cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5281/zenodo.7051221
title: Synthetic cryo electron microscopy single particle images containing biomolecular complexes with continuous conformational variability used for validating DeepHEMNMA method and validation results

description: This archive contains a synthetic dataset used for validating DeepHEMNMA method and the validation results. DeepHEMNMA is a deep learning extension of HEMNMA approach for analyzing continuous conformational variability of biomolecular complexes in cryo electron (cryo-EM) microscopy single particle images. We provide a training set of 20,000 images and an inference set of 50,000 images. The training images were used (1) to estimate the conformational and rigid-body parameters with HEMNMA and (2) to train the neural network using the parameters previously estimated with HEMNMA (the file with the HEMNMA-estimated parameters is provided). The inference images were used to infer the parameters with the trained neural network. Also, we provide (1) the input PDB structure, its normal modes, and the conformational and rigid-body parameters used to synthesize the 20,000 training images (ground-truth parameters) and (2) the conformational and rigid-body parameters inferred from the set of 50,000 inference images. The DeepHEMNMA method and the method for synthesizing images have been fully described in the following article: "Hamitouche I and Jonic S (2022), DeepHEMNMA: ResNet-based hybrid analysis of continuous conformational heterogeneity in cryo-EM single particle images. Front Mol Biosci 9, 965645. https://doi.org/10.3389/fmolb.2022.965645 (in press)". Additionally, this article describes a test of DeepHEMNMA using one experimental cryo-EM dataset (available in EMPIAR database under the accession code EMPIAR-10016).
DOI: 10.6084/m9.figshare.20946484
title: plicofollis_layardi_ragtag_1.fasta.gz

description: ........
DOI: 10.6084/m9.figshare.20946484.v1
title: plicofollis_layardi_ragtag_1.fasta.gz

description: ........
DOI: 10.6084/m9.figshare.20946742
title: arius_leptaspis_ragtag_1.fasta.gz

description: ........
DOI: 10.6084/m9.figshare.20946742.v1
title: arius_leptaspis_ragtag_1.fasta.gz

description: ........
DOI: 10.6084/m9.figshare.20946646
title: A new scoliosis brace padding method based on trunk asymmetry for scoliosis treatment

description: <em><strong>Introduction:</strong></em> <em>Pressure pads are used with scoliosis braces to adjust the magnitude and location of corrective forces that mechanically support the torso in order to correct the spine deformity. In the conventional brace design approaches, the location and shape of pads are determined based on the visual assessment of the clinician. The accuracy of this approach could be improved as it is limited to the clinician's expertise.</em> <em>The present study aimed to develop a new brace padding method based on trunk asymmetry for adolescents with idiopathic scoliosis and compare the efficacy of the developed method with conventional braces in improving the Cobb angle and body posture symmetricity.</em> <strong>Materials and Methods:</strong> The trunk surface geometry was scanned using a 3D scanner. The best plane of symmetry (Psym) was determined, and the original trunk was reflected in the Psym, creating the reflected trunk. The difference between the reflected and original trunks was computed and color-coded using deviation contour maps (DCM). The boundary of deformed regions, with a minimum of 6 mm DCMs, was identified as the trim lines for brace pads. Eight participants were recruited and divided into conventional and new padding groups. The variation of Cobb angle and torso asymmetry parameters, including the trunk rotation and back surface rotation, as well as the brace satisfaction and trunk appearance perception of the two groups, were compared after three months of treatment. <strong>Results:</strong> Cobb angle improved equally in the new brace (N.B.) and conventional brace (C.B.) groups. However, back surface rotation improved in the N.B. group (+49.6%) and worsened in the C.B. group (-6.8%). Mean trunk rotation was improved by 30% in the N.B. and further exacerbated by -2.2% in the C.B. group. The brace satisfaction and trunk appearance perception scores were higher in the N.B. than in the C.B. group; however not statistically significant. <em><strong>Conclusion: </strong></em><em>The present study showed that the proposed</em> <em>brace padding system improved the trunk appearance without negatively affecting the Cobb angle correction.</em>
DOI: 10.6084/m9.figshare.20946646.v1
title: A new scoliosis brace padding method based on trunk asymmetry for scoliosis treatment

description: <em><strong>Introduction:</strong></em> <em>Pressure pads are used with scoliosis braces to adjust the magnitude and location of corrective forces that mechanically support the torso in order to correct the spine deformity. In the conventional brace design approaches, the location and shape of pads are determined based on the visual assessment of the clinician. The accuracy of this approach could be improved as it is limited to the clinician's expertise.</em> <em>The present study aimed to develop a new brace padding method based on trunk asymmetry for adolescents with idiopathic scoliosis and compare the efficacy of the developed method with conventional braces in improving the Cobb angle and body posture symmetricity.</em> <strong>Materials and Methods:</strong> The trunk surface geometry was scanned using a 3D scanner. The best plane of symmetry (Psym) was determined, and the original trunk was reflected in the Psym, creating the reflected trunk. The difference between the reflected and original trunks was computed and color-coded using deviation contour maps (DCM). The boundary of deformed regions, with a minimum of 6 mm DCMs, was identified as the trim lines for brace pads. Eight participants were recruited and divided into conventional and new padding groups. The variation of Cobb angle and torso asymmetry parameters, including the trunk rotation and back surface rotation, as well as the brace satisfaction and trunk appearance perception of the two groups, were compared after three months of treatment. <strong>Results:</strong> Cobb angle improved equally in the new brace (N.B.) and conventional brace (C.B.) groups. However, back surface rotation improved in the N.B. group (+49.6%) and worsened in the C.B. group (-6.8%). Mean trunk rotation was improved by 30% in the N.B. and further exacerbated by -2.2% in the C.B. group. The brace satisfaction and trunk appearance perception scores were higher in the N.B. than in the C.B. group; however not statistically significant. <em><strong>Conclusion: </strong></em><em>The present study showed that the proposed</em> <em>brace padding system improved the trunk appearance without negatively affecting the Cobb angle correction.</em>
DOI: 10.6084/m9.figshare.20946289
title: A new scoliosis brace padding method based on trunk asymmetry for scoliosis treatment

description: <em><strong>Introduction:</strong></em> <em>Pressure pads are used with scoliosis braces to adjust the magnitude and location of corrective forces that mechanically support the torso in order to correct the spine deformity. In the conventional brace design approaches, the location and shape of pads are determined based on the visual assessment of the clinician. The accuracy of this approach could be improved as it is limited to the clinician's expertise.</em> <em>The present study aimed to develop a new brace padding method based on trunk asymmetry for adolescents with idiopathic scoliosis and compare the efficacy of the developed method with conventional braces in improving the Cobb angle and body posture symmetricity.</em> <strong>Materials and Methods:</strong> The trunk surface geometry was scanned using a 3D scanner. The best plane of symmetry (Psym) was determined, and the original trunk was reflected in the Psym, creating the reflected trunk. The difference between the reflected and original trunks was computed and color-coded using deviation contour maps (DCM). The boundary of deformed regions, with a minimum of 6 mm DCMs, was identified as the trim lines for brace pads. Eight participants were recruited and divided into conventional and new padding groups. The variation of Cobb angle and torso asymmetry parameters, including the trunk rotation and back surface rotation, as well as the brace satisfaction and trunk appearance perception of the two groups, were compared after three months of treatment. <strong>Results:</strong> Cobb angle improved equally in the new brace (N.B.) and conventional brace (C.B.) groups. However, back surface rotation improved in the N.B. group (+49.6%) and worsened in the C.B. group (-6.8%). Mean trunk rotation was improved by 30% in the N.B. and further exacerbated by -2.2% in the C.B. group. The brace satisfaction and trunk appearance perception scores were higher in the N.B. than in the C.B. group; however not statistically significant. <em><strong>Conclusion: </strong></em><em>The present study showed that the proposed</em> <em>brace padding system improved the trunk appearance without negatively affecting the Cobb angle correction.</em>
DOI: 10.6084/m9.figshare.20946289.v1
title: A new scoliosis brace padding method based on trunk asymmetry for scoliosis treatment

description: <em><strong>Introduction:</strong></em> <em>Pressure pads are used with scoliosis braces to adjust the magnitude and location of corrective forces that mechanically support the torso in order to correct the spine deformity. In the conventional brace design approaches, the location and shape of pads are determined based on the visual assessment of the clinician. The accuracy of this approach could be improved as it is limited to the clinician's expertise.</em> <em>The present study aimed to develop a new brace padding method based on trunk asymmetry for adolescents with idiopathic scoliosis and compare the efficacy of the developed method with conventional braces in improving the Cobb angle and body posture symmetricity.</em> <strong>Materials and Methods:</strong> The trunk surface geometry was scanned using a 3D scanner. The best plane of symmetry (Psym) was determined, and the original trunk was reflected in the Psym, creating the reflected trunk. The difference between the reflected and original trunks was computed and color-coded using deviation contour maps (DCM). The boundary of deformed regions, with a minimum of 6 mm DCMs, was identified as the trim lines for brace pads. Eight participants were recruited and divided into conventional and new padding groups. The variation of Cobb angle and torso asymmetry parameters, including the trunk rotation and back surface rotation, as well as the brace satisfaction and trunk appearance perception of the two groups, were compared after three months of treatment. <strong>Results:</strong> Cobb angle improved equally in the new brace (N.B.) and conventional brace (C.B.) groups. However, back surface rotation improved in the N.B. group (+49.6%) and worsened in the C.B. group (-6.8%). Mean trunk rotation was improved by 30% in the N.B. and further exacerbated by -2.2% in the C.B. group. The brace satisfaction and trunk appearance perception scores were higher in the N.B. than in the C.B. group; however not statistically significant. <em><strong>Conclusion: </strong></em><em>The present study showed that the proposed</em> <em>brace padding system improved the trunk appearance without negatively affecting the Cobb angle correction.</em>
DOI: 10.6084/m9.figshare.20946673
title: occidentarius_platypogon_ragtag_1.fasta.gz

description: .......
DOI: 10.6084/m9.figshare.20946673.v1
title: occidentarius_platypogon_ragtag_1.fasta.gz

description: .......
DOI: 10.6084/m9.figshare.20944021
title: Supporting Information for Earthquakes on heterogeneous faults

description: Python and Matlab scripts and data files used in the processing and generation of figures: 2, 7, 8, 10-12, are provided in supporting information Within the zip folder: “DataAvailibility_Figures_2_7_8_10-12.zip” Within the zip file is a short page describing the content of the folder.
DOI: 10.6084/m9.figshare.20944021.v1
title: Supporting Information for Earthquakes on heterogeneous faults

description: Python and Matlab scripts and data files used in the processing and generation of figures: 2, 7, 8, 10-12, are provided in supporting information Within the zip folder: “DataAvailibility_Figures_2_7_8_10-12.zip” Within the zip file is a short page describing the content of the folder.
DOI: 10.6084/m9.figshare.20947048
title: arius_mastersi_ragtag_1.fasta.gz

description: ......
DOI: 10.6084/m9.figshare.20947048.v1
title: arius_mastersi_ragtag_1.fasta.gz

description: ......
DOI: 10.6084/m9.figshare.20946817
title: arius_macrorhynchus_ragtag_1.fasta.gz

description: ........
DOI: 10.6084/m9.figshare.20946817.v1
title: arius_macrorhynchus_ragtag_1.fasta.gz

description: ........
DOI: 10.5281/zenodo.7051438
title: Supporting dataset: Towards the Optimal Representation of Sub-Grid Heterogeneity in Land Surface Models - Upper Colorado River Basin study case

description: Supporting files for the manuscript "Towards the Optimal Representation of Sub-Grid Heterogeneity in Land Surface Models - Upper Colorado River Basin study case." The dataset contains the ESCF derived from the original 800 HydroBlocks simulations used to train/test the random forest models (RFM) to compute the annual mean ESCFs for soil moisture content, sensible heat, latent heat, and runoff, as well as the obtained RFM to compute the resulting number of tiles for a given configuration over the study domain. Besides, the dataset includes the ESCFs for the quasi-fully distributed simulation (QFD) and the input data layers required to run HydroBlocks simulations over the study domain.
DOI: 10.34740/kaggle/dsv/4164910
title: Tales from the Pizza Guy
DOI: 10.5517/ccdc.csd.cc13z9zc
title: CCDC 1042033: Experimental Crystal Structure Determination

description: Related Article: Guang-Yao Bai, Zhi-Yong Wu, Jin-Lei Xing, Yan-Tuan Li|2023|J.Mol.Struct.|1271|134035|doi:10.1016/j.molstruc.2022.134035
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.cc2bqxff
title: CCDC 2166975: Experimental Crystal Structure Determination

description: Related Article: Kahnu Charan Pradhan, Madhusmita Jadab, Sahadev Barik, Narmada Behera, Bamaprasad Bag, Satyanarayan Pal|2022|J.Mol.Struct.|1271|133998|doi:10.1016/j.molstruc.2022.133998
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.cc2cp9zc
title: CCDC 2195233: Experimental Crystal Structure Determination

description: Related Article: T. Prapakaran, R. Murugavel|2022|IUCrData|7|x220793|doi:10.1107/S2414314622007933
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.cc2cxqgh
title: CCDC 2202347: Experimental Crystal Structure Determination

description: Related Article: F.N. Naghiyev, V.N. Khrustalev, N.U. Venskovsky, M. Akkurt, A.N. Khalilov, A. Bhattarai, İ.G. Mamedov|2022|Acta Crystallogr.,Sect.E:Cryst.Commun.|78|942|doi:10.1107/S2056989022008271
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: 10.6084/m9.figshare.19530562
title: Indirect impacts of a non-native ungulate browser on boreal soil ecosystem function is variable across soil horizons.

description: Datasets and code related to M. Swain, S.J. Leroux, R. Buchkowski [in revision]. Indirect impacts of a non-native ungulate browser on boreal soil ecosystem function is variable across soil horizons.
DOI: 10.6084/m9.figshare.19530562.v2
title: Indirect impacts of a non-native ungulate browser on boreal soil ecosystem function is variable across soil horizons.

description: Datasets and code related to M. Swain, S.J. Leroux, R. Buchkowski [in revision]. Indirect impacts of a non-native ungulate browser on boreal soil ecosystem function is variable across soil horizons.
DOI: 10.6084/m9.figshare.19530562.v1
title: Indirect impacts of a non-native ungulate browser on boreal soil ecosystem function is variable across soil horizons.

description: Datasets and code related to M. Swain, S.J. Leroux, R. Buchkowski [in revision]. Indirect impacts of a non-native ungulate browser on boreal soil ecosystem function is variable across soil horizons.
DOI: 10.6084/m9.figshare.20948197
title: osteogeneiosus_militaris_ragtag_1.fasta.gz

description: .......
DOI: 10.6084/m9.figshare.20948197.v1
title: osteogeneiosus_militaris_ragtag_1.fasta.gz

description: .......
DOI: 10.5281/zenodo.7044541
title: The Natural History Museum's collection of Dalbergia, Pterocarpus and the Phaseolinae subtribe

description: In 2018 the Natural History Museum (NHMUK, herbarium code: BM) undertook a pilot digitisation project together with the Royal Botanic Gardens Kew (project Lead) and the Royal Botanic Garden Edinburgh to collectively digitise non-type herbarium material of the subtribe <em>Phaseolinae</em> and the genera <em>Dalbergia </em>L.f. and <em>Pterocarpus</em> Jacq. (rosewoods and padauk), all from the economically important family of legumes (<em>Leguminosae</em> or <em>Fabaceae</em>). These taxonomic groups were chosen for two case studies using the herbarium collections to support the aims of the UK’s Department for Environment Food & Rural Affairs (DEFRA)-allocated, Official Development Assistance (ODA) funding: study 1 - to support the development of dry beans as a sustainable and resilient crop; study 2 - to aid conservation and sustainable use of rosewoods and padauk. We present the images and metadata for 11,222 NHMUK specimens. This includes label transcription and georeferencing, along with summary data on geographic, taxonomic, collector and temporal coverage. We also provide timings and the methodology for our transcription and georeferencing protocols. Approximately 35% of specimens digitised were collected in ODA-listed countries, in tropical Africa, but also in south east Asia and South America.
DOI: 10.5281/zenodo.7044540
title: The Natural History Museum's collection of Dalbergia, Pterocarpus and the Phaseolinae subtribe

description: In 2018 the Natural History Museum (NHMUK, herbarium code: BM) undertook a pilot digitisation project together with the Royal Botanic Gardens Kew (project Lead) and the Royal Botanic Garden Edinburgh to collectively digitise non-type herbarium material of the subtribe <em>Phaseolinae</em> and the genera <em>Dalbergia </em>L.f. and <em>Pterocarpus</em> Jacq. (rosewoods and padauk), all from the economically important family of legumes (<em>Leguminosae</em> or <em>Fabaceae</em>). These taxonomic groups were chosen for two case studies using the herbarium collections to support the aims of the UK’s Department for Environment Food & Rural Affairs (DEFRA)-allocated, Official Development Assistance (ODA) funding: study 1 - to support the development of dry beans as a sustainable and resilient crop; study 2 - to aid conservation and sustainable use of rosewoods and padauk. We present the images and metadata for 11,222 NHMUK specimens. This includes label transcription and georeferencing, along with summary data on geographic, taxonomic, collector and temporal coverage. We also provide timings and the methodology for our transcription and georeferencing protocols. Approximately 35% of specimens digitised were collected in ODA-listed countries, in tropical Africa, but also in south east Asia and South America.
DOI: 10.6084/m9.figshare.20947786
title: brustiarius_solidus_ragtag_1.fasta.gz

description: .......
DOI: 10.6084/m9.figshare.20947786.v1
title: brustiarius_solidus_ragtag_1.fasta.gz

description: .......
DOI: 10.6084/m9.figshare.20948089
title: potamarius_usumacintae_ragtag_1.fasta.gz

description: ........
DOI: 10.6084/m9.figshare.20948089.v1
title: potamarius_usumacintae_ragtag_1.fasta.gz

description: ........
DOI: 10.6084/m9.figshare.20948155
title: nedystoma_dayi_ragtag_1.fasta.gz

description: ........
DOI: 10.6084/m9.figshare.20948155.v1
title: nedystoma_dayi_ragtag_1.fasta.gz

description: ........
DOI: 10.6084/m9.figshare.19450613
title: Kinetics of phagosome maturation is coupled to their intracellular motility

description: Source data in this Fig. 1-5 Supplementary Movie 1 and 2
DOI: 10.6084/m9.figshare.19450613.v1
title: Kinetics of phagosome maturation is coupled to their intracellular motility

description: Source data in this Fig. 1-5 Supplementary Movie 1 and 2
DOI: 10.6084/m9.figshare.20948680
title: galeichthys_feliceps_ragtag_1.fasta.gz

description: .....
DOI: 10.6084/m9.figshare.20948680.v1
title: galeichthys_feliceps_ragtag_1.fasta.gz

description: .....
DOI: 10.6084/m9.figshare.20948980
title: plicofollis_tonggol_ragtag_1.fasta.gz

description: .......
DOI: 10.6084/m9.figshare.20948980.v1
title: plicofollis_tonggol_ragtag_1.fasta.gz

description: .......
DOI: 10.5281/zenodo.5874697
title: Data for EBE_Extended_Biomass_Estimation on GitHub

description: This material regards the paper: Latella, M., Raimondo, F., Belcore, E., Salerno, L., & Camporeale, C. (2022). On the integration of LiDAR and field data for riparian biomass estimation, <em>Journal of Environmental Management</em>, 322, 116046. https://doi.org/10.1016/j.jenvman.2022.116046. and the GitHub code: EBE_Extended_Biomass_Estimation Please cite the related article if using the script or data.
DOI: 10.5281/zenodo.5874696
title: Data for EBE_Extended_Biomass_Estimation on GitHub

description: This material regards the paper: Latella, M., Raimondo, F., Belcore, E., Salerno, L., & Camporeale, C. (2022). On the integration of LiDAR and field data for riparian biomass estimation, <em>Journal of Environmental Management</em>, 322, 116046. https://doi.org/10.1016/j.jenvman.2022.116046. and the GitHub code: EBE_Extended_Biomass_Estimation Please cite the related article if using the script or data.
DOI: 10.6084/m9.figshare.20948782
title: notarius_lentiginosus_ragtag_1.fasta.gz

description: ..........
DOI: 10.6084/m9.figshare.20948782.v1
title: notarius_lentiginosus_ragtag_1.fasta.gz

description: ..........
DOI: 10.6084/m9.figshare.20949097
title: Google Trends Keyword Data by Region and Year: Ukraine

description: Keywords: Border Embassy Disconnected Cyber security Data protection Malware Hack Cyber attack VPN <br> Time period covered: January 1 2022 to March 31st 2022
DOI: 10.6084/m9.figshare.20949097.v1
title: Google Trends Keyword Data by Region and Year: Ukraine

description: Keywords: Border Embassy Disconnected Cyber security Data protection Malware Hack Cyber attack VPN <br> Time period covered: January 1 2022 to March 31st 2022
DOI: 10.6084/m9.figshare.20948884.v1
title: nemapteryx_armiger_ragtag_1.fasta.gz

description: ......
DOI: 10.6084/m9.figshare.20948884
title: nemapteryx_armiger_ragtag_1.fasta.gz

description: ......