cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6069/ffcw-g217
title: A comprehensive LFQ benchmark dataset on modern day acquisition strategies in proteomics

description: In the last decade, a revolution in liquid chromatography-mass spectrometry (LC-MS) based proteomics was unfolded with the introduction of dozens of novel instruments that incorporate additional data dimensions through innovative acquisition methodologies, in turn inspiring specialized data analysis pipelines. Simultaneously, a growing number of proteomics datasets have been made publicly available through data repositories such as ProteomeXchange, Zenodo and Skyline Panorama. However, developing algorithms to mine this data and assessing the performance on different platforms is currently hampered by the lack of a single benchmark experimental design. Therefore, we acquired a hybrid proteome mixture on different instrument platforms and in all currently available families of data acquisition. Here, we present a comprehensive Data-Dependent and Data-Independent Acquisition (DDA/DIA) dataset acquired using several of the most commonly used current day instrumental platforms. The dataset consists of over 700 LC-MS runs, including adequate replicates allowing robust statistics and covering over nearly 10 different data formats, including scanning quadrupole and ion mobility enabled acquisitions. Datasets are available via ProteomeXchange (PXD028735).
DOI: 10.23728/b2share.630494e719334c3ab6ba347611fe30d9
title: Participant dataset submitted by MetaPhOrs_v.2.5

description: Participant dataset submitted by participant MetaPhOrs_v.2.5 for 'Quest for Orthologs - 2020 Reference Proteomes' benchmarking event.
DOI: 10.15468/gd9x2a
title: A new species and a new synonym in Pandanus subg. Rykia (Pandanaceae) in Thailand

description: This dataset contains the digitized treatments in Plazi based on the original journal article Callmander, Martin W., Buerki, Sven (2018): A new species and a new synonym in Pandanus subg. Rykia (Pandanaceae) in Thailand. Candollea 73 (1): 115-120, DOI: 10.15553/c2018v731a12
DOI: 10.6084/m9.figshare.17032874
title: Annotation of the earthworm Eisenia fetida transcriptome

description: Annotation of the <i>Eisenia fetida</i> transcriptome.
DOI: 10.6084/m9.figshare.17032961
title: Supplemental Material

description: Supplemental Material to mSystems manuscript
DOI: 10.6084/m9.figshare.17032961.v1
title: Supplemental Material

description: Supplemental Material to mSystems manuscript
DOI: 10.15468/xrtwyv
title: Nouveautés taxonomiques et nomenclaturales dans le genre Euphorbia (Euphorbiaceae) à Madagascar

description: This dataset contains the digitized treatments in Plazi based on the original journal article Castillon, Jean-Philippe, Castillon, Jean-Bernard (2019): Nouveautés taxonomiques et nomenclaturales dans le genre Euphorbia (Euphorbiaceae) à Madagascar. Candollea 74 (2): 159-167, DOI: 10.15553/c2019v742a6
DOI: 10.15468/37v8g8
title: Revision of the troglomorphic genus Troglostygnopsis Šilhavý, 1974 (Opiliones, Laniatores, Stygnopsidae)

description: This dataset contains the digitized treatments in Plazi based on the original journal article Cruz-López, Jesús A., Francke, Oscar F. (2021): Revision of the troglomorphic genus Troglostygnopsis Šilhavý, 1974 (Opiliones, Laniatores, Stygnopsidae). European Journal of Taxonomy 735: 74-88, DOI: https://doi.org/10.5852/ejt.2021.735.1241
DOI: 10.5281/zenodo.5708121
title: GYU-KING Rock art panel Multi-Light Reflectance Dataset, trial02

description: --------------------------------------------------------------------------------------------------------------<br> GYU-KING ROCK ART PANEL MULTI-LIGHT REFLECTANCE DATASET, TRIAL02 <br> --------------------------------------------------------------------------------------------------------------- GYU-KING_Trial02_RTI Dataset composed during the National Geographic Society 'Tracing Paleolithic Aurochs: Rock Art Survey in Upper Egypt' project<br> directed by Dr. Dirk Huyge (Royal Museums of Art and History, Brussels) ________________________________________________ WHAT Multi-Light Reflectance (MLR) / Reflectance Transformation Imaging (RTI) dataset<br> - 49 original raw images (.nef, NIKON D800E)<br> - 49 derivates (.jpg)<br> - RTI Builder processing files<br> - MLR/RTI processed result HSH RTI (.rti)<br> - MLR/RTI processed result (.ptm)<br> - MLR/RTI processed result (.scml)<br> - 3D processed result based on conversion of HSH RTI into SCML into 3D (.ply, .obj) &gt;&gt;&gt;&gt;the .rti, .ptm and .scml files can (among others) be consulted via https://www.heritage-visualisation.org/viewer/&lt;&lt;&lt;&lt; DEPICTING The GYU-KING rock art panel and some surrounding rocks at Gebelet Yussef (Edfu, Aswan Governorate - N24.730935,E32.921496)<br> Specifications:<br> - Pictures taken during daytime (time setting on camera, in technical metadata, is incorrect!) under bright light conditions by the sun, date of data acquisition 2014-11-15<br> - A powerful flash light was used for the multi-light reflectance method (see https://doi.org/10.5281/zenodo.48060 for extra information)<br> - The obtained processed MLR/RTI models have, or have not, been cropped with the focus on the rock art panel. DATA ACQUISITION Hendrik Hameeuw & Wouter Claes PROCESSING Hendrik Hameeuw & Vincent Vanweddingen<br> _________________________________________________________<br>
DOI: 10.5281/zenodo.5708120
title: GYU-KING Rock art panel Multi-Light Reflectance Dataset, trial02

description: --------------------------------------------------------------------------------------------------------------<br> GYU-KING ROCK ART PANEL MULTI-LIGHT REFLECTANCE DATASET, TRIAL02 <br> --------------------------------------------------------------------------------------------------------------- GYU-KING_Trial02_RTI Dataset composed during the National Geographic Society 'Tracing Paleolithic Aurochs: Rock Art Survey in Upper Egypt' project<br> directed by Dr. Dirk Huyge (Royal Museums of Art and History, Brussels) ________________________________________________ WHAT Multi-Light Reflectance (MLR) / Reflectance Transformation Imaging (RTI) dataset<br> - 49 original raw images (.nef, NIKON D800E)<br> - 49 derivates (.jpg)<br> - RTI Builder processing files<br> - MLR/RTI processed result HSH RTI (.rti)<br> - MLR/RTI processed result (.ptm)<br> - MLR/RTI processed result (.scml)<br> - 3D processed result based on conversion of HSH RTI into SCML into 3D (.ply, .obj) &gt;&gt;&gt;&gt;the .rti, .ptm and .scml files can (among others) be consulted via https://www.heritage-visualisation.org/viewer/&lt;&lt;&lt;&lt; DEPICTING The GYU-KING rock art panel and some surrounding rocks at Gebelet Yussef (Edfu, Aswan Governorate - N24.730935,E32.921496)<br> Specifications:<br> - Pictures taken during daytime (time setting on camera, in technical metadata, is incorrect!) under bright light conditions by the sun, date of data acquisition 2014-11-15<br> - A powerful flash light was used for the multi-light reflectance method (see https://doi.org/10.5281/zenodo.48060 for extra information)<br> - The obtained processed MLR/RTI models have, or have not, been cropped with the focus on the rock art panel. DATA ACQUISITION Hendrik Hameeuw & Wouter Claes PROCESSING Hendrik Hameeuw & Vincent Vanweddingen<br> _________________________________________________________<br>
DOI: 10.6084/m9.figshare.16941366.v1
title: House dust mite-derived allergens effect on matrix metalloproteases in airway epithelial cells

description: <b>Aim of the Study</b>: Many allergens have protease activities. Although the immunomodulatory effects of these antigens are well known, the effects attributed to their protease activities are not thoroughly investigated. We set out to determine the effects of house dust mite (HDM) allergens with varying protease activities on bronchial epithelial cell functions. <b>Materials and methods:</b> BEAS-2B cells were maintained in ALI-culture and stimulated with Der p1 (cysteine protease), Der p6 (serine protease), and Der p2 (non-protease) with and without specific protease inhibitors or heat denaturation. Cell viability and epithelial permeability were measured with MTT and paracellular flux assay, respectively. The effect of heat denaturation on allergen structure was examined using <i>in silico</i> models. Matrix metalloproteinases (MMPs) were investigated at the transcription (qPCR), protein (ELISA), and functional (zymography) levels. <b>Results:</b> Epithelial permeability increased only after Der p6 but not after Der p1 or Der p2 stimulation. Der p2 increased both MMP-2 and MMP-9 expression, while Der p1 increased only MMP-9 expression. The heat-denatured form of Der p1 unexpectedly increased MMP-9 gene expression, which, through the use of <i>in silico</i> models, was attributed to its ability to change receptor connections by the formation of new electrostatic and hydrogen bonds. IL-8 and GM-CSF production were increased after Der p1 and Der p2 but decreased after Der p6 stimulation. IL-6 decreased after Der p1 but increased following stimulation with Der p6 and heat-denatured Der p2. <b>Conclusion:</b> Allergens in house dust mites are capable of inducing various changes in the epithelial cell functions by virtue of their protease activities.
DOI: 10.6084/m9.figshare.16941366
title: House dust mite-derived allergens effect on matrix metalloproteases in airway epithelial cells

description: <b>Aim of the Study</b>: Many allergens have protease activities. Although the immunomodulatory effects of these antigens are well known, the effects attributed to their protease activities are not thoroughly investigated. We set out to determine the effects of house dust mite (HDM) allergens with varying protease activities on bronchial epithelial cell functions. <b>Materials and methods:</b> BEAS-2B cells were maintained in ALI-culture and stimulated with Der p1 (cysteine protease), Der p6 (serine protease), and Der p2 (non-protease) with and without specific protease inhibitors or heat denaturation. Cell viability and epithelial permeability were measured with MTT and paracellular flux assay, respectively. The effect of heat denaturation on allergen structure was examined using <i>in silico</i> models. Matrix metalloproteinases (MMPs) were investigated at the transcription (qPCR), protein (ELISA), and functional (zymography) levels. <b>Results:</b> Epithelial permeability increased only after Der p6 but not after Der p1 or Der p2 stimulation. Der p2 increased both MMP-2 and MMP-9 expression, while Der p1 increased only MMP-9 expression. The heat-denatured form of Der p1 unexpectedly increased MMP-9 gene expression, which, through the use of <i>in silico</i> models, was attributed to its ability to change receptor connections by the formation of new electrostatic and hydrogen bonds. IL-8 and GM-CSF production were increased after Der p1 and Der p2 but decreased after Der p6 stimulation. IL-6 decreased after Der p1 but increased following stimulation with Der p6 and heat-denatured Der p2. <b>Conclusion:</b> Allergens in house dust mites are capable of inducing various changes in the epithelial cell functions by virtue of their protease activities.
DOI: 10.5281/zenodo.5168685
title: LBHL (~170 nm) UVI images of Polar satellite from December 1996 to January 1997

description: The UVI aboard the Polar satellite can obtain the ultraviolet auroral intensity distribution in the northern hemisphere. In order to reduce the influence of dayglow on UVI image data, we only used LBHL (~170 nm) UVI images from December 1996 to January 1997, which have full aurora oval (the aurora oval region in the northern hemisphere during this period is in the polar night region, and the aurora image is weakly affected by dayglow and solar light). Each image has a pixel size of 200×228 and a spatial resolution of about 0.04° per pixel (UVI auroral images of Polar satellite taken at apogee have a pixel size of 40×40 km at 100 km above the ground), and the value of each pixel is converted to the value with auroral intensity, the unit is photons/cm<sup>2</sup>/s. These UVI data is save as the mat file of Matlab.
DOI: 10.5281/zenodo.5168684
title: LBHL (~170 nm) UVI images of Polar satellite from December 1996 to January 1997

description: The UVI aboard the Polar satellite can obtain the ultraviolet auroral intensity distribution in the northern hemisphere. In order to reduce the influence of dayglow on UVI image data, we only used LBHL (~170 nm) UVI images from December 1996 to January 1997, which have full aurora oval (the aurora oval region in the northern hemisphere during this period is in the polar night region, and the aurora image is weakly affected by dayglow and solar light). Each image has a pixel size of 200×228 and a spatial resolution of about 0.04° per pixel (UVI auroral images of Polar satellite taken at apogee have a pixel size of 40×40 km at 100 km above the ground), and the value of each pixel is converted to the value with auroral intensity, the unit is photons/cm<sup>2</sup>/s. These UVI data is save as the mat file of Matlab.
DOI: 10.15468/znga99
title: Un nouveau nom dans la tribu des Vanguerieae (Rubiaceae) de Madagascar

description: This dataset contains the digitized treatments in Plazi based on the original journal article Atalahy, Anselme M., Rakotonasolo, Franck, Andriambololonera, Sylvie, Rabarimanarivo, Marina, Ranarijaona, Hery Lisy, Razafimandimbison, Sylvain G. (2020): Un nouveau nom dans la tribu des Vanguerieae (Rubiaceae) de Madagascar. Candollea 75 (1): 71-73, DOI: 10.15553/c2020v751a6
DOI: 10.5281/zenodo.5708033
title: Archaeological Sites in Slovak Republic - Harmonized Dataset

description: A registry of archaeological sites in Slovak Republic, based on the dataset "Centrálna evidencia archeologických nálezísk na Slovensku (skúšobná prevádzka)" ("Central Evidence of Archaeological Sites in Slovakia (test version)") by The Institute of Archaeology of the Slovak Academy of Sciences available as WFS from the National Geoportal (https://geoportal.gov.sk/) Source data: https://maps.geop.sazp.sk:443/geoserver/wfs The dataset was created by correcting the information about archaeological dating (culture) and creating individual records for each dating, to enable filtering by era and culture. The language of the dataset is Slovak. <strong>Format:</strong> ESRI Shapefile <strong>CRS: </strong>S-JTSK / Krovak East North, EPSG: 5514 <strong>Fields:</strong> <strong>fid</strong>: Record identifier <strong>kataster</strong>: Cadastre name <strong>obec</strong>: Town or village name <strong>poloha</strong>: Location name <strong>stlok</strong>: degree of location accuracy (1 - accurate, 2 - accurate, localized according to text description, 3 - inaccurate, center of the built-up area of the cadastre, -1 - unknown) <strong>druhnal</strong>: type of site <strong>c_aktivity</strong>: number of archaeological activity <strong>rokevid</strong>: year of evidence of the archaeological activity <strong>datovanie</strong>: dating (culture) <strong>dat_era</strong>: dating (era) <strong>dat_popis</strong>: dating (description) <strong>dat_orig</strong>: original dating entry before harmonization
DOI: 10.5281/zenodo.5708032
title: Archaeological Sites in Slovak Republic - Harmonized Dataset

description: A registry of archaeological sites in Slovak Republic, based on the dataset "Centrálna evidencia archeologických nálezísk na Slovensku (skúšobná prevádzka)" ("Central Evidence of Archaeological Sites in Slovakia (test version)") by The Institute of Archaeology of the Slovak Academy of Sciences available as WFS from the National Geoportal (https://geoportal.gov.sk/) Source data: https://maps.geop.sazp.sk:443/geoserver/wfs The dataset was created by correcting the information about archaeological dating (culture) and creating individual records for each dating, to enable filtering by era and culture. The language of the dataset is Slovak. <strong>Format:</strong> ESRI Shapefile <strong>CRS: </strong>S-JTSK / Krovak East North, EPSG: 5514 <strong>Fields:</strong> <strong>fid</strong>: Record identifier <strong>kataster</strong>: Cadastre name <strong>obec</strong>: Town or village name <strong>poloha</strong>: Location name <strong>stlok</strong>: degree of location accuracy (1 - accurate, 2 - accurate, localized according to text description, 3 - inaccurate, center of the built-up area of the cadastre, -1 - unknown) <strong>druhnal</strong>: type of site <strong>c_aktivity</strong>: number of archaeological activity <strong>rokevid</strong>: year of evidence of the archaeological activity <strong>datovanie</strong>: dating (culture) <strong>dat_era</strong>: dating (era) <strong>dat_popis</strong>: dating (description) <strong>dat_orig</strong>: original dating entry before harmonization
DOI: 10.5517/ccdc.csd.cc27fbst
title: CCDC 2068406: Experimental Crystal Structure Determination

description: Related Article: Jun Liu, Longhui Yu, Changwu Zheng, Gang Zhao|2021|Angew.Chem.,Int.Ed.|60|23641|doi:10.1002/anie.202111376
DOI: 10.5517/ccdc.csd.cc27fbvw
title: CCDC 2068408: Experimental Crystal Structure Determination

description: Related Article: Jun Liu, Longhui Yu, Changwu Zheng, Gang Zhao|2021|Angew.Chem.,Int.Ed.|60|23641|doi:10.1002/anie.202111376
DOI: 10.5517/ccdc.csd.cc27fbwx
title: CCDC 2068409: Experimental Crystal Structure Determination

description: Related Article: Jun Liu, Longhui Yu, Changwu Zheng, Gang Zhao|2021|Angew.Chem.,Int.Ed.|60|23641|doi:10.1002/anie.202111376
DOI: 10.5517/ccdc.csd.cc27fbxy
title: CCDC 2068410: Experimental Crystal Structure Determination

description: Related Article: Jun Liu, Longhui Yu, Changwu Zheng, Gang Zhao|2021|Angew.Chem.,Int.Ed.|60|23641|doi:10.1002/anie.202111376
DOI: 10.5517/ccdc.csd.cc27fbyz
title: CCDC 2068411: Experimental Crystal Structure Determination

description: Related Article: Jun Liu, Longhui Yu, Changwu Zheng, Gang Zhao|2021|Angew.Chem.,Int.Ed.|60|23641|doi:10.1002/anie.202111376
DOI: 10.5517/ccdc.csd.cc27fbz0
title: CCDC 2068412: Experimental Crystal Structure Determination

description: Related Article: Jun Liu, Longhui Yu, Changwu Zheng, Gang Zhao|2021|Angew.Chem.,Int.Ed.|60|23641|doi:10.1002/anie.202111376
DOI: 10.15468/6xav83
title: Three Critically Endangered new species of Capurodendron (Sapotaceae) from Madagascar

description: This dataset contains the digitized treatments in Plazi based on the original journal article Gautier, Laurent, Naciri, Yamama (2018): Three Critically Endangered new species of Capurodendron (Sapotaceae) from Madagascar. Candollea 73 (1): 121-129, DOI: 10.15553/c2018v731a13
DOI: 10.5281/zenodo.5708215
title: msd-errors - Data for variance and covariance figure

description: Data for a figure that presents the variance and covariance for a true random walk. There is a comparison shown between the numerical result from 1024 unique random walks and the analysis, by kinisi, of the same 1024 random walks.<br><br>Created using showyourwork from this GitHub repo.
DOI: 10.5281/zenodo.5706731
title: Validation of Work Values Instrument in Final Year University Students

description: <em>This is the raw dataset when we conducted the adaptation of the work values instrument in final year students. The number of participants in this study was 316 students, comprised of final year students from various majors who were selected by quota sampling. The raw dataset has been disseminated in the undergraduate thesis defense, so the publication date stated above is referring to it. The raw data set has never been published elsewhere. </em>
DOI: 10.5281/zenodo.5706730
title: Validation of Work Values Instrument in Final Year University Students

description: <em>This is the raw dataset when we conducted the adaptation of the work values instrument in final year students. The number of participants in this study was 316 students, comprised of final year students from various majors who were selected by quota sampling. The raw dataset has been disseminated in the undergraduate thesis defense, so the publication date stated above is referring to it. The raw data set has never been published elsewhere. </em>
DOI: 10.18430/m37sqe
title: X-ray diffraction data for the papain-Like Protease of SARS CoV-2, C111S mutant, in complex with Jun9-84-3 inhibitor (7SQE)
DOI: 10.6084/m9.figshare.17033069.v1
title: SLA_July_25_2006

description: cds.climate.copernicus.eu
DOI: 10.6084/m9.figshare.17033069
title: SLA_July_25_2006

description: cds.climate.copernicus.eu
DOI: 10.6084/m9.figshare.16649146
title: Saddlepoint Approximations for Spatial Panel Data Models

description: We develop new higher-order asymptotic techniques for the Gaussian maximum likelihood estimator in a spatial panel data model, with fixed effects, time-varying covariates, and spatially correlated errors. Our saddlepoint density and tail area approximation feature <i>relative error</i> of order O(1/(n(T−1))) with <i>n</i> being the cross-sectional dimension and <i>T</i> the time-series dimension. The main theoretical tool is the tilted-Edgeworth technique in a nonidentically distributed setting. The density approximation is always nonnegative, does not need resampling, and is accurate in the tails. Monte Carlo experiments on density approximation and testing in the presence of nuisance parameters illustrate the good performance of our approximation over first-order asymptotics and Edgeworth expansion. An empirical application to the investment–saving relationship in OECD (Organisation for Economic Co-operation and Development) countries shows disagreement between testing results based on the first-order asymptotics and saddlepoint techniques. Supplementary materials for this article, including a standardized description of the materials available for reproducing the work, are available as an online supplement.
DOI: 10.6084/m9.figshare.16649146.v2
title: Saddlepoint Approximations for Spatial Panel Data Models

description: We develop new higher-order asymptotic techniques for the Gaussian maximum likelihood estimator in a spatial panel data model, with fixed effects, time-varying covariates, and spatially correlated errors. Our saddlepoint density and tail area approximation feature <i>relative error</i> of order O(1/(n(T−1))) with <i>n</i> being the cross-sectional dimension and <i>T</i> the time-series dimension. The main theoretical tool is the tilted-Edgeworth technique in a nonidentically distributed setting. The density approximation is always nonnegative, does not need resampling, and is accurate in the tails. Monte Carlo experiments on density approximation and testing in the presence of nuisance parameters illustrate the good performance of our approximation over first-order asymptotics and Edgeworth expansion. An empirical application to the investment–saving relationship in OECD (Organisation for Economic Co-operation and Development) countries shows disagreement between testing results based on the first-order asymptotics and saddlepoint techniques. Supplementary materials for this article, including a standardized description of the materials available for reproducing the work, are available as an online supplement.