cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.15156/bio/sh2711886.08fu
title: SH2711886.08FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.15156/bio/sh2711887.08fu
title: SH2711887.08FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.5066/p9swo5oo
title: Meteor Crater, Northern Arizona: Drill Hole Sample Collection, 1970-1973, and Curation, 2010-2013

description: Meteor Crater, located in northern Arizona, is one of the best preserved and easily accessible impact sites on Earth. Scientific investigations of this crater have led to improvements in our understanding of impact mechanics, cratering dynamics, and ejecta distribution [e.g., 1-5]. In addition, this site has a rich history as a terrestrial analog that has been used for training astronauts, scientists, and engineers [e.g., 6-8]. In the 1970s Dr. David Roddy conducted a rotary drilling campaign at Meteor Crater, along the rim, flanks, and surrounding ejecta blanket [9]. This work resulted in 2,500 m of drill cuttings from 161 drill holes. The original samples were placed in sandwich-sized plastic bags with slips of paper that recorded drilling information (depth, hardness, losses) and sample notes [10]. They were stored in core boxes labeled with the drill hole number and footage interval. In 2008, a modern curation process was begun to properly document and store these invaluable samples, following procedures developed with guidance from the USGS Core Research Center. Samples were transferred to 200 mL polyethylene bags and placed in new, more durable storage boxes. All pertinent information from each sample bag was recorded in a digital database. For long-term archival purposes, 5 mL of representative material from each drill hole sample was placed in a separate 20 mL polyethylene bag labeled with the drill hole number and depth. Each archival sample was placed in a protective manila coin envelopes, labeled with drill hole number and depth. The archival sample collection is stored in a separate building from the full sample collection. The Meteor Crater Sample Collection is stored on the USGS Flagstaff campus. Images and sample data can be accessed electronically through the USGS Astrogeology website (https://www.usgs.gov/centers/astrogeology-science-center/science/terrestrial-analog-sample-collections?qt-science_center_objects=0#qt-science_center_objects). This site includes an interactive map and links to drill hole documentation and database, as well as sample request forms. 1. Shoemaker, E. M. (1959) USGS OFR 59-108. 2. Shoemaker, E. M. (1963) In: Moon, Meteorites, and Comets, v. 4, p. 301-336. 3. Mittlefehldt, D. W. (2005) GSA Special Paper v. 384, p. 367-390. 4. Artemieva, N. and Pierazzo, E. (2009) Meteor. and Planet. Sci. v. 44, p. 25-42. 5. Artemieva, N. and Pierazzo, E. (2011) Meteor. and Planet. Sci. v. 46, p. 805-829. 6. Schaber, G. G. (2005) USGS OFR 2005-1190, 1161 p. 7. Kring, D. A. (2007) Lunar and Planetary Inst. 150 p. 8. Evans, C. A., et at. (2020) AGU Fall meeting, abstract #P063-01. 9. Roddy, D. J., et al. (1975) Proc. Lunar Sci. Conf. 6th, p. 2621-2644. 10. Hagerty, J. J. et al. (2010) Lunar and Planetary Science Conference, abstract #2213.
DOI: 10.25345/c5rf5kr4j
title: MassIVE MSV000091316 - Proteome profiling of rat brain cortical changes during early postnatal brain development
title: This dataset was for a manuscript to be submitted for review to J. Proteome Res. The manuscript title is: Proteome profiling of rat brain cortical changes during early postnatal brain development. The first and corresponding author is Witold M. Winnik. This dataset contains 96 .raw files, 16 .msf (PDv2.5) files, the protein results file exported to Excel from PD2.5: S-Data-Table-1 _file protected by W Winnik, LCMS sequence file and Proteome Discoverer processed msf files - explanation -W Winnik Protected file describing the LCMC sample sequence and explaining the msf file structure, S-Table-Processing_File protected by W Winnik, the report file showing PDv2.5 data processing parameters for the first stage of the data processing (protein identification), S-Table-Consensus _File protected by W Winnik, the second stage (LFQ quantitation) parameters exported from PDv2.5 describing the details of the label free quantitation and its parameters used by Proteome Discoverer v2.5.
DOI: 10.6073/pasta/3092b4b6abc7c4cead8dae2d1fc5fd0b
title: Stable oxygen isotope ratios of water (H2O-d18O) from river, lagoon, and open ocean sites along the Alaska Beaufort Sea coast, 2019-ongoing

description: Multiple water types (river, lagoon, ocean) from the North Slope of Alaska and nearshore Beaufort Sea are sampled seasonally by the Beaufort Lagoon Ecosystems LTER (BLE LTER) Core Program to investigate biogeochemical linkages between terrestrial, lagoon, and open ocean ecosystems. Water samples are collected during full ice cover (April), ice break-up (mid-June to early July), and open water (late July and August) periods, and analyzed for delta 18O (ratio of oxygen-18 to oxygen-16) to use in mixing models for source water contribution.
DOI: 10.6084/m9.figshare.22118468
title: How good is TanDEM-X 50 m Forest/Non-Forest Map? Product Validation using Temporally Corrected Geo-Browser Supplied Imagery through Collect Earth

description: TanDEM-X Forest/Non-Forest (FNF) map(s) have been one such data focusing on the status of global forest coverage, which has played an essential role in combating climate change. Although the producers have carried out verification and comparison analyses, the need for accuracy assessments in a broader sense creates uncertainties for the users to approve the new data. For this purpose, TanDEM-X 50 m FNF maps were exclusively examined visually through 66,000 test grids within 30 geocells selected from temperate, boreal, and tropical forest zones. Thus, it was aimed to provide product accuracy utilizing visual inspections to the end users of TanDEM-X FNF maps. In addition, Collect Earth (CE) software was used to evaluate the dataset visually, and its advantages or disadvantages were compared with similarly designed studies. Consequently, even though the producers’ data sets were found to have an accuracy of around 85 percent, it was observed that there were some issues, especially in the definition of the “non-forest” class. CE software was found to be helpful in such studies. However, the dependence of the analyses on geo-browser supplied imagery had some limitations in estimating the accuracy of a new dataset.
DOI: 10.6084/m9.figshare.22118468.v1
title: How good is TanDEM-X 50 m Forest/Non-Forest Map? Product Validation using Temporally Corrected Geo-Browser Supplied Imagery through Collect Earth

description: TanDEM-X Forest/Non-Forest (FNF) map(s) have been one such data focusing on the status of global forest coverage, which has played an essential role in combating climate change. Although the producers have carried out verification and comparison analyses, the need for accuracy assessments in a broader sense creates uncertainties for the users to approve the new data. For this purpose, TanDEM-X 50 m FNF maps were exclusively examined visually through 66,000 test grids within 30 geocells selected from temperate, boreal, and tropical forest zones. Thus, it was aimed to provide product accuracy utilizing visual inspections to the end users of TanDEM-X FNF maps. In addition, Collect Earth (CE) software was used to evaluate the dataset visually, and its advantages or disadvantages were compared with similarly designed studies. Consequently, even though the producers’ data sets were found to have an accuracy of around 85 percent, it was observed that there were some issues, especially in the definition of the “non-forest” class. CE software was found to be helpful in such studies. However, the dependence of the analyses on geo-browser supplied imagery had some limitations in estimating the accuracy of a new dataset.
DOI: 10.6084/m9.figshare.22120085
title: Data_for_Article

description: All the figurses of article can be found here.
DOI: 10.6084/m9.figshare.22120085.v1
title: Data_for_Article

description: All the figurses of article can be found here.
DOI: 10.24431/rw1k7d3
title: Coastal freshwater discharge simulations fo the Gulf of Alaska, 1931-2021

description: This dataset is an 82-year time series of freshwater discharge estimates from Southeast and Southcentral Alaska from 1931-2013. These estimates were produced from computer model simulations of the hydrology of the GOA watershed using MicroMet, SnowModel, SoilBal, and HydroFlow. The model output is on a daily time step and has a spatial resolution along the coastline of 1 km. Model output is in self-describing netCDF format. The refined model incorporates new inputs from from glacial melting and river discharge in British Columbia and was tuned using hydrographic data from the GAK1 mooring station. The GAK1 mooring has produced a 46-year time series of temperature and salinity measurements at at 59° 50.7' N, 149° 28.0' W, located within the Alaska Coastal Current and connected with the inner Gulf of Alaska shelf circulation. The dataset has been updated to include discharge estimates through 2021 and has been archived as a text-based .dat file for years 1291-2013, and as annual netCDF and csv files for each year from summer 2013 through summer 2021. These results were generated with support from the Gulf Watch Alaska (GWA), Pelagic Component of the Exxon Valdez Oil Spill Trustee Council, project numbers 12120114-P-2013120114-P, and the Northern Gulf of Alaska Long-Term Ecological Research program supported by the National Science Foundation (OCE-1656070).
DOI: 10.5517/ccdc.csd.cc2dqcbv
title: CCDC 2226027: Experimental Crystal Structure Determination

description: Related Article: Alexander J. Bukvic, Vera Kesselring, Michael Aeschlimann, Martin Albrecht|2023|Inorg.Chem.|62|2905|doi:10.1021/acs.inorgchem.2c04363
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc2d5j48
title: CCDC 2209839: Experimental Crystal Structure Determination

description: Related Article: Fan Hu, Xiaoping Yang, Xilong Leng, Chengri Wang, Keqin Yang, Lijie Zhang, Desmond Schipper|2023|Inorg.Chem.|62|2508|doi:10.1021/acs.inorgchem.2c04301
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc2f5fln
title: CCDC 2239551: Experimental Crystal Structure Determination

description: Related Article: U. Aguinaga, F.J. Oyinwola, M.J. Childs, S. Aldarkazanly, M. Yousufuddin|2023|IUCrData|8|x230096|doi:10.1107/S2414314623000962
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.25345/c5mp4vx99
title: MassIVE MSV000091317 - A phosphorylation-deficient isoform of the ribosomal protein eS6 is largely functional in laboratory-grown Arabidopsis thaliana
title: The phosphorylation of ribosomal protein eS6 is regulated in complex ways by the environment. This study was conducted to compare the protein levels in seedlings of Arabidopsis thaliana (Columbia ecotype) that differ in the expression level of eS6 and differ in the phosphorylation level of eS6. Proteins were isolated from seedlings of five genotypes that were grown in triplicate on agar medium. Genotypes: WT; rps6a mutant, which is a null allele for the eS6A paralog protein; rps6b mutant, which is a null allele for the eS6b paralog protein; rps6a rps6b double mutant complemented with a transgene expressing hemagglutinin-tagged eS6A protein (RPS6A-HA); rps6a rps6b double mutant complemented with a transgene expressing an essentially non-phosphorylatable version of eS6A (-6SA)
DOI: 10.5281/zenodo.7650364
title: Diffraction data for complex of vancomycin with N-acetyl-D-Ala-D-Ser

description: Raw diffraction images collected for a single crystal of the glycopeptide antibiotic vancomycin bound to N-acetyl-D-Ala-D-Ser (HDF5 format). Measured at beam line 17-ID-1 (AMX), NSLS-II, in December 2021, using an Eiger 9M detector. Other relevant metadata can be found in the file XDS.INP.
DOI: 10.5281/zenodo.7650363
title: Diffraction data for complex of vancomycin with N-acetyl-D-Ala-D-Ser

description: Raw diffraction images collected for a single crystal of the glycopeptide antibiotic vancomycin bound to N-acetyl-D-Ala-D-Ser (HDF5 format). Measured at beam line 17-ID-1 (AMX), NSLS-II, in December 2021, using an Eiger 9M detector. Other relevant metadata can be found in the file XDS.INP.
DOI: 10.5066/p9lu1pmq
title: MODFLOW-NWT model to simulate the groundwater flow system near Puget Sound, Pierce and King Counties, Washington

description: A three-dimensional groundwater flow model, constructed in MODFLOW-NWT, was developed to evaluate the groundwater flow system near Puget Sound, Pierce and King Counties, Washington. A steady-state model version was constructed to simulate equilibrium conditions, while a transient model version was constructed to simulate monthly variability from January 2005 to December 2015. The model was used to simulate several hydrologic scenarios. This data release contains the input and output files for the simulations described in the associated model documentation report (https://doi.org/10.3133/sir20XXXXXX).
DOI: 10.25345/c5gx4545z
title: MassIVE MSV000091318 - MS Leishmania Project _Canada samples
title: Leishmania promastigotes samples with virus infection and different mutants
DOI: 10.6084/m9.figshare.22090538.v4
title: HBCC_DLPFC-sgACC_snRNAseq_2023

description: The purpose of uploading the data here is to provide interactive data access to the users.
DOI: 10.25345/c5c53fb2m
title: MassIVE MSV000091319 - TMT labeling and LC-MS/MS strategy to quantify differentially abundant proteins among COVID-19 patients
title: Coronavirus Disease 2019 (COVID-19) is characterized by a dysregulated host response. Proteomic studies have shed light in its complex pathogenesis, but there are few studies using cells, such as peripheral blood mononuclear cells (PBMCs). Here, we used TMT-based quantitative proteomics to characterize PBMCs from COVID-19 patients along their clinical course. Blood samples were collected prospectively from 29 patients with COVID-19 (confirmed by PCR in a nasopharynx swab) and 11 healthy volunteers (HVs), between May and September 2020. Samples were obtained at the first day of admission (D0; n=30), after seven days of hospitalization (D7; n=17), and 31 days after hospital discharge (Convalescent Sample; CS30; n=15). Protein extraction, quantification, reducing/alkylating, methanol/chloroform precipitations, digestion, and TMT Labeling were performed in PBM. The mass spectrometric data were acquired in a Orbitrap Fusion Lumos and data analysis was performed in Proteome Discoverer and imported to the R software environment for further analysis.
DOI: 10.3886/e185067
title: Positionality

description: Preprint of positionality paper from PPS
DOI: 10.6084/m9.figshare.20324093
title: Non-utilization of oral health services and associated factors among children and adolescents: an integrative review

description: To review publications exploring non-utilization of oral health services and to identify factors associated with non-utilization of oral health services among children and adolescents. An integrative review design was adopted. A search was conducted for research articles published during the period from 2000 to April 2021 in five databases, Medline via Ovid, Scopus, CINAHL, Cochrane Library and Web of Science. Inclusion criteria were original articles examining non-utilization of oral health services among 0–19 years old and studies published in peer-reviewed journals in English. Thematic analysis was undertaken to identify common themes. The Newcastle-Ottawa scale was used to evaluate the quality of the studies. Twenty-one geographically diverse articles were included. Nineteen studies were cross-sectional, one was a prospective cohort and one a case-control study. Non-utilization of dental health services tended to be higher in children than adolescents. There were predisposing (age, gender, ethnicity, parent’s level of education), enabling (family income, dental insurance) and need factors (subjective and objective oral health related parameters) that had been shown to be associated with non-utilization of dental services among children and adolescents. This integrative review found predisposing, enabling and need factors to be associated with dental health service non-utilization.
DOI: 10.6084/m9.figshare.20324093.v1
title: Non-utilization of oral health services and associated factors among children and adolescents: an integrative review

description: To review publications exploring non-utilization of oral health services and to identify factors associated with non-utilization of oral health services among children and adolescents. An integrative review design was adopted. A search was conducted for research articles published during the period from 2000 to April 2021 in five databases, Medline via Ovid, Scopus, CINAHL, Cochrane Library and Web of Science. Inclusion criteria were original articles examining non-utilization of oral health services among 0–19 years old and studies published in peer-reviewed journals in English. Thematic analysis was undertaken to identify common themes. The Newcastle-Ottawa scale was used to evaluate the quality of the studies. Twenty-one geographically diverse articles were included. Nineteen studies were cross-sectional, one was a prospective cohort and one a case-control study. Non-utilization of dental health services tended to be higher in children than adolescents. There were predisposing (age, gender, ethnicity, parent’s level of education), enabling (family income, dental insurance) and need factors (subjective and objective oral health related parameters) that had been shown to be associated with non-utilization of dental services among children and adolescents. This integrative review found predisposing, enabling and need factors to be associated with dental health service non-utilization.
DOI: 10.6084/m9.figshare.13000103.v2
title: Stable isotope data for perch populations in German gravel pit lakes

description: These data were collected as part of the Baggersee project: https://www.igb-berlin.de/en/project/baggersee <br>Samples for stable isotope analysis were collected from 14 gravel pit lakes in Lower Saxony, Germany. Lakes' samples include fish (perch and cyprinids), zooplankton, benthic macroinvertebrates, and primary producers. <br>Analysis was completed by the Cornell Isotope Laboratory using a Thermo Delta V isotope ratio mass spectrometer interfaced to a NC2500 elemental analyzer. <br>all_isotope_data.csv: d15N and d13C values for all samples collected from 14 gravel pit lakes. TL indicates total length (mm) of perch individuals. <br>lakevar.2.csv: Lake data describing productivity, morphology, littoral structure. <br>weighted l2 by category.csv: Metabolic biomass of fish communties<br>si.analysis.repo.Rmd: Code for analysis investigating effects of productivity and littoral structure on ontogenetic niche shifts of perch communities. <br><br>
DOI: 10.5281/zenodo.3723337
title: Coronavirus disease (COVID-19) case data - South Africa

description: COVID 19 Data for South Africa created, maintained and hosted by DSFSI research group at the University of Pretoria <strong>Disclaimer:</strong> We have worked to keep the data as accurate as possible. We collate the COVID 19 reporting data from NICD and South Africa DoH. We only update that data once there is an official report or statement. For the other data, we work to keep the data as accurate as possible. If you find errors let us know. Note the data is licensed under <em><strong>Creative Commons Attribution-NonCommercial-ShareAlike 4.0 International (CC BY-NC-SA 4.0)</strong></em>
DOI: 10.5281/zenodo.3723347
title: Coronavirus disease (COVID-19) case data - South Africa

description: COVID 19 Data for South Africa created, maintained and hosted by DSFSI research group at the University of Pretoria <strong>Disclaimer:</strong> We have worked to keep the data as accurate as possible. We collate the COVID 19 reporting data from NICD and South Africa DoH. We only update that data once there is an official report or statement. For the other data, we work to keep the data as accurate as possible. If you find errors let us know. See original GitHub repo for detailed information https://github.com/dsfsi/covid19za Note the data is licensed under <em><strong>Creative Commons Attribution-NonCommercial-ShareAlike 4.0 International (CC BY-NC-SA 4.0)</strong></em>
DOI: 10.5281/zenodo.3723999
title: Coronavirus disease (COVID-19) case data - South Africa

description: COVID 19 Data for South Africa created, maintained and hosted by DSFSI research group at the University of Pretoria <strong>Disclaimer:</strong> We have worked to keep the data as accurate as possible. We collate the COVID 19 reporting data from NICD and South Africa DoH. We only update that data once there is an official report or statement. For the other data, we work to keep the data as accurate as possible. If you find errors let us know. See original GitHub repo for detailed information https://github.com/dsfsi/covid19za