cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.7232045.v1
title: Additional file 7: of Transcriptome analysis reveals crucial genes involved in the biosynthesis of nervonic acid in woody Malania oleifera oilseeds

description: Table S5. Unigenes involved into the pathway of fatty acids synthesis, modification, elongation and triacylglycerol assembly in Malania oleifera seeds. (XLS 71 kb)
DOI: 10.6084/m9.figshare.7232054
title: Additional file 6: of New insights into meningitic Escherichia coli infection of brain microvascular endothelial cells from quantitative proteomics analysis

description: Table S6. Ingenuity Canonical Pathways of PCN033-infected group. (XLSX 70Â kb)
DOI: 10.6084/m9.figshare.7232054.v1
title: Additional file 6: of New insights into meningitic Escherichia coli infection of brain microvascular endothelial cells from quantitative proteomics analysis

description: Table S6. Ingenuity Canonical Pathways of PCN033-infected group. (XLSX 70Â kb)
DOI: 10.6084/m9.figshare.7232069
title: Additional file 7: of New insights into meningitic Escherichia coli infection of brain microvascular endothelial cells from quantitative proteomics analysis

description: Table S7. Ingenuity Canonical Pathways of RS218-infected group. (XLSX 71Â kb)
DOI: 10.6084/m9.figshare.7232069.v1
title: Additional file 7: of New insights into meningitic Escherichia coli infection of brain microvascular endothelial cells from quantitative proteomics analysis

description: Table S7. Ingenuity Canonical Pathways of RS218-infected group. (XLSX 71Â kb)
DOI: 10.5066/p9kazju0
title: Hydric and mesic riparian plant species data for quantifying divergent physiological responses to a Colorado River experimental flow

description: These data were compiled to assess physiological responses of plants to short-term changes in streamflow, both increased and decreased. Objective(s) of our study were to determine the degree to which plants with different habitat preferences and functional strategies responded to short-term increases or decreases in the elevation of the water table. These data represent streamflow rates, temperature, and metrics of plant water status. These data were collected in Glen Canyon National Recreation Area from March 13-27, 2021, and collected by the U.S. Geological Survey-Grand Canyon Monitoring and Research Center. Streamflow data were obtained from the Lees Ferry gage station, and temperature data were obtained from the Lees Ferry weather station. Plant water status metrics were measured with a Meter SC-1 porometer, PMS Instruments 1505D-EXP pressure chamber, and through gravimetric methods. These data can be used to infer impacts of altered streamflows to the physiological status of riparian plant species.
DOI: 10.6084/m9.figshare.7232084
title: Additional file 8: of New insights into meningitic Escherichia coli infection of brain microvascular endothelial cells from quantitative proteomics analysis

description: Table S8. The potential networks in HB101-infected group. (XLSX 70Â kb)
DOI: 10.6084/m9.figshare.7232084.v1
title: Additional file 8: of New insights into meningitic Escherichia coli infection of brain microvascular endothelial cells from quantitative proteomics analysis

description: Table S8. The potential networks in HB101-infected group. (XLSX 70Â kb)
DOI: 10.6084/m9.figshare.7232096
title: Additional file 9: of New insights into meningitic Escherichia coli infection of brain microvascular endothelial cells from quantitative proteomics analysis

description: Table S9. The potential networks in PCN033-infected group. (XLSX 72Â kb)
DOI: 10.6084/m9.figshare.7232096.v1
title: Additional file 9: of New insights into meningitic Escherichia coli infection of brain microvascular endothelial cells from quantitative proteomics analysis

description: Table S9. The potential networks in PCN033-infected group. (XLSX 72Â kb)
DOI: 10.5281/zenodo.10698002
title: Dataset related to article: A NOVEL PATHOGENIC VARIANT IN THE SCA25-RELATED GENE EXPANDING THE ETIOLOGY OF EARLY-ONSET AND PROGRESSIVE CEREBELLAR ATAXIA IN CHILDHOOD

description: List of the variants identified by the MitoIDT panel, containing 305 genes associated with mitochondrial disordersList of prioritized rare variants from WES analysis, by using phenotype filters "Ataxia" and/or "cerebellar atrophy" (eVAI-Engenome tool)List of all variants in the PNPT1 gene identified by WES
DOI: 10.5281/zenodo.10698003
title: Dataset related to article: A NOVEL PATHOGENIC VARIANT IN THE SCA25-RELATED GENE EXPANDING THE ETIOLOGY OF EARLY-ONSET AND PROGRESSIVE CEREBELLAR ATAXIA IN CHILDHOOD

description: List of the variants identified by the MitoIDT panel, containing 305 genes associated with mitochondrial disordersList of prioritized rare variants from WES analysis, by using phenotype filters "Ataxia" and/or "cerebellar atrophy" (eVAI-Engenome tool)List of all variants in the PNPT1 gene identified by WES
DOI: 10.5066/p9ek2phy
title: Plant cover, climate, grazing disturbance, and soil class data from 1991-2020 compiled from remotely sensed data on two retired grazing allotments in Capitol Reef National Park, Utah, USA

description: These data were compiled for use by researchers and land managers in studies of post-grazing change in Capitol Reef National Park. The data were initially used for and are associated with the McNellis et al., 2023 (see Larger Work Citation). Objective(s) of our study were to study landscape change (specifically plant cover measured through remote sensing) through time in Capitol Reef National Park. These data represent land cover and eight explanatory covariates measured through remote sensing over 21-30 years on two grazing allotments in Capitol Reef National Park, USA. These data were compiled and created for Capitol Reef National Park, Utah, USA from December 2020 to December 2022. These data were created by the U.S. Geological Survey &ndash; Southwest Biological Science Center using remotely-sensed data and statistical analysis. These data can be used to study landscape change through time in Capitol Reef National Park. Caution (and appropriate statistical methodology) should be used due to the high degree of spatial and temporal autocorrelation present within this dataset. Some measures (e.g. the counterfactual estimate, &ldquo;CE&rdquo;) should be used in accordance with limitations described by previous literature.
DOI: 10.6084/m9.figshare.16669337
title: Wnt16 protects chondrocytes from lumbar facet joint osteoarthritis through the Wnt/β-catenin pathway in low back pain patients

description: Low back pain (LBP) is a long-lasting and chronic symptom without any exact cause. This study attempts to propose a new staging system based on the original grading system combined with pathological results and clinical symptoms to better clarify the dynamic evolution of LBP related to cartilage degeneration during facet joint osteoarthritis (FJOA). To explore a potential target for diagnosis, treatment, and drug intervention of facet joint osteoarthritis related LBP via protecting chondrocytes. All the facet joints were divided into 4 groups according to our new degenerative staging system based on Weishaupt grade, CT and MRI. Collect the facet joint samples from patients whom suffered lumbar fusion surgery for lumbar disc herniation. Molecular biology experiments were used to explore the effect of Wnt16 on the degeneration of facet joints. Micro-CT examination and pain stimulation test checked the biological function of Wnt16 in rats. Wnt16 was significantly increased and more aggregated in the facet joint chondrocytes in the Phase III and Phase IV, which is consistent with the pathological findings of cartilage degeneration (OARSI). We found that Wnt16 participated in the regulation of FJOA via Wnt/β-catenin pathway in vitro, which was inhibited by specific inhibitor DKK1. The rats, rich expressed Wnt16, showed higher paw withdrawal thresholds and prolonged paw withdrawal latency to FJOA related LBP. Micro-CT examination for the lumbar spine of rats showed Wnt16 protected the chondrocytes from FJOA. This study defined a new staging system for LBP related cartilage degeneration of facet joint based on the original grading system combined with pathological results and clinical symptoms. Wnt16 is expected to be a potential target for treatment of FJOA via protecting chondrocytes.
DOI: 10.6084/m9.figshare.16669337.v1
title: Wnt16 protects chondrocytes from lumbar facet joint osteoarthritis through the Wnt/β-catenin pathway in low back pain patients

description: Low back pain (LBP) is a long-lasting and chronic symptom without any exact cause. This study attempts to propose a new staging system based on the original grading system combined with pathological results and clinical symptoms to better clarify the dynamic evolution of LBP related to cartilage degeneration during facet joint osteoarthritis (FJOA). To explore a potential target for diagnosis, treatment, and drug intervention of facet joint osteoarthritis related LBP via protecting chondrocytes. All the facet joints were divided into 4 groups according to our new degenerative staging system based on Weishaupt grade, CT and MRI. Collect the facet joint samples from patients whom suffered lumbar fusion surgery for lumbar disc herniation. Molecular biology experiments were used to explore the effect of Wnt16 on the degeneration of facet joints. Micro-CT examination and pain stimulation test checked the biological function of Wnt16 in rats. Wnt16 was significantly increased and more aggregated in the facet joint chondrocytes in the Phase III and Phase IV, which is consistent with the pathological findings of cartilage degeneration (OARSI). We found that Wnt16 participated in the regulation of FJOA via Wnt/β-catenin pathway in vitro, which was inhibited by specific inhibitor DKK1. The rats, rich expressed Wnt16, showed higher paw withdrawal thresholds and prolonged paw withdrawal latency to FJOA related LBP. Micro-CT examination for the lumbar spine of rats showed Wnt16 protected the chondrocytes from FJOA. This study defined a new staging system for LBP related cartilage degeneration of facet joint based on the original grading system combined with pathological results and clinical symptoms. Wnt16 is expected to be a potential target for treatment of FJOA via protecting chondrocytes.
DOI: 10.6084/m9.figshare.24533661
title: Table S1. Primers used in the functional gene study;Table S2. Primers for dsRNA synthesis;Table S3. Summary of transcriptome sequencing and assembly for A. parthenogenetica;Table S4. The annotation results between unigenes and seven databases ;Table S5. The similar species and Genbank of VgR were compared by NCBI from Patio-temporal patterns of ovarian development and <i>Very</i> gene silencing reduced fecundity in parthenogenetic <i>Artemia</i>

description: The halophilic zooplankton brine shrimp <i>Artemia</i> has been used as an experimental animal in multidisciplinary studies. However, the reproductive patterns and its regulatory mechanisms in <i>Artemia</i> remain unclear. In this study, the ovarian development process of parthenogenetic <i>Artemia</i> (<i>A. parthenogenetica</i>) was divided into five stages, and oogenesis or egg formation was identified in six phases. The oogenesis mode was assumed to be polytrophic. We also traced the dynamic translocation of candidate germline stem cells (cGSCs) using EdU labelling and elucidated several key cytological events in oogenesis through haematoxylin and eosin staining and fluorescence imaging. Distinguished from the ovary structure of insects and crustaceans, <i>Artemia</i> germarium originated from ovariole buds and are located at the base of the ovarioles. RNA-seq based on five stages of ovarian development identified 2657 upregulated genes related to reproduction by pair-to-pair comparison. <i>Gbb</i>, <i>Dpp</i>, <i>piwi</i>, <i>vasa</i>, <i>nanos</i>, <i>VgA</i> and <i>VgR</i> genes associated with cGSCs recognition and reproductive development were screened and verified using qPCR. Silencing of the <i>VgR</i> gene in <i>A. parthenogenetica</i> (<i>Ap-VgR</i>) at ovarian development Stage II led to a low level of gene expression (less than 10%) within 5 days, which resulted in variations in oogenesis-related gene expression and significantly inhibited vitellogenesis, impeded oocyte maturation, and eventually decreased the number of offspring. In conclusion, we have illustrated the patterns of ovarian development, outlined the key spatio-temporal features of oogenesis and identified the negative impacts of VgR gene knockdown on oogenesis using <i>A. parthenogenetica</i> as an experimental animal. The findings of this study also lay a foundation for the further study of reproductive biology of invertebrates.
DOI: 10.6084/m9.figshare.24533661.v1
title: Table S1. Primers used in the functional gene study;Table S2. Primers for dsRNA synthesis;Table S3. Summary of transcriptome sequencing and assembly for A. parthenogenetica;Table S4. The annotation results between unigenes and seven databases ;Table S5. The similar species and Genbank of VgR were compared by NCBI from Patio-temporal patterns of ovarian development and <i>Very</i> gene silencing reduced fecundity in parthenogenetic <i>Artemia</i>

description: The halophilic zooplankton brine shrimp <i>Artemia</i> has been used as an experimental animal in multidisciplinary studies. However, the reproductive patterns and its regulatory mechanisms in <i>Artemia</i> remain unclear. In this study, the ovarian development process of parthenogenetic <i>Artemia</i> (<i>A. parthenogenetica</i>) was divided into five stages, and oogenesis or egg formation was identified in six phases. The oogenesis mode was assumed to be polytrophic. We also traced the dynamic translocation of candidate germline stem cells (cGSCs) using EdU labelling and elucidated several key cytological events in oogenesis through haematoxylin and eosin staining and fluorescence imaging. Distinguished from the ovary structure of insects and crustaceans, <i>Artemia</i> germarium originated from ovariole buds and are located at the base of the ovarioles. RNA-seq based on five stages of ovarian development identified 2657 upregulated genes related to reproduction by pair-to-pair comparison. <i>Gbb</i>, <i>Dpp</i>, <i>piwi</i>, <i>vasa</i>, <i>nanos</i>, <i>VgA</i> and <i>VgR</i> genes associated with cGSCs recognition and reproductive development were screened and verified using qPCR. Silencing of the <i>VgR</i> gene in <i>A. parthenogenetica</i> (<i>Ap-VgR</i>) at ovarian development Stage II led to a low level of gene expression (less than 10%) within 5 days, which resulted in variations in oogenesis-related gene expression and significantly inhibited vitellogenesis, impeded oocyte maturation, and eventually decreased the number of offspring. In conclusion, we have illustrated the patterns of ovarian development, outlined the key spatio-temporal features of oogenesis and identified the negative impacts of VgR gene knockdown on oogenesis using <i>A. parthenogenetica</i> as an experimental animal. The findings of this study also lay a foundation for the further study of reproductive biology of invertebrates.
DOI: 10.6084/m9.figshare.1465014
title: Sensitive detection of lysosomal membrane permeabilization by lysosomal galectin puncta assay

description: Lysosomal membrane permeabilization (LMP) contributes to tissue involution, degenerative diseases, and cancer therapy. Its investigation has, however, been hindered by the lack of sensitive methods. Here, we characterize and validate the detection of galectin puncta at leaky lysosomes as a highly sensitive and easily manageable assay for LMP. LGALS1/galectin-1 and LGALS3/galectin-3 are best suited for this purpose due to their widespread expression, rapid translocation to leaky lysosomes and availability of high-affinity antibodies. Galectin staining marks individual leaky lysosomes early during lysosomal cell death and is useful when defining whether LMP is a primary or secondary cause of cell death. This sensitive method also reveals that cells can survive limited LMP and confirms a rapid formation of autophagic structures at the site of galectin puncta. Importantly, galectin staining detects individual leaky lysosomes also in paraffin-embedded tissues allowing us to demonstrate LMP in tumor xenografts in mice treated with cationic amphiphilic drugs and to identify a subpopulation of lysosomes that initiates LMP in involuting mouse mammary gland. The use of ectopic fluorescent galectins renders the galectin puncta assay suitable for automated screening and visualization of LMP in live cells and animals. Thus, the lysosomal galectin puncta assay opens up new possibilities to study LMP in cell death and its role in other cellular processes such as autophagy, senescence, aging, and inflammation.
DOI: 10.6084/m9.figshare.22047905
title: Data and covariates from "Human movement and environmental barriers shape the emergence of dengue"

description: Contains municipality level dengue data for Mexico and Brazil  and a range of environmental and mobility covariates summarised at the admin2 level for use in the linked paper. Further details on each covariate available in the full paper.
DOI: 10.6084/m9.figshare.22047905.v1
title: Data and covariates from "Human movement and environmental barriers shape the emergence of dengue"

description: Contains municipality level dengue data for Mexico and Brazil  and a range of environmental and mobility covariates summarised at the admin2 level for use in the linked paper. Further details on each covariate available in the full paper.
DOI: 10.5287/ora-be5xzxvon
title: Everything is Connected - From Worms to Flowers Educational Video

description: An educational video aimed at schoolchildren and parents showing how to explore the nature near you and demonstrating its interconnectedness.
DOI: 10.18112/openneuro.ds004991.v1.0.0
title: BehCreative
DOI: 10.6084/m9.figshare.12999419
title: Metadata record for the manuscript: High-Throughput Preparation of Radioprotective Polymers via Hantzsch’s Reaction for In Vivo X-ray Damage Determination

description: These data support the related manuscript: “High-Throughput Preparation
of Radioprotective Polymers via Hantzsch’s Reaction for <i>In Vivo</i> X-ray Damage Determination”.

The data consist of a single Excel .xlsx format spreadsheet with 15
tabs, where each tab contains all reported means/averages in plots, charts, and tables underlying figures, subfigures,
supplementary figures, or supplementary subfigures in the related manuscript. The figures and supplementary figures covered are: Figures 3, 5d, 6b, 6c, 7b and Supplementary Figures S6, S7, S8b, S9, S10b, S11a, S11b, S14a, S15b, S18.

The related study developed a new strategy to explore safe and
efficient radioprotectors for acute injuries caused by large doses of ionizing
radiation by combining Hantzsch’s reaction, high-throughput methods and polymer
chemistry.Version 2 corrects some flaws that were found in the source data file prior to the manuscript being published.<br>
DOI: 10.6084/m9.figshare.12999419.v1
title: Metadata record for the manuscript: High-Throughput Preparation of Radioprotective Polymers via Hantzsch’s Reaction for In Vivo X-ray Damage Determination

description: These data support the related manuscript: “High-Throughput Preparation
of Radioprotective Polymers via Hantzsch’s Reaction for <i>In Vivo</i> X-ray Damage Determination”.

The data consist of a single Excel .xlsx format spreadsheet with 15
tabs, where each tab contains all reported means/averages in plots, charts, and tables underlying figures, subfigures,
supplementary figures, or supplementary subfigures in the related manuscript. The figures and supplementary figures covered are: Figures 3, 5d, 6b, 6c, 7b and Supplementary Figures S6, S7, S8b, S9, S10b, S11a, S11b, S14a, S15b, S18.

The related study developed a new strategy to explore safe and
efficient radioprotectors for acute injuries caused by large doses of ionizing
radiation by combining Hantzsch’s reaction, high-throughput methods and polymer
chemistry.<br>
DOI: 10.6084/m9.figshare.13108574
title: Additional file 10 of Genome-enabled insights into the biology of thrips as crop pests

description: Additional file 10. Custom Perl scripts used to compute the number of genes in each category of the phylogenomic analysis of the official gene set shown in Fig. 2a.
DOI: 10.6084/m9.figshare.13108574.v1
title: Additional file 10 of Genome-enabled insights into the biology of thrips as crop pests

description: Additional file 10. Custom Perl scripts used to compute the number of genes in each category of the phylogenomic analysis of the official gene set shown in Fig. 2a.
DOI: 10.5066/p9p7xxhj
title: Remotely-sensed observations of the unrestored riparian corridor of the Colorado River Delta in Mexico, 2019-2022

description: These data were compiled for evaluating plant water use, or river-reach level evapotranspiration (ET) data, in the unrestored riparian corridor of the Colorado River delta as specified under Minute 319 of the 1944 Water Treaty. Additionally, these data were compiled for evaluating restoration-level data in Reach 2 and Reach 4, as specified under Minute 323 of the 1944 Water Treaty. Objectives of our study were to measure the peak growing season evapotranspiration (ET) for the average of months in summer-fall (May to October) for the seven reaches, for the full riparian corridor, and for four restoration sites, from 2019 through 2022. The seven reach areas from the Northerly International Boundary (NIB) to the end of the delta at the Gulf of California were defined for research activities. These data represent measurements of the enhanced vegetation index 2 (EVI2) and ET using EVI2, along with potential ET from meteorological station data in Yuma, Arizona. These ET and EVI2 data depict a Landsat time series from three sensors over the 3-year period. These data were collected using Landsat satellite data (30 m resolution) over the delta of the Colorado River starting near Yuma, AZ and continuing another 150km to the Gulf of California along the river corridor. These data were collected by Pamela Nagler, Ph.D. of the U.S. Geological Survey-Southwest Biological Science Center, and Ibrahima Sall, Ph.D. of the University of Arizona, Department of Agricultural and Resource Economics, and Armando Barreto-Mu&ntilde;oz, Ph.D. and Kamal Didan, Ph.D. of the University of Arizona, Vegetation Index and Phenology Lab. These data can be used to evaluate riparian vegetation community water use in the Lower Colorado River delta region where there is active restoration efforts. Additionally, the time-series data can be used by land and water managers to monitor spatial and temporal riparian zone trends and changes, and document riparian ecosystem health and its water use in the riparian corridor of the Lower Colorado River delta near Yuma, AZ and continuing another 150km to the Gulf of California.
DOI: 10.6084/m9.figshare.17193852
title: Additional file 1 of A PIP-mediated osmotic stress signaling cascade plays a positive role in the salt tolerance of sugarcane

description: Additional file 1: Table S1. The nucleic acid and amino acid sequences of the ScPIP gene family presented in this study.
DOI: 10.6084/m9.figshare.17193852.v1
title: Additional file 1 of A PIP-mediated osmotic stress signaling cascade plays a positive role in the salt tolerance of sugarcane

description: Additional file 1: Table S1. The nucleic acid and amino acid sequences of the ScPIP gene family presented in this study.
DOI: 10.6084/m9.figshare.17193855
title: Additional file 2 of A PIP-mediated osmotic stress signaling cascade plays a positive role in the salt tolerance of sugarcane

description: Additional file 2: Table S2. The bioinformatics information of ScPIP proteins.
DOI: 10.6084/m9.figshare.17193855.v1
title: Additional file 2 of A PIP-mediated osmotic stress signaling cascade plays a positive role in the salt tolerance of sugarcane

description: Additional file 2: Table S2. The bioinformatics information of ScPIP proteins.