cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.15468/dl.jtk2dg
title: Occurrence Download

description: A dataset containing 78774 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Rhinella marina"
 ]
}

 The dataset includes 78774 records from 503 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0010877-250827131500795/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.6084/m9.figshare.22735488.v1
title: Additional file 1 of scRNASequest: an ecosystem of scRNA-seq analysis, visualization, and publishing

description: Additional file 1: Supplementary Table S1. Detailed comparison of multiple single-cell RNA-seq data processing workflows.
DOI: 10.6084/m9.figshare.22735491
title: Additional file 2 of scRNASequest: an ecosystem of scRNA-seq analysis, visualization, and publishing

description: Additional file 2: Supplementary Table S2. An example of NEBULA differential expression analysis results. FDR: False discovery rate. The NEBULA-HL method was used.
DOI: 10.6084/m9.figshare.11742528
title: The role of the key autophagy kinase ULK1 in hepatocellular carcinoma and its validation as a treatment target

description: Although macroautophagy/autophagy is involved in hepatocellular carcinoma (HCC) initiation and development and has been identified as a mechanism of HCC therapy resistance, the role of ULK1 (unc-51 like autophagy activating kinase 1) in HCC remains unclear. Here, we report that both knockdown and knockout of <i>ULK1</i> inhibited human HCC cell proliferation and invasion, and <i>Ulk1</i> deletion abrogated tumor growth in a xenograft mouse model. Furthermore, <i>ULK1</i> ablation in combination with sorafenib significantly inhibited HCC progression compared with sorafenib treatment alone or vehicle control. To identify candidate ULK1 inhibitors, we used a structure-based virtual docking approach to screen 3428 compounds. Among these compounds, XST-14 showed the highest affinity for the ULK1 protein and specifically blocked ULK1 kinase activity. Moreover, the Lys46, Tyr94 and Asp165 amino acid residues of ULK1 were required for its binding to XST-14 according to molecular docking and mutagenesis experiments. Functional assays revealed that XST-14 blocked autophagy and subsequently induced apoptosis and inhibited growth in HCC cells. More importantly, XST-14 acted synergistically with sorafenib to attenuate HCC progression by inhibiting sorafenib-induced autophagy activation both <i>in vitro</i> and <i>in vivo</i>. In addition, XST-14 was well tolerated and exhibited favorable drug metabolism and pharmacokinetic properties and low toxicity in mice. In summary, our study determined that ULK1 may represent a new therapeutic target for HCC and that targeting ULK1 in combination with sorafenib treatment may serve as a promising interventional strategy for treating HCC. <b>Abbreviations:</b> 3MA: 3-methyladenine; ADV: AutoDock Vina; ATP: adenosine triphosphate; EdU: 5-ethynyl-2′-deoxyuridine; ESI: electrospray ionization; HCC: hepatocellular carcinoma; IC<sub>50</sub>: half maximal inhibitory concentration; KD: kinase domain; q.o.d., every other day; SDS-PAGE, sodium dodecyl sulfate-polyacrylamide gel electrophoresis; SPR, surface plasmon resonance.
DOI: 10.6084/m9.figshare.11742528.v1
title: The role of the key autophagy kinase ULK1 in hepatocellular carcinoma and its validation as a treatment target

description: Although macroautophagy/autophagy is involved in hepatocellular carcinoma (HCC) initiation and development and has been identified as a mechanism of HCC therapy resistance, the role of ULK1 (unc-51 like autophagy activating kinase 1) in HCC remains unclear. Here, we report that both knockdown and knockout of <i>ULK1</i> inhibited human HCC cell proliferation and invasion, and <i>Ulk1</i> deletion abrogated tumor growth in a xenograft mouse model. Furthermore, <i>ULK1</i> ablation in combination with sorafenib significantly inhibited HCC progression compared with sorafenib treatment alone or vehicle control. To identify candidate ULK1 inhibitors, we used a structure-based virtual docking approach to screen 3428 compounds. Among these compounds, XST-14 showed the highest affinity for the ULK1 protein and specifically blocked ULK1 kinase activity. Moreover, the Lys46, Tyr94 and Asp165 amino acid residues of ULK1 were required for its binding to XST-14 according to molecular docking and mutagenesis experiments. Functional assays revealed that XST-14 blocked autophagy and subsequently induced apoptosis and inhibited growth in HCC cells. More importantly, XST-14 acted synergistically with sorafenib to attenuate HCC progression by inhibiting sorafenib-induced autophagy activation both <i>in vitro</i> and <i>in vivo</i>. In addition, XST-14 was well tolerated and exhibited favorable drug metabolism and pharmacokinetic properties and low toxicity in mice. In summary, our study determined that ULK1 may represent a new therapeutic target for HCC and that targeting ULK1 in combination with sorafenib treatment may serve as a promising interventional strategy for treating HCC. <b>Abbreviations:</b> 3MA: 3-methyladenine; ADV: AutoDock Vina; ATP: adenosine triphosphate; EdU: 5-ethynyl-2′-deoxyuridine; ESI: electrospray ionization; HCC: hepatocellular carcinoma; IC<sub>50</sub>: half maximal inhibitory concentration; KD: kinase domain; q.o.d., every other day; SDS-PAGE, sodium dodecyl sulfate-polyacrylamide gel electrophoresis; SPR, surface plasmon resonance.
DOI: 10.6084/m9.figshare.11742534
title: Synthesis, characterization and anti-lung cancer activity of two transition metal coordination polymers based on the imidazole-containing ligands

description: This work presents the synthesis and characterization of two new transition metal coordination polymers [Co(tib)<sub>2</sub>](NO<sub>3</sub>)<sub>2</sub> (<b>1</b>, tib = 1,3,5-tris(1-imidazolyl)benzene) and [Cd<sub>4</sub>(bib)<sub>5</sub>(HCOO)<sub>8</sub>](DMF)<sub>3</sub> (<b>2</b>, bib = 4,4′-bisimidazolylbiphenyl) have been successfully prepared by using two imidazole-containing ligands with different geometers. All structures have been fully elucidated by single-crystal X-ray diffraction along with the elemental analysis. The structural solution and refinement results based on the crystal data collected at room temperature reveal that complex <b>1</b> shows a 2D layered structure with a binodal (3,6)-connected <b><i>kgd</i></b> topological net, while complex <b>2</b> also demonstrates a 2D framework but reflecting a 4-connected <b><i>sql</i></b> topological net. Furthermore, the anti-lung cancer activity of the two complexes has been studied via the Cell Counting Kit-8 (CCK-8) assay along with the corresponding action mechanism.
DOI: 10.6084/m9.figshare.11742534.v1
title: Synthesis, characterization and anti-lung cancer activity of two transition metal coordination polymers based on the imidazole-containing ligands

description: This work presents the synthesis and characterization of two new transition metal coordination polymers [Co(tib)<sub>2</sub>](NO<sub>3</sub>)<sub>2</sub> (<b>1</b>, tib = 1,3,5-tris(1-imidazolyl)benzene) and [Cd<sub>4</sub>(bib)<sub>5</sub>(HCOO)<sub>8</sub>](DMF)<sub>3</sub> (<b>2</b>, bib = 4,4′-bisimidazolylbiphenyl) have been successfully prepared by using two imidazole-containing ligands with different geometers. All structures have been fully elucidated by single-crystal X-ray diffraction along with the elemental analysis. The structural solution and refinement results based on the crystal data collected at room temperature reveal that complex <b>1</b> shows a 2D layered structure with a binodal (3,6)-connected <b><i>kgd</i></b> topological net, while complex <b>2</b> also demonstrates a 2D framework but reflecting a 4-connected <b><i>sql</i></b> topological net. Furthermore, the anti-lung cancer activity of the two complexes has been studied via the Cell Counting Kit-8 (CCK-8) assay along with the corresponding action mechanism.
DOI: 10.6084/m9.figshare.22735491.v1
title: Additional file 2 of scRNASequest: an ecosystem of scRNA-seq analysis, visualization, and publishing

description: Additional file 2: Supplementary Table S2. An example of NEBULA differential expression analysis results. FDR: False discovery rate. The NEBULA-HL method was used.
DOI: 10.6084/m9.figshare.20115466.v1
title: Additional file 3 of Positive interaction between GPER and β-alanine in the dorsal root ganglion uncovers potential mechanisms: mediating continuous neuronal sensitization and neuroinflammation responses in neuropathic pain

description: Additional file 3: Table S2. Primers Information of qPCR Experiment.
DOI: 10.6084/m9.figshare.22735558
title: Additional file 10 of Three QTL from Oryza meridionalis Could Improve Panicle Architecture in Asian Cultivated Rice

description: Additional file 10: Table S5. Interaction analysis between EP4.2 and DEP8 in NIL-F2 population
DOI: 10.6084/m9.figshare.23276912
title: Data from 'A multidimensional framework to quantify the effects of urbanization on avian breeding fitness'

description: Database and derived data used in the paper "A multidimensional framework to quantify the effects of urbanization on avian breeding fitness", including all papers obtained from WebofScience and Scopus, and review results.
DOI: 10.11583/dtu.19738789
title: Data set for "The sintering behavior of ellipsoidal particles"

description: This repository is the data described in the article "The sintering behavior of ellipsoidal particles".
<br>
The repository contains data for 25 simulations done using a kinetic Monte Carlo model of sintering.
<br>
Five different particle aspect ratios, AR, are considered. The simulations for each of these has its own folder. Within that folder are the five independent simulations run for each particle aspect ratio.
<br>
For each subdirectory, the data is stored as described below. 
The kinetic Monte Carlo sintering data, i.e. the voxel information as function of Monte Carlo Steps (MCS) is contained in the file "voxel_timesteps.mat", which is a Matlab data file containing two arrays. The first is the "atoms" array which is a 4D array with a number of simulation snapshots (i.e. where the state of the simulation is saved) and then voxel information in the 300x300x300 cubed lattice considered. Thus for example atoms(12,:,:,:) is the simulation snapshot 12 with voxel data for 300x300x300 sites. The voxel data is such that a simulation boundary site has a value of -1, a pore site a value of 0 and a grain site an integer value larger than 1. Different grains have different integer values. The other array in the matlab file is the "timestep" array which simply contains informations on how many MCS each simulation snapshot corresponds to.
All information presented in the article can be extracted from the kinetic Monte Carlo simulation snapshots. However, the information regarding relative density, mean grain size, strain and mean coordination number is, for ease of use, given in the "data_processed.txt" in each simulation sub-folder. The header in the file describe how the file is structured.
DOI: 10.6084/m9.figshare.19606945
title: Phosphorus addition decreases plant lignin but increases microbial necromass contribution to soil organic carbon in a subalpine forest

description: Soil microbial communities, plant and microbial biomarkers, as well as SOC physical and chemical fractions in a subalpine forest under P addition.
<br>
DOI: 10.6084/m9.figshare.16969258.v1
title: Additional file 4 of A novel adenylate isopentenyltransferase 5 regulates shoot branching via the ATTTA motif in Camellia sinensis

description: Additional file 4.
DOI: 10.5281/zenodo.10654342
title: INSON XUQUQLARI VA MAJBURIYATLARI. HUQUQIY VOSITALAR
DOI: 10.5281/zenodo.10654343
title: INSON XUQUQLARI VA MAJBURIYATLARI. HUQUQIY VOSITALAR
DOI: 10.6084/m9.figshare.21162771.v1
title: Additional file 1 of Correlation between ocular residual astigmatism and anterior corneal astigmatism in children with low and moderate myopia

description: Additional file 1.
DOI: 10.6084/m9.figshare.21162858.v1
title: Additional file 1 of What makes a reaction network “chemical”?

description: Additional file 1. Stoichiometric matrix of the complete formose RN, Fig. 4, in machine-readable form.
DOI: 10.6084/m9.figshare.21162781.v1
title: Additional file 1 of Effects of nursing support workers participation on negative emotions, quality of life and life satisfaction of patients with cerebral hemorrhage: a quasi-experimental study

description: Additional file 1.
DOI: 10.5281/zenodo.10654192
title: test_data
DOI: 10.6084/m9.figshare.21162771
title: Additional file 1 of Correlation between ocular residual astigmatism and anterior corneal astigmatism in children with low and moderate myopia

description: Additional file 1.
DOI: 10.5281/zenodo.10654359
title: Data analysis procedure of NGS data of STAT3 minigene
DOI: 10.5281/zenodo.10654360
title: Data analysis procedure of NGS data of STAT3 minigene
DOI: 10.17632/3njs5mc96d.1
title: Mobile Payment System & FinTech to Process Financial Transactions

description: The data collection involves gathering quantitative data through a structured questionnaire (survey) comprising 12 questions, presented as Likert charts or Single Choice questions. Also, a supplementary file offers detailed information on the primary data collected during the study.
DOI: 10.17632/t2vr872rjv.1
title: Experimental Data on Hot Water Storage Tank

description: This dataset pertains to a series of laboratory experiments conducted using a commercially available hot water storage tank, simulating various operational scenarios typical of heat pump-driven heating systems. The objective of these experiments was to assess the model's performance across a spectrum of inlet temperatures and mass flow rates, ensuring its effectiveness under diverse operating conditions. The experimental setup was based at the Energy Exchange Lab of Eurac Research and featured a KOOLTANK 2000 TES tank.
A total of eleven charging and eleven discharging experiments were carried out on the water storage tank. In the charging tests, the gas boiler was initially activated to heat the water within the tank, ensuring uniformity with a target temperature of 30°C along the vertical axis. Subsequently, depending on the specific charging scenario, hot water at temperatures of 40°C, 55°C, 70°C, and 83°C was introduced into the tank through the upper port. Simultaneously, water was discharged from the lower port, with the outflow temperature matching the charging temperature as the criteria for completion. Different inlet mass flow rates of 0.14 kg/s, 0.28 kg/s, and 0.42 kg/s were explored for each inlet temperature. However, it's important to note that the charging experiment involving an inlet temperature and mass flow rate of 83°C and 0.42 kg/s was deemed unfeasible due to limitations in the gas boiler's power capacity.
For the discharging tests, the gas boiler's setpoint temperatures were set at 40°C, 55°C, 70°C, and 83°C, depending on the specific case number. The tests commenced when three thermometers confirmed the setpoint temperature with some margin. In these tests, water at an inlet temperature and mass flow rate of 30°C and 0.14 kg/s was injected into the lower terminal, while hot water was discharged from the upper terminal. The experiments continued until the outflow water reached 30°C. These discharging tests were also conducted for inlet mass flow rates of 0.28 kg/s and 0.42 kg/s. The following table provide further details of each charging and discharging experiment.
DOI: 10.6084/m9.figshare.16969111
title: Additional file 1 of The ensemble learning model is not better than the Asian modified CKD-EPI equation for glomerular filtration rate estimation in Chinese CKD patients in the external validation study

description: Additional file 1. (XLS 55 kb)
DOI: 10.6084/m9.figshare.21162858
title: Additional file 1 of What makes a reaction network “chemical”?

description: Additional file 1. Stoichiometric matrix of the complete formose RN, Fig. 4, in machine-readable form.
DOI: 10.6084/m9.figshare.21967445
title: An umbrella review of the literature on the effectiveness of goal setting interventions in improving health outcomes in chronic conditions

description: To identify the contexts in which goal setting has been used in chronic disease management interventions and to estimate the magnitude of its effect on improvement of health outcomes. The strength of evidence and extent of potential bias in the published systematic reviews of goal setting interventions in chronic conditions were summarized using AMSTAR2 quality appraisal tool, number of participants, 95% prediction intervals, and between-study heterogeneity. Components of goal setting interventions were also extracted. Nine publications and 35 meta-analysis models were identified, investigating 25 health outcomes. Of the 35 meta-analyses, none found strong evidence and three provided some suggestive evidence on symptom reduction and perceived well-being. There was weak evidence for effects on eight health outcomes (HbA1c, self-efficacy, depression, anxiety, distress, medication adherence, health-related quality of life and physical activity), with the rest classified as non-significant. Half of the meta-analyses had high level of heterogeneity. Goal setting by itself affects outcomes of chronic diseases only to a small degree. This is not unexpected finding as changing outcomes in chronic diseases requires a complex and individualized approach. Implementing goal setting in a standardized way in the management of chronic conditions would seem to be a way forward.IMPLICATIONS FOR REHABILITATIONThe link between goal setting and health outcomes seems to be weak.Some levels of positive behavioural change could be of benefits to patients as seen by improved self-efficacy, patients’ satisfaction and overall quality of life.Systematic and consistent application of personalized goal-oriented interventions considering patient’s readiness to change could better predict improved outcomes.Incorporation of various goal setting components while actively engaging patient and/or their care givers in the process could appraise how goal setting could help with challenges in faced by people living with chronic conditions in different areas. The link between goal setting and health outcomes seems to be weak. Some levels of positive behavioural change could be of benefits to patients as seen by improved self-efficacy, patients’ satisfaction and overall quality of life. Systematic and consistent application of personalized goal-oriented interventions considering patient’s readiness to change could better predict improved outcomes. Incorporation of various goal setting components while actively engaging patient and/or their care givers in the process could appraise how goal setting could help with challenges in faced by people living with chronic conditions in different areas.
DOI: 10.6084/m9.figshare.16969316
title: Additional file 1 of Patterns and timing of recurrence in esophageal squamous cell carcinoma patients treated with neoadjuvant chemoradiotherapy plus esophagectomy

description: Additional file 1.
DOI: 10.6084/m9.figshare.22735590
title: Additional file 6 of H3K4me3-related lncRNAs signature and comprehensive analysis of H3K4me3 regulating tumor immunity in lung adenocarcinoma

description: Supplementary Material 6
DOI: 10.6084/m9.figshare.16969292.v1
title: Additional file 2 of Durations of asymptomatic, symptomatic, and care-seeking phases of tuberculosis disease with a Bayesian analysis of prevalence survey and notification data

description: Additional file 2. TB prevalence survey characteristics
DOI: 10.6084/m9.figshare.12775174.v1
title: Additional file 1 of Identification of protein complexes and functional modules in E. coli PPI networks

description: Additional file 1. S1-clustering results
DOI: 10.6084/m9.figshare.12775177
title: Additional file 2 of Identification of protein complexes and functional modules in E. coli PPI networks

description: Additional file 2. S2-novel complexes and functional modules
DOI: 10.6084/m9.figshare.12775177.v1
title: Additional file 2 of Identification of protein complexes and functional modules in E. coli PPI networks

description: Additional file 2. S2-novel complexes and functional modules
DOI: 10.6073/pasta/0dea1e568b1a3a0889a43d896df42453
title: DroughtNet: Establishing the International Drought Experiment at Cedar Creek tIDE (trait IDE): Percent Cover

description: Droughts are forecast to become increasingly frequent and intense in many regions worldwide, likely impacting community structure, ecosystem functioning, and ecosystem services. The International Drought Experiment (IDE) is a coordinated, multi-site drought experiment requiring only a moderate investment of time and resources by investigators. This coordinated, distributed experiment will quantify the impacts of extreme drought across a wide range of terrestrial ecosystems based on a common experimental design and a comparable suite of measurements. We aim to establish two stand-alone experiments following the IDE design at Cedar Creek. Precipitation reduction shelters will be established during spring 2017 to simulate a 1 in 100 year dry event, which at our site corresponds to removing 43% of annual precipitation. The tIDE (trait IDE) study will be established in e248 plots in the Big Biodiversity experiment field. The three precipitation treatments described above will be applied at the subplot level and fully crossed with the two current irrigation treatments (ambient or ambient plus ~2 cm per week of irrigation) and with two of the current fertilization treatments (unamended or 14 g N m-2), with six true replicate plots for each of the 12 treatment combinations, for a total of 72 subplots. Standard measurements across these two experiments and all other DroughtNet sites will include peak aboveground biomass clipping, soil carbon and nitrogen content, plant community composition from % cover, plant traits, and meteorological measurements (daily precipitation, air temperature). Many sites will also measure light availability, root biomass, soil moisture, and decomposition rates of tea bags and tongue depressors. Pre-treatment data will be collected during 2016. The experiment is expected to have minimal impacts on Cedar Creek and on other projects.
DOI: 10.6084/m9.figshare.16969295
title: Additional file 3 of Durations of asymptomatic, symptomatic, and care-seeking phases of tuberculosis disease with a Bayesian analysis of prevalence survey and notification data

description: Additional file 3. Extracted data, 11 included settings
DOI: 10.6084/m9.figshare.16969301
title: Additional file 5 of Durations of asymptomatic, symptomatic, and care-seeking phases of tuberculosis disease with a Bayesian analysis of prevalence survey and notification data

description: Additional file 5. Extracted data, Kenya. TB prevalence data were from Enos et al.