean, Nico Voigtländer and Ekaterina Zhuravskaya
DOI: 10.6084/m9.figshare.14650140
title: Supporting data for "Inferring Hypogene Karst at Depth from the Patterns of Non-Tectonic Syncline Networks in Eocene Limestones, Western Desert, Egypt" (Tewksbury et al., 2021)

description: The kmz file contains the syncline map dataset published in Tewksbury et al., 2021 (https://doi.org/10.3389/feart.2021.678565). <br>The data set includes an updated version of the syncline network originally published in Tewksbury et al., 2017, plus an additional 4000 km<sup>2</sup> of mapping done as part of the Desert Eyes Project since 2017. As we continue to extend our mapping of the syncline network, we will provide updated kmz files here.<br> The README file provides additional information on the data set itself, instructions/advice for viewing the data in Google Earth, and references to relevant publications of the Desert Eyes Project.<br>
DOI: 10.6084/m9.figshare.14650140.v1
title: Supporting data for "Inferring Hypogene Karst at Depth from the Patterns of Non-Tectonic Syncline Networks in Eocene Limestones, Western Desert, Egypt" (Tewksbury et al., 2021)

description: The kmz file contains the syncline map dataset published in Tewksbury et al., 2021 (https://doi.org/10.3389/feart.2021.678565). <br>The data set includes an updated version of the syncline network originally published in Tewksbury et al., 2017, plus an additional 4000 km<sup>2</sup> of mapping done as part of the Desert Eyes Project since 2017. As we continue to extend our mapping of the syncline network, we will provide updated kmz files here.<br> The README file provides additional information on the data set itself, instructions/advice for viewing the data in Google Earth, and references to relevant publications of the Desert Eyes Project.<br>
DOI: 10.6073/pasta/56b9ff80839409d5b025536a7b2808c9
title: Land Use on the Southern New England and New York Coasts 1600-2001

description: The widespread influence of land use and natural disturbance on population, community, and landscape dynamics and the long-term legacy of disturbance on modern ecosystems requires that a historical, broad-scale perspective become an integral part of modern ecological studies and conservation assessment and planning. In previous studies, the Harvard Forest Long Term Ecological Research (LTER) program has developed an integrated approach of paleoecological and historical reconstruction, meteorological modeling, air photo interpretation, GIS analyses, and field studies of vegetation and soils, to address fundamental ecological questions concerning the rates, direction, and causes of vegetation change, to evaluate controls over modern species and community distributions and landscape patterns, and to provide critical background for conservation and restoration planning. In the current study, we extend this approach to investigate the link between landscape history and the abundance, distribution, and dynamics of species, communities and landscapes of the Cape Cod to Long Island coastal region, including the islands of Martha's Vineyard, Nantucket, and Block Island. The study region includes many areas of high conservation priority that are linked geographically, historically, and ecologically. Despite the compelling rationale for examining this coastal region as a whole and for comparing its related, though distinctive geographic areas, an integrated and comprehensive study of the region has never been undertaken. We are investigating regional controls over landscape patterns and community distribution and will focus in detail on the dynamics of sandplain communities, including grasslands, heathlands, barrens, and woodlands, which are unique components of this region and high priorities for conservation. In order to determine the historical and modern abundance and distribution of these community types, and to relate these to historical patterns of land use, fire, windstorms and other disturbances, we are developing: (1) GIS-based, spatially explicit maps of land use, land cover, environment, hurricane characteristics, and cultural features across the region for the historical period (17th C to present), (2) pollen and charcoal diagrams for critical areas where data are currently unavailable and an integrated analysis of data from all studies across this region, (3) analysis of the relationship between high priority communities (sandplain grasslands, heathlands, barrens, and related communities), rare species, and disturbance history, (4) revised conceptual ecological models for sandplain communities and recommendations for ecological goals and management approaches.
DOI: 10.6084/m9.figshare.13139492
title: Bridges and Culverts GB

description: A geo-referenced database of 110,194 road-river crossings for Great Britain (zip file). Crossings validated, or predicted using Boosted Regression Trees, as bridges or culverts in Great Britain are provided in the .csv file. These data are published alongside: Januchowski-Hartley et al 2021 Environ. Res. Infrastruct. Sustain. in press https://doi.org/10.1088/2634-4505/ac068c (to be updated).Note: updates to the road-river crossing database will be made as more data are validated, and integration of road fords will be included.
DOI: 10.6084/m9.figshare.13139492.v4
title: Bridges and Culverts GB

description: A geo-referenced database of 110,194 road-river crossings for Great Britain (zip file). Crossings validated, or predicted using Boosted Regression Trees, as bridges or culverts in Great Britain are provided in the .csv file. These data are published alongside: Januchowski-Hartley et al 2021 Environ. Res. Infrastruct. Sustain. in press https://doi.org/10.1088/2634-4505/ac068c (to be updated).Note: updates to the road-river crossing database will be made as more data are validated, and integration of road fords will be included.
DOI: 10.6084/m9.figshare.14770992
title: Leaf-litter production in human-modified Amazonian forests following the El Niño-mediated drought and fires of 2015–2016

description: Datasets used in the paper entitled <b>Leaf-litter production in human-modified Amazonian forests following the El Niño-mediated drought and fires of 2015–2016</b>by Morais et al
DOI: 10.6084/m9.figshare.14770992.v1
title: Leaf-litter production in human-modified Amazonian forests following the El Niño-mediated drought and fires of 2015–2016

description: Datasets used in the paper entitled <b>Leaf-litter production in human-modified Amazonian forests following the El Niño-mediated drought and fires of 2015–2016</b>by Morais et al
DOI: 10.6084/m9.figshare.14770920
title: Construction of the Amniotic Fluid-derived Exosomal ceRNA Network Associated with Ventricular Septal Defect

description: We conducted whole transcriptome profiling in six pairs of AF-derived exosomes from VSD fetuses and matched healthy controls. A total of 1252 differentially expressed (DE) mRNAs, 256 DE-miRNAs and 1090 DE-lncRNAs were found to be significantly altered in the VSD group compared with the control group.
DOI: 10.6084/m9.figshare.14770920.v1
title: Construction of the Amniotic Fluid-derived Exosomal ceRNA Network Associated with Ventricular Septal Defect

description: We conducted whole transcriptome profiling in six pairs of AF-derived exosomes from VSD fetuses and matched healthy controls. A total of 1252 differentially expressed (DE) mRNAs, 256 DE-miRNAs and 1090 DE-lncRNAs were found to be significantly altered in the VSD group compared with the control group.
DOI: 10.15468/at9wu6
title: Myrtaceae from lowland Atlantic Forest areas in the State of Pernambuco, Northeastern Brazil

description: This dataset contains the digitized treatments in Plazi based on the original journal article Amorim, Bruno S., Alves, Marccus (2012): Myrtaceae from lowland Atlantic Forest areas in the State of Pernambuco, Northeastern Brazil. Phytotaxa 40: 33-54, DOI: 10.11646/phytotaxa.40.1.6
DOI: 10.5281/zenodo.4926046
title: Supplementary files for "Reduced level of tear antimicrobial and immunomodulatory proteins as a possible reason for higher ocular infections in diabetic patients"

description: Diabetes mellitus is one of the most common metabolic disorders and a risk factor for bacterial ocular infections. Our aim was to examine the antibacterial activity of tears from patients with diabetes mellitus and diabetic retinopathy. Non-stimulated basal tears were collected from 39 eyes of 35 subjects. The antibacterial activity of tear pools was tested against pathogenic <em>Staphylococcus aureus</em> ATCC 29213, <em>Escherichia coli</em> ATCC 26922 and <em>Pseudomonas aeruginosa</em> ATCC 27853 strains. The levels of 10 antimicrobial and immunomodulatory proteins were analyzed in the individual tear samples of the studied groups by SRM-based targeted mass spectrometry analysis. Disease stage-specific antimicrobial effect was observed in case of <em>Staphylococcus aureus</em> ATCC 29213 strain and a non-disease specific inhibitory effect was observed in case <em>of Pseudomonas aeruginosa</em> ATCC 27853 strain. Changes in the levels of the studied antimicrobial and immunomodulatory proteins in the tears of the studied groups were also observed. The higher ocular infection rate observed in diabetic patients may be the consequence of the decreased antimicrobial activity of tears possibly caused by the changes in the levels of antimicrobial and immunomodulatory proteins.
DOI: 10.5281/zenodo.4926045
title: Supplementary files for "Reduced level of tear antimicrobial and immunomodulatory proteins as a possible reason for higher ocular infections in diabetic patients"

description: Diabetes mellitus is one of the most common metabolic disorders and a risk factor for bacterial ocular infections. Our aim was to examine the antibacterial activity of tears from patients with diabetes mellitus and diabetic retinopathy. Non-stimulated basal tears were collected from 39 eyes of 35 subjects. The antibacterial activity of tear pools was tested against pathogenic <em>Staphylococcus aureus</em> ATCC 29213, <em>Escherichia coli</em> ATCC 26922 and <em>Pseudomonas aeruginosa</em> ATCC 27853 strains. The levels of 10 antimicrobial and immunomodulatory proteins were analyzed in the individual tear samples of the studied groups by SRM-based targeted mass spectrometry analysis. Disease stage-specific antimicrobial effect was observed in case of <em>Staphylococcus aureus</em> ATCC 29213 strain and a non-disease specific inhibitory effect was observed in case <em>of Pseudomonas aeruginosa</em> ATCC 27853 strain. Changes in the levels of the studied antimicrobial and immunomodulatory proteins in the tears of the studied groups were also observed. The higher ocular infection rate observed in diabetic patients may be the consequence of the decreased antimicrobial activity of tears possibly caused by the changes in the levels of antimicrobial and immunomodulatory proteins.
DOI: 10.5281/zenodo.4925648
title: Distinct and distributed brain responses to emotions communicated through touch

description: Human-to-human touch, ranging from loving caresses to attention-seeking tapping, powerfully communicates emotional states. Yet, we only are beginning to understand the neural mechanisms behind our ability to recognize emotions communicated through touch. Here, we used functional magnetic resonance imaging (fMRI) in emotionally close participant pairs to examine the neural basis of human-to-human tactile emotion recognition. In each pair, participants were assigned the roles of sender and receiver. The receiver was placed in the fMRI scanner, and the sender was cued to communicate six different emotional states by touching the receiver’s arm using improvised intuitive gestures. A multivoxel pattern classification analysis was applied to decode the cued emotional states from the receivers’ brain responses. We found that the classifiers could decode the communicated emotions from both globally and locally distributed brain response patterns, including from brain regions previously associated with auditory and visual emotion recognition. Classifier performance correlated positively with the empathic tendencies of the senders, but not of the receivers. These findings provide the first evidence that emotion communication through touch yields distinct brain responses and emphasize the cross-modal nature of emotion recognition in the brain. The findings also suggest that empathic capacity of the sender plays a key role in successful intuitive touch communication. In addition to highlighting the relevance and potential of the tactile system in social communication, this study provides further support for the embodiment theory of emotions.
DOI: 10.5281/zenodo.4925647
title: Distinct and distributed brain responses to emotions communicated through touch

description: Human-to-human touch, ranging from loving caresses to attention-seeking tapping, powerfully communicates emotional states. Yet, we only are beginning to understand the neural mechanisms behind our ability to recognize emotions communicated through touch. Here, we used functional magnetic resonance imaging (fMRI) in emotionally close participant pairs to examine the neural basis of human-to-human tactile emotion recognition. In each pair, participants were assigned the roles of sender and receiver. The receiver was placed in the fMRI scanner, and the sender was cued to communicate six different emotional states by touching the receiver’s arm using improvised intuitive gestures. A multivoxel pattern classification analysis was applied to decode the cued emotional states from the receivers’ brain responses. We found that the classifiers could decode the communicated emotions from both globally and locally distributed brain response patterns, including from brain regions previously associated with auditory and visual emotion recognition. Classifier performance correlated positively with the empathic tendencies of the senders, but not of the receivers. These findings provide the first evidence that emotion communication through touch yields distinct brain responses and emphasize the cross-modal nature of emotion recognition in the brain. The findings also suggest that empathic capacity of the sender plays a key role in successful intuitive touch communication. In addition to highlighting the relevance and potential of the tactile system in social communication, this study provides further support for the embodiment theory of emotions.
DOI: 10.5281/zenodo.4925869
title: Retrieve climate data from Copernicus

description: Datasets for a tutorial to retrieve climate data from Copernicus using Galaxy. The data comes from ....
DOI: 10.5281/zenodo.4925868
title: Retrieve climate data from Copernicus

description: Datasets for a tutorial to retrieve climate data from Copernicus using Galaxy. The data comes from ....
DOI: 10.6084/m9.figshare.14771061.v1
title: SUPPLEMENTARY MATERIALS

description: <b>SUPPLEMENTARY MATERIALS related to “</b><b>METTL3-mediated RNA m<sup>6</sup>A hypermethylation </b><b>increases GH secretion of</b><b> pituitary somatotroph adenomas”</b><b></b>