cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.16531177
title: Designing sampling protocols for plant-pollinator interactions - timing, meteorology, flowering variations and failed captures matter

description: Plant-pollinator interactions are key components of ecosystem functioning and are therefore increasingly studied. Of all the approaches used to estimate these interactions, the capture of pollinators along transects is a widely used and recognized method. However, specific choices of sampling design can strongly influence observations of insect visits and bias ecological interpretations. Yet, there is no agreement on the best transect design. Sampling intensity (number and length of transects) is an important element of these choices, but not the only one. Here we investigate the influence of three other facets of protocol choices that commonly arise when designing pollination transects: (i) the influence of sampling conditions that may interact with ecological variables of interest or bias observations, (ii) the measurement of floral availability frequency, and (iii) the management of insects observed but not captured. We quantified the importance of these three protocol choices using a large dataset of 720 plant-pollinator transects in protected wet meadows in France. Our results demonstrate the need to (i) cover a wide range of temporal and meteorological conditions for each site, and (ii) repeat the assessment of plot attractiveness for pollinators (a major covariate, usually simply derived from one-off vegetation surveys). In addition, we show that (iii) for analyses of visitation density among insect groups, failed insect captures should not be discarded but incorporated into the analyses. Overall, this research identifies three key choices in transect design and highlights their influence in our understanding of plant-pollinator interactions.
DOI: 10.6084/m9.figshare.16574441.v1
title: Featuring ACE2 binding SARS-CoV and SARS-CoV-2 through a conserved evolutionary pattern of amino acid residues

description: Spike (S) glycoproteins mediate the coronavirus entry into the host cell. The S1 subunit of S-proteins contains the receptor-binding domain (RBD) that is able to recognize different host receptors, highlighting its remarkable capacity to adapt to their hosts along the viral evolution. While RBD in spike proteins is determinant for the virus–receptor interaction, the active residues lie at the receptor-binding motif (RBM), a region located in RBD that plays a fundamental role binding the outer surface of their receptors. Here, we address the hypothesis that SARS-CoV and SARS-CoV-2 strains able to use angiotensin-converting enzyme 2 (ACE2) proteins have adapted their RBM along the viral evolution to explore specific conformational topology driven by the residues YGF to infect host cells. We also speculate that this YGF-based mechanism can act as a protein signature located at the RBM to distinguish coronaviruses able to use ACE2 as a cell entry receptor. Communicated by Ramaswamy H. Sarma
DOI: 10.6084/m9.figshare.16531177.v2
title: Designing sampling protocols for plant-pollinator interactions - timing, meteorology, flowering variations and failed captures matter

description: Plant-pollinator interactions are key components of ecosystem functioning and are therefore increasingly studied. Of all the approaches used to estimate these interactions, the capture of pollinators along transects is a widely used and recognized method. However, specific choices of sampling design can strongly influence observations of insect visits and bias ecological interpretations. Yet, there is no agreement on the best transect design. Sampling intensity (number and length of transects) is an important element of these choices, but not the only one. Here we investigate the influence of three other facets of protocol choices that commonly arise when designing pollination transects: (i) the influence of sampling conditions that may interact with ecological variables of interest or bias observations, (ii) the measurement of floral availability frequency, and (iii) the management of insects observed but not captured. We quantified the importance of these three protocol choices using a large dataset of 720 plant-pollinator transects in protected wet meadows in France. Our results demonstrate the need to (i) cover a wide range of temporal and meteorological conditions for each site, and (ii) repeat the assessment of plot attractiveness for pollinators (a major covariate, usually simply derived from one-off vegetation surveys). In addition, we show that (iii) for analyses of visitation density among insect groups, failed insect captures should not be discarded but incorporated into the analyses. Overall, this research identifies three key choices in transect design and highlights their influence in our understanding of plant-pollinator interactions.
DOI: 10.25625/cdcmyt/iqisdx
title: Hei20_Ma.pdf

description: :unav
DOI: 10.25625/oibrt4/j1bc2c
title: Hei18_Ba.pdf

description: :unav
DOI: 10.25625/oibrt4
title: Higher order Discontinuous Galerkin methods for the Laplace-Beltrami problem on unfitted smooth surfaces

description: Bachelor’s thesis document "Higher order Discontinuous Galerkin methods for the Laplace-Beltrami problem on unfitted smooth surfaces" of Fabian Heimann (examiner and co-examiner: Christoph Lehrenfeld & Gert Lube) (September 2018)
DOI: 10.5281/zenodo.5469936
title: Iodosphaeria phyllophila SPAdes preassembly

description: .
DOI: 10.5281/zenodo.5469935
title: Iodosphaeria phyllophila SPAdes preassembly

description: .
DOI: 10.6084/m9.figshare.14332580
title: BTCH-GPP

description: A new global gross primary production dataset covering 1980–2018 （under review on Scientific Data）including BTCH1.0 and BTCH2.0<br>
DOI: 10.6084/m9.figshare.14332580.v4
title: BTCH-GPP

description: A new global gross primary production dataset covering 1980–2018 （under review on Scientific Data）including BTCH1.0 and BTCH2.0<br>
DOI: 10.6084/m9.figshare.14332580.v3
title: BTCH2.0.zip

description: A new global gross primary production dataset covering 1980–2018 （under review on Scientific Data）<br>
DOI: 10.5519/qd.wzpqe01m
title: Query on the Natural History Museum Data Portal (data.nhm.ac.uk) (7014 records)
DOI: 10.5281/zenodo.4919131
title: Dataset: A multi-scale probabilistic atlas of the human connectome

description: This repository complements the paper submitted to <strong>Scientific Data</strong> named <em>A multi-scale probabilistic atlas of the human connectome</em>. <strong>Introduction</strong> The assessment of the networks underlying brain processes is key to understand brain-related disorders. However, groundbreaking connectomics research is highly demanding in terms of equipment and expertise. The aim of this work is to create a multiscale probabilistic atlas of the human white matter (WM) to carry out network analyses in the context of clinical research, particularly when diffusion data is not directly available. <strong>Methods</strong> Sixty six subjects from the Human Connectome Project (HCP) database (29 males, age: 22-36 years old) were used to build the WM probabilistic atlas. MRI acquisition protocols are described in (Van Essen et al, 2012). Besides T1-, T2- and diffusion-weighted (DW) images, the HCP database provides the FreeSurfer outputs (Glasser et al, 2016) namely cortical surfaces (pial and white), subcortical segmentation and a cortical surface parcellation containing 34 structures for each hemisphere (Desikan et al, 2006). For each subject, the DWIs were employed to segment each thalamus in seven nuclei (Battistella et al, 2016) and to estimate the WM streamlines distribution. The constrained spherical deconvolution (Tournier et al, 2007) algorithm was used to compute the intravoxel fiber distribution functions for the anatomically-constrained particle-filter tractography approach (Descoteaux et al, 2009) to compute the WM streamlines. Subcortical, thalamic and multiscale cortical (Cammoun et al, 2012) parcellations were gathered to obtain four individual gray matter (GM) parcellations. Finally, for each scale, individual fiber bundles, were created by selecting the streamlines connecting each pair of GM regions (Figure 1a). <em>Atlas construction</em> The T1 and T2 images were non-linearly warped to their corresponding MNI templates (Evans et al, 2012, mni_icbm152_tal_nlin_asym_09c version) using ANTs (Avants et al, 2010). The resulting spatial transformations were applied to warp the individual fiber bundles to stereotactic space and the normalized tract density images (TDIs) were created. In these images, each voxel contains the number of streamlines passing through it. Finally, the spatial probability map for each bundle was obtained by binarizing and averaging the bundle TDIs across the subjects (Figure. 1b). Different views of the developed probabilistic multi-scale connectome atlas are shown in Figure 2.
DOI: 10.6084/m9.figshare.14406371
title: The role of axial discontinuities in oceanic crustal evolution: evidence from elemental and Mo-Sr-Nd-Pb-Hf isotopic compositions of rock suites from the Southwest Indian Ridge (42°-53°E)：Datasets and Supplementary Materials

description: Datasets and Supplementary Materials for rock suite from SWIR.
DOI: 10.6084/m9.figshare.14406371.v3
title: The role of axial discontinuities in oceanic crustal evolution: evidence from elemental and Mo-Sr-Nd-Pb-Hf isotopic compositions of rock suites from the Southwest Indian Ridge (42°-53°E)：Datasets and Supplementary Materials

description: Datasets and Supplementary Materials for rock suite from SWIR.
DOI: 10.6084/m9.figshare.14406371.v2
title: The role of axial discontinuities in oceanic crustal evolution: evidence from elemental and Mo-Sr-Nd-Pb-Hf isotopic compositions of rock suites from the Southwest Indian Ridge (42°-53°E)：Datasets and Supplementary Materials

description: Datasets and Supplementary Materials for rock suite from SWIR.
DOI: 10.5281/zenodo.5140234
title: Data and code for figures of "Electro-optic spatial light modulator from an engineered organic layer" by Benea-Chelmus et al.

description: This upload contains the main dataset represented in the figures of the following publication: "Electro-optic spatial light modulator from an engineered organic layer" by Benea-Chelmus et al.
DOI: 10.5281/zenodo.5140233
title: Data and code for figures of "Electro-optic spatial light modulator from an engineered organic layer" by Benea-Chelmus et al.

description: This upload contains the main dataset represented in the figures of the following publication: "Electro-optic spatial light modulator from an engineered organic layer" by Benea-Chelmus et al.
DOI: 10.18112/openneuro.ds003793.v1.0.0
title: Multisensory Gamma Entrainment
DOI: 10.5519/qd.qkxdi9t2
title: Query on the Natural History Museum Data Portal (data.nhm.ac.uk) (197 records)
DOI: 10.6084/m9.figshare.16574486
title: CPCG_Methylation_BValues.rds

description: DNA methylation beta values for patients in the Canadian Prostate Cancer Genome Network
DOI: 10.6084/m9.figshare.16574486.v1
title: CPCG_Methylation_BValues.rds

description: DNA methylation beta values for patients in the Canadian Prostate Cancer Genome Network
DOI: 10.5281/zenodo.5470254
title: Dataset for XBeach model calibration and simulation of sample storms in an intermediate-to-dissipative, microtidal coast (Sabaudia, Italy)

description: The archive contains XBeach input data and datasets used for the calibration of the hydrodynamic model XBeach and subsequent simulation of six sample storms at different tidal levels at the intermediate-to-dissipative, microtidal coast of Sabaudia (Tyrrhenian Sea, Italy).
DOI: 10.23669/bxmsci
title: Istraživanje stavova i iskustava stanovnika Hrvatske vezanih uz pandemiju bolesti COVID-19

description: Istraživanje je provedeno u okviru projekta Otpornost hrvatskog društva uslijed COVID-19 pandemije - SOCRES. Upitnikom se nastojalo istražiti značajnije promjene u populaciji nastale uslijed pandemije COVID-19, uključujući promjene u razini prihoda, uvjeta rada, osobnog i institucionalnog povjerenja, iskustva s bolesti uzrokovane virusom SARS-CoV-2, pridržavanju epidemioloških mjera te percepcije opasnosti uzrokovane koronavirusom. Analize i rezultati izvedeni iz ovog istraživanja provedenog na početku projekta služe i kao polazna osnova i kompas za razvoj upitnika koji će se provesti u kasnijim fazama istraživanja. Ovo inicijalno istraživanje provedeno je s ciljem regrutacije ispitanika za sudjelovanje u longitudinalnom istraživanju s panel uzorkom koje će se organizirati tijekom 2021. godine.
DOI: 10.5281/zenodo.5471408
title: Data supporting the study "An organic crystalline state in ageing atmospheric aerosol proxies: spatially resolved structural changes in levitated fatty acid particles" by Milsom et al. (2021))

description: Data supporting the figures and findings presented in the study <strong>"An organic crystalline state in ageing atmospheric aerosol proxies: spatially resolved structural changes in levitated fatty acid particles" by Milsom et al. (2021), <em>Atmos. Chem. Phys..</em></strong>
description: {"references": ["Milsom, A., Squires, A. M., Boswell, J. A., Terrill, N. J., Ward, A. D., and Pfrang, C.: An organic crystalline state in ageing atmospheric aerosol proxies: spatially resolved structural changes in levitated fatty acid particles, Atmos. Chem. Phys. Discuss. [preprint], https://doi.org/10.5194/acp-2021-270, in review, 2021."]}
DOI: 10.5281/zenodo.5471407
title: Data supporting the study "An organic crystalline state in ageing atmospheric aerosol proxies: spatially resolved structural changes in levitated fatty acid particles" by Milsom et al. (2021))

description: Data supporting the figures and findings presented in the study <strong>"An organic crystalline state in ageing atmospheric aerosol proxies: spatially resolved structural changes in levitated fatty acid particles" by Milsom et al. (2021), <em>Atmos. Chem. Phys..</em></strong>
description: {"references": ["Milsom, A., Squires, A. M., Boswell, J. A., Terrill, N. J., Ward, A. D., and Pfrang, C.: An organic crystalline state in ageing atmospheric aerosol proxies: spatially resolved structural changes in levitated fatty acid particles, Atmos. Chem. Phys. Discuss. [preprint], https://doi.org/10.5194/acp-2021-270, in review, 2021."]}
DOI: 10.6084/m9.figshare.16571561
title: Figure 1

description: Figure 1c: Normalized whole cell intensities (WCI) from Tudor or dsDNA treated RAW 264.7 cells.Figure 1g,h: Number of TLs per cell when treated with dsDNA, Tudor or LPS.<br>
DOI: 10.24417/bmdc.be:dataset:2600
title: WATERHYPERNET: Dataset of in situ above-water hyperspectral autonomous optical radiometry measurements at the VEIT station

description: This dataset contains data from the WATERHYPERNET network at the VEIT station (Aqua Alta Oceanographic tower, Venice, Italy). WATERHYPERNET is a nework of hyperspectral above-water autonomous downwelling irradiance, downward (sky ) and upward (water) radiance and derived water-leaving radiance and reflectance acquired in the visible, near-infrared (and shortwave infrared) spectral range at different water sites. WATERHYPERNET includes data from the PANTHYR (two TRIOS/RAMSES commercial off-the-shelf (COTS) hyperspectral radiometers mounted on a FLIR PTU-D48E COTS pan-and-tilt pointing system) and HYPSTAR radiometers (i.e., lower cost hyperspectral radiometer mounted on autonomous pointing systems with embedded calibration devices developped in the frame of the H2020 HYPERNETS project with grant number 775983, www.hypernets.eu). Data are quality checked and accompagnied with uncertainty estimates for the validation of all optical satellite missions.
DOI: 10.15132/10000168
title: High performance SERS platforms via parametric optimization of laser-assisted photodeposition of silver and gold nanoparticles

description: Parametric optimization of laser-assisted photocatalytic growth of Ag and Au nanoparticles for high SERS enhancement factor performance informed by design of experiment is demonstrated. The photodeposition process was divided into two phases – seeding and growth – in order to achieve the highest possible nanoparticle surface coverage for the size range from 10 to 100 nm. Substantial difference in the parameter effects between the Ag and Au seeding and growth was found. SERS performance of the photodeposited Ag and Au nanostructures was evaluated at 532, 633 and 785 nm with thiophenol as a probe molecule. A high-enhancement broadband SERS operation was attained with Ag nanostructure grown at high laser fluences. The SERS enhancement factors of 10 to the power of 5 were achieved with both Ag and Au nanostructures.
DOI: 10.6084/m9.figshare.16574465
title: FPKM of Hakuho and Tianjin Shui Mi .xlsx

description: analysis of RNA-seq data
DOI: 10.6084/m9.figshare.16574465.v1
title: FPKM of Hakuho and Tianjin Shui Mi .xlsx

description: analysis of RNA-seq data
DOI: 10.5519/qd.bs9jeaav
title: Query on the Natural History Museum Data Portal (data.nhm.ac.uk) (69 records)
DOI: 10.5519/qd.vl8iehyi
title: Query on the Natural History Museum Data Portal (data.nhm.ac.uk) (92 records)
DOI: 10.5519/qd.fuzm7xhf
title: Query on the Natural History Museum Data Portal (data.nhm.ac.uk) (236 records)
DOI: 10.5281/zenodo.5471602
title: Control Accuracy Measurement of a Mixed Reality Application for Digital Twin based Crane Operation

description: The dataset corresponds the measurement that was implemented on the control accuracy of a mixed reality application for a digital twin based crane. The dataset contains two CSV files, one "Target" ", which is the selected target positions, and one "Measurement results", which is the actual crane position after moving to the target position.
DOI: 10.5281/zenodo.5471896
title: Control Accuracy Measurement of a Mixed Reality Application for Digital Twin based Crane Operation

description: The dataset corresponds the measurement that was implemented on the control accuracy of a mixed reality application for a digital twin based crane. The dataset contains two CSV files, one "Target" ", which is the selected target positions, and one "Measurement results", which is the actual crane position after moving to the target position.
DOI: 10.6084/m9.figshare.16571570
title: Figure 2

description: Figure 2c: Number of TLs per cell at 4 and 8 hours post treatment with ssDNA, dsDNA and Tudor.Figure 2d: Number of TLs per cell with respect to timeFigure 2e: Fold change of mRNA levels of M1, M2 and lysosome markers in bone marrow derived macrophages (BMDM).Figure 2g: Number of TLs per cell upon Tudor or LPS treatment with pharmacological inhibitors.Figure 2f: Number of TLs per cell in treated BMDMs<br>
DOI: 10.6084/m9.figshare.16571570.v1
title: Figure 2

description: Figure 2c: Number of TLs per cell at 4 and 8 hours post treatment with ssDNA, dsDNA and Tudor.Figure 2d: Number of TLs per cell with respect to timeFigure 2e: Fold change of mRNA levels of M1, M2 and lysosome markers in bone marrow derived macrophages (BMDM).Figure 2g: Number of TLs per cell upon Tudor or LPS treatment with pharmacological inhibitors.Figure 2f: Number of TLs per cell in treated BMDMs<br>
DOI: 10.21223/ts3k2c/zje3k5
title: Manual de usuario Segmentación de Plots.pdf

description: :unav
DOI: 10.21223/ts3k2c/jikwuq
title: SemiAutomatic_Plot_Segmentation.rar

description: :unav
DOI: 10.21223/ts3k2c/g17l0v
title: User Manual - Segmentation plot.pdf

description: :unav
DOI: 10.21223/ts3k2c/dxxxr1
title: SemiAutomatic_Plot-Segmentation_Final.rar

description: :unav
DOI: 10.21223/ts3k2c/sxzqi8
title: SimplifiedCropGrowthModelBasedOnNDVIImages.rar

description: :unav
DOI: 10.21223/ts3k2c/pi9jtm
title: SemiAutomatic_Plot-Segmentation_Final.rar

description: :unav
DOI: 10.21223/ts3k2c/wfdgvl
title: User Manual - Segmentation plot.pdf

description: :unav
DOI: 10.21223/ts3k2c
title: Semi Automatic Plot Segmentation

description: It is an open-source algorithm to extract plot information using plot segmentation in multi-spectral Orthorectified images acquired with UAVs. This one is a tool that can help us to extract the plots information of multispectral images to perform a study at canopy level - for example - estimate late blight severity in potato crops.
DOI: 10.6084/m9.figshare.16571579
title: Figure 3

description: Figure 3b: Mean R/G ratios of single lysosomes in Tudor or LPS treated RAW 264.7 cells.Figure 3f: Percent response of Cathepsin C reporter in VLs and TLs in dsDNA, Tudor and LPS treated cells.Figure 3h: Percent response in VLs and TLs of dsDNA and Tudor treated cells<br>
DOI: 10.6084/m9.figshare.16571579.v1
title: Figure 3

description: Figure 3b: Mean R/G ratios of single lysosomes in Tudor or LPS treated RAW 264.7 cells.Figure 3f: Percent response of Cathepsin C reporter in VLs and TLs in dsDNA, Tudor and LPS treated cells.Figure 3h: Percent response in VLs and TLs of dsDNA and Tudor treated cells<br>
DOI: 10.6084/m9.figshare.16571582
title: Figure 4

description: Figure 4c-d: Lysosomal pH and Calcium distributions in VLs of dsDNA-treated RAW264.7 and TLs of Tudor-treated cells.Figure 4k-l: Percentage of TL populations<br>
DOI: 10.6084/m9.figshare.16571582.v1
title: Figure 4

description: Figure 4c-d: Lysosomal pH and Calcium distributions in VLs of dsDNA-treated RAW264.7 and TLs of Tudor-treated cells.Figure 4k-l: Percentage of TL populations<br>
DOI: 10.6084/m9.figshare.16571585
title: Figure 5

description: Figure 5a: Average number of phagosomes w.r.t. time in RAW264.7 cells treated with dsDNA, LPS or Tudor.Figure 5b: Percentage TLs contacting phagosomes.Figure 5c: Phagosome lysosome fusion (P-L fusion) given by mean G/R value in RAW 264.7 cells.Figure 5e: Number of phagosomes in Tudor treated RAW 264.7 cells depleted of Arl8b.Figure 5f: Average number of phagosomes versus time in Pmac (M0) treated with dsDNA, Tudor or LPS.Figure 5g: Percentage TLs contacting phagosomes in M0 Pmacs.Figure 5h: Extent of phagosome lysosome fusion (P-L fusion).<br>
DOI: 10.6084/m9.figshare.16571585.v1
title: Figure 5

description: Figure 5a: Average number of phagosomes w.r.t. time in RAW264.7 cells treated with dsDNA, LPS or Tudor.Figure 5b: Percentage TLs contacting phagosomes.Figure 5c: Phagosome lysosome fusion (P-L fusion) given by mean G/R value in RAW 264.7 cells.Figure 5e: Number of phagosomes in Tudor treated RAW 264.7 cells depleted of Arl8b.Figure 5f: Average number of phagosomes versus time in Pmac (M0) treated with dsDNA, Tudor or LPS.Figure 5g: Percentage TLs contacting phagosomes in M0 Pmacs.Figure 5h: Extent of phagosome lysosome fusion (P-L fusion).<br>
DOI: 10.6084/m9.figshare.16574231
title: Figure 6

description: Figure 6b: Ratio of mean whole cell intensity of PIP3 to Cadherin staining.Figure 6c: Kinetics of extracellular MMP9 activity in Tudor treated RAW264.7 cells with and without PI3K-i.Figure 6d: Number of TLs per cell in treated WT and MMP9-/- BMDMs (M1, M2, M0).Figure 6e: Number of phagosomes in treated WT and MMP9-/- BMDMs (M1, M2, M0).Figure 6f: Extent of phagosome lysosome fusion (P-L fusion)<br>
DOI: 10.6084/m9.figshare.16574231.v1
title: Figure 6

description: Figure 6b: Ratio of mean whole cell intensity of PIP3 to Cadherin staining.Figure 6c: Kinetics of extracellular MMP9 activity in Tudor treated RAW264.7 cells with and without PI3K-i.Figure 6d: Number of TLs per cell in treated WT and MMP9-/- BMDMs (M1, M2, M0).Figure 6e: Number of phagosomes in treated WT and MMP9-/- BMDMs (M1, M2, M0).Figure 6f: Extent of phagosome lysosome fusion (P-L fusion)<br>
DOI: 10.5519/qd.7yjdjysn
title: Query on the Natural History Museum Data Portal (data.nhm.ac.uk) (3 records)
DOI: 10.5519/qd.9n39tn7u
title: Query on the Natural History Museum Data Portal (data.nhm.ac.uk) (142 records)