cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.25346104.v2
title: The genome sequence and annotation of Fragaria orientalis

description: In this study, we assembled an allele-aware chromosome-level genome for tetraploid <i>F. orientalis</i> using PacBio, ONT ultra-long and Hi-C sequencing data.
DOI: 10.15468/dl.wz53jc
title: Occurrence Download

description: A dataset containing 11707 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Observation, Human Observation, Machine Observation, Living Specimen)"
 ]
 }
 },
 "TaxonKey is Hypena proboscidalis (Linnaeus, 1758)"
 ]
}

 The dataset includes 11707 records from 89 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0009660-250426092105405/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.27618837.v1
title: Supplementary Material for: Standardizing Nutritional Care for Cancer Patients: Implementation and Evaluation of a Malnutrition Risk Screening

description: Introduction
Cancer-related malnutrition is a highly prevalent, yet often overlooked concern in clinical practice. Although cancer-related management guidelines recommend standardized nutritional care, its implementation is scarce. The aim of this study was to investigate the prevalence of malnutrition and the medical need for nutrition counseling in cancer patients employing a novel standardized nutritional management program (containing malnutrition risk screening, nutritional assessment and counseling). Furthermore, differences of malnutrition parameters in different cancer patient cohorts were examined.

Methods
Cancer patients were screened for malnutrition using the Patient-Generated Subjective Global Assessment Short Form (PG-SGA SF) on the first day of their inpatient admission to the internal oncology or hematology wards. PG-SGA total score and classification into the three PG-SGA nutrition stages (A, B, C) were used to determine nutritional status. In case of a positive screening, nutritional assessment and individualized counseling by a nutritionist followed. For group comparisons, patients were divided into different groups (e.g., age, gender, tumor entity) and were evaluated accordingly.

Results
A total of 1,100 inpatients were included. 56.8 % of the patients had suspected or already existing malnutrition. The most common nutrition impact symptom was loss of appetite (26.7 %), followed by fatigue (16.5 %) and pain (16.0 %). Female (p &lt; 0.001), elderly (p &lt; 0.001) and patients with upper gastrointestinal tract tumors (p &lt; 0.001) showed an unfavorable nutritional status and higher need for counseling. Despite suffering from malnutrition, patients had Body Mass Indices within the upper end of the normal range.

Conclusion
This study shows a high prevalence of malnutrition in hospitalized cancer patients and highlights the need for a standardized nutritional management in the clinical setting. Therefore, it is recommended to provide a malnutrition risk screening for all cancer patients and a following adequate assessment and personalized nutritional care if needed.
DOI: 10.6084/m9.figshare.13292750.v2
title: Lukas et al. 2021: Data from "Consistent behavioral syndrome across seasons in an invasive freshwater fish"

description: <b>Topic: </b>We explore whether dispersing individuals of a non-native species exhibit behavioral types that differ from those remaining in the source population by investigating a feral population of guppies (<i>Poecilia reticulata</i>) in Germany that undergoes a yearly range shift cycle. <b><br></b><b>DATA_Gillbach_Sampling_2016 </b>- record of (native and non-native) fish sampled at the Gillbach in 2016Fish were collected from a thermally-altered creek, the Gillbach, in Germany. Samplings were conducted during three occasions (March, June, August) in 2016 and at three sites (Gillbach source, 1km and 2km downstream). Guppies were found at site 1 during all three occasions. We did not encounter any guppies downstream of site 2 during any of the samplings.<br><b>DATA_Gillbach_Temp_2016</b> - temperature profile of the two collection sites, from which feral guppies were sampled. Water temperature fluctuations were logged with HOBO data loggers for one year (sampling rate 1 obs/4h) at the source of the Gillbach (site 1) and one kilometer downstream (site 2). Unfortunately, not all loggers could be retrieved at site 2, resulting in missing data.<b><br></b><b>DATA_Gillbach_behavior </b>- Laboratory behavioral experiments on guppies (<i>Poecilia reticulata</i>) from a feral population in Germany. In 2016, guppies were found at site 1 during all three occasions, but at site 2 we only found sufficient numbers (for behavioral testing) in August. A total of 166 fish were tested personality trait expression, assessing boldness (as latency to emerge from a shelter), sociability (as mean distance the fish kept to a biomimetic robot) and activity (mean velocity with which the fish explored the open arena). Each fish was tested a total of three times. The trait values were obtained from 2D video tracking (XY-position data can be supplied upon request). <br>
DOI: 10.6084/m9.figshare.23936010.v1
title: Supplementary Material for: Exploration of extracellular vesicle long non-coding RNAs in serum of patients with cervical cancer

description: Cervical cancer (CC) is the fourth most common cancer type and a leading cause of cancer-related deaths in women worldwide. Its underlying molecular mechanisms are unclear. Cancer cell-derived extracellular vesicles (EVs) are involved in cancer development and progression by delivering regulatory factors, including microRNAs and long non-coding RNAs (lncRNAs). Here, we identified the EV lncRNA expression profiles associated with different developmental stages of CC using next-generation sequencing. EVs from the serum of patients with stages I–III CC and healthy donors were characterized using EV marker immunoblotting and transmission electron microscopy. The EV concentration increases with progression of the disease. Most particles had a 100–250 nm diameter, and their sizes were similar in all groups. We identified many lncRNAs that were uniquely and differentially expressed (DE) in patients with different stages of CC. The pathway analysis results indicated that the upregulated DE EV lncRNAs abundant in stages I and II were associated with cell proliferation and inflammatory and cancer progression pathways, respectively. LINC00941, LINC01910, LINC02454, and DSG2-AS1 were highly expressed, suggesting poor overall survival of CC patients. Interestingly, DSG2-AS1 was associated with human papillomavirus infection pathway through AKT3, DLG1, and COL6A2 genes. This is the first study that reports the levels of EVs and their lncRNA contents change during cancer development, demonstrating the existence of a unique vesicle-mediated cell-to-cell communication network underlying cancer progression.
DOI: 10.6084/m9.figshare.5129275.v1
title: Supplementary Material for: PKCα Deficiency in Mice Is Associated with Pulmonary Vascular Hyperresponsiveness to Thromboxane A2 and Increased Thromboxane Receptor Expression

description: Pulmonary vascular hyperresponsiveness is a main characteristic of pulmonary arterial hypertension (PAH). In PAH patients, elevated levels of the vasoconstrictors thromboxane A2 (TXA2), endothelin (ET)-1 and serotonin further contribute to pulmonary hypertension. Protein kinase C (PKC) isozyme alpha (PKCα) is a known modulator of smooth muscle cell contraction. However, the effects of PKCα deficiency on pulmonary vasoconstriction have not yet been investigated. Thus, the role of PKCα in pulmonary vascular responsiveness to the TXA2 analog U46619, ET-1, serotonin and acute hypoxia was investigated in isolated lungs of PKCα<sup>-/-</sup> mice and corresponding wild-type mice, with or without prior administration of the PKC inhibitor bisindolylmaleimide I or Gö6976. mRNA was quantified from microdissected intrapulmonary arteries. We found that broad-spectrum PKC inhibition reduced pulmonary vascular responsiveness to ET-1 and acute hypoxia and, by trend, to U46619. Analogously, selective inhibition of conventional PKC isozymes or PKCα deficiency reduced ET-1-evoked pulmonary vasoconstriction. The pulmonary vasopressor response to serotonin was unaffected by either broad PKC inhibition or PKCα deficiency. Surprisingly, PKCα<sup>-/-</sup> mice showed pulmonary vascular hyperresponsiveness to U46619 and increased TXA2 receptor (TP receptor) expression in the intrapulmonary arteries. To conclude, PKCα regulates ET-1-induced pulmonary vasoconstriction. However, PKCα deficiency leads to pulmonary vascular hyperresponsiveness to TXA2, possibly via increased pulmonary arterial TP receptor expression.
DOI: 10.6084/m9.figshare.28802657.v1
title: raw data.xlsx

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.12808316.v1
title: Supplemental file

description: <b>Unique inflammatory profile is associated with higher SARS-CoV-2 acute respiratory distress syndrome (ARDS) mortality. </b><b><br></b>We prospectively enrolled a cohort of 41 patients with acute respiratory distress syndrome in the ICU. We determined the expression levels of 44 circulating cytokines/chemokines.<br><br>Cohort demographics and individualized raw data as well as primer sequences and ELISA suppliers used for data generation. <br>
DOI: 10.6084/m9.figshare.3803709.v4
title: Protist Ribosomal Reference database (PR2) - SSU rRNA gene database

description: The Protist Ribosomal Reference database (PR<sup>2</sup>) provides a unique access to eukaryotic small sub-unit (SSU) ribosomal RNA and DNA sequences, with curated taxonomy. The database mainly consists of nuclear-encoded protistan sequences. However, metazoans, land plants, macrosporic fungi and eukaryotic organelles (mitochondrion, plastid and others) are also included because they are useful for the analysis of high-troughput sequencing data sets. Introns and putative chimeric sequences have been also carefully checked. Taxonomic assignation of sequences consists of eight unique taxonomic fields.<br><br>The original web site (http://ssu-rrna.org/pr2) is currently out and we are proposing updated version of PR2 as flat files to use for annotating metabarcodes.<br><br><b>Files</b><br><br>The files provided are for use with Qiime or Mothur. Four files are provided.<br>* <b>pr2....fasta</b> contains all sequences in fasta format<br>* <b>pr2....tax</b> contains the taxonomy of each sequence<br>* <b>PR2 version notes.docx</b> contains the revision history<br>* <b>PR2 versions.xls</b> is a condensed list of the different versions<br><br><b>Current version</b> : 4.3 based on GenBank 203<br><br><b>Notes<br></b>- Qiime can only use 7 taxonomical levels<b><br><br>Contact<br><br></b>Laure GUILLOU and Daniel VAULOT<br>DIPO team, Plankton Group, UMR 7144 CNRS-UPMC<br>Station Biologique,<br>Place G. Tessier<br>29680 Roscoff FRANCE<br>email: vaulot@sb-roscoff.fr<br><br><b>Contributors<br><br></b>- Tristan Biard<br>- Margot Tragin<br>- Bente Edvardsen<br> <br><b>References</b><br>Guillou, L., Bachar, D., Audic, S., Bass, D., Berney, C., Bittner, L., Boutte, C. et al. 2013. The Protist Ribosomal Reference database (PR2): a catalog of unicellular eukaryote Small Sub-Unit rRNA sequences with curated taxonomy. <i>Nucleic Acids Res.</i> 41:D597–604.Edvardsen, B., Egge, E.S. & Vaulot, D. 2016. Diversity and distribution of haptophytes revealed by environmental sequencing and metabarcoding – a review. <i>Perspect. Phycol.</i> in press.Tragin, M., Lopes dos Santos, A., Christen, R. & Vaulot, D. 2016. Diversity and ecology of green microalgae in marine systems: an overview based on 18S rRNA gene sequences. <i>Perspect. Phycol.</i> in press. <br><br><br>
DOI: 10.6084/m9.figshare.15129231.v3
title: Single-cell DNA and RNA sequencing reveals the dynamics of intra-tumor heterogeneity in a colorectal cancer model

description: Single Cell Transcripts Bulk T2<br>Data List:https://figshare.com/articles/dataset/Single_Cell/14518056<br>
DOI: 10.6084/m9.figshare.14345390.v1
title: Supplementary Material for: Placental Growth Factor and Adverse Obstetric Outcomes in a Mixed-Risk Cohort of Women Screened for Preeclampsia in the First Trimester of Pregnancy

description: <b><i>Objective:</i></b> The study aimed to investigate the association between placental growth factor (PlGF) and adverse obstetric outcomes in a mixed-risk cohort of pregnant women screened for preeclampsia (PE) in the first trimester. <b><i>Methods:</i></b> We included women with singleton pregnancies screened for PE between April 2014 and September 2016. Outcome data were retrieved from the New South Wales Perinatal Data Collection (NSW PDC) by linkage to the prenatal cohort. Adverse outcomes were defined as spontaneous preterm birth (sPTB) before 37-week gestation, birth weight (BW) below the 3rd centile, PE, gestational hypertension (GH), stillbirth, and neonatal death. <b><i>Results:</i></b> The cohort consisted of 11,758 women. PlGF multiple of the median (MoM) was significantly associated with maternal sociodemographic characteristics (particularly smoking status and parity) and all biomarkers used in the PE first trimester screening model (notably pregnancy-associated plasma protein A MoM and uterine artery pulsatility index [PI] MoM). Low levels of PlGF (&lt;0.3 MoM and &lt;0.5 MoM) were independently associated with sPTB, low BW, PE, GH, and a composite adverse pregnancy outcome score, with odds ratios between 1.81 and 4.44 on multivariable logistic regression analyses. <b><i>Conclusions:</i></b> Low PlGF MoM levels are independently associated with PE and a range of other adverse pregnancy outcomes. Inclusion of PlGF should be considered in future models screening for adverse pregnancy outcomes in the first trimester.
DOI: 10.6084/m9.figshare.23639004.v1
title: Manuscript

description: lease note that Scientific Reports mandates data deposition for the following: • Proteomics data and Protein sequences – can be deposited in Uniprot or PRIDE • DNA and RNA sequences – can be deposited in any INSDC member reposit
DOI: 10.6084/m9.figshare.24499129.v4
title: Super-resolution reconstruction of structured illumination microscopy using deep-learning and sparse deconvolution

description: Super-resolution reconstruction of structured illumination microscopy using deep-learning and sparse deconvolution
DOI: 10.6084/m9.figshare.28785071.v1
title: Table1

description: <b>Top 10 countries in the world by ECDI index </b><b>, </b><b>2024</b>
DOI: 10.6084/m9.figshare.25341532.v1
title: Data & R scripts

description: Data and R scripts for "Lost in space and time: robust demography and enhanced resilience buffer adverse environmental effects in a highly isolated and sedentary pre-Pleistocene landscape vertebrate" by Philippe J. R. Kok, Tessa L. Broholm, Loïc van Doorn, Bruno Ferreto Fiorillo & Carl Smith
DOI: 10.6084/m9.figshare.27619368.v1
title: Supplementary Material for: Genetic Association of the Ins/Del Variant of ACE and Risk of Cardiomyopathy: A Case-Control Study and Updated Meta-Analysis

description: Introduction: Cardiomyopathy, is a complex condition influenced by multiple genes and environmental factors. It has been suspected that cardiomyopathy is affected by the ACE gene's I/D polymorphism. Our study aimed to evaluate the association between this polymorphism and cardiomyopathy risk in the Jammu population of North India, alongside a meta-analysis to determine the specific risks associated with different types of cardiomyopathy. Method: In the case-control study, we opted for a convenient sampling technique to gather patients from hospitals. Meanwhile, for the meta-analysis registered under PROSPERO with CRD42024519763, and in line with PRISMA guidelines, we accessed online databases and applied predefined inclusion criteria. Data extraction and quality assessment were performed using the Newcastle-Ottawa scale. Statistical analysis included genotypic frequencies, Hardy-Weinberg equilibrium testing, logistic regression models, and assessments for heterogeneity and publication bias. Result: The case-control study revealed a significant association between the ACE I/D risk variant and cardiomyopathy risk in the Jammu population (OR: 1.30, CI [1.04-1.63], p-value=0.021). Furthermore, a total of 34 studies were fund-eligible for the meta-analysis and demonstrated a significant association between the risk variant and both dilated (OR: 1.25, CI [1.03-1.50], p-value=0.022) and hypertrophic (OR: 1.31, CI [1.0876-1.5776], p-value = 0.004446) cardiomyopathy. Conclusion: Our study found a significant association between the I/D polymorphism and cardiomyopathy risk in the Jammu population. Further, the meta-analysis strengthens the findings by consistently linking the ACE I/D polymorphism to both dilated and hypertrophic cardiomyopathy. These results underscore the importance of genetic factors in cardiomyopathy risk assessment and further research is needed to understand the underlying mechanisms and potential therapeutic implications.
DOI: 10.6084/m9.figshare.20418384.v3
title: Rethinking Degradation: Radiograph Super-Resolution via AID-SRGAN (Pre-trained Model)

description: MICCAI 2022; AID-SRGAN
DOI: 10.6084/m9.figshare.28759232.v1
title: test2

description: test21212123
DOI: 10.6084/m9.figshare.25057685.v1
title: Frequency Scores of Verbs' Occurrences in Positive, Negative, and Neutral Contexts.

description: <b>Semantic Prosody of Deictic Verbs in the Holy Qurʼān: </b><b>A Corpus-Informed Study</b>
DOI: 10.6084/m9.figshare.12234431.v1
title: Supplementary metadata files for deleterious and adaptive mutations in plant germplasm conserved ex situ

description: These metadata were generated from a mutation investigation of conserved plant germplasm
DOI: 10.6084/m9.figshare.21623616.v3
title: Children's responses and coding from Jac's River Adventure workshops in Wales, United Kingdom

description: The excel file documents transcribed verbal responses from children who took part in Jac's River Adventure workshops and codes for local features (tab: CodedConnections), local river species (tab: CodedSpeciesKnowledge), and the elements, perspective, and whether an actual or imagined experience was expressed in their river adventure creations (tab: Coded-Elements-byID). *Corresponding author: Stephanie Januchowski-Hartley, s.r.januchowski@gmail.com
DOI: 10.6084/m9.figshare.14642829.v1
title: Kinematics, Kinetics, and Temporal data - from V3D

description: Each data file contains the kinematic, kinetic, and temporal data for 1 participant stored in a Matlab structure. The original data was collected with Optitrack and processed in Visual3D. The processing techniques used are described in detail in a paper in review.
DOI: 10.6084/m9.figshare.28667375.v1
title: <b>Birds as biodiversity beacons: Identifying conservation priority areas through multi-dimensional diversity in China</b>

description: This study aims to identify priority conservation areas for birds in China by analyzing multi-dimensional biodiversity, including species, functional, and phylogenetic diversity, to inform sustainable conservation strategies.
DOI: 10.25402/btn.23447636.v1
title: Supplementary Table 1: Developing virtual and augmented reality applications for science, technology, engineering and math education.docx

description:  <strong>Supplementary Table 1.</strong> <strong>Technical challenges in development of academic VR/AR apps.</strong>
DOI: 10.6084/m9.figshare.23908074.v1
title: List of pesticide analytes

description: List of pesticides included in the analysis conducted by AFL in Guelph, Ontario, on stormwater and biofilm samples collected from 21 stormwater sites in Brampton, Ontario.
DOI: 10.6084/m9.figshare.5280871.v1
title: BROT plant functional trait database: Sources file

description: List of all sources of information (mainly published references) considered in the database
DOI: 10.6084/m9.figshare.6864986.v1
title: Supplementary Material for: General Anesthesia may have Similar Outcomes with Conscious Sedation in Thrombectomy Patients with Acute Ischemic Stroke: A Real-World Registry in China

description: <b><i>Background and Purpose:</i></b> Clinical trials showed that anesthesia may not influence the functional outcome in stroke patients with endovascular therapy; however, data are lacking in China. Using real-world registry data, our study aims to compare the effects of general anesthesia or conscious sedation on functional outcomes in stroke patients treated with thrombectomy in China. <b><i>Methods:</i></b> Consecutive patients with acute anterior circulation stroke receiving thrombectomy in 21 stroke centers between January 2014 and June 2016 were included in this study. The propensity score analysis with 1: 1 ratio was used to match the baseline variables between patients with general anesthesia and the conscious sedation. The 90-day modified Rankin Scale (mRS), symptomatic intracranial hemorrhage (sICH), and death were compared between groups. <b><i>Results:</i></b> Of the 698 patients undergoing endovascular treatment, 138 were treated with general anesthesia and 560 with conscious sedation. After propensity score matching, 114 general anesthesia and 114 conscious sedation patients were matched. The proportions of patients with 90-day mRS 0–2 were not significantly different between general anesthesia and conscious sedation groups (41.2% [47/114] vs. 46.5% [53/114], <i>p</i> = 0.470), nor were the rates of sICH (21.9% [25/114] vs. 12.3% [14/114], <i>p</i> = 0.072) and 90-day mortality (31.6% [36/114] vs. 21.9% [25/114], <i>p</i> = 0.145). <b><i>Conclusion:</i></b> Anesthesia patterns may have no significant impacts on clinical outcomes in patients with acute anterior circulation occlusion stroke undergoing endovascular treatment in the real-world practice in China.