cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.15156/bio/sh1382816.10fu
title: SH1382816.10FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.6084/m9.figshare.27937767.v1
title: Supplementary Material for: Jackhammer esophagus as a complication of tonsillectomy and adenoidectomy: A case report

description: Introduction. Tonsillectomy is a safe and common procedure. It has not been associated with the development of hypercontractile conditions of the esophagus. Jackhammer esophagus is a type of hypercontractile esophagus with vigorous contraction of the esophagus associated with dysphagia and chest pain.
Case Presentation. A 42 year old woman with no previous history of gastroesophageal dysfunction or symptoms developed Jackhammer esophagus with severe dysphagia and chest pain after undergoing tonsillectomy and adenoidectomy.
Conclusion. Although Jackhammer esophagus has been reported as a complication of several invasive procedures, this is the first report of Jackhammer esophagus as a complication of tonsillectomy and adenoidectomy.
DOI: 10.6084/m9.figshare.23593116.v1
title: simulated.zip

description: Simulated sequencing read output as described in Gimpel et al.
DOI: 10.6084/m9.figshare.7650104.v1
title: 2017 BACTERIAseqs.fna

description: Bacterial 16S sequence data (primers 799F and 1115R) from the roots of maple seedlings. Sequences are in the fasta format, have been adapter-trimmed, and assembled. <br>
DOI: 10.6084/m9.figshare.23590083.v1
title: Stochastic Simulation of Divergent Selection Experiment on a Gene-Phenotype Network: A Case Study of Shoot Branching in Plants

description: # Stochastic Simulation of Divergent Selection Experiment on a Gene-Phenotype Network: A Case Study of Shoot Branching in Plants <br> ## Background <br> General Background Information on the specification of the Gene-Phenotype Network for Shoot Branching can be found in this publication: https://doi.org/10.1093/insilicoplants/diac006 <br> The Shoot Branching Gene-Phenotype Network generates values for intermediate traits (`Auxin`,`Strigolactone`,`Cytokinin`,`Sucrose` & the `Integrator Signal`) and the end-point trait, `Time Bud Outgrowth`, that was under direct selection in the simuations. Starting from a common segregating population of genotypes (F2 - cycle1 folders), individuals were selected for either `Faster` or `Slower` Time to Bud Outgrowth for 30 selection cycles which created two seperate selection lines. <br> The heritability, the ratio of genetic variance to error variance, of the `Time Bud Outgrowth` trait under direct selection was varied (`H2 = 1.0, 0.7, 0.5, 0.3`) to assess implications of the accuracy of selection decisison on the seleciton trajectories of the gene-phenotype network. <br> The whole divergent selection experiments were replicated 5 times, resulting in 1,200 populations with genotype and phenotype data. <br> ### Data <br> ##### Genotype <br> *TrueQtlInfo.csv* <br> Information on Causal Genomic Sites (Quantitative Trait Loci - QTL) & their Effect Sizes on Gene-Phenotype Network; - Column 1: Intermediate Trait Infuenced by each QTL - Column 2: QTL Order - Column 3: Effect Size of each QTL - Column 4: Location Information of each QTL (ChromosomeNumber_WithinChromosomeIndex) <br> *QtlMatrix.csv* <br> Information on Number of Gene Copies (Alleles) at each QTL for each individual - 1st Column: Individual ID - 2nd Column Onnwards: QTL Allele Counts <br> *SnpMatrix.csv* <br> Information on Number of Gene Copies (Alleles) at each SNP (Non-Causal Genomic Sites) for each individual - 1st Column: Individual ID - 2nd Column Onnwards: SNP Allele Counts <br> ##### Phenotype <br> *TraitData.csv* <br> Trait Records for each individual - Column 1: Individual ID - Column 2: Selection Direction on Time to Bud Outhgrowth - Column 3-6: Additive Genetic Values (Sum of QTL Allele Counts x QTL Effect Size) for Intermediate Traits - Column 7-11: Total Genetic Values (Sum of Additive Genetic Values + Interaction Effects) for Intermediate Traits - Column 12: Total Genetic Values for Time to Bud Outgrowth - Column 13: Phenotypes (Total Genetic Values + Error) for Time to Bud Outgrowth <br>
DOI: 10.6084/m9.figshare.22631659.v1
title: Supplementary Material for: Prenatal diagnosis of Gómez-López-Hernández syndrome

description: Introduction: Gomez-Lopez-Hernandez Syndrome (GLHS), also known as cerebello-trigeminal-dermal dysplasia is an extremely rare neuro-cutaneous disease, classically described by the triad of rhombencephalosynapsis (RES), bilateral focal alopecia and trigeminal anesthesia. The clinical and radiographic spectrum of GLHS is now known to be broader, including craniofacial and supra-tentorial anomalies, as well as neurodevelopmental issues. Case presentation: Here, we present a case of antenatally diagnosed GLHS with RES, hydrocephaly and craniofacial anomalies identified on ultrasound (low-set ears with posterior rotation, hypertelorism, midface hypoplasia, micrognathia and anteverted nares) which were confirmed by autopsy after termination of pregnancy at 23 weeks gestation. Discussion: As no known genetic causes have been identified and the classical triad is not applicable to prenatal imaging, prenatal diagnosis of GLHS is based on neuro-imaging and the identification of supporting features. In presence of a RES associated with cranio-facial abnormalities in prenatal (brachycephaly, turricephaly, low-set ears, midface retrusion, micrognathia), GLHS should be considered as "possible” according to postnatal criteria.
DOI: 10.6084/m9.figshare.12319967.v1
title: Supplementary Material for: A Multicenter Prospective Survey on Early-Onset Inflammatory Bowel Disease in Japan

description: <b><i>Introduction:</i></b> The incidence of early-onset inflammatory bowel disease is increasing in Japan. <b><i>Objective:</i></b> This study aimed to analyze the treatment and progress of early-onset inflammatory bowel disease. <b><i>Methods:</i></b> This prospective survey evaluated the data of 43 patients aged &lt;8 years who were diagnosed with inflammatory bowel disease (IBD) from the time of diagnosis to 36 months after registration. <b><i>Results:</i></b> A total of 12 patients with Crohn’s disease (CD), 21 with ulcerative colitis (UC), and 3 with unclassified IBD were enrolled. The mean disease onset age was 3 years and 7 months. Colon and anal lesions were present in 100 and 50% of patients with CD, respectively. Granulomas were detected in 5 patients (41.7%). Dietary elimination including elemental diet was performed in all patients. Eleven patients (91.7%) were in remission by initial induction therapy, and 72.7% maintained remission for 36 months. Three patients (14.3%) with UC had familial history, 71.4% had pancolitis-type UC, and 66.7% exhibited disease of moderate severity. Colectomy was performed in 4 patients (21.1%). Eighteen patients (85.7%) were in remission by initial induction therapy; however, only 15.8% maintained remission for 36 months. Anal complication was more prevalent in infantile-onset IBD than in childhood-onset IBD (<i>p</i> = 0.014). <b><i>Conclusions:</i></b> Among Japanese patients aged &lt;8 years who were diagnosed with IBD, colitis-type disease was more common in CD and pancolitis was more common in UC. As the courses of several patients were severe, identifying primary immunodeficiency appears to be necessary to confirm background disease.
DOI: 10.6084/m9.figshare.c.3607466_d3.v1
title: Additional file 6: of Identification of protein-damaging mutations in 10 swine taste receptors and 191 appetite-reward genes

description: List of variants confirmed to be real polymorphisms by genotyping. MAF = observed minor allele frequency; * H variants which MAF is close to that of rare variants and display the three genotypic classes in the genotyped animals. (XLSX 12 kb)
DOI: 10.6084/m9.figshare.7906820.v1
title: gVCF_HG01843

description: 1000 Genomes gVCF mapped to hs37d5 for HG01843. Complete collection: https://doi.org/10.6084/m9.figshare.c.4414307
DOI: 10.6084/m9.figshare.11704239.v1
title: Patient 4

description: Premature Ventricular Contraction patient #2Part 1 contains the raw ultrasound RF dataPart 2 contains the B-mode, multi-2D and 3D-rendered EWI activation timings
DOI: 10.6084/m9.figshare.c.1513842_d5.v1
title: SCSIO Gridded Temp&Salt SCSPOD14

description: SCSPOD14 Temperature and Salinity Data
DOI: 10.6084/m9.figshare.19578901.v1
title: Synthetic Abdominal PCG Signals and Extracted Fetal PCG Signals

description: This dataset consists of synthetic abdominal PCG signals. The signals are perturbed differently by four types of interference (maternal sounds, movement artifacts, Gaussian noise, and ambient noise) and eleven combinations of these disturbances are created. <br> Also stored are extracted fetal PCGs using the Savitzky-Golay filter, finite impulse response filter, adaptive wavelet transform, maximal overlap discrete wavelet transform, variational mode decomposition, empirical mode decomposition, ensemble empirical mode decomposition, and complete ensemble empirical mode decomposition with adaptive noise. <br> The data are stored in .mat format.
DOI: 10.6084/m9.figshare.4780693.v1
title: Supplementary Material for: Citrus Limonin Lacks the Antichemotherapeutic Effect in Human Models of Breast Cancer

description: <strong><em>Background/Aims:</em></strong> Chemicals that interfere with reactive oxygen species metabolism can act as potential candidates for the treatment of cancer. Some of the glucosides of citrus limonin inhibit the endogenously generated reactive oxygen species. The aim is to study the interactions of limonin with chemotherapy. <b><i>Methods:</i></b> Breast cancer cell lines MCF-7 (p53 wild type) and MDA-MB-231 (p53 mutant) as well as the nontumorigenic epithelial cell line MCF-10 were used to screen the effect of limonin at 1-, 5- and 10-µ<i>M</i> concentrations with camptothecin for apoptosis and NFĸB, p38 and ERK-MAPK signaling kinase assays. The effect of cyclophosphamide and limonin on MDA MB 231 xenografts was also studied. <b><i>Results:</i></b> Our results indicate that limonin did not inhibit camptothecin-induced apoptosis in human breast cancer cells in vitro through noninterference of camptothecin-induced phosphorylation of p38 MAPK and ERK-MAPK. Using an in vivo model of human breast cancer, limonin in combination with cyclophosphamide was not found to inhibit the cyclophosphamide-induced tumor regression through a reduced mitotic index of tumor xenograft cells when compared to treatment with cyclophosphamide alone. <b><i>Conclusion:</i></b> Both in vitro and in vivo results suggest that limonin could be beneficial for breast cancer patients undergoing chemotherapy.
DOI: 10.6084/m9.figshare.27262152.v1
title: GCB Bioenergy_Figures_2024.xlsx

description: This study aimed to isolate, purify, and characterize a lipase from the gut symbiont <i>Bacillus megaterium </i>F25 (GenBank accession: MF597792) of the aquatic insect<b> </b><i>Rhantus suturalis,</i> with a focus its potential applications in biodiesel and food industries. Under optimized culture conditions, <i>B. megaterium </i>F25 could produce 583U/L of lipase in shaking flask culture. The purified lipase (PL) exhibited a specific activity with 113.89 U/mg and its molecular weight was determined as 34 kDa. The activity of PL was enhanced by methanol, ethanol, Tween-80, Triton X-100, Ca2+ and Mg2+, while β-mercaptoethanol, EDTA, SDS, Fe2+, Mn2+ and Cu2+ were inhibitory. PL showed optimal activity and stability at neutral and slightly acidic pHs, as well as in a temperature range of 20-30ºC. PL displayed strong hydrolytic activity towards plant oils and animal fats, indicating its potency for both food industry and the remediation of oil-contaminated environments. When tested as a catalyst, PL provided biodiesel production with a transesterification yield of 86.8% under optimized conditions (36 h reaction time, 4 mL enzyme solution, 30°C, pH 7.0 and waste-cooking oil:methanol ratio of 10 mL/40 mL). This is the first report on lipase-producing potential of gut microbial symbionts of aquatic insects. Furthermore, <i>B. megaterium</i> lipase was tested for the first time as a biocatalyst for biodiesel production.
DOI: 10.6084/m9.figshare.26180776.v1
title: Rodent GBP5 codon Prank alignment (for Le Corf et al. 2025)

description: Rodent GBP5 codon Prank alignment (for Le Corf et al. 2025)
DOI: 10.6084/m9.figshare.2069049.v2
title: Climatological diurnal variability in sea surface temperature characterised from drifting buoy day v1.1

description: Drifting-buoy sea surface temperature (SST) records have been used to characterise the diurnal variability of ocean temperature at a depth of order 20 cm. We use measurements covering the period 1986-2012 from the International Comprehensive Ocean-Atmosphere Data Set (ICOADS) version 2.5, which is a collection of marine surface observations that includes individual SST records from drifting buoys. Appropriately transformed, this dataset is well suited for estimation of the diurnal cycle, since many drifting buoys have high temporal coverage (many reports per day), and are globally distributed. For each drifter for each day, we compute the local-time daily SST variation relative to the local-time daily mean SST. Climatological estimates of sub-daily SST variability are found by averaging across various strata of the data: in 10-degree latitudinal bands as well as globally; and stratified with respect to season, wind speed and total cloud cover. A parameterisation of the diurnal variability is fitted as a function of the variables used to stratify the data, and the coefficients for this fit are also provided with the data. Results are consistent with expectations based on previous work: the diurnal temperature cycle peaks in early afternoon (circa 2 pm local time); there is an increase in amplitude and a decrease in seasonality towards the equator. Generally, the ocean at this depth cools on windy days and warms on calm days, so that a component of sub-daily variability is the SST tendency on slower timescales. By not “closing” the diurnal cycle when stratified by environmental conditions, this dataset differs from previously published diurnal-cycle parameterisations. This thorough characterisation of the SST diurnal cycle will assist in interpreting SST observations made at different local times of day for climatological purposes, and in testing and constraining models of the diurnal-cycle and air-sea interaction at high temporal resolution. (This data set is the updated version of http://dx.doi.org/10.6084/m9.figshare.1513832)
DOI: 10.6084/m9.figshare.14402327.v2
title: Athlete and Non-Athlete Mental Health Survey Data

description: Data was collected on athlete mental health as the United Kingdom emerged from their first COVID-19 lockdown using non-athletes as a comparison.<br>Data collected on athletic identity, resilience, wellbeing, depression, anxiety and loneliness through an online survey using the Mental Health Continuum Short-Form (Keyes, 2005), Hospital Anxiety and Depression Scale (Zigmond and Snaith, 1983), the Brief Resilience Scale (Smith et al., 2008), the Short Loneliness Scale (Gierveld and Tilburg, 2006) and the Athletic Identity Measurement Scale (Brewer et al., 1993). Ethical approval was granted by the Ulster University Research Ethics Filter Committee. No personal identifying information was collected. Participants were all over the age of 18.<br>
DOI: 10.6084/m9.figshare.25237576.v1
title: Processed data from single cell RNA sequencing of systemic sclerosis

description: The re-analyzed processed data from single cell RNA sequencing of systemic sclerosis
DOI: 10.6084/m9.figshare.5121661.v1
title: Supplementary Material for: Early Repolarisation Syndrome and Ischemic Stroke: Is There a Link?

description: Medicine
DOI: 10.6084/m9.figshare.7188878.v1
title: Supplementary Material for: Randomized Trial Comparing Proactive, High-Dose versus Reactive, Low-Dose Intravenous Iron Supplementation in Hemodialysis (PIVOTAL): Study Design and Baseline Data

description: <b><i>Background:</i></b> Intravenous (IV) iron supplementation is a standard maintenance treatment for hemodialysis (HD) patients, but the optimum dosing regimen is unknown. <b><i>Methods:</i></b> PIVOTAL (Proactive IV irOn Therapy in hemodiALysis patients) is a multicenter, open-label, blinded endpoint, randomized controlled (PROBE) trial. Incident HD adults with a serum ferritin &lt; 400 µg/L and transferrin saturation (TSAT) levels &lt; 30% receiving erythropoiesis-stimulating agents (ESA) were eligible. Enrolled patients were randomized to a proactive, high-dose IV iron arm (iron sucrose 400 mg/month unless ferritin &gt; 700 µg/L and/or TSAT ≥40%) or a reactive, low-dose IV iron arm (iron sucrose administered if ferritin &lt;200 µg/L or TSAT &lt; 20%). We hypothesized that proactive, high-dose IV iron would be noninferior to reactive, low-dose IV iron for the primary outcome of first occurrence of nonfatal myocardial infarction (MI), nonfatal stroke, hospitalization for heart failure or death from any cause. If noninferiority is confirmed with a noninferiority limit of 1.25 for the hazard ratio of the proactive strategy relative to the reactive strategy, a test for superiority will be carried out. Secondary outcomes include infection-related endpoints, ESA dose requirements, and quality-of-life measures. As an event-driven trial, the study will continue until at least 631 primary outcome events have accrued, but the expected duration of follow-up is 2–4 years. <b><i>Results:</i></b> Of the 2,589 patients screened across 50 UK sites, 2,141 (83%) were randomized. At baseline, 65.3% were male, the median age was 65 years, and 79% were white. According to eligibility criteria, all patients were on ESA at screening. Prior stroke and MI were present in 8 and 9% of the cohort, respectively, and 44% of patients had diabetes at baseline. Baseline data for the randomized cohort were generally concordant with recent data from the UK Renal Registry. <b><i>Conclusions:</i></b> PIVOTAL will provide important information about the optimum dosing of IV iron in HD patients representative of usual clinical practice. <b><i>Trial Registration:</i></b> EudraCT number: 2013-002267-25.
DOI: 10.6084/m9.figshare.7865477.v1
title: Free and forced vibration analysis of multiple cracked FGM multi span continuous beams using dynamic stiffness method

description: Abstract In the present paper, the free and forced vibration of multiple cracked multi span continuous beams made of functionally graded material (FGM) is investigated by the dynamic stiffness method. First, there are constructed dynamic stiffness matrix and nodal load vector of multiple cracked FGM beam element using Timoshenko beam theory and massless double spring model of crack. Then, effect of cracks parameters on free and forced vibration of the FGM continuous beams is examined. The theoretical developments are validated by numerical examples. The obtained results provide an efficient method to analyze free and forced vibration of multiple cracked FGM framed structures and assessment of the behavior of damaged structures.
DOI: 10.6084/m9.figshare.17004255.v1
title: Additional file 3 of Genome-wide transcriptome analysis of the early developmental stages of Echinococcus granulosus protoscoleces reveals extensive alternative splicing events in the spliceosome pathway

description: Additional file 3: Datasheet S1. Echinococcus granulosus genes with primary modes of alternative splicing events and differential AS events, predicted by rMATS. Total SE total skipped exon (SE) events in the early phases of E. granulosus development identified by rMATS, Total RI total retained intron (RI) events in the early phases of E. granulosus development identified by rMATS, Total MXE total mutually exclusive exon (MXE) events in the early phases of E. granulosus development identified by rMATS, Total A3SS total alternative acceptor site (A3SS) events in the early phases of E. granulosus development identified by rMATS, Total A5SS total alternative donor site (A5SS) events in the early phases of E. granulosus development identified by rMATS.
DOI: 10.6084/m9.figshare.28840424.v1
title: 1-Quantitative RT-PCR

description: Raw Ct values and ΔΔCt calculations, exported by stepone software v2.3.
DOI: 10.6084/m9.figshare.28440413.v1
title: Shroom3gt OPT data

description: Shroom3gt OPT data
DOI: 10.6084/m9.figshare.17133806.v2
title: Agency and time poverty: Linking decision-making powers and leisure time of male and female farmers of Central India

description: The study is aimed to examine the linkages among participation, workload, and decision making through the lens of gender and other power relations. The primary data were collected through a gender-differentiated survey among 347 wheat farming households (694 individuals) in 18 rural villages of Madhya Pradesh state of India. Both the household head and his/her partner were interviewed from the sample households. In case the household head was not in a marital relationship at the time of the survey, a member of the opposite sex was interviewed. The interviews were carried out by a team of 12 trained (6 female) enumerators and two supervisors (both male) during October-November 2019, using a Computer-Assisted Personal Interview (CAPI) software called <i>Surveybe</i><sup>TM</sup>. Informed consent was sought from each participant.
DOI: 10.60893/figshare.jcp.28692812.v1
title: supplementary

description: Further ground state energies of quantum dots.
DOI: 10.15468/dl.6js6c7
title: Occurrence Download

description: A dataset containing 1647 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 Apotomis betuletana (Haworth, 1811)"
 ]
}

 The dataset includes 1647 records from 39 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0009679-250426092105405/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.21900393.v1
title: data for plos one.rar

description: operational data