cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.17632/rfpjy3r4pg.1
title: The Amazon Urban Weft: Database of SocioSpatial and Nature Dimensions

description: In the Amazon, urbanized areas, beyond cities, constitute a complex urban network involving exchanges of economic and sociocultural capital, mediated by the management of sociobiodiversity. Despite its potential for an open future, this territory is often rendered invisible by the instruments and methods used to apprehend and represent urbanization in the Amazon. This database is a contribution to expanding the understanding of the extensive and complex urban weft in the context of the Pará Amazon. Divided into two dimensions of analysis - sociospatial and nature - the proposed approach is a reinterpretation of the situation classes of the census tract meshes of 2000, 2010, and 2021 (https://www.ibge.gov.br/geociencias/organizacao-do-territorio/malhas-territoriais/26565-malhas-de-setores-censitarios-divisoes-intramunicipais.html). Based on the official definition of the situation classes, it was possible to propose a regrouping to assist in defining an urban gradient, including the urban, as a representation of the process of consolidation of the industrial urban in the territory, and three more intermediate classes, as a formal representation of the multiple narratives and trajectories that describe the peri-urban Amazon, the space bearing possibilities, not yet completely transformed and/or subjected to the logic of capitalist occupation and transformation.

These data, combined with mapping data from PRODES-INPE 2022 (https://terrabrasilis.dpi.inpe.br/downloads/), mediated by the presence and percentage of primary forest and rivers, help to identify territories with more or fewer possibilities for reproducing urbanization processes more adjusted to the reality of the territory. The shapefile of the urban weft adopts 1km² cells as the unit of analysis, simultaneously seeking the classification of the urban gradient, which integrates the definitions of situation classes established by IBGE, with their temporal evolution, in a continuous spatial representation that, although associated with census boundaries (census tracts with nucleated occupation), is independent of their historical differences.
DOI: 10.17632/rfpjy3r4pg.2
title: The Amazon Urban Weft: Database of SocioSpatial and Nature Dimensions

description: In the Amazon, urbanized areas, beyond cities, constitute a complex urban network involving exchanges of economic and sociocultural capital, mediated by the management of sociobiodiversity. Despite its potential for an open future, this territory is often rendered invisible by the instruments and methods used to apprehend and represent urbanization in the Amazon. This database is a contribution to expanding the understanding of the extensive and complex urban weft in the context of the Pará Amazon. Divided into two dimensions of analysis - sociospatial and nature - the proposed approach is a reinterpretation of the situation classes of the census tract meshes of 2000, 2010, and 2021 (https://www.ibge.gov.br/geociencias/organizacao-do-territorio/malhas-territoriais/26565-malhas-de-setores-censitarios-divisoes-intramunicipais.html). Based on the official definition of the situation classes, it was possible to propose a regrouping to assist in defining an urban gradient, including the urban, as a representation of the process of consolidation of the industrial urban in the territory, and three more intermediate classes, as a formal representation of the multiple narratives and trajectories that describe the peri-urban Amazon, the space bearing possibilities, not yet completely transformed and/or subjected to the logic of capitalist occupation and transformation.

These data, combined with mapping data from PRODES-INPE 2022 (https://terrabrasilis.dpi.inpe.br/downloads/), mediated by the presence and percentage of primary forest and rivers, help to identify territories with more or fewer possibilities for reproducing urbanization processes more adjusted to the reality of the territory. The shapefile of the urban weft adopts 1km² cells as the unit of analysis, simultaneously seeking the classification of the urban gradient, which integrates the definitions of situation classes established by IBGE, with their temporal evolution, in a continuous spatial representation that, although associated with census boundaries (census tracts with nucleated occupation), is independent of their historical differences.
DOI: 10.17632/wtz8hf824k.1
title: LDHU3_11.1560

description: ATP-binding cassette protein subfamily A, member 5 | ABCA5; Leishmania donovani (HU3 strain)
DOI: 10.17632/f5rnc8csp9.1
title: LDHU3_11.1510

description: ATP-binding cassette subfamily A member | ABCA3; Leishmania donovani (HU3 strain)
DOI: 10.17632/zsvf5g6fj3.1
title: AUSDEM_2023

description: 1 arc-second resolution, open-access AUSDEM_2023 (0°-50°S, 100°-160°E)
DOI: 10.17632/czhfj4g6vb.1
title: Markov chain models for tissue regulatory T cell cellular kinetics and dwell times

description: CD45.1 mice were parabiosed to CD45.2 mice. Pairs of parabiotic animals were sacrificed and perfused at weeks 1, 2, 4, 8, and 12 for tissue analysis by flow cytometry (n=11,12,18,16,14). Markov chains were built to model the changes in cell state and tissue exchange, with each tissue built using a model containing the tissue, blood, and combined other tissues. Full code for analysis: https://github.com/gergelits/markov_chain_tissue_treg
DOI: 10.17632/k5hdc9cz7w.1
title: Integration of Swin UNETR and statistical shape modeling for a semi-automated segmentation of the knee and biomechanical modeling of articular cartilage

description: Our study aimed to enhance subject-specific knee joint FE modeling by incorporating a semi-automated segmentation algorithm. This segmentation was a 3D Swin UNETR for an initial segmentation of the femur and tibia, followed by a statistical shape model (SSM) adjustment to improve surface roughness and continuity. Five hundred and seven magnetic resonance images (MRIs) from the Osteoarthritis Initiative (OAI) database were used to build and validate the segmentation model. The masks for the femur, tibia and cartilages were performed by skilled users from the Zuse Institute Berlin "F. Ambellan, A. Tack, M. Ehlke, and S. Zachow, “Automated segmentation of knee bone and cartilage combining statistical shape knowledge and convolutional neural networks: Data from the Osteoarthritis Initiative,” Med Image Anal, vol. 52, pp. 109–118, 2019."
The Swin UNETR and SSM models and codes have been made publicly available, so researchers can use these models or customize the code for a different dataset to meet their needs. Please refer to our GitHub for any update https://github.com/Rezakaka/knee-segmentation.git
DOI: 10.17632/k26544jj98.1
title: R Scripts for running simulations

description: R Scripts that generates the data in https://doi.org/10.17632/5rmrxkybbz.1
DOI: 10.17632/s9g9vk4fzb.1
title: Data. Physicochemical characteristics of the soil in silvopastoral systems

description: Anthropogenic activity has been degrading vegetation cover in order to initiate diverse agricultural and livestock activities. Silvopastoral systems (SPS) are an alternative to reduce the negative effects generated by cattle raising. However, the relationship between trees and soil characteristics is poorly unknown. We evaluated the effect of silvopastoral systems [SPS Bolaina (Guazuma crinite Mart), Teca (Tectona grandis LF), Arboretum, Pucaquiro (Síckingia tínctoría), Quinilla (Manilkara bidentata) and Natural Forest] on the physicochemical characteristics of the soil in a cattle system at the tropical region of Peru. We used a completely randomized design with six treatments, two replications and the experimental units were sampled from 0 to 10 cm and 10 to 20 cm.
DOI: 10.17632/6zt8scbsz2.1
title: The ATP-dependent DEAD-box RNA Helicase Dbp2 regulates the glucose/nitrogen stress response in baker’s yeast by modulating reversible nuclear retention and decay of SKS1 mRNA

description: In baker's yeast Saccharomyces cerevisiae, a small subset of total cellular mRNAs called special mRNAs are exported slowly and are retained preferentially in the nucleus. However, the mechanism of their slow export as well as the physiological significance of their nuclear retention remained elusive. In this work, we investigate the mechanistic aspect of the preferential nuclear retention of "Special" mRNAs in Saccharomyces cerevisiae, using SKS1 mRNA as a model special mRNA encoding a glucose-sensing serine/threonine kinase. Nuclear retention of the SKS1 mRNA triggered by a 202 nt “export-retarding” nuclear zip code (NZ) element promotes its rapid degradation in the nucleus by the nuclear exosome/CTEXT. We demonstrate that Dbp2p, an ATP-dependent DEAD-box RNA helicase binds to SKS1 and other special mRNAs and thereby inhibits their export by antagonizing with the binding of the export factors Mex67p/Yra1p. Consistent with this observation, a significant portion of these special mRNAs were found to localize into the cytoplasm in a yeast strain carrying a deletion in the DBP2 gene with the concomitant enhancement of its steady-state level and stability. This observation supports the view that Dbp2p promotes the nuclear retention of special mRNAs to trigger their subsequent nuclear degradation. Further analysis revealed that Dbp2p-dependent nuclear retention of SKS1 mRNA is reversible, which plays a crucial role in the adaptability and viability of the yeast cells in low concentrations of glucose/nitrogen in the growth medium. At high nutrient levels when the function of Sks1p is not necessary, SKS1 mRNA is retained in the nucleus and degraded. In contrast, during low glucose/nitrogen levels when Sks1p is vital to respond to such situations, the nuclear retention of SKS1 mRNA is relieved to permit its increased nuclear export and translation leading to a huge burst of cytoplasmic Sks1p.
DOI: 10.17632/fpnfb6cnpw.1
title: Digital competences, methodology and evaluation in teacher educators

description: Digital skills are being considered in the current professional profile of the higher education teacher and the teaching-learning models have been adapted to the different social and educational changes; In this sense, university teachers have different levels of development of digital skills and the educational model centered on the student is the one that predominates.
The methodology of this study responds to a mixed, non-experimental, cross-sectional and correlational design.
The data used in this study were based on the anonymous application of two questionnaires to university professors, the SPSS software was used and the results were presented in tables and figures.
DOI: 10.17632/t3dk5bvmc6.1
title: LDHU3_18.1400

description: cAMP phosphodiesterase A | PDEA; Leishmania donovani (HU3 strain)
DOI: 10.17632/xymm9v9z75.2
title: Supplementary material for the article "Hydrothermal signatures and prospecting indicators in sediments along the Carlsberg Ridge"

description: Supplementary table 1 Major and trace element composition of sediments along the CR.
Supplementary table 2 Rare earth element composition of sediments along the CR.
DOI: 10.17632/7gzp7jcrp2.1
title: LDHU3_18.1390

description: Protein kinase A catalytic subunit | PKAC3; Leishmania donovani (HU3 strain)
DOI: 10.17632/vkjkwf9wm9.1
title: LINF_360038100

description: Glutathione peroxidase; Leishmania infantum (strain JPCM5)
DOI: 10.17632/zcg9vxtys4.1
title: LDHU3_18.1380

description: Vps16-like protein; Leishmania donovani (HU3 strain)
DOI: 10.17632/ngx5fr4xdf.1
title: LINF_360035800

description: Nucleoside diphosphate kinase-like protein; Leishmania infantum (strain JPCM5)
DOI: 10.17632/yh984r4xy8.1
title: LDHU3_18.1340

description: 5-oxoprolinase; Leishmania donovani (HU3 strain)
DOI: 10.17632/75ts7tc9yr.1
title: LINF_360037100

description: Protein of unknown function - conserved; Leishmania infantum (strain JPCM5)
DOI: 10.17632/nfrxyvspdb.1
title: LDHU3_18.1280

description: Hypothetical protein - conserved; Leishmania donovani (HU3 strain)
DOI: 10.17632/9xw92zrnyp.1
title: LINF_360035100

description: Transportin 2-like protein; Leishmania infantum (strain JPCM5)
DOI: 10.17632/mdvmbn5d74.1
title: LINF_360035530

description: Hypothetical protein - conserved; Leishmania infantum (strain JPCM5)
DOI: 10.17632/yg6xw7kswj.1
title: Lymphatic endothelial Tbx1 promotes an immunosuppressive microenvironment to facilitate post-myocardial infarction repair

description: Title: Transcription factor Tbx1 binding site in post-myocardial infarction hearts. 

Data type: Genome binding/occupancy profiling by high throughput sequencing. 

Citation: Wang, W., Li, X., Ding, X., Xiong, S., Hu, Z., Lu, X., Zhang, K., Zhang, H., Hu, Q., Lai, K.S., Chen, Z., Yang, J., Song, H., Wang, Y., Wei, L., Xia, Z., Zhou, B., He, Y., Pu, J., Liu, X., Ke, R., Wu, T., Huang, C., Baldini, A., Zhang, M., Zhang, Z., 2023. Lymphatic endothelial transcription factor Tbx1 promotes an immunosuppressive microenvironment to facilitate post-myocardial infarction repair. Immunity 1–16.

Summary: The heart is an autoimmune-prone organ. It is crucial for the heart to keep injury-induced autoimmunity in check to avoid autoimmune-mediated inflammatory disease. However, little is known about how injury-induced autoimmunity is constrained in hearts. Here we reveal an unknown intramyocardial immunosuppressive program driven by Tbx1, a DiGeorge syndrome disease gene that encodes a T-box transcription factor. We found induced profound lymphangiogenic and immunomodulatory gene expression changes in lymphatic endothelial cells (LECs) after myocardial infarction (MI). The activated LECs penetrated the infarcted area and functioned as intramyocardial immune hubs to increase the numbers of tolerogenic dendritic cells (tDCs) and regulatory T cells (Tregs) through the chemokineCcl21 and integrin Icam1, thereby inhibiting the expansion of autoreactive CD8+ T cells and promoting reparative macrophage expansion to facilitate post-MI repair. Mimicking its timing and implementation may be a novel approach to treating autoimmunity-mediated cardiac diseases.

Experimental design: We generated a Tbx1FlagSBP allele to perform Tbx1 ChIP experiments to identify potential transcriptional targets of Tbx1. A total of 7,147 peaks were enriched compared to the input control, 26.7% of which contained the consensus T-box binding motif. To filter out injury-activated Tbx1 binding peaks, we compared our data with cardiac endothelial-specific ATAC-seq data from uninjured hearts (Yucel et al., 2020). The functional annotation of genes associated with Tbx1 peaks or Tbx1 ChIP-seq-only peaks showed a strong enrichment for genes involved in immune tolerance, autoimmune response, T cell activation, endothelial cell growth and migration, consistent with transcriptional analysis. These results suggested that the aforementioned lymphangiogenic and immunomodulatory genes were direct targets of Tbx1.
DOI: 10.17632/4s7dgr8f6p.1
title: APOE regulates the transport of GM1

description: We hypothesize that GM1, a ganglioside abundant in cell membranes, particularly in the nervous system, may serve as the missing link between APOE and Aβ pathology. We find that both APOE3 and APOE4 exhibit superior binding affinity to GM1 compared to cholesterol and have an enhanced cellular uptake to GM1 lipid structures than cholesterol lipid structures. APOE regulates the transport process of GM1 depending on the cell type, which is influenced by the expression of APOE receptors in different cell lines and alters GM1 contents in cell membranes. We also find that the presence of GM1 alters the secondary structure of APOE3 and APOE4 and enhances the binding affinity between APOE and its receptor low-density lipoprotein receptor (LDLR), consequently promoting the cellular uptake of lipid structures in the presence of APOE. To understand the enhanced cellular uptake observed in lipid structures containing 20% GM1, we determined the distribution of GM1 on the membrane and found that GM1 clustering in lipid rafts, thereby supporting the physiological interaction between APOE and GM1. Overall, we find that APOE plays a regulatory role in GM1 transport, and the presence of GM1 on the lipid structures influences this transport process.
DOI: 10.17632/pg7xj72cr8.1
title: LDHU3_18.1440

description: Ras-related protein Rab5A; Leishmania donovani (HU3 strain)
DOI: 10.17632/szh48gt56s.1
title: LDHU3_18.1410

description: Protein with ankyrin repeats; Leishmania donovani (HU3 strain)
DOI: 10.17632/6hhdxszm56.1
title: Digital Addiction Research Dataset

description: This dataset is created within the scope of Happy Project: A Socio-Technical Mining System That Measures Social Happiness", which is the Tübitak 1003 Priority Areas R&D project developed of 497 undergraduate students participating 304 female and 193 male. Dataset consisted of the result of the Oxford Happiness Questionnaire, Five Factor Personality Scale, Fear of Missing Out Scale, Smartphone Addiction Scale, and Social Media Addiction Scale.

The aim of research explore the effect of digital addiction on happiness using machine learning algorithm. For this reason, in the dataset the happiness attribute was truncated from the median value to two as happy and unhappy and represent it as target attribute. Random forests algorithm showed the best accuracy with 96% according to the results as a classification problems in this dataset.
DOI: 10.17632/6hhdxszm56.2
title: Digital Addiction Research Dataset

description: This dataset is created within the scope of Happy Project: A Socio-Technical Mining System That Measures Social Happiness", which is the Tübitak 1003 Priority Areas R&D project developed of 497 undergraduate students participating 304 female and 193 male. Dataset consisted of the result of the Oxford Happiness Questionnaire, Five Factor Personality Scale, Fear of Missing Out Scale, Smartphone Addiction Scale, and Social Media Addiction Scale.

The aim of research explore the effect of digital addiction on happiness using machine learning algorithm. For this reason, in the dataset the happiness attribute was truncated from the median value to two as happy and unhappy and represent it as target attribute. Random forests algorithm showed the best accuracy with 96% according to the results as a classification problems in this dataset.
DOI: 10.17632/nbf88xrb5n.1
title: TexSense: Comparative ECG Analysis of E-Textile and Sticky Electrodes During Human Motion

description: In this study, we investigated the performance of textile dry electrodes versus traditional sticky (AgCl) electrodes in capturing Electrocardiogram signals during various human motion activities (Fig 1). We aimed to evaluate how well textile dry electrodes, made from silver-based knit conductive fabric, perform in real-life scenarios compared to sticky electrodes. Experiments with 20 healthy adults (10 male, 10 female) involved 14 tasks including reclining exercises, standing, walking, and running.
DOI: 10.5281/zenodo.14194939
title: Supporting data: Divergent Estimates of China's Forest Carbon Sink Can Not Be Well Coordinated based on a Collective Analysis

description: Differences in the carbon sink results obtained from the inventory method, DGVMs, ATM, and EC were compensated using relevant data under a harmonized definition of the NetFCsink. All the carbon flux results used have been stored in an xlsx file, categorized according to the corresponding method.
DOI: 10.5281/zenodo.14194940
title: Supporting data: Divergent Estimates of China's Forest Carbon Sink Can Not Be Well Coordinated based on a Collective Analysis

description: Differences in the carbon sink results obtained from the inventory method, DGVMs, ATM, and EC were compensated using relevant data under a harmonized definition of the NetFCsink. All the carbon flux results used have been stored in an xlsx file, categorized according to the corresponding method.
DOI: 10.5281/zenodo.14699526
title: Supporting data: Divergent Estimates of China's Forest Carbon Sink Can Not Be Well Coordinated based on a Collective Analysis

description: Differences in the carbon sink results obtained from the inventory method, DGVMs, ATM, and EC were compensated using relevant data under a harmonized definition of the NetFCsink. All the carbon flux results used have been stored in an xlsx file, categorized according to the corresponding method.
DOI: 10.17632/h6bb7ckhtb.2
title: Correlation between the SF-36 and CCVUQ Quality of Life Scales, Applied to Patients with Venous Ulcers: a cross-sectional study carried out in primary health care in Brazil

description: This study aimed to analyze the correlation between the QL scales SF-36 and CCVUQ, applied to people with VU assisted in Brazilian PHC units. This is an observational, cross-sectional study with a quantitative approach, carried out in 2020 in a center specialized in the prevention and treatment of chronic VU, which is a reference service for 29 PHC units in the city of Parnamirim, state from Rio Grande do Norte, Brazil. The study population consisted of patients who had active VU, treated at the PHC in the city of Parnamirim, which is located in the metropolitan region of the city of Natal, capital of the state of Rio Grande do Norte. We used the SF-36, which assesses eight domains and two dimensions of QoL, and the CCVUQ, a specific questionnaire to assess QoL in individuals with VU, which identifies four important divisions of health. To assess the internal consistency of the QoL scales (SF-36 and CCVUQ), we performed Cronbach's inferential analysis (α), using the following parameters: 0.30 &lt; α ≤ 0.60 (low); 0.60 &lt; α ≤ 0.75 (moderate); 0.75 &lt; α ≤ 0.90 (high); α &gt; 0.90 (very high). To analyze the correlation (r) between the scalar variables of both scales, the Spearman Rho Test was used. Their classification according to the levels of correlation was determined by the following parameters: r &lt; 0.29 (weak); 0.29 &gt; r &lt; 0.49 (moderate); r &gt; 0.50 (strong). The direction of the correlation was classified considering that the SF-36 scale indicates better QoL when it results in higher scores (increasing direction for better QoL), while the CCVUQ scale presents a decreasing sense to determine better QoL. Therefore, we called it “direct correlation” when r was negative and “opposite correlation” when r was positive. For all tests, we adopted a margin of error of 5% and a Confidence Interval (CI) of 95%, with a significance value of p&lt;0.05. The final sample was n= 103. In the analysis, the correlation between the Domestic activities division (CCVUQ) aspect and the SF-36 Physical role functioning domains (r= -0.50/ p&lt; 0.001) stood out as strong, and Physical functioning (r= -0.31/ p= 0.001), as moderate. The Social interaction division (CCVUQ) aspect showed moderate correlation with the SF-36 domains Physical role functioning (r= -0.43/ p&lt; 0.001) and Physical functioning (r= -0.42/ p&lt; 0.001). The Vitality domain (SF-36) showed a moderate correlation with aspects of the CCVUQ Cosmesis division (r= -0.32/ p&lt; 0.001) and Emotional status Division (r= -0.36/ p&lt; 0.001). We conclude that there was a direct correlation between the analyzed scales, which showed greater strength between the physical, functional and vitality aspects of the SF-36 and the domestic activities and social interaction of the CCVUC, data that imply the acceptance of our study hypothesis.
DOI: 10.17632/vzmb8ddwzb.1
title: Revisiting the depositional age and provenance characteristics of metasedimentary rocks from the basement units in the Central Pontides (N Turkey): New constraints for tectonic evolution of the southern Black Sea region

description: This dataset includes the whole rock geochemistry, detrital zircon U-Pb, trace element and Lu-Hf and mica Ar-Ar data from a study on the basement units (Devrekani Massif, the Geme Complex and the Serveçay Unit) in the Central Pontides (N Turkey) to constrain the depositional age, provenance characteristics and tectonic evolution of metasedimentary rocks.