cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.12286661.v1
title: Supplementary Material for: Shaping of the Female Human Brain by Sex Hormones: A Review

description: Traditionally sex hormones have been associated with reproductive and developmental processes only. Since the 1950s we know that hormones can have organizational effects on the developing brain and initiate hormonal transition periods such as puberty. However, recent evidence shows that sex hormones additionally structure the brain during important hormonal transition periods across a woman’s life including short-term fluctuations during the menstrual cycle. However, a comprehensive review focusing on structural changes during all hormonal transition phases of women is still missing. Therefore, in this review structural changes across hormonal transition periods (i.e., puberty, menstrual cycle, oral contraceptive intake, pregnancy and menopause) were investigated in a structured way and correlations with sex hormones evaluated. Results show an overall reduction in grey matter and region-specific decreases in prefrontal, parietal and middle temporal areas during puberty. Across the menstrual cycle grey matter plasticity in the hippocampus, the amygdala as well as temporal and parietal regions were most consistently reported. Studies reporting on pre- and post-pregnancy measurements revealed volume reductions in midline structures as well as prefrontal and temporal cortices. During perimenopause, the decline in sex hormones was paralleled with a reduction in hippocampal and parietal cortex volume. Brain volume changes were significantly correlated with estradiol, testosterone and progesterone levels in some studies, but directionality remains inconclusive between studies. These results indicate that sex hormones play an important role in shaping women’s brain structure during different transition periods and are not restricted to specific developmental periods.
DOI: 10.6084/m9.figshare.25218521.v1
title: Supplementary Material for: Shared and distinct renal transcriptome signatures in three standard mouse models of chronic kidney disease

description: Introduction: Several mouse models with diverse disease etiologies are used in preclinical research for chronic kidney disease (CKD). Here, we performed a head-to-head comparison of renal transcriptome signatures in standard mouse models of CKD to assess shared and distinct molecular changes in three mouse models commonly employed in preclinical CKD research and drug discovery. 
Methods: All experiments were conducted on male C57BL/6J mice. Mice underwent sham, unilateral ureter obstruction (UUO) or unilateral ischemic reperfusion injury (uIRI) surgery and were terminated two- and six-weeks post-surgery, respectively. The adenine-supplemented diet-induced (ADI) model of CKD was established by feeding with adenine diet for six weeks and compared to control diet feeding. For all models, endpoints included plasma biochemistry, kidney histology and RNA sequencing. 
Results: All models displayed increased macrophage infiltration (F4/80 IHC) and fibrosis (Col1a1 IHC). Compared to corresponding controls, all models were characterized by an extensive number of renal differentially expressed genes (≥11,000) , with a notable overlap in transcriptomic signatures across models. Gene expression markers of fibrosis, inflammation and kidney injury supported histological findings. Interestingly, model-specific transcriptome signatures included several genes representing current drug targets for CKD, emphasizing advantages and limitations of the three CKD models in preclinical target and drug discovery.
Conclusion: The UUO, uIRI and ADI mouse models of CKD have significant commonalities in their renal global transcriptome profile. Model-specific renal transcriptional signatures should be considered when selecting the specific model in preclinical target and drug discovery.
DOI: 10.17632/nj7f67k8vv
title: SAFmaps - Steel off-gases

description: Case study report on SAF production based on ATJ-SPK pathway, using steel off-gases, developed in the context of SAFmaps. SAFmaps is a database platform with information on the potential of promising feedstock for the production of Sustainable Aviation Fuels (SAF) in Brazil. SAFmaps includes a database of different feedstocks, background information and assessment results.
DOI: 10.17632/432zctddfh
title: Gene set enrichment analysis of RNA sequencing data from osteoprogenitor populations in synovial joints of mice with antigen-induced arthritis

description: Antigen-induced arthritis (AIA) was induced in C57BL6 mice by immunization with methylated bovine serum albumin (mBSA) and subsequent intra-articular injection of mBSA. Non-immunized (NI) mice were injected with phosphate buffered saline at all timepoints. Ten days after intra-articular injection knee joints were harvested and synovial cells were released by collagenase type IV injection into joint cavitied, and fluorescence-activated cell sorting (FACS) was used to sort 200-500 TER119–CD31–CD45–CD51+CD200+CD105– cells from NI mice (NI 200+, Sample 1-4) and mice with AIA (AIA 200+, Sample 5-9) and, TER119–CD31–CD45–CD51+CD200–CD105+ cells from mice with AIA (AIA 105+, Sample 11-14) using BD FASCAria IIu. For each sample, 200-500 live (DAPI–) cells were sorted directly into cell lysis buffer from Smartseq v4 Ultra® Low Input RNA Kit for Sequencing (TakaRa, Kyoto, Japan). ERCC RNA Spike-In Mix (Invitrogen, Thermo Fisher Scientific, Waltham, MA, USA) were added to lysed cell samples. cDNA amplicons were created using SmartSeq v4 Ultra® Low Input RNA Kit for Sequencing (TakaRa) and libraries were prepared using Nextera XT DNA Library Preparation Kit (Illumina, San Diego, CA, USA). Libraries were sequenced using NextSeq 500 (Illumina) instrument and raw files are available at GSE148130. After quality control of raw reads, reads were trimmed, aligned, assembled and quantified using cutadapt (Martin, EMBnet Journal, 2011), HISAT2 (Kim, Nat Methods, 2015) and StringTie (Pertea, Nat Biotecnol, 2015), and normalized and filtered in egdeR package (Robinson, Bioinformatics, 2010). Gene set enrichment analysis (GSEA) was conducted by ClusterProfiler package using gseGO function (Yu, OMICS, 2012) on GO gene sets from biological processes (BP) cell component (CC) and molecular function (MF) categories. Genes were preranked according to signed logarithm (log10) of Benjamini-Hochberg adjusted p value, with positive or negative sign given to genes with positive or negative fold change, respectively. Gene sets with Benjamini-Hochberg adjusted p value &lt; 0.05 were considered significantly enriched and are listed in the tables, together with their enrichment score, normalized enrichment score (NES), p value, adjusted p value (Benjamini-Hochberg) and q value, rank at which the maximum enrichment score occurred, leading edge analysis and core enriched genes for each gene set. The table also includes gene set ID, ontology category (BP, CC or MF), description and size of gene sets. Table 1 contains analysis of comparison of NI 200+ and AIA 200+, Table 2 NI 200+ and AIA 105+ and Table 3 AIA 200+ and AIA 105+.
DOI: 10.17632/d62m58zt2t
title: graphene-MoS2-Au

description: VASP and experimental data for MoS2-graphene Heterostructures and MoS2-graphene-Au Heterointerfaces. The computational data includes structural information, electronic and optical properties, and data to calculate the work functions for various molybdenum disulfide and graphene heterostructures and their heterointerfaces with gold. The optical properties calculations include the frequency-dependent dielectric function, the refractive index, the reflectivity, the extinction coefficient, and the energy loss function. These properties were calculated using the independent particle approximation (IPA). As for the experimental optoelectronic properties, we measured photoluminescence spectra (optical), Raman spectra (vibrational), work function (surface electronic property), and local photoconductivity (semiconducting behavior) of graphene-MoS2 heterointerfaces in addition to individual graphene and MoS2 layers on gold. The variation in exciton bands, Raman bands, average work function elucidated the semiconducting n-p junction behavior.
DOI: 10.6084/m9.figshare.19610091.v2
title: Appendix 13.1.xlsx

description: Supplementary data from Samuels and Schap (2023). Samuels, J.X., and J.A. Schap. 2023. Regional topography and climate influence the nature and timing of changes in the structure of rodent and lagomorph communities through the Cenozoic of North America. <em>Evolution of Cenozoic Land Mammal Faunas and Ecosystems. 25 years of the NOW database of fossil mammals</em>. Vertebrate Paleobiology and Paleoanthropology Book Series. <br> Appendix 13.1. Comparison of the fossil records of rodents and lagomorphs across nine regions of North America through time, including the number of localities with identified rodent and lagomorph fossils and species richness with differing crown heights at each time interval. Occurrence data are derived from Samuels and Hopkins (2017) Appendix A with updates as described in the text.
DOI: 10.17632/bp6y6h65tc
title: Experimental data used in the return stroke model

description: Magnetic field data used in the paper by Kaspar et al. entitled "Model of the electromagnetic radiation of the first lightning return stroke using bidirectional leader concept (Figs. 4a,c,e and 5a,c,e) for comparison of the model with experimental data. The magnetic-field waveforms were recorded by the broadband magnetic loop antenna. The times of the return stroke pulse onset  and the locations of lightning for 6 shown events were provided by the French national lightning detection network Meteorage and are available in the table 2 in the paper. The location of the loop antenna for individual events is also available in the paper.
DOI: 10.6084/m9.figshare.21821001.v1
title: Supplementary Material for: Microglial characterisation in transient human neurodevelopmental structures

description: Human neurodevelopment is characterised by the appearance, development and disappearance or transformation of various transient structures that underlie the establishment of connectivity within and between future cortical and subcortical areas. Examples of transient structures in the forebrain (amongst many others) include the subpial granular layer and the subplate zone. We have previously characterised the precise spatiotemporal dynamics of microglia in the human telencephalon. Here, we describe the diversity of microglial morphologies in the subpial granular layer and the subplate zone. Where possible, we couple the predominant morphological phenotype with functional characterisations to infer tentative roles for microglia in a changing neurodevelopmental landscape. We interpret these findings within the context of relevant morphogenetic and neurogenetic events in humans. Due to the unique genetic, molecular and anatomical features of the human brain and because many human neurological and psychiatric diseases have their origins during development, these structures deserve special attention.
DOI: 10.6084/m9.figshare.28802657.v2
title: raw data and code

description: Two commercial NF membranes and their surface-modified membranes were used to investigate the factors influencing Li+/Mx+ selectivity in model and spent LIB leachates. The EDA-modified NF membranes exhibited higher Li+ passage rates and superior Li+/Mx+ selectivity across varying pH and operating pressures, indicating that surface charge enhancement can improve Li+/Mx+ selectivity. The results for NF1000-based membranes and NF270-based membranes suggested that a smaller pore radius and narrower pore radius distributions also contribute to improved Li+/Mx+ selectivity. The NF1000-EDA membrane exhibited an exceptionally high Li+/Mx+ selectivity for the spent LIB leachates, achieving selectivity values of 645.9 for Li+/Ni2+, 508.8 for Li+/Co2+, and 307.4 for Li+/Mnx+, respectively. Furthermore, battery-grade Li2CO3 product with a purity of 99.76% was also successfully produced without the use of hazardous chemicals. By employing the Donnan-Steric Pore Model with Dielectric Exclusion (DSPM-DE), ion flux and selectivity for spent LIB leachates were accurately predicted, confirming that ion transport in LIB leachates during NF separation follows this model. Overall, this work demonstrates that commercially available membranes can achieve efficient Li recovery from spent LIBs through simple surface modification, and advances highly efficiency, short process, and environmentally friendly LIB recycling technologies. Moreover, the study of ion transport in LIB leachates provides a mechanistic foundation for developing NF membranes capable of producing battery-grade Li2CO3.
DOI: 10.6084/m9.figshare.7961135.v1
title: Squamate reptile vomeronasal type 2 receptor phylogenies and alignments

description: Gene alignments of vomeronasal type 2 receptor genes in squamate reptiles (transmembrane domains only), and resulting gene trees.
DOI: 10.6084/m9.figshare.19219938.v1
title: Chongce ice core trapped air isotopic and elemental ratio data

description: This dataset contains the trapped air isotopic and elemental ratio compositions of the Chongce ice core. The ice core was drilled in 2013 on the Northwestern Tibetan Plateau (35°14' N,<br>81°7' E). This dataset includes: (1) the raw data of sample depth, total air content, δ<sup>18</sup>O, δ<sup>15</sup>N, δO<sub>2</sub>/N<sub>2</sub> and δAr/N<sub>2</sub> compositions; (2) post-depositional corrected δ<sup>18</sup>O<sub>atm</sub> data; (3) CO<sub>2</sub> concentrations; (4) dating result based on δ<sup>18</sup>O<sub>atm</sub> synchronization with the Antarctic Siple Dome ice core.
DOI: 10.17632/mkzyfj8bkj
title: Tea Leaf Diseases Dataset: Towards Accurate Field Diagnosis Using Image-Based Detection

description: The dataset comprises a total of 31,265 images, including 4,009 raw images and 27,256 augmented images, distributed across six categories. The raw dataset captures natural variability in leaf conditions under diverse environmental settings, while the augmented dataset enhances this variability by applying techniques such as rotation, scaling, flipping, and brightness adjustments to improve machine learning model generalizability.

Category Distribution:

Sunlight Scorching:
Raw: 1,712 images
Augmented: 4,009 images
Total: 5,721 images

Red Spider:
Raw: 410 images
Augmented: 4,746 images
Total: 5,156 images

Red Rust:
Raw: 184 images
Augmented: 4,849 images
Total: 5,033 images

Heliopeltis:
Raw: 281 images
Augmented: 4,825 images
Total: 5,106 images

Thrips:
Raw: 176 images
Augmented: 4,881 images
Total: 5,057 images

Normal (Healthy):
Raw: 1,246 images
Augmented: 3,946 images
Total: 5,192 images

Key Features:
Diversity: The dataset captures variability in backgrounds, lighting, and growth stages, ensuring robust training and testing data.
Augmentation: Includes 27,256 augmented images, generated using state-of-the-art techniques to simulate real-world variability.
Category Coverage: Spans six distinct leaf conditions—ranging from pest-related damage (e.g., Red Spider, Heliopeltis) to environmental stress (e.g., Sunlight Scorching) and healthy leaves.

Purpose:
This dataset is designed to aid in the development of machine learning models capable of:
Automated Leaf Condition Classification: Identifying specific conditions for improved crop health monitoring.
Ecological Research: Supporting biodiversity studies by cataloging leaf conditions.
Agricultural Applications: Enabling early detection of plant stressors, pests, and diseases to enhance sustainable farming practices.
This combined raw and augmented dataset serves as a valuable resource for researchers, ecologists, and machine learning practitioners, contributing to advancements in agriculture, botany, and AI-driven ecological monitoring.
DOI: 10.6084/m9.figshare.3514067.v1
title: Appendix B. A list of species measured in the study.

description: A list of species measured in the study.
DOI: 10.6084/m9.figshare.4747792.v1
title: Supplementary Material for: Cytosine Methylation of an Ancient Satellite Family in the Wild Beet Beta procumbens

description: DNA methylation is an essential epigenetic feature for the regulation and maintenance of heterochromatin. Satellite DNA is a repetitive sequence component that often occurs in large arrays in heterochromatin of subtelomeric, intercalary and centromeric regions. Knowledge about the methylation status of satellite DNA is important for understanding the role of repetitive DNA in heterochromatization. In this study, we investigated the cytosine methylation of the ancient satellite family pEV in the wild beet <i>Beta procumbens</i>. The pEV satellite is widespread in species-specific pEV subfamilies in the genus <i>Beta</i> and most likely originated before the radiation of the Betoideae and Chenopodioideae. In <i>B. procumbens</i>, the pEV subfamily occurs abundantly and spans intercalary and centromeric regions. To uncover its cytosine methylation, we performed chromosome-wide immunostaining and bisulfite sequencing of pEV satellite repeats. We found that CG and CHG sites are highly methylated while CHH sites show only low levels of methylation. As a consequence of the low frequency of CG and CHG sites and the preferential occurrence of most cytosines in the CHH motif in pEV monomers, this satellite family displays only low levels of total cytosine methylation.
DOI: 10.17632/8wpk97gskj
title: Correlation of anxiety, behaviour on working memory among young adults

description: The study's goal is to ascertain how behavior and anxiety affect health. Among college-bound kids, worry can have a major effect on working memory. To effectively support students in controlling their anxiety and increasing their overall well-being, it is imperative to comprehend the pathways via which anxiety affects cognitive function and behavior. The participants were chosen from among a number of college-bound students, and their conduct and the effect of worry on their working memory were assessed using an online survey. The outcome indicates that women are more affected than men. It was found that college students who were well-behaved and free of anxiety were also generally in good health. The most affected were 62% and 38%. According to the study's findings, anxiety and behavior problems among college students are common, with female students experiencing these issues more often than male students.
DOI: 10.6084/m9.figshare.26527117.v1
title: PCV impact manuscript supplementary data files

description: Our study evaluated the impact of pneumococcal conjugate vaccines on the genomic population structure of Streptococcus pneumoniae among South African children.
DOI: 10.6084/m9.figshare.14742906.v1
title: Supplementary Material for: <b><i>Streptococcus salivarius</i></b> Isolates of Varying Acid Tolerance Exhibit F<sub>1</sub>F<sub>0</sub>-ATPase Conservation

description: Genes encoding the subunits of the membrane-bound F<sub>1</sub>F<sub>0</sub>-ATPase (responsible for exporting protons from the cytoplasm and contributing to acid tolerance) were sequenced for 24 non-mutans streptococci isolated from carious lesions. Isolates, mostly <i>Streptococcus salivarius</i>, displayed a continuum of acid tolerance thresholds ranging from pH 4.55 to 3.39, but amino acid alignments of F<sub>1</sub>F<sub>0</sub>-ATPase subunits revealed few non-synonymous substitutions and these were unrelated to acid tolerance. Thus, the F<sub>1</sub>F<sub>0</sub>-ATPase is highly-conserved among <i>S. salivarius</i> isolates despite varying acid tolerance thresholds, supporting the contention that acid tolerance is determined by the level of gene/protein expression rather than variation in molecular structure.
DOI: 10.6084/m9.figshare.26861047.v1
title: <b>Standing genetic variation and introgression shape the cryptic radiation of </b><b><i>Aquilegia </i></b><b>in the mountains of Southwest China</b>

description: This repository contains source data, scripts and workflows used to explore the genomic mechanisms underlying the rapid formation of cryptic diversity in <i>Aquilegia</i> species from the Southwest China. The project is divided into six main parts, covering the filtered SNP datasets, results of betascan, window-based <i>f</i><sub>d</sub>, genomic diversity and divergence, protein structure and source data.
DOI: 10.6084/m9.figshare.28838249.v2
title: SRR3414637.uniq.sorted.bamhisat

description: SRR3414637
DOI: 10.17632/d6trwkmxs8
title: Dataset of bond strength and failure mode between FRP bars and UHPC or UHPSSC

description: In order to investigate the bond strength and failure mode between fibre-reinforced polymer (FRP) bars and ultra-high-performance concrete (UHPC) & ultra-high-performance seawater sea sand concrete (UHPSSC) effectively, 542 experimental data acquired from pullout tests were collected from relevant research papers. The failure modes consist of pullout failure and concrete splitting failure. 14 input parameters (Vf of steel fibre, Vf of PP/PE fibre, Concrete type, Concrete compressive strength, Water-to-binder ratio, Sand-to-binder ratio, Bar diameter, Cover-to-diameter ratio, Bonded-length-to-diameter ratio, Rib-spacing-to-diameter ratio, Rib-height-to-diameter ratio, Bar surface treatment, Bar fibre type, Bar tensile elastic modulus) were selected to study the effects of mechanical property and composition of UHPC/UHPSSC, along with the mechanical, geometric, and surface properties of FRP bar on bond strength and failure mode. The developed dataset can serve as an effective resource for investigating the bond strength and failure mode between FRP bars and UHPC/UHPSSC.
DOI: 10.17632/z33dwckwxv
title: Institutional theory-Questionnaire

description: The questionnaire was used to conduct the research entitled "Responsiveness to quality assurance implementation: An institutional theory perspective".
DOI: 10.6084/m9.figshare.14312558.v2
title: depression-hopelessness

description: association of digit ratio whit depression and hopelessness
DOI: 10.6084/m9.figshare.22587580.v1
title: Malaria Prevalence Survey data Malawi 2000-2022_final.csv

description: The attached data file contains survey data related to malaria prevalence in Malawi for the years 2000 to 2022. The dataset includes the following variables: Lat: Latitude of the survey location Long: Longitude of the survey location YY: Year the survey was conducted Ex: Number of individuals examined Pf: Number of individuals with Plasmodium falciparum infection PfPR2_10: Prevalence of Plasmodium falciparum infection in children aged 2-10 years LoAge: Lower age limit of the surveyed population UpAge: Upper age limit of the surveyed population This dataset was used in our analysis of the epidemiology of malaria in Malawi over the past two decades, with the aim of understanding the impact of malaria control measures and informing the elimination agenda.
DOI: 10.6084/m9.figshare.7749431.v1
title: Actigraph Data for Study Participants

description: This data set contains the raw data from the accelerometers worn by the study participants.
DOI: 10.17632/f9dbktdr3f
title: ICT AND SOCIAL MEDIA USAGE AMONG MOROCCAN NURSING STUDENTS

description: This dataset contains responses received from 702 Moroccan nursing students. The survey was carried out to examine their willingness to use and accept ICT and social media platforms for learning especially during COVID -19 period and beyond. The dataset includes the questionnaire used (in English and French), the responses obtained in spreadsheet format, the charts generated from the responses received, the SPSS file and the statistical analysis file.
DOI: 10.6084/m9.figshare.25303411.v2
title: <b>Pervasive inversions encounter relaxed genetic constrain</b><b>ts </b><b>and balance birth and death of terpene synthase genes in </b><b><i>Curcuma</i></b>

description: <b><i>Curcuma</i></b><b> species</b>