cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.28022099.v1
title: <b>Telomere-to-Telomere Genome Assembly and 3D Chromatin Architecture of </b><b><i>Centella asiatica</i></b><b> Insight into Evolution and </b><b>Genetic Basis of Triterpenoid Saponin</b><b> Biosynthesis</b>

description: <i>Centella asiatica</i> is renowned for its medicinal properties, particularly due to its triterpenoid saponins, such as asiaticoside and madecassoside which are in excess demand for the cosmetic industry. However, comprehensive genomic resources for this species are lacking, which impedes the understanding of its biosynthetic pathways. Here, we report a T2T <i>C. asiatica</i> genome. The genome size is 438.12 Mb with a contig N50 length of 54.12 Mb. The genome comprises 258.87 Mb repetitive sequences and 25,200 protein-coding genes. Comparative genomic analyses revealed <i>C. asiatica</i> is a basal lineage in the Apiaceae family with a unique single whole-genome duplication (WGD) event (Ks = 0.735) after the ancient γ-triplication, contrasting with other Apiaceae species that exhibit two WGD events (Apiaceae-α and Apiaceae-ω, Ks = 0.32-0.468 and 0.835-0.956). We further constructed 3D chromatin structures (A/B compartments and TADs) in <i>C. asiatica</i> leaves, elucidating the influence of chromatin organization on WGD gene expression. Additionally,<b> </b>gene family and functional characterization analysis highlight the key role of <i>CasiOSC03</i> in α-amyrin production, while also revealing significant expansion and high expression of CYP716, CYP714, and UGT73 families involved in asiaticoside biosynthesis compared to other Apiaceae species. Notably, a unique and large UGT73 gene cluster, located within the same TAD, is potentially pivotal for enhancing triterpenoid saponin. Weighted gene co-expression network analysis (WGCNA) further highlighted the pathways modulated in response to MeJA, offering insights into the regulatory networks governing saponin synthesis. This work not only provides a valuable genomic resource for <i>C. asiatica</i> but also shed light on the molecular mechanisms driving the biosynthesis of pharmacologically important metabolites
DOI: 10.6084/m9.figshare.5124169.v1
title: Supplementary Material for: Renoprotection by Continuous Erythropoietin Receptor Activator in Puromycin Aminonucleoside-Induced Nephrotic Syndrome

description: <b><i>Background/Aims:</i></b> Recent studies have demonstrated that erythropoiesis-stimulating agents (ESAs) induce a tissue-protective effect in the kidney. In this study, we examined whether continuous erythropoietin receptor activator (CERA), a long-acting ESA, could prevent kidney injury, especially podocyte damage, in a rat model of nephrotic syndrome induced by puromycin aminonucleoside (PAN). <b><i>Methods:</i></b> Rats were injected with CERA (30 µg/kg) or vehicle 4 h before the injection of PAN (50 mg/kg). Renal function, kidney injury, and podocyte damage were assessed at 7 days. <b><i>Results:</i></b> The levels of proteinuria, BUN, and plasma creatinine significantly increased in rats with PAN-induced nephrosis. Treatment with CERA significantly prevented these deteriorations induced by PAN. Glomerular lesions, especially vacuolation of podocytes, and the increase of desmin expression in PAN-treated rats were significantly ameliorated by treatment with CERA. Treatment with CERA also significantly prevented the decrease in the protein productions of nephrin and podocin in the kidneys of PAN-treated rats. We found persistent activation of the Akt signaling pathway in the kidneys of CERA-treated rats. <b><i>Conclusion:</i></b> CERA could ameliorate renal dysfunction in PAN-induced nephrosis, which might be due to the amelioration of podocyte injury. CERA inhibited the depletion of nephrin and podocin, key components of the glomerular filtration barrier, and alleviated proteinuria. Activation of the Akt signaling pathway might be involved in the renoprotective effect of CERA
DOI: 10.17632/dmrx77g82j
title: The morphological spectrum of cheilitis

description: Table 1: Salient features of different types of cheilitis.
Figure S1: Clinical image of lichen planus cheilitis in a patient of skin of color. Clinically visisble Wickham’s striae.
DOI: 10.17632/gdx3pkwp47
title: Dataset of Malicious and Benign Webpages

description: The dataset contains extracted attributes from websites that can be used for Classification of webpages as malicious or benign. The dataset also includes raw page content including JavaScript code that can be used as unstructured data in Deep Learning or for extracting further attributes. The data has been collected by crawling the Internet using MalCrawler [1]. The labels have been verified using the Google Safe Browsing API [2]. Attributes have been selected based on their relevance [3]. The details of dataset attributes is as given below: 'url' - The URL of the webpage. 'ip_add' - IP Address of the webpage. 'geo_loc' - The geographic location where the webpage is hosted. 'url_len' - The length of URL. 'js_len' - Length of JavaScript code on the webpage. 'js_obf_len - Length of obfuscated JavaScript code. 'tld' - The Top Level Domain of the webpage. 'who_is' - Whether the WHO IS domain information is compete or not. 'https' - Whether the site uses https or http. 'content' - The raw webpage content including JavaScript code. 'label' - The class label for benign or malicious webpage. Python code for extraction of the above listed dataset attributes is attached. The Visualisation of this dataset and it python code is also attached. This visualisation can be seen online on Kaggle [5].
DOI: 10.17632/w5zspm82zd
title: Numismatic Heritage of Coin Dataset Bangladesh

description: Bangladesh introduced taka coins in 1973, featuring culturally significant designs, and updated the series in 2013 to include portraits of national figures and the national emblem. A dataset containing 9,983 images of these coins, across 26 different classes, aids in developing technologies for visually impaired individuals to facilitate their banking transactions. This work enhances coin recognition and integrity checks, utilizing computer vision and AI to improve accessibility in financial environments.
DOI: 10.6084/m9.figshare.29137349.v1
title: GIS files outside damage patches

description: GIS files outside damage patches
DOI: 10.17605/osf.io/nk4ma
title: The Latin American Legislators Dataset

description: The Latin American Legislators Dataset is a large data collection effort striving to contain data on all elected legislators in the 18 Latin American countries with competitive elections since 1978 or transition to democracy. It currently includes data on both lower and upper chambers in bicameral parliaments, as well as unicameral parliaments, and currently comprises 31,724 observations of 21,807 unique legislators in 259 elections. The main advantage of the dataset lies in its utilization for the study of parliamentary elites, its gendered dimensions, and district magnitude and its changes in the region.

Karel Kouba acknowledges that this work was supported by the European Regional Development Fund project “Beyond Security: Role of Conflict in Resilience-Building” (reg. no.: CZ.02.01.01/00/22_008/0004595).

Michael Weiss acknowledges the support by the Grant Agency of the Charles University (GA UK) within the project Legislative turnover in Latin America: analysis of causes and implications for political stability (No. 32924).
DOI: 10.17632/47wdjmw9xr
title: Omics Analysis of Native Oleaginous Microalgae From The Peruvian Amazon

description: This dataset contains the Transcriptome Shotgun Assembly Sequences of three species of native oleaginous microalgae isolated from aquatic environmets from the Peruvian Amazon. High-quality raw sequences were de novo assembled with the software Trinity v2.9.1. Additionally, in this dataset are included results obtained with BUSCO, TransDecoder, KAAS Annotation, and FunctionAnnotator Analysis.
DOI: 10.17632/5gvznd2b3n
title: TCGA: A TROPICAL CORN GERMPLASM ASSEMBLY FOR GENOMIC PREDICTION AND HIGH-THROUGHPUT PHENOTYPING STUDIES

description: Genomic prediction (GS) studies using diversity panels are essential to identify genetic variations associated with traits of interest in maize. Unfortunately, most of these studies have been conducted on temperate germplasm and on a global germplasm collection in which tropical genotypes are under-represented. Nonetheless, a continuous effort has been directed to improving the accuracy of GS. While genotyping is currently a precise and efficient mechanized process, phenotyping is still laborious, low-throughput, and highly sensitive to environmental variations. Also, extreme shifts in the weather pattern due to climate change complicates the selection of superior genotypes with broad adaptability. In this context, adopting GS models that account for genotypes x environments reaction norms, crop growth models, and environmental covariates should increase the accuracy of genomic predictions. Thus, the objective of this project is to develop a diversity panel of tropical maize for genomic prediction studies that incorporate high-throughput phenotyping, plant growth models, and environmental covariables. For that, 360 tropical maize lines from ESALQ-USP, IAPAR, IAC, and CIMMYT will be genotyped and phenotyped using traditional methods and multispectral imaging in eight environments (two locations, two years, and two seasons). With this data, several GS models will be tested and compared for prediction accuracy and selection coincidence. Besides the development of novel GS models and high-throughput phenotyping protocols in tropical maize, we will also organize, characterize, and publicize a panel of tropical maize lines (data and genetic material) to the scientific community that will serve as the benchmark for new studies of this nature in tropical maize.

FAPESP (2017/24327-0)
DOI: 10.6084/m9.figshare.1157374.v2
title: HIST (Historical Information for Smell deTection) - Replication Package

description: Bad code smells are symptoms of poor design and implementation choices that may hinder code comprehensibility. While most of the detection techniques rely on structural information, many bad code smells are intrinsically characterized by how code elements change over time. In this paper, we propose HIST (Historical Information for Smell deTection), an approach exploiting change history information to detect instances of five different bad code smells, namely Divergent Change, Shotgun Surgery, Parallel Inheritance, Blob, and Feature Envy. We evaluate HIST in two empirical studies. The first, conducted on twenty open source projects, aimed at assessing the accuracy of HIST in detecting instances of the above mentioned bad code smells. In this study we compare HIST with state-of-the-art smell detectors based on source code analysis. The results indicate that HIST’s precision ranges between 72% and 86%, and its recall ranges between 58% and 100%. More importantly, the results indicate that HIST is able to identify bad code smells that cannot be identified through approaches solely based on code analysis. Then, we conducted a second study aimed at investigating to what extent the bad code smells detected by HIST (and by the competitive code analysis techniques) reflect developers’ perception of poor design and implementation choices. We involved twelve developers of four open source projects that recognized as design/implementation problems more than 75% of the bad code smell instances identified by HIST.
DOI: 10.6084/m9.figshare.13125293.v1
title: Supplementary Data: “A century of coping with environmental and ecological changes via compensatory biomineralization in mussels”

description: These dataset contain supplementary data supporting the analyses for the publication “Telesca et al. (2020) A century of coping with environmental and ecological changes via compensatory biomineralization in mussels. Global Change Biology” https://doi.org/10.1111/gcb.15417<br> 1) Raw data (.rda, 1 file) for geometric morphometrics analyses with the Momocs (Bonhomme et al. 2014, J Stat Softw, DOI: 10.18637/jss.v056.i13) package with the R software; <br> 2) Raw data (.csv, 7 files) for analysis of environmental parameters, predator abundance and mussel shell traits; Data were collected as part of the EU Marie Curie programme, Calcium in a Changing Environment – Initial Training Networks (CACHE-ITN).<br> Reports can be read with any PDF-reader. Raw .csv data can be opened using Microsoft Excel, text editors, or the R software. Raw .rda data can be accessed using the Momocs (Bonhomme et al. 2014, J Stat Softw, DOI: 10.18637/jss.v056.i13) package with the R software.
DOI: 10.6084/m9.figshare.22691392.v2
title: Untitled Item

description: The MIDOG++ dataset represents an extension of the data set used in the MIDOG 2021 and 2022 challenges. We provide region of interest images from 503 histological specimens of seven different tumor types with variable morphology: breast carcinoma, lung carcinoma, lymphosarcoma, neuroendocrine tumor, cutaneous mast cell tumor, cutaneous melanoma, and (sub)cutaneous soft tissue sarcoma. The human and canine samples were processed and stained at different human and veterinary pathology laboratories with standard H&E dye and digitized with different digital whole slide image scanners. We provide labels for 11,937 mitotic figures that have been differentiated against 14,351 imposter cells in a blinded consensus by two pathologists and a final decision by a third pathologist for disagreed labels.
DOI: 10.6084/m9.figshare.5471920.v1
title: Photocatalytic reduction of carbon dioxide to methanol using a ruthenium trinuclear polyazine complex immobilized on graphene oxide under visible light irradiation

description: A ruthenium trinuclear polyazine complex was synthesized and subsequently immobilized throughcomplexation to a graphene oxide support containing phenanthroline ligands (GO-phen). The developedphotocatalyst was used for the photocatalytic reduction of CO2 to methanol, using a 20 watt white coldLED flood light, in a dimethyl formamide–water mixture containing triethylamine as a reductivequencher. After 48 h illumination, the yield of methanol was found to be 3977.57 5.60 mmol gcat 1.The developed photocatalyst exhibited a higher photocatalytic activity than graphene oxide, whichprovided a yield of 2201.40 8.76 mmol gcat 1. After the reaction, the catalyst was easily recovered andreused for four subsequent runs without a significant loss of catalytic activity and no leaching of themetal/ligand was detected during the reaction.
DOI: 10.17632/2yhwkbw74m
title: FSHR and FSHB variants infertile women with endometriosis

description: Single nucleotide variants (SNVs) FSHB:c.-211G>T, FSHR:c.919G>A, and FSHR:c.2039G>A were reported to be associated with the variability in FSH and LH levels, and in vitro fertilization (IVF) outcomes. We aimed to evaluate the effects of FSHB:c.-211G>T, FSHR:c.919G>A, and FSHR:c.2039G>A variants, alone and combined, on the hormonal profile and reproduction outcomes of women with endometriosis. The study comprised 213 infertile Brazilian women with endometriosis who underwent IVF treatment. Genotyping was performed using TaqMan real-time PCR. Variables were compared according to the genotypes of each variant and genetic models.
DOI: 10.6084/m9.figshare.14211179.v1
title: mBio_Wang_etal_2020_supplement_TableS1

description: <b>Supplemental Table S1. Number of genes per TPM bin from RNA-Seq of 21 <i>C. albicans </i>isolates.</b>
DOI: 10.17632/ktvgb2ttvs
title: Numbers of immigrants, foreign nationals, population and migration balance in Turkey (1923-2020)

description: These data were compiled within the scope of the author's doctoral thesis research on ‘Turkish Migration Policy’. The purpose of tabulating these summary migration data is to measure the contribution of external migration flows to Turkey's population growth through the intake of refugees and immigrants, and to examine the role of naturalisation and denaturalisation in the demographic balance. 

The language and explanations of the table are in Russian.
DOI: 10.4121/20763007.v1
title: Data about Effects of a Mindfulness Intervention on Athlete Burnout and Sport Performance among Chinese National Female Shooters Preparing for the Olympic Games

description: The present study administered a four-week daily brief (20mins) mindfulness meditation program for eight female athletes on the Chinese national shooting team (<em>n</em>=8) preparing for the Tokyo Olympic Games, aiming to relieve athlete burnout and help improve their performance. A quasi-design of single-group repeated measurements was performed to compare the trait mindfulness, burnout and shooting performance of the athletes before (T1), after (T2) and one month after (T3) the mindfulness program.
DOI: 10.6084/m9.figshare.19926944.v1
title: Supplementary Material for: Creation of an Electronic Resource Repository for Differences of Sex Development (DSD): Collaboration Between Advocates and Clinicians in the DSD-Translational Research Network

description: <b><i>Introduction:</i></b> People with differences of sex development (DSD) and their families need education about these conditions while receiving emotional and peer support to participate in shared decision-making, reduce social isolation, and optimize physical and psychosocial outcomes. Barriers to education and support include limited knowledge and awareness by healthcare providers, tension among patient and medical communities, varied quality of educational resources, and the sensitive nature of DSD. We aimed to create an electronic repository of vetted quality online resources about DSD. <b><i>Methods:</i></b> The electronic resource repository (e-RR) was a collaboration between affected individuals and advocates and healthcare providers in the DSD-Translational Research Network (DSD-TRN), an NIH-supported consortium of US teams committed to standardizing and optimizing care in DSD. The e-RR development and ongoing growth involved: (1) identification of resources by the project team (3 advocates and 1 physician), (2) evaluation and feedback by DSD-TRN clinical teams, (3) creation of the e-RR, and (4) review and revision. Twitter-like descriptions accompanied each entry; resources were categorized by target age, audience, and condition. <b><i>Results:</i></b> Thirty-seven web-based educational, peer and advocacy support, and clinician-oriented resources were reviewed. Eight of 10 DSD-TRN teams responded to a survey regarding resource inclusion. Awareness of individual resources varied widely. Consensus was achieved when opinions differed; 30 resources were included. The e-RR is available online and as a downloadable booklet at http://www.accordalliance.org/resource-guide/. <b><i>Conclusion:</i></b> The e-RR increases awareness of and access to vetted educational and support resources for those with DSD and healthcare providers. It represents important collaboration between advocates and providers.
DOI: 10.17632/pmvcfk2yvp
title: Joint attention in toddlers and pre-schoolers with ASD: fNIRS data

description: The hypothesis was tested that children with autism spectrum disorder (ASD) would show atypical activation during response to joint attention in a live task. 
For each child, fNIRS data were collected while they watched silent excerpts from a cartoon (the object of joint attention) which were introduced by a computer sound (solo attention condition) or by the experimenter (joint attention condition) and were interspliced by a static baseline.
The results of this study suggest that, unlike their TD peers, children with ASD do not show clear signs of activation during RJA in right temporal cortical areas. On the contrary, haemodynamic activity in the same region seemed to indicate deactivation during RJA as compared to solo attention (at least for HbO), which was interpreted as a possible sign of disengagement from a challenging stimulus, namely a social one.
DOI: 10.6084/m9.figshare.21202097.v6
title: GWAS result for number of teats trait

description: This data set includes SNP genotyping and phenotypes in Duroc, Landrace and Yorkshire
DOI: 10.6084/m9.figshare.24062199.v3
title: Dataset for nocturnal rainfall in Pearl River Delta, South China.

description: Dataset for "Evaluation and Error Source Analysis of Convection-Permitting Forecasts for Localized Nocturnal Rainfall over a Complex Mountainous Region in Pearl River Delta, South China".
DOI: 10.6084/m9.figshare.7383668.v1
title: Lung Images

description: Non-linearly registered and averaged lung images from 100 subjects.
DOI: 10.17608/k6.auckland.5687131.v1
title: Topo Data for One Tree Hill, Auckland (NZ)

description: topo data from Auckland, courtesy of LINZ, from a LIDAR survey, 50m sampling (from the original 1m spacing). 12 km^2 around One Tree Hill in numpy array.
DOI: 10.17632/4w7sxpg3yy
title: Data for gut microbiome and fecal metabolome

description: Data for gut microbiome and fecal metabolome among individuals with overweight or obesity
DOI: 10.6084/m9.figshare.1152688.v1
title: Measuring and Visualizing Energy Consumption within Software Code

description: Poster presented at the VL/HCC'14 Graduate Consorcium by Tiago Carção
DOI: 10.6084/m9.figshare.20039866.v1
title: Rethinking Organizations and Society from Paradoxes

description: Abstract The theory of organizational paradoxes provides a lens for observing organizations and society, based on the role of tensions and contradictions. Taking the existence of opposing forces as inherent in pluralistic collectives such as complex organizations, paradox theory offers a conceptual angle with unique advantages. In this article, ways of rethinking organizations and society are discussed, based on the generative possibilities of paradoxes. The text addresses the way paradoxes operate at different levels and how they are felt by individuals, teams, organizations, inter-organizational systems and society as a whole. It also discusses how the paradoxical approach can inform the debate in four important areas for rethinking organizations and society: the relationship between business and society, sustainable development goals, the new space and democracy.
DOI: 10.6084/m9.figshare.28457513.v1
title: Dataset

description: Dataset for blood vessel fabrication using GelMA/Alginate Hydrogels.
DOI: 10.6084/m9.figshare.12859988.v1
title: Msa.protein.fa

description: A chromosome-scale genome assembly of a diploid alfalfa, the progenitor of autotetraploid alfalfa