cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.8968829.v1
title: Additional file 1: of Proximity-dependent biotinylation screening identifies NbHYPK as a novel interacting partner of ATG8 in plants

description: Figure S1. Full immunoblot images for Fig. 1a using ATG8 antibody. (a) Mock. (b) TMV. (c) TMV 24A + UPD. Figure S2. Expression of BirA* and BirA_ATG8 constructs. (a) Graphical representation of control BirA*and experimental plasmids BirA*-ATG8. Full gel image for Fig. 2a carried out using anti-mCherry antiseri, for both (b) & (c) and anti-ATG8 antiserum (* indicates a weak band). (d) to ascertain fusion protein expression. (e) Detection of RFP signals from agroinfiltrated N.benthamiana leaves to confirm expression of RFP-fused BirA* and BirA*-ATG8. Figure S3. Full gel Immunoblot analysis of total biotinylated proteins for Fig. 2b and c. (a) Streptavidin-HRP blot of crude protein lysate. (b)Strep-HRP blot after DynabeadsTM purification. Abbreviations: b, beads; s, supernatant. Lane 1. WT- Biotin only. Lanes 2–3,-BirA*, lanes 4–5, BirA*-ATG8, lane 6-BirA*, lane 7, BirA*-ATG8, lane 8, BirA*, lane 9, BirA*-ATG8. Different treatments as follows: Samples 2–5, biotin was infiltrated 3 days after agroinfiltration. Samples 6–9, biotin-infiltrated concurrently with agroinfiltration buffer. Samples 6 and 7, proteins extracted 3 dpi and samples 8 and 9 were collected 4 dpi. Treatments 6 and 7 were used for the final experiment. Figure S4. ATG8 directly interacts with NbHYPK but not NbHYPKΔUBA and UBA-NbHYPK (Fig. 4). (a) GFP-NbHYPK, GFP-NbHYPKΔUBA, GFP-UBA-HYPK and RFP-ATG8 fusion proteins were detected in Western blot using GFP and RFP antibodies, respectively. (b) RFP-ATG8 aggregates with GFP-NbHYPK but not GFP -NbHYPKΔUBA or GFP-UBA-NbHYPK. (c) Bimolecular fluorescence complementation (BiFC) analysis showed that ATG8 was able to associate with NbHYPK but ATG8-Yn did not associate with x-Yc (plasmid without insert). NbHYPK-Yc also did not associate with x-Yn (plasmid without insert). Figure S5. Analysis of gene down-regulation in ATG5/7/8-VIGS plants (Fig. 5). (a) Semi-quantitative RT-PCR expression analysis of ATG8 isoforms in ATG8-silenced and non-silenced Nicotiana benthamiana plants. (b) qRT-PCR analysis of ATG5 and ATG7 genes in control and VIGS-plants. Figure S6. TMV accumulation and NbHYPK relative expression in VIGS-NbHYPK plants (Fig. 6). (a) TMV coat protein expression as detected by anti-TMV antibody. TMV coat protein is ~ 17.5 kDa. Statistical significance was determined by Student’s t test (p = .39). (b) Semi-quantitative qRT-PCR analysis of NbHYPK expression in VIGS silenced and non-silenced Nicotiana benthamiana plants. (ZIP 3798 kb)
DOI: 10.6084/m9.figshare.8968709
title: NEEWS data of the 2019 ML 6.3 Hualien (Taiwan) earthquake

description: The data contains the acceleration time history measured at the 68 main stations of NEEWS during the 2019 ML 6.3 Hualien (Taiwan) earthquake.
DOI: 10.6084/m9.figshare.8968763
title: Rawdata.rar

description: TBI_Ferroptosis_miR
DOI: 10.6084/m9.figshare.8968709.v1
title: NEEWS data of the 2019 ML 6.3 Hualien (Taiwan) earthquake

description: The data contains the acceleration time history measured at the 68 main stations of NEEWS during the 2019 ML 6.3 Hualien (Taiwan) earthquake.
DOI: 10.6084/m9.figshare.8968763.v1
title: Rawdata.rar

description: TBI_Ferroptosis_miR
DOI: 10.6084/m9.figshare.8968583
title: 07122018_Modified Procedure1.xpt.xlsx

description: hgfh
DOI: 10.6084/m9.figshare.8968316
title: HOST-DATABASE-USED-5YR-VIROME

description: Collection of isolates, SAGs and MAGs used as the host database to match viruses in our 5yr virome study.
DOI: 10.6084/m9.figshare.8968316.v1
title: HOST-DATABASE-USED-5YR-VIROME

description: Collection of isolates, SAGs and MAGs used as the host database to match viruses in our 5yr virome study.
DOI: 10.6084/m9.figshare.8968151
title: S-O-R SNS Fatigue

description: S-O-R theory data
DOI: 10.6084/m9.figshare.8968091
title: pain scale donkey

description: comportamento de asininos submetidos à dor aguda
DOI: 10.6084/m9.figshare.8968151.v2
title: S-O-R SNS Fatigue

description: S-O-R theory data
DOI: 10.6084/m9.figshare.8968091.v1
title: pain scale donkey

description: comportamento de asininos submetidos à dor aguda
DOI: 10.6084/m9.figshare.8968151.v1
title: Data.csv

description: S-O-R theory data
DOI: 10.6084/m9.figshare.8968004
title: CONTROLLING INVASIVE PLANT SPECIES IN ECOLOGICAL RESTORATION: A GLOBAL REVIEW

description: Dataset of Weidlich et al 2020
DOI: 10.6084/m9.figshare.8967995
title: Mantle Convection Models

description: The temperature and density anomalies at different depths for our mantle convections models listed in Table 2.<br>LayerDepth.dat contains the depth information, the firstcolumn is the layer number (2-80, excluding surface and CMB); the second column is the depth in km. Each Case*.zip contains the spherical harmonic expansions (l=0-90) for both temperature anomaly (T_anomaly.layer*) and density anomaly (density.layer*) due to temperature anomaly at layers 2-80. Values for degree 0 is only numerical errors due to the spherical harmonic expansion process. There are 22 cases in total corresponding to all the 22 cases in Table 2.Note, if you do spherical harmonic reconstruction, do take care whether it is shifted by 180 degrees (0to360 or -180-to180 in longitude).
DOI: 10.6084/m9.figshare.8967923
title: raw_count_matrix.sort.primary.counts_20171115.xlsx

description: WT VSMCs or IGF1 receptor VSMCs were treated with 100 NM insulin for 4 hours and then RNA-seq experiments were performed.
DOI: 10.6084/m9.figshare.8967998.v2
title: Testing Sparsity-Inducing Penalties

description: Many penalized maximum likelihood estimators correspond to posterior mode estimators under specific prior distributions. Appropriateness of a particular class of penalty functions can therefore be interpreted as the appropriateness of a prior for the parameters. For example, the appropriateness of a lasso penalty for regression coefficients depends on the extent to which the empirical distribution of the regression coefficients resembles a Laplace distribution. We give a testing procedure of whether or not a Laplace prior is appropriate and accordingly, whether or not using a lasso penalized estimate is appropriate. This testing procedure is designed to have power against exponential power priors which correspond to ℓq penalties. Via simulations, we show that this testing procedure achieves the desired level and has enough power to detect violations of the Laplace assumption when the numbers of observations and unknown regression coefficients are large. We then introduce an adaptive procedure that chooses a more appropriate prior and corresponding penalty from the class of exponential power priors when the null hypothesis is rejected. We show that this can improve estimation of the regression coefficients both when they are drawn from an exponential power distribution and when they are drawn from a spike-and-slab distribution. Supplementary materials for this article are available online.
DOI: 10.6084/m9.figshare.8967116
title: ACTINN

description: This folder contains datasets and codes used in this paper:ACTINN: Automated identification of Cell Types in Single Cell RNA Sequencing<br>
DOI: 10.6084/m9.figshare.8967923.v1
title: raw_count_matrix.sort.primary.counts_20171115.xlsx

description: WT VSMCs or IGF1 receptor VSMCs were treated with 100 NM insulin for 4 hours and then RNA-seq experiments were performed.
DOI: 10.6084/m9.figshare.8967998.v1
title: Testing Sparsity-Inducing Penalties

description: Many penalized maximum likelihood estimators correspond to posterior mode estimators under specific prior distributions. Appropriateness of a particular class of penalty functions can therefore be interpreted as the appropriateness of a prior for the parameters. For example, the appropriateness of a lasso penalty for regression coefficients depends on the extent to which the empirical distribution of the regression coefficients resembles a Laplace distribution. We give a testing procedure of whether or not a Laplace prior is appropriate and accordingly, whether or not using a lasso penalized estimate is appropriate. This testing procedure is designed to have power against exponential power priors which correspond to <i>ℓ<sub>q</sub></i> penalties. Via simulations, we show that this testing procedure achieves the desired level and has enough power to detect violations of the Laplace assumption when the numbers of observations and unknown regression coefficients are large. We then introduce an adaptive procedure that chooses a more appropriate prior and corresponding penalty from the class of exponential power priors when the null hypothesis is rejected. We show that this can improve estimation of the regression coefficients both when they are drawn from an exponential power distribution and when they are drawn from a spike-and-slab distribution.
DOI: 10.6084/m9.figshare.8967116.v1
title: ACTINN

description: This folder contains datasets and codes used in this paper:ACTINN: Automated identification of Cell Types in Single Cell RNA Sequencing<br>
DOI: 10.6084/m9.figshare.8966357
title: Toward Interoperable Microbiome Data: Bridging Earth-Systems and Life-Science Semantics

description: Kai Blumberg's 2019 Raskin Scholar Plenary talk slides given at the Earth Science Information Partners (ESIP) Summer Meeting in Tacoma, Washington in July 2019.<br>
DOI: 10.6084/m9.figshare.8966357.v1
title: Toward Interoperable Microbiome Data: Bridging Earth-Systems and Life-Science Semantics

description: Kai Blumberg's 2019 Raskin Scholar Plenary talk slides given at the Earth Science Information Partners (ESIP) Summer Meeting in Tacoma, Washington in July 2019.<br>
DOI: 10.6084/m9.figshare.8966291
title: Barnacle recruit density and size at high and middle elevations in Nova Scotia (2019)

description: This file provides data on barnacle (<i>Semibalanus balanoides</i>) recruit density and size in replicate clearings (10 cm x 10 cm) made in late April 2019 on the rocky substrate at high and middle intertidal elevations at three wave-exposed locations on the open Atlantic coast of Nova Scotia, Canada. Recruit density and size were measured in early July 2019, once the 2019 barnacle recruitment season had concluded.
DOI: 10.6084/m9.figshare.8966273
title: Ushant AIS dataset

description: This dataset corresponds to 6 months of AIS data of vessels steaming in the area of the Ushant traffic separation scheme (in Brittany, West of France). This is an area with one of the highest traffic density in the world, with a clear separation scheme with two navigation lanes. Different kinds of vessels are present in the area, from cargos and tankers with high velocity and straight routes to sailing boats or fishing vessels with low speed and different sailing directions. As such, the area is highly monitored to avoid collision or grounding, and a better analysis and understanding of the different ship behaviors is of prime importance.<br>The whole trajectory data set consists in 18,603 trajectories, gathering overall more than 7 millions GPS observations. Only trajectories having more than 30 points were kept, time lag between two consecutive observations ranges between 5 seconds and 15 hours, with 95% of time lags below 3 minutes.<br>Authors would like to thank CLS (Collecte Localisation Satellites) and Erwan Guegueniat for providing the raw data that allowed building this dataset.This work has been supported by DGA through the ANR/Astrid SESAME project (ref: ANR-16-ASTR-0026).
DOI: 10.6084/m9.figshare.8966291.v1
title: Barnacle recruit density and size at high and middle elevations in Nova Scotia (2019)

description: This file provides data on barnacle (<i>Semibalanus balanoides</i>) recruit density and size in replicate clearings (10 cm x 10 cm) made in late April 2019 on the rocky substrate at high and middle intertidal elevations at three wave-exposed locations on the open Atlantic coast of Nova Scotia, Canada. Recruit density and size were measured in early July 2019, once the 2019 barnacle recruitment season had concluded.
DOI: 10.6084/m9.figshare.8966153
title: Shaping of a three-dimensional carnivorous trap through modulation of a planar growth mechanism

description: <b>Leaves display a remarkable range of forms, from flat sheets with simple outlines to cup-shaped traps. Although much progress has been made in understanding the mechanisms of planar leaf development, it is unclear whether similar or distinctive mechanisms underlie shape transformations during development of more complex curved forms. Here we use 3D imaging, cellular and clonal analysis, combined with computational modelling, to analyse the development of cup-shaped traps of the carnivorous plant <i>Utricularia gibba. </i> We show that the transformation from a near-spherical form at early developmental stages to an oblate spheroid with a straightened ventral midline in the mature form, can be accounted for by spatial variations in rates and orientations of growth. Different hypotheses regarding spatio-temporal control predict distinct patterns of cell shape and size, which were tested experimentally by quantifying cellular and clonal anistropy. We propose that orientations of growth are specified by a proximodistal polarity field, similar to that hypothesised to account for <i>Arabidopsis </i>leaf development, except that in <i>Utricularia </i>the field propagates through a highly curved tissue sheet. Independent evidence for the polarity field is provided by the orientation of glandular hairs on the inner surface of the trap. Taken together, our results show that morphogenesis of complex 3D leaf shapes can be accounted for by similar mechanisms to those for planar leaves, suggesting that simple modulations of a common growth framework underlies the shaping of a diverse range of morphologies.</b>
DOI: 10.6084/m9.figshare.8966108
title: Honeybee_mzxml

description: Five MALDI-TOF MS profiles corresponding to pools of neutral or anionic N-glycans from Apis mellifera (honeybee) and five MALDI-TOF MS/MS for selected N-glycans with different features (fucose, phosphoethanolamine, glucuronic acid and sulphate residues).<br>
DOI: 10.6084/m9.figshare.8966108.v1
title: Honeybee_mzxml

description: Five MALDI-TOF MS profiles corresponding to pools of neutral or anionic N-glycans from Apis mellifera (honeybee) and five MALDI-TOF MS/MS for selected N-glycans with different features (fucose, phosphoethanolamine, glucuronic acid and sulphate residues).<br>
DOI: 10.6084/m9.figshare.8966072
title: Hypertensive disorders of pregnancy increase the risk of developing neovascular age-related macular degeneration in later life

description: <b>Background</b>: Hypertensive disorders of pregnancy (HDP) and short-term adverse outcomes have long been recognized; however, survivors remain at risk of long-term complications. We investigated whether HDP is associated with the development of choroidal neovascular age-related macular degeneration (CNV AMD). <b>Methods</b>: We identified 31,454 women who experienced HDP based on Utah birth certificates and 62,908 unexposed women matched 2:1 to the exposed. Risk of CNV AMD was estimated using Cox models. <b>Findings</b>: Women with HDP exhibited an 80% higher risk for early CNV AMD (age &lt; 70 y; 95%CI 1.23–2.58). <b>Conclusion</b>: Our findings may have implications forearlier CNV AMD screening and detection.
DOI: 10.6084/m9.figshare.8966153.v1
title: Shaping of a three-dimensional carnivorous trap through modulation of a planar growth mechanism

description: <b>Leaves display a remarkable range of forms, from flat sheets with simple outlines to cup-shaped traps. Although much progress has been made in understanding the mechanisms of planar leaf development, it is unclear whether similar or distinctive mechanisms underlie shape transformations during development of more complex curved forms. Here we use 3D imaging, cellular and clonal analysis, combined with computational modelling, to analyse the development of cup-shaped traps of the carnivorous plant <i>Utricularia gibba. </i> We show that the transformation from a near-spherical form at early developmental stages to an oblate spheroid with a straightened ventral midline in the mature form, can be accounted for by spatial variations in rates and orientations of growth. Different hypotheses regarding spatio-temporal control predict distinct patterns of cell shape and size, which were tested experimentally by quantifying cellular and clonal anistropy. We propose that orientations of growth are specified by a proximodistal polarity field, similar to that hypothesised to account for <i>Arabidopsis </i>leaf development, except that in <i>Utricularia </i>the field propagates through a highly curved tissue sheet. Independent evidence for the polarity field is provided by the orientation of glandular hairs on the inner surface of the trap. Taken together, our results show that morphogenesis of complex 3D leaf shapes can be accounted for by similar mechanisms to those for planar leaves, suggesting that simple modulations of a common growth framework underlies the shaping of a diverse range of morphologies.</b>
DOI: 10.6084/m9.figshare.8966075
title: OuanoData.mat

description: Data presented in details in Sous et al. 2019<br>
DOI: 10.6084/m9.figshare.8966153.v3
title: Shaping of a three-dimensional carnivorous trap through modulation of a planar growth mechanism

description: <b>Leaves display a remarkable range of forms, from flat sheets with simple outlines to cup-shaped traps. Although much progress has been made in understanding the mechanisms of planar leaf development, it is unclear whether similar or distinctive mechanisms underlie shape transformations during development of more complex curved forms. Here we use 3D imaging, cellular and clonal analysis, combined with computational modelling, to analyse the development of cup-shaped traps of the carnivorous plant <i>Utricularia gibba. </i> We show that the transformation from a near-spherical form at early developmental stages to an oblate spheroid with a straightened ventral midline in the mature form, can be accounted for by spatial variations in rates and orientations of growth. Different hypotheses regarding spatio-temporal control predict distinct patterns of cell shape and size, which were tested experimentally by quantifying cellular and clonal anistropy. We propose that orientations of growth are specified by a proximodistal polarity field, similar to that hypothesised to account for <i>Arabidopsis </i>leaf development, except that in <i>Utricularia </i>the field propagates through a highly curved tissue sheet. Independent evidence for the polarity field is provided by the orientation of glandular hairs on the inner surface of the trap. Taken together, our results show that morphogenesis of complex 3D leaf shapes can be accounted for by similar mechanisms to those for planar leaves, suggesting that simple modulations of a common growth framework underlies the shaping of a diverse range of morphologies.</b>
DOI: 10.6084/m9.figshare.8966072.v1
title: Hypertensive disorders of pregnancy increase the risk of developing neovascular age-related macular degeneration in later life

description: <b>Background</b>: Hypertensive disorders of pregnancy (HDP) and short-term adverse outcomes have long been recognized; however, survivors remain at risk of long-term complications. We investigated whether HDP is associated with the development of choroidal neovascular age-related macular degeneration (CNV AMD). <b>Methods</b>: We identified 31,454 women who experienced HDP based on Utah birth certificates and 62,908 unexposed women matched 2:1 to the exposed. Risk of CNV AMD was estimated using Cox models. <b>Findings</b>: Women with HDP exhibited an 80% higher risk for early CNV AMD (age &lt; 70 y; 95%CI 1.23–2.58). <b>Conclusion</b>: Our findings may have implications forearlier CNV AMD screening and detection.
DOI: 10.6084/m9.figshare.8966075.v1
title: OuanoData.mat

description: Data presented in details in Sous et al. 2019<br>
DOI: 10.6084/m9.figshare.8966153.v2
title: Shaping of a three-dimensional carnivorous trap through modulation of a planar growth mechanism

description: <b>Leaves display a remarkable range of forms, from flat sheets with simple outlines to cup-shaped traps. Although much progress has been made in understanding the mechanisms of planar leaf development, it is unclear whether similar or distinctive mechanisms underlie shape transformations during development of more complex curved forms. Here we use 3D imaging, cellular and clonal analysis, combined with computational modelling, to analyse the development of cup-shaped traps of the carnivorous plant <i>Utricularia gibba. </i> We show that the transformation from a near-spherical form at early developmental stages to an oblate spheroid with a straightened ventral midline in the mature form, can be accounted for by spatial variations in rates and orientations of growth. Different hypotheses regarding spatio-temporal control predict distinct patterns of cell shape and size, which were tested experimentally by quantifying cellular and clonal anistropy. We propose that orientations of growth are specified by a proximodistal polarity field, similar to that hypothesised to account for <i>Arabidopsis </i>leaf development, except that in <i>Utricularia </i>the field propagates through a highly curved tissue sheet. Independent evidence for the polarity field is provided by the orientation of glandular hairs on the inner surface of the trap. Taken together, our results show that morphogenesis of complex 3D leaf shapes can be accounted for by similar mechanisms to those for planar leaves, suggesting that simple modulations of a common growth framework underlies the shaping of a diverse range of morphologies.</b>
DOI: 10.6084/m9.figshare.8965976
title: Source_data_file_Final.xls

description: Raw data of figures
DOI: 10.6084/m9.figshare.8966000
title: Data predicting mental distress of university students .xlsx

description: Data set for "Predicting Mental Distress of University Students with Lifestyle Profiles and Problematic Internet Use" submitted to, Journal of Mental Health.<b></b> <br>
DOI: 10.6084/m9.figshare.8965976.v1
title: Source_data_file_Final.xls

description: Raw data of figures
DOI: 10.6084/m9.figshare.8965949
title: Evaluating the effectiveness of the environmental impact assessment process in Mongolia for nomadic-pastoral land users

description: The aim of this article is to evaluate and improve the effectiveness of Mongolia’s EIA processes for nomadic-pastoral land use(rs) (NPLU(rs)). NPLU(rs) are often overlooked in many spatial policies, so the justification for this study is to improve the EIA processes regarding impacts on NPLU. This is the first study to examine EIA effectiveness for NPLA(s) specifically. It employs a Likert survey of 50 respondents based on the framework of Hanna and Noble (2015). The results of this study indicate that there is indeed an immense gap between how EIA should be carried out and its implementation processes in practice. We find that although the EIA framework has good ambitions and is relying on a sound legislative and institutional set-up in Mongolia, it lacks stakeholder confidence, participation and the effectiveness in mitigating both social and environmental impacts associated with NPLU failing to ensure substantive gains to pastureland resources. Improvements are especially required in EIA practice, impact prediction methods suitable for dynamic land use, capacity building, transparency, EIA integration into spatial planning, and stakeholder engagement.