cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5517/ccdc.csd.cc26f910
title: CCDC 2038561: Experimental Crystal Structure Determination

description: Related Article: Pragati Biswal, Shyam Kumar Banjare, Bedadyuti Vedvyas Pati, Smruti Ranjan Mohanty, Ponneri Chandrababu Ravikumar|2021|J.Org.Chem.|86|1108|doi:10.1021/acs.joc.0c02582
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.cc24b66x
title: CCDC 1976008: Experimental Crystal Structure Determination

description: Related Article: Mengting Liu, Xueke Zhang, Ling Shen, Weiguang Sun, Shuang Lin, Junjun Liu, Fei Cao, Changxing Qi, Jianping Wang, Zhengxi Hu, Yonghui Zhang|2021|J.Org.Chem.|86|10962|doi:10.1021/acs.joc.0c02237
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.cc26jz5x
title: CCDC 2042099: Experimental Crystal Structure Determination

description: Related Article: Nai-Chen Hsueh, Kuan-Ting Chen, Meng-Yang Chang|2023|Org.Biomol.Chem.|21|1487|doi:10.1039/D2OB02199D
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.cc26jz6y
title: CCDC 2042100: Experimental Crystal Structure Determination

description: Related Article: Nai-Chen Hsueh, Kuan-Ting Chen, Meng-Yang Chang|2023|Org.Biomol.Chem.|21|1487|doi:10.1039/D2OB02199D
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.cc26jz7z
title: CCDC 2042101: Experimental Crystal Structure Determination

description: Related Article: Nai-Chen Hsueh, Kuan-Ting Chen, Meng-Yang Chang|2023|Org.Biomol.Chem.|21|1487|doi:10.1039/D2OB02199D
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: 10.5281/zenodo.7628408
title: Data-specific substitution models improve protein-based phylogenetics - data

description: Amino-acid sequence data sets, estimated data-specific amino-acid substitution models, and optimal ML trees. Data are divided in five folders, each one with a readme.txt file describing it. ├── 1_simulated_data_sets<br> │ ├── 1500-site_alignments<br> │ ├── 400-site_alignments<br> │ └── 8000-site_alignments<br> ├── 2_simulated_data_specific_models<br> │ ├── Codeml_models<br> │ ├── FastMG_models<br> │ ├── IQTREE_models<br> │ ├── P4_BI_models<br> │ └── P4_ML_models<br> ├── 3_optimal_ML_trees_simulated_data<br> │ ├── commonly-used_empirical_models<br> │ │ ├── cpREV_model_analyses<br> │ │ └── WAG_model_analyses<br> │ ├── data_specfic_model_analyses<br> │ │ ├── Codeml-estimated_model_analyses<br> │ │ ├── FastMG-estimated_model_analyses<br> │ │ ├── IQTREE-estimated_model_analyses<br> │ │ ├── P4BI-estimated_model_analyses<br> │ │ └── P4ML-estimated_model_analyses<br> │ └── simulation_model_analyses<br> ├── 4_data_specific_models_empirical_data<br> │ └── Toussaint18_data_specific_models_27partitions<br> └── 5_optimal_ML_trees_empirical_data
DOI: 10.5281/zenodo.7628407
title: Data-specific substitution models improve protein-based phylogenetics - data

description: Amino-acid sequence data sets, estimated data-specific amino-acid substitution models, and optimal ML trees. Data are divided in five folders, each one with a readme.txt file describing it. ├── 1_simulated_data_sets<br> │ ├── 1500-site_alignments<br> │ ├── 400-site_alignments<br> │ └── 8000-site_alignments<br> ├── 2_simulated_data_specific_models<br> │ ├── Codeml_models<br> │ ├── FastMG_models<br> │ ├── IQTREE_models<br> │ ├── P4_BI_models<br> │ └── P4_ML_models<br> ├── 3_optimal_ML_trees_simulated_data<br> │ ├── commonly-used_empirical_models<br> │ │ ├── cpREV_model_analyses<br> │ │ └── WAG_model_analyses<br> │ ├── data_specfic_model_analyses<br> │ │ ├── Codeml-estimated_model_analyses<br> │ │ ├── FastMG-estimated_model_analyses<br> │ │ ├── IQTREE-estimated_model_analyses<br> │ │ ├── P4BI-estimated_model_analyses<br> │ │ └── P4ML-estimated_model_analyses<br> │ └── simulation_model_analyses<br> ├── 4_data_specific_models_empirical_data<br> │ └── Toussaint18_data_specific_models_27partitions<br> └── 5_optimal_ML_trees_empirical_data
DOI: 10.6073/pasta/92022b41625bc75942860c261556c1ed
title: Water Depths and Water Temperatures near Soil Surface from Shark River Slough, Everglades National Park (FCE LTER), Florida, USA, October 2000 - ongoing

description: Water depth (from October 2000 to present) and water temperature (from September 2021 to present) are recorded at least hourly at SRS1c (not active), SRS1d, SRS2, SRS3, SRS4, SRS5, and SRS6. Water depth is measured with pressure water level loggers (Infinities USA or HOBO) that record water height relative to the local soil surface. Water temperature near soil surface is measured with HOBO loggers. Note by IM (2021): The water meters at some of the SRS sites have been moved over the years as boardwalks have been reconstructed. There is no set survey datum for these sites, so it is impossible to correct the data to an actual datum. For hydrologic applications, it may be better to use water level data from USGS stations.
DOI: 10.6084/m9.figshare.21502614.v1
title: Global climate-driven transmission suitability maps for dengue virus transmitted by Aedes aegypti mosquitoes from 1981 to 2019

description: This file contains transmission suitability maps for dengue virus (DENV) transmitted by Aedes aegypti mosquitoes from 1981 to 2019 for 186 countries or territories. These maps were generated using a mosquito-borne viral suitability measure referred to as Index P. <br> The file contains the monthly, yearly and typical year summary statistics of the time series of DENV transmission potential of Aedes aegypti at the spatial pixel level (~28km2) for each country. An excel document that describes the file contents for each country is also provided. <br> This dataset can be used to understand past and current climate-driven transmission suitability of DENV for its primary vector Aedes aegypti in an area of interest.
DOI: 10.18112/openneuro.ds004498.v1.0.0
title: Perinatal Stroke
DOI: 10.15129/4556163e-e417-4bd4-94d2-fc96ba9eb725
title: Supplementary information for: "The growth of faults and fracture networks in a mechanically evolving, mechanically stratified rock mass: A case study from Spireslack Surface Coal Mine, Scotland"

description: Supplementary information for the accepted manuscript: "The growth of faults and fracture networks in a mechanically evolving, mechanically stratified rock mass: A case study from Spireslack Surface Coal Mine, Scotland". The data includes: joint and fault stereonet file (dip, dip direction etc) as a .stnt, Dip slope topology data as an MS Excel worksheet, and detailed fault descriptions as a PDF file.
DOI: 10.25386/genetics.22057019.v1
title: Supplemental Material for Reilly et al., 2023

description: This file contains all the enriched genes sorted as per antero-posterior and dorso-ventral positions of CEM neurons.
DOI: 10.25386/genetics.22057019
title: Supplemental Material for Reilly et al., 2023

description: This file contains all the enriched genes sorted as per antero-posterior and dorso-ventral positions of CEM neurons.
DOI: 10.6084/m9.figshare.22081934
title: Fossil Unguicheylidae fam. nov., a new fossil family of prostigmatic mites (Acari: Prostigmata) from the Cretaceous Taimyr amber

description: Dataset for the paper Unguicheylidae fam. nov., a new fossil family of prostigmatic mites (Acari: Prostigmata) from the Cretaceous Taimyr amber Alexander A. Khaustov, Dmitry D. Vorontsov, Evert E. Lindquist A new monotypic fossil family Unguicheylidae <strong>fam. nov.</strong> with type genus and species <em>Unguicheylus</em> <em>quadriocellatus</em> <strong>sp. nov. </strong>is described from the early-Cretaceous (Albian–lower Cenomanian) amber of northern Siberia (Taimyr amber, Baikura locality). The new family is provisionally placed in the superfamily Anystoidea and most similar to the family Pseudocheylidae, but differs mainly in having apomorphically adnate cheliceral bases (free, mobile bases in Pseudocheylidae), and the tarsi of all legs lacking annulated pretarsal stalks bearing reduced claws (present, apomorphic to Pseudocheylidae). The specimen was partially broken during the preparation. This dataset documents the specimen before and after the breaking, at high magnification. Amber piece were cut and polished following protocols of Sidorchuk (2011, 2013) and tools described by Sidorchuk and Vorontsov (2018). During the polishing away of the cracked layer of amber that obscured the ventral side of the mite, the block of amber broke in several pieces, leaving the major part of the mite in one piece and two of its legs and a palp in the two smaller pieces. After that, the preparation was stopped and the mite was imaged with highest available resolution using water and saturated fructose as immersion media. The mite was imaged using Zeiss AxioImager A2 and Nikon Eclipse E800 compound microscopes with 40x (water immersion) and 100x (oil immersion) objectives using Nomarski DIC. Stacks of images, comprising multiple focal planes, were obtained with an Olympus OM-D E-M10-II digital camera. Figures herein contain images assembled from multiple focal planes using Helicon Focus 7.6, using algorithm B with subsequent manual addition of significant details like thin setae from the individual focal planes. High-resolution images were taken with a Zeiss LSM-880 confocal laser scanning microscope (CLSM) equipped with an Airyscan super-resolution detector. A 488 nm laser was used for excitation, while detection range was set above 540 nm. For a scan, the amber piece was immersed in saturated fructose. <br>
DOI: 10.48323/pqmz2-hyk92
title: MS_XevoTQXS_2022_November_part1
DOI: 10.5281/zenodo.7439707
title: Dataset CBT DST

description: Raw data for CBT and DST, 0=fail and 1=pass
description: This project (18HLT09 NeuroMET2) has received funding from the EMPIR programme co-financed by the Participating States and from the European Union's Horizon 2020 research and innovation programme.
DOI: 10.5281/zenodo.7439708
title: Dataset CBT DST

description: Raw data for CBT and DST, 0=fail and 1=pass
description: This project (18HLT09 NeuroMET2) has received funding from the EMPIR programme co-financed by the Participating States and from the European Union's Horizon 2020 research and innovation programme.
DOI: 10.5281/zenodo.7546001
title: CBT_DST raw

description: Raw data
DOI: 10.5281/zenodo.7546002
title: CBT_DST raw

description: Raw data
DOI: 10.5281/zenodo.7643868
title: Experimental heatwaves and warming induce distinctive community responses through their interactions with a novel species

description: This repository provides the data for the manuscript "experimental heatwaves and warming induce distinctive community responses through their interactions with a novel species" As the climate warms, species shift their distributions at different rates, re-organising ecological communities. The resulting novel interactions will shape the local community’s response to ongoing climate change. The distinction between extreme events and a rising mean temperature in driving range expansion of the neighbouring species has not been examined empirically, nor has the resulting ecological impact propagating through multi-trophic networks been addressed. In this study, we recreated a high-elevation host-parasitoid community comprising Drosophila species and their associated parasitoid species from the Australian Wet Tropics, and subjected them to either heatwaves or warming in combination with the introduction of a low-elevation-specific Drosophila species. This dataset contains three groups of measurements: 1. Single-generation reproductive success of each species at various sampling times (about every 3 weeks) throughout the initiation and maintenance of the community. 2. Population size of each species before the community was terminated. 3. One-day reproductive success of each species before, during, and after the last heatwave event.
DOI: 10.5281/zenodo.7643867
title: Experimental heatwaves and warming induce distinctive community responses through their interactions with a novel species

description: This repository provides the data for the manuscript "experimental heatwaves and warming induce distinctive community responses through their interactions with a novel species" As the climate warms, species shift their distributions at different rates, re-organising ecological communities. The resulting novel interactions will shape the local community’s response to ongoing climate change. The distinction between extreme events and a rising mean temperature in driving range expansion of the neighbouring species has not been examined empirically, nor has the resulting ecological impact propagating through multi-trophic networks been addressed. In this study, we recreated a high-elevation host-parasitoid community comprising Drosophila species and their associated parasitoid species from the Australian Wet Tropics, and subjected them to either heatwaves or warming in combination with the introduction of a low-elevation-specific Drosophila species. This dataset contains three groups of measurements: 1. Single-generation reproductive success of each species at various sampling times (about every 3 weeks) throughout the initiation and maintenance of the community. 2. Population size of each species before the community was terminated. 3. One-day reproductive success of each species before, during, and after the last heatwave event.
DOI: 10.5281/zenodo.7643845
title: Reverberant Magnetic Resonance Elastographic Using a single Mechanical Driver

description: Reverberant elastography provides fast and robust estimates of shear modulus. However, reverberant elastography uses multiple mechanical drivers, hampering clinical utility. In this work, we hypothesize that a single mechanical driver can generate reverberant shear fields in constrained organs such as the brain. To corroborate this hypothesis, we imaged the brain of a healthy volunteer; and two constrained phantoms containing spherical inclusions with diameters ranging from 4-18 mm. As a secondary goal, we assessed the feasibility of recovering shear modulus from a single component of the reverberant wave field. Viable reverberant and subzone elastograms were produced only when obtained at 50 and 100 Hz in phantoms. Different levels of reverberance were exhibited in different displacement components (70-82% for phantoms and 87-93% for the clinical case); however, wavefields obtained when imaging at 50 Hz and 100 Hz were not significantly different (p&gt;0.05). Errors incurred in reverberant elastograms varied from 5% to 65% when imaging at 50 Hz and 2% to 55% when imaging at 100 Hz. Errors incurred in subzone elastograms ranged from 4% to 18% at 50 Hz and 5% and 50% at 100 Hz. The contrast-to-noise ratio of reverberant elastograms ranged from 20 dB to 44 dB compared to 25 dB to 31 dB in subzone elastograms. The accuracy of the elastograms acquired from the phantom containing internal shear wave reflectors did not differ noticeably. The global brain stiffness estimated from reverberant and subzone elastograms was 2.36 ± 0.95 kPa and 2.5 ± 1.1 kPa, respectively, when imaging at 50 Hz, and 2.56 ± 0.828 kPa and 2.89 ± 1.3 kPa respectively, when imaging at 70 Hz. The phantom study revealed that performance varied depending on the component of displacement used to compute reverberant elastograms; however, the clinical study demonstrated similar performance of reverberant and subzone elastograms
DOI: 10.5281/zenodo.7643844
title: Reverberant Magnetic Resonance Elastographic Using a single Mechanical Driver

description: Reverberant elastography provides fast and robust estimates of shear modulus. However, reverberant elastography uses multiple mechanical drivers, hampering clinical utility. In this work, we hypothesize that a single mechanical driver can generate reverberant shear fields in constrained organs such as the brain. To corroborate this hypothesis, we imaged the brain of a healthy volunteer; and two constrained phantoms containing spherical inclusions with diameters ranging from 4-18 mm. As a secondary goal, we assessed the feasibility of recovering shear modulus from a single component of the reverberant wave field. Viable reverberant and subzone elastograms were produced only when obtained at 50 and 100 Hz in phantoms. Different levels of reverberance were exhibited in different displacement components (70-82% for phantoms and 87-93% for the clinical case); however, wavefields obtained when imaging at 50 Hz and 100 Hz were not significantly different (p&gt;0.05). Errors incurred in reverberant elastograms varied from 5% to 65% when imaging at 50 Hz and 2% to 55% when imaging at 100 Hz. Errors incurred in subzone elastograms ranged from 4% to 18% at 50 Hz and 5% and 50% at 100 Hz. The contrast-to-noise ratio of reverberant elastograms ranged from 20 dB to 44 dB compared to 25 dB to 31 dB in subzone elastograms. The accuracy of the elastograms acquired from the phantom containing internal shear wave reflectors did not differ noticeably. The global brain stiffness estimated from reverberant and subzone elastograms was 2.36 ± 0.95 kPa and 2.5 ± 1.1 kPa, respectively, when imaging at 50 Hz, and 2.56 ± 0.828 kPa and 2.89 ± 1.3 kPa respectively, when imaging at 70 Hz. The phantom study revealed that performance varied depending on the component of displacement used to compute reverberant elastograms; however, the clinical study demonstrated similar performance of reverberant and subzone elastograms
DOI: 10.15784/601439
title: Antarctic Active Subglacial Lake Inventory from ICESat Altimetry

description: This data set contains lake boundaries, volume changes, and gridded elevations for 124 active subglacial lakes beneath the Antarctic ice sheet. Lakes were identified using laser altimetry data obtained from 2003 to 2009 by NASA's Ice, Cloud, and Land Elevation Satellite (ICESat) mission. The data are provided in Keyhole Markup Language (KML), comma-separated values (CSV), and GEOTiff formats.
DOI: 10.6084/m9.figshare.22047263
title: Dose response

description: Data and code for Figure 2 of Earth Commission synthesis paper
DOI: 10.5281/zenodo.7500843
title: Pan-Tumor T-Lymphocyte Detection Dataset

description: This is a pan-tumor immunohistochemistry dataset containing 2 mm<sup>2</sup>-sized regions of interest (ROIs) from 92 whole slide images stained for cluster of differentiation 3 (CD3, antibody clone SP7). The dataset covers four tumor indications: 32 head and neck squamous cell carcinoma (HNSCC) samples 20 non-small cell lung cancer (NSCLC) samples 20 triple-negative breast cancer (TNBC) samples 20 gastric cancer (GC) samples The samples were digitized at a resolution of 0.23 μm/px (40× objective lens) using the NanoZoomer 2.0-HT scanning system (Hamamatsu, Japan). All samples were prepared and digitized at Merck Healthcare KGaA. We provide bounding box annotations for three cell types: CD3+ immune cells, tumor cells, and other cells. For each tumor indication, five ROIs were manually annotated by three pathologists. For these ROIs, we provide all three annotations and the consensus of all raters. All other ROIs have been semi-automatically annotated using commercial image analysis software.
DOI: 10.5281/zenodo.7500842
title: Pan-Tumor T-Lymphocyte Detection Dataset

description: This is a pan-tumor immunohistochemistry dataset containing 2 mm<sup>2</sup>-sized regions of interest (ROIs) from 92 whole slide images stained for cluster of differentiation 3 (CD3, antibody clone SP7). The dataset covers four tumor indications: 32 head and neck squamous cell carcinoma (HNSCC) samples 20 non-small cell lung cancer (NSCLC) samples 20 triple-negative breast cancer (TNBC) samples 20 gastric cancer (GC) samples The samples were digitized at a resolution of 0.23 μm/px (40× objective lens) using the NanoZoomer 2.0-HT scanning system (Hamamatsu, Japan). All samples were prepared and digitized at Merck Healthcare KGaA. We provide bounding box annotations for three cell types: CD3+ immune cells, tumor cells, and other cells. For each tumor indication, five ROIs were manually annotated by three pathologists. For these ROIs, we provide all three annotations and the consensus of all raters. All other ROIs have been semi-automatically annotated using commercial image analysis software.
DOI: 10.6084/m9.figshare.22102010
title: forbes2000-2022.csv

description: Dataset to be downloaded and analyzed by MBA-UNAM Students
DOI: 10.25810/wyzz-4650
title: Confronting solid-state shear bias: Magmatic fabric contribution to crustal seismic anisotropy

description: 
Seismic anisotropy is controlled by aligned rock-forming minerals, which most studies attribute to solid-state shear with less consideration for magmatic fabric in plutonic rocks (rigid-body rotation of crystals in the presence of melt). Our study counters this traditional solid-state bias by evaluating contributions from fossil magmatic fabric. We collected samples from various tectonic settings, identified mineral orientations with electron backscatter diffraction and neutron diffraction, and calculated their bulk rock elastic properties. Results indicate that magmatic fabric may lead to moderate to strong anisotropy (3-9%), comparable to solid-state deformation. Also, magmatically aligned feldspar may cause foliation-perpendicular fast velocity, a unique orientation that contrasts with a fast foliation typical of solid-state deformation. Therefore, magmatic fabric may be more relevant to seismic anisotropy than previously recognized. Accordingly, increased considerations of magmatic fabric in arcs, batholiths, and other tectonic settings can change and potentially improve the prediction, observation, and interpretation of crustal seismic anisotropy.
 
This dataset accompanies Supplemental Materials for the article: “Confronting solid-state shear bias: Magmatic fabric contribution to crustal seismic anisotropy” published in the American Geophysical Union journal “Geophysical Research Letters” (Frothingham et al., 2023).This supplemental dataset contains collected EBSD data as text files, which are formatted as “channel text files” (".ctf"). These text files can be converted back to ".ctf"s and they can be used for textural analysis or seismic property calculations with software such as Channel 5, MTEX, or AZTec. Metadata is included in the accompanying text file captions within the article’s Supplemental Materials document.