cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.25739/76tt-wd26
title: Protein stability profiles reflect plant species' evolutionary history

description: Protein thermostability predictions for Arabidopsis, maize, and poplar created using prokaryote protein optimal temperatures to estimate site-specific temperature sensitivity. Pfam domains were identified from the representative proteome from each plant species and aligned to corresponding prokaryote Pfam domains. Known OGTs from the prokaryotic Pfam domains were used to create estimates of optimal temperature and protein stability for each plant protein. Plant protein stability estimates were compared across tissues and organelles.
DOI: 10.5281/zenodo.5026743
title: ATOM3D: Residue Identity (RES) Dataset

description: Residue Identity (RES) dataset from the ATOM3D project. This upload includes three zipped data directories: Full, unsplit dataset in LMDB format Split datasets, with each in LMDB format Text files containing train, validation, and test indices used to split raw dataset README containing dataset details
description: {"references": ["Townshend, R. J. L. et al. ATOM3D: Tasks On Molecules in Three Dimensions. In review (2020). http://arxiv.org/abs/2012.04035."]}
DOI: 10.5281/zenodo.5026742
title: ATOM3D: Residue Identity (RES) Dataset

description: Residue Identity (RES) dataset from the ATOM3D project. This upload includes three zipped data directories: Full, unsplit dataset in LMDB format Split datasets, with each in LMDB format Text files containing train, validation, and test indices used to split raw dataset README containing dataset details
description: {"references": ["Townshend, R. J. L. et al. ATOM3D: Tasks On Molecules in Three Dimensions. In review (2020). http://arxiv.org/abs/2012.04035."]}
DOI: 10.6084/m9.figshare.14338010.v2
title: miR-128 participates in the pathogenesis of chronic constipation by regulating the p38α/M-CSF inflammatory signaling pathway

description: Supplementary Table 1. PCR Primer<br>Supplementary Table 2. Antibody Information<br>
DOI: 10.6084/m9.figshare.14338010.v1
title: miR-128 participates in the pathogenesis of slow transit constipation by regulating the p38α/M-CSF inflammatory signaling pathway

description: Supplementary Table 1. PCR Primer<br>Supplementary Table 2. Antibody Information<br>
DOI: 10.6084/m9.figshare.14839308
title: MSMS_group2_data_for_Jie

description: MSMS data for Jie
DOI: 10.6084/m9.figshare.14839308.v1
title: MSMS_group2_data_for_Jie

description: MSMS data for Jie
DOI: 10.5517/ccdc.csd.cc27k2gc
title: CCDC 2071992: Experimental Crystal Structure Determination

description: Related Article: Ze-Jie Lv, Zhengqi Chai, Miaomiao Zhu, Junnian Wei, Wen-Xiong Zhang|2021|J.Am.Chem.Soc.|143|9151|doi:10.1021/jacs.1c03604
DOI: 10.5517/ccdc.csd.cc27k2hd
title: CCDC 2071993: Experimental Crystal Structure Determination

description: Related Article: Ze-Jie Lv, Zhengqi Chai, Miaomiao Zhu, Junnian Wei, Wen-Xiong Zhang|2021|J.Am.Chem.Soc.|143|9151|doi:10.1021/jacs.1c03604
DOI: 10.5517/ccdc.csd.cc27k2pl
title: CCDC 2071999: Experimental Crystal Structure Determination

description: Related Article: Ze-Jie Lv, Zhengqi Chai, Miaomiao Zhu, Junnian Wei, Wen-Xiong Zhang|2021|J.Am.Chem.Soc.|143|9151|doi:10.1021/jacs.1c03604
DOI: 10.5517/ccdc.csd.cc27k2qm
title: CCDC 2072000: Experimental Crystal Structure Determination

description: Related Article: Ze-Jie Lv, Zhengqi Chai, Miaomiao Zhu, Junnian Wei, Wen-Xiong Zhang|2021|J.Am.Chem.Soc.|143|9151|doi:10.1021/jacs.1c03604
DOI: 10.5517/ccdc.csd.cc27k2xt
title: CCDC 2072006: Experimental Crystal Structure Determination

description: Related Article: Ze-Jie Lv, Zhengqi Chai, Miaomiao Zhu, Junnian Wei, Wen-Xiong Zhang|2021|J.Am.Chem.Soc.|143|9151|doi:10.1021/jacs.1c03604
DOI: 10.5517/ccdc.csd.cc27k2zw
title: CCDC 2072008: Experimental Crystal Structure Determination

description: Related Article: Ze-Jie Lv, Zhengqi Chai, Miaomiao Zhu, Junnian Wei, Wen-Xiong Zhang|2021|J.Am.Chem.Soc.|143|9151|doi:10.1021/jacs.1c03604
DOI: 10.5517/ccdc.csd.cc27k364
title: CCDC 2072015: Experimental Crystal Structure Determination

description: Related Article: Ze-Jie Lv, Zhengqi Chai, Miaomiao Zhu, Junnian Wei, Wen-Xiong Zhang|2021|J.Am.Chem.Soc.|143|9151|doi:10.1021/jacs.1c03604
DOI: 10.5517/ccdc.csd.cc27k386
title: CCDC 2072017: Experimental Crystal Structure Determination

description: Related Article: Ze-Jie Lv, Zhengqi Chai, Miaomiao Zhu, Junnian Wei, Wen-Xiong Zhang|2021|J.Am.Chem.Soc.|143|9151|doi:10.1021/jacs.1c03604
DOI: 10.5517/ccdc.csd.cc27k397
title: CCDC 2072018: Experimental Crystal Structure Determination

description: Related Article: Ze-Jie Lv, Zhengqi Chai, Miaomiao Zhu, Junnian Wei, Wen-Xiong Zhang|2021|J.Am.Chem.Soc.|143|9151|doi:10.1021/jacs.1c03604
DOI: 10.5517/ccdc.csd.cc27k3b8
title: CCDC 2072019: Experimental Crystal Structure Determination

description: Related Article: Ze-Jie Lv, Zhengqi Chai, Miaomiao Zhu, Junnian Wei, Wen-Xiong Zhang|2021|J.Am.Chem.Soc.|143|9151|doi:10.1021/jacs.1c03604
DOI: 10.5517/ccdc.csd.cc27k3db
title: CCDC 2072021: Experimental Crystal Structure Determination

description: Related Article: Ze-Jie Lv, Zhengqi Chai, Miaomiao Zhu, Junnian Wei, Wen-Xiong Zhang|2021|J.Am.Chem.Soc.|143|9151|doi:10.1021/jacs.1c03604
DOI: 10.5517/ccdc.csd.cc27k3mk
title: CCDC 2072028: Experimental Crystal Structure Determination

description: Related Article: Ze-Jie Lv, Zhengqi Chai, Miaomiao Zhu, Junnian Wei, Wen-Xiong Zhang|2021|J.Am.Chem.Soc.|143|9151|doi:10.1021/jacs.1c03604
DOI: 10.5517/ccdc.csd.cc27k3pm
title: CCDC 2072030: Experimental Crystal Structure Determination

description: Related Article: Ze-Jie Lv, Zhengqi Chai, Miaomiao Zhu, Junnian Wei, Wen-Xiong Zhang|2021|J.Am.Chem.Soc.|143|9151|doi:10.1021/jacs.1c03604
DOI: 10.5517/ccdc.csd.cc27k3vs
title: CCDC 2072035: Experimental Crystal Structure Determination

description: Related Article: Ze-Jie Lv, Zhengqi Chai, Miaomiao Zhu, Junnian Wei, Wen-Xiong Zhang|2021|J.Am.Chem.Soc.|143|9151|doi:10.1021/jacs.1c03604
DOI: 10.5281/zenodo.3666172
title: SquamEWL: A worldwide and annotated database of evaporative water loss rates in squamate reptiles

description: <strong>Motivation: </strong>The understanding of physiological adaptations, of evolutionary radiations and of ecological responses to global change urges for global, comprehensive databases of the functional traits of extant organisms. The ability to maintain an adequate water balance is a critical functional property influencing the resilience of animal species to climate variation. In terrestrial or semi-terrestrial organisms, total water loss includes a significant contribution of evaporative water loss (EWL). The analysis of geographic and phylogenetic variation in EWL rates must however account for differences in methods and potential confounding factors which influence standard measures of whole-organism water loss. We compiled the global and standardized SquamEWL database of total, respiratory and cutaneous EWL for 325 species and sub-species of squamate reptiles (793 samples and 2536 estimates) from across the globe. An extensive set of companion data and annotations associated to the EWL measurements of potential value for future investigation, including metabolic rate data, is provided. We present preliminary descriptive statistics for the compiled data, discuss gaps and biases, and identify promising avenues to update, expand and explore this database. <strong>Main types of variables contained: </strong>standard water loss rates, geographic data, metabolic rates. <strong>Spatial location:</strong> global. <strong>Time period: </strong>data were obtained from extant species and were collected between 1945 and 2020. <strong>Major taxa: </strong>Reptilia, Squamata including lizards, snakes and amphisbaenians. <strong>Level of measurements: </strong>individual samples of animals from the same species, locality, age class and sex category. <strong>Software format: </strong>csv. <strong>Keyword</strong><strong>s: </strong>ectotherms, functional traits, homeostasis, hydroregulation, macrophysiology, evaporative water loss.
description: Compilation of the database was funded by the Centre National de la Recherche Scientifique (CNRS), the Agence Nationale de la Recherche (Aquatherm: ANR-17-CE02-0013 to JFLG) and a doctoral grant from Ecole normale supérieure to CC.
DOI: 10.5281/zenodo.3666171
title: SquamEWL: A worldwide and annotated database of evaporative water loss rates in squamate reptiles

description: <strong>Motivation: </strong>The understanding of physiological adaptations, of evolutionary radiations and of ecological responses to global change urges for global, comprehensive databases of the functional traits of extant organisms. The ability to maintain an adequate water balance is a critical functional property influencing the resilience of animal species to climate variation. In terrestrial or semi-terrestrial organisms, total water loss includes a significant contribution of evaporative water loss (EWL). The analysis of geographic and phylogenetic variation in EWL rates must however account for differences in methods and potential confounding factors which influence standard measures of whole-organism water loss. We compiled the global and standardized SquamEWL database of total, respiratory and cutaneous EWL for 325 species and sub-species of squamate reptiles (793 samples and 2536 estimates) from across the globe. An extensive set of companion data and annotations associated to the EWL measurements of potential value for future investigation, including metabolic rate data, is provided. We present preliminary descriptive statistics for the compiled data, discuss gaps and biases, and identify promising avenues to update, expand and explore this database. <strong>Main types of variables contained: </strong>standard water loss rates, geographic data, metabolic rates. <strong>Spatial location:</strong> global. <strong>Time period: </strong>data were obtained from extant species and were collected between 1945 and 2020. <strong>Major taxa: </strong>Reptilia, Squamata including lizards, snakes and amphisbaenians. <strong>Level of measurements: </strong>individual samples of animals from the same species, locality, age class and sex category. <strong>Software format: </strong>csv. <strong>Keyword</strong><strong>s: </strong>ectotherms, functional traits, homeostasis, hydroregulation, macrophysiology, evaporative water loss.
description: Compilation of the database was funded by the Centre National de la Recherche Scientifique (CNRS), the Agence Nationale de la Recherche (Aquatherm: ANR-17-CE02-0013 to JFLG) and a doctoral grant from Ecole normale supérieure to CC.
DOI: 10.6073/pasta/4cf9031e5edade8a2c503180eb2cfeb0
title: Canopy Phenology, Remote Sensing and Microclimate at Harvard Forest 2006-2011

description: Our research at the Harvard Forest walk-up tower site examines how seasonality of canopy leaf area, or canopy phenology, influences, and is influenced by, local climate. As part of this activity we are studying methods for (and limits to) remote sensing of canopy phenology. To address this research topic, we have initiated measurements to quantify how radiation fluxes through a deciduous forest canopy are modified by seasonal canopy leaf dynamics. We continuously measure above- and below-canopy radiation fluxes at a variety of spectral bands (shortwave, photosynthetic) and with digital photography. These measurements provide a surrogate measures of canopy leaf area dynamics, and directly represent the radiation component of the surface energy balance. These measurements complement ongoing microclimate and eddy covariance measurements of water and carbon exchange at the EMS flux tower.
DOI: 10.6073/pasta/f5ea46c5a1dc7a79cc1332b4a87dc379
title: Lake Sediment Pollen from Berry Pond in North Andover MA from 15000 BP to Present

description: Aim We analyzed lake-sediment pollen records from eight sites in southern New England to address: (1) regional variation in ecological responses to post-glacial climatic changes, (2) landscape-scale vegetational heterogeneity at different times in the past, and (3) environmental and ecological controls on spatial patterns of vegetation. Location The eight study sites are located in southern New England in the states of Massachusetts and Connecticut. The sites span a climatic and vegetational gradient from the lowland areas of eastern Massachusetts and Connecticut to the uplands of north-central and western Massachusetts. Tsuga canadensis and Fagus grandifolia are abundant in the upland area, while Quercus, Carya and Pinus species have higher abundances in the lowlands. Results Our analyses revealed a sequence of vegetational responses to climate changes occurring across southern New England during the past 14,000 calibrated radiocarbon years before present (cal yr BP). Pollen assemblages at all sites were dominated by Picea and Pinus banksiana between 14,000 and 11,500 cal yr BP; by Pinus strobus from 11,500 to 10,500 cal yr BP; and by P. strobus and Tsuga between 10,500 and 9500 cal yr BP. At 9500-8000 cal yr BP, however, vegetation composition began to differentiate between lowland and upland sites. Lowland sites had higher percentages of Quercus pollen, whereas Tsuga abundance was higher at the upland sites. This spatial heterogeneity strengthened between 8000 and 5500 cal yr BP, when Fagus became abundant in the uplands and Quercus pollen percentages increased further in the lowland records. The differentiation of upland and lowland vegetation zones remained strong during the mid-Holocene Tsuga decline (5500-3500 cal yr BP), but the pattern weakened during the late-Holocene (3500-300 cal yr BP) and European-settlement intervals. Within-group similarity declined in response to the uneven late-Holocene expansion of Castanea, while between-group similarity increased due to homogenization of the regional vegetation by forest clearance and ongoing disturbances. Main conclusions The regional gradient of vegetation composition across southern New England was first established between 9500 and 8000 cal yr BP. The spatial heterogeneity of the vegetation may have arisen at that time in response to the development or strengthening of the regional climatic gradient. Alternatively, the differentiation of upland and lowland vegetation types may have occurred as the climate ameliorated and an increasing number of species arrived in the region, arranging themselves in progressively more complex vegetation patterns across relatively stationary environmental gradients. The emergence of a regional vegetational gradient in southern New England may be a manifestation of the increasing number of species and more finely divided resource gradient.
DOI: 10.6073/pasta/6e002e5a60163c468211ee77c12006f8
title: Lake Sediment Pollen from Blood Pond in Dudley MA from 15000 BP to Present

description: Aim We analysed lake-sediment pollen records from eight sites in southern New England to address: (1) regional variation in ecological responses to post-glacial climatic changes, (2) landscape-scale vegetational heterogeneity at different times in the past, and (3) environmental and ecological controls on spatial patterns of vegetation. Location The eight study sites are located in southern New England in the states of Massachusetts and Connecticut. The sites span a climatic and vegetational gradient from the lowland areas of eastern Massachusetts and Connecticut to the uplands of north-central and western Massachusetts. Tsuga canadensis and Fagus grandifolia are abundant in the upland area, while Quercus, Carya and Pinus species have higher abundances in the lowlands. Results Our analyses revealed a sequence of vegetational responses to climate changes occurring across southern New England during the past 14,000 calibrated radiocarbon years before present (cal yr BP). Pollen assemblages at all sites were dominated by Picea and Pinus banksiana between 14,000 and 11,500 cal yr BP; by Pinus strobus from 11,500 to 10,500 cal yr BP; and by P. strobus and Tsuga between 10,500 and 9500 cal yr BP. At 9500-8000 cal yr BP, however, vegetation composition began to differentiate between lowland and upland sites. Lowland sites had higher percentages of Quercus pollen, whereas Tsuga abundance was higher at the upland sites. This spatial heterogeneity strengthened between 8000 and 5500 cal yr BP, when Fagus became abundant in the uplands and Quercus pollen percentages increased further in the lowland records. The differentiation of upland and lowland vegetation zones remained strong during the mid-Holocene Tsuga decline (5500-3500 cal yr BP), but the pattern weakened during the late-Holocene (3500-300 cal yr BP) and European-settlement intervals. Within-group similarity declined in response to the uneven late-Holocene expansion of Castanea, while between-group similarity increased due to homogenization of the regional vegetation by forest clearance and ongoing disturbances. Main conclusions The regional gradient of vegetation composition across southern New England was first established between 9500 and 8000 cal yr BP. The spatial heterogeneity of the vegetation may have arisen at that time in response to the development or strengthening of the regional climatic gradient. Alternatively, the differentiation of upland and lowland vegetation types may have occurred as the climate ameliorated and an increasing number of species arrived in the region, arranging themselves in progressively more complex vegetation patterns across relatively stationary environmental gradients. The emergence of a regional vegetational gradient in southern New England may be a manifestation of the increasing number of species and more finely divided resource gradient.
DOI: 10.6084/m9.figshare.14839530
title: Pol_II_shCr.bw

description: Pol II
DOI: 10.6084/m9.figshare.14839530.v1
title: Pol_II_shCr.bw

description: Pol II
DOI: 10.5519/qd.39vtsohs
title: Query on the Natural History Museum Data Portal (data.nhm.ac.uk) (1001 records)
DOI: 10.5066/p98ozqn9
title: Borehole Video and Aquifer Test Data for the Burnpit Well, Mount Rushmore National Memorial, South Dakota, 2020

description: This data release contains borehole video and aquifer-test data for the Burnpit well (U.S. Geological Survey [USGS] National Water Information System identification 435240103265301), Mount Rushmore National Memorial, collected in June and July 2020. The data accompany a USGS Scientific Investigations Report by Eldridge and others (2021).
DOI: 10.5281/zenodo.5027540
title: EMUE-D2-4-NanoparticleHeightMeasurements

description: This example presents an uncertainty evaluation of nanoparticle size by AFM, by means of an optimised Design of Experiment for a hierarchical mixed model in a Bayesian framework approach. It can be particularly useful to adapt to cases of uncertainty evaluation when no measurement model is available. Traceability (calibration) and uncertainty evaluation are both considered. Attention is also given to optimization of measurement time, by using an optimized design of experiment; which might be particularly useful for commercial application of this model: accredited calibration service, for example. The files of this dataset comprise supporting information to the example EMUE-D2-4-NanoparticleHeightMeasurements of uncertainty evaluation of the compendium made by the EMUE consortium (Euramet EMPIR project EMUE). It is also related to example EMUE-D5-1-PixelVoxelUncertainty, also present on Zenodo. The LaTeX source of the document is also attached to the document. The uncertainty evaluation explained in the document can be done by the user, using data files and R code present in the docuemnt. Comments inside the file provide further explanations. Please contact the authors for any question you might have about the following content and its possible use. <strong>Nanoparticle_run.R</strong>: Nanoparticle R script of uncertainty evaluation. It runs the Nanoparticle_model.stan stan model on data from Nanoparticle_data.csv and Nanoparticle_fixedEffects_coding.csv. <strong>Nanoparticle_model.stan</strong>: Stan model for the statistical model and the associated derived quantities <strong>Nanoparticle_data.csv</strong>: Raw AFM measurement data for nanoparticles <strong>Nanoparticle_fixedEffects_coding.csv</strong>: Effect-type coding of the fixed effects. <strong>Nanoparticle_evaluation.RData</strong>: Result of the MCMC estimation (model fitting), as produced by the script Nanoparticle_run.R for a small chain estimation
description: The example closely relates to the following publication: J. Pétry, B. De Boeck, N. Sebaïhi, M. Coenegrachts, T. Caebergs, and M. Dobre. "Uncertainty evaluation in atomic force microscopy measurement of nanoparticles based on statistical mixed model in a Bayesian framework". Measurement Science and Technology, 32(8):085008, 2021. doi:10.1088/1361-6501/abe47f.
DOI: 10.5281/zenodo.5027539
title: EMUE-D2-4-NanoparticleHeightMeasurements

description: This example presents an uncertainty evaluation of nanoparticle size by AFM, by means of an optimised Design of Experiment for a hierarchical mixed model in a Bayesian framework approach. It can be particularly useful to adapt to cases of uncertainty evaluation when no measurement model is available. Traceability (calibration) and uncertainty evaluation are both considered. Attention is also given to optimization of measurement time, by using an optimized design of experiment; which might be particularly useful for commercial application of this model: accredited calibration service, for example. The files of this dataset comprise supporting information to the example EMUE-D2-4-NanoparticleHeightMeasurements of uncertainty evaluation of the compendium made by the EMUE consortium (Euramet EMPIR project EMUE). It is also related to example EMUE-D5-1-PixelVoxelUncertainty, also present on Zenodo. The LaTeX source of the document is also attached to the document. The uncertainty evaluation explained in the document can be done by the user, using data files and R code present in the docuemnt. Comments inside the file provide further explanations. Please contact the authors for any question you might have about the following content and its possible use. <strong>Nanoparticle_run.R</strong>: Nanoparticle R script of uncertainty evaluation. It runs the Nanoparticle_model.stan stan model on data from Nanoparticle_data.csv and Nanoparticle_fixedEffects_coding.csv. <strong>Nanoparticle_model.stan</strong>: Stan model for the statistical model and the associated derived quantities <strong>Nanoparticle_data.csv</strong>: Raw AFM measurement data for nanoparticles <strong>Nanoparticle_fixedEffects_coding.csv</strong>: Effect-type coding of the fixed effects. <strong>Nanoparticle_evaluation.RData</strong>: Result of the MCMC estimation (model fitting), as produced by the script Nanoparticle_run.R for a small chain estimation
description: The example closely relates to the following publication: J. Pétry, B. De Boeck, N. Sebaïhi, M. Coenegrachts, T. Caebergs, and M. Dobre. "Uncertainty evaluation in atomic force microscopy measurement of nanoparticles based on statistical mixed model in a Bayesian framework". Measurement Science and Technology, 32(8):085008, 2021. doi:10.1088/1361-6501/abe47f.
DOI: 10.5519/qd.ey25pvkw
title: Query on the Natural History Museum Data Portal (data.nhm.ac.uk) (4111 records)
DOI: 10.25810/jck1-hf50.38
title: United States Newspaper Coverage of Climate Change or Global Warming, 2000-2021 - May 2021

description:         The Media and Climate Change Observatory Data monitors 127 sources (across newspapers, radio and TV) in 59 countries in seven different regions around the world. Data is assembled by accessing archives through the Lexis Nexis, Proquest and Factiva databases via the University of Colorado libraries. More information may be found at: http://mecco.colorado.edu.