cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.57907/mirri/alg66u/lyf6ze
title: MIRRI0071804.json

description: Strain json file
DOI: 10.57907/mirri/c6exur
title: MIRRI0071782

description: Organism type: Filamentous Fungi ; Taxon name: Metulocladosporiella musicola ; Collection: CBS 113865 ; Country: Uganda
DOI: 10.57907/mirri/cpignr/23dme4
title: MIRRI0071971.json

description: Strain json file
DOI: 10.57907/mirri/dwp2ko/ujroao
title: MIRRI0071717.json

description: Strain json file
DOI: 10.57907/mirri/fbzepn
title: MIRRI0071703

description: Organism type: Filamentous Fungi ; Taxon name: Elsinoe banksiicola ; Collection: CBS 113734 ; Country: Australia
DOI: 10.57907/mirri/fbzepn/tzmkbi
title: MIRRI0071703.json

description: Strain json file
DOI: 10.57907/mirri/gjecw3
title: MIRRI0071632

description: Organism type: Filamentous Fungi ; Taxon name: Cylindrocladiella pseudoparva ; Collection: CBS 113624 ; Country: Switzerland
DOI: 10.57907/mirri/hsiuza/ynm0l3
title: MIRRI0071648.json

description: Strain json file
DOI: 10.57907/mirri/i9wfcu/czufaf
title: MIRRI0071614.json

description: Strain json file
DOI: 10.57907/mirri/ifbzc0
title: MIRRI0071799

description: Organism type: Filamentous Fungi ; Taxon name: Penicillium commune ; Collection: CBS 113890 ; Country: Sweden
DOI: 10.57907/mirri/ikuwqi
title: MIRRI0071619

description: Organism type: Filamentous Fungi ; Taxon name: Sarcostroma proteae ; Collection: CBS 113605 ; Country: Australia
DOI: 10.57907/mirri/jdkjxy
title: MIRRI0071781

description: Organism type: Filamentous Fungi ; Taxon name: Metulocladosporiella musicola ; Collection: CBS 113864 ; Country: Uganda
DOI: 10.57907/mirri/laqlt7/nxorjv
title: MIRRI0071814.json

description: Strain json file
DOI: 10.57907/mirri/mkp2vb/zu29sy
title: MIRRI0071737.json

description: Strain json file
DOI: 10.57907/mirri/ojixox
title: MIRRI0071673

description: Organism type: Filamentous Fungi ; Taxon name: Chaenothecopsis pusiola ; Collection: CBS 113695 ; Country: Sweden
DOI: 10.57907/mirri/opzpwk
title: MIRRI0071826

description: Organism type: Filamentous Fungi ; Taxon name: Paecilomyces variotii ; Collection: CBS 113955
DOI: 10.57907/mirri/orwngb
title: MIRRI0071621

description: Organism type: Filamentous Fungi ; Taxon name: Pestalotiopsis chamaeropis ; Collection: CBS 113607
DOI: 10.57907/mirri/qrf7bj/htvvfs
title: MIRRI0071711.json

description: Strain json file
DOI: 10.57907/mirri/rmdfol/ftuelt
title: MIRRI0071786.json

description: Strain json file
DOI: 10.57907/mirri/rxqmvt
title: MIRRI0071727

description: Organism type: Filamentous Fungi ; Taxon name: Nodulosphaeria jaceae ; Collection: CBS 113802 ; Country: Sweden
DOI: 10.57907/mirri/sitb7q/o8jek1
title: MIRRI0071725.json

description: Strain json file
DOI: 10.57907/mirri/t6u3an
title: MIRRI0071798

description: Organism type: Filamentous Fungi ; Taxon name: Acremonium fuci ; Collection: CBS 113889 ; Country: Canada
DOI: 10.57907/mirri/tx5npv/lgrzy3
title: MIRRI0071697.json

description: Strain json file
DOI: 10.17632/bp6f3bcj5j
title: FlipFlap coverslips' sandwich holder

description: File to 3D print a coverslips' sandwich holder used to perform dual-view  confocal imaging of cleared and stained plant samples.
DOI: 10.6084/m9.figshare.20926873.v1
title: UDAMP_Database

description: It is the comprehensive unified human antimicrobial immunomodulatory peptide database.
DOI: 10.6084/m9.figshare.28665539.v2
title: Temporomandibular Joint Panoramic Radiography Dataset for Subluxation Detection Using Deep Learning

description: This dataset consists of lateral cephalometric radiographs prepared for deep learning-based classification of subluxation versus normal cases. Each original image contains four consecutive radiographs aligned horizontally. The 2nd and 3rd images in each file represent the left and right views of the same individual. For training purposes, these relevant parts were extracted (split) and saved as individual images.The dataset is divided into two main folders:<code>/original_images/</code>: Contains the raw, unprocessed cephalometric images with four radiographs in each.<code>/processed_images/</code>: Contains the split and preprocessed images used for training deep learning models.All images are anonymized and resized to a uniform resolution. The processed dataset is labeled and organized to support binary classification (subluxation vs. normal).
DOI: 10.6084/m9.figshare.11467374.v3
title: Supporting information. Homonyms and hemihomonyms dataset: A source of errors in the Big Data Era.

description: Supporting Information for article: TAXONOMIC NOMENCLATURE IN THE BIG DATA ERABy: Sánchez-González, Jorge-Rubén & Herrero Rodríguez, Elena<br>It consists on a preliminary register of existing homonyms and/or hemihomonyms.
DOI: 10.6084/m9.figshare.22178099.v4
title: Supplementary Files for Kawato et al. (2023) "Evolutionary genomics of white spot syndrome virus"

description: <b>Online_Resource_1_MAGs.zip</b>: Draft metagenome-assembled genomes (MAGs) of WSSV identified from publicly available high-throughput sequencing datasets. Available in FASTA (.fa) and DDBJ (.ddbj) formats.<b>Online_Resource_2_whole_genome_alignments.zip</b>:clean.full.aln: FASTA-format multiple sequence alignment of 61 WSSV genomesclean2.full.aln: FASTA-format multiple sequence alignment of 48 WSSV genomesclean3.full.aln: FASTA-format multiple sequence alignment of 40 WSSV genomesclean.full.aln.treefile: Newick-format maximium-likelihood phylogenetic tree generated from clean.full.alnclean2.full.aln.treefile: Newick-format maximium-likelihood phylogenetic tree generated from clean2.full.alnclean3.full.aln.treefile: Newick-format maximium-likelihood phylogenetic tree generated from clean3.full.aln<b>Online_Resource_3_</b><b>BEAST_trees.zip</b>: BEAST2 XML files (.xml) and Nexus-format phylogenetic trees (.nex) for Bayesian divergence time esimation assuming different population dynamics (coalescent constant, coalescent exponential, and coalscent Bayesian skyline) and substitution models (HKY and GTR)<b>Online_Resource_4_</b><b>subgenomic_alignments.zip: </b>subegenomic alignments used in the recombination analyses.<b>Online_Resource_5_genomic_deletions.zip: </b>multiple sequence alignments of genomic deletions.2023-09-10: Missing file (ORF14-15.fa) in Online_Resource_5_genomic_deletions.zip has been added.
DOI: 10.17632/bsspz99ctn
title: Finite Order Entropy Rate Estimation for Multibit Strong PUF Classes

description: Finite Order Entropy Rate Estimation for Multibit Strong PUF Classes based on Minimax estimators Center Dirichlet Mixture (CDM) estimator and other entropy estimators, including the MLE, JVHW, WY, and the approximate Profile Maximum Likelihood (PML). This work is used by Bendary, Ahmed, et al. "Estimating the Unpredictability of Multi-Bit Strong PUF Classes." Cryptology ePrint Archive (2024).

E. W. Archer, I. M. Park, and J. W. Pillow, “Bayesian Entropy Estimation for Binary Spike Train Data Using Parametric Prior Knowledge,” in Advances in Neural Information Processing Systems 26, C. J. C. Burges, L. Bottou, M. Welling, Z. Ghahramani, and K. Q. Weinberger, Eds. Curran Associates, Inc., 2013, pp. 1700–1708.

J. Jiao, K. Venkat, Y. Han, and T. Weissman, “Minimax Estimation of Functionals of Discrete Distributions,” IEEE Transactions on Information Theory, vol. 61, no. 5, pp. 2835–2885, 2015.

Y. Wu and P. Yang, “Minimax Rates of Entropy Estimation on Large Alphabets via Best Polynomial Approximation,” IEEE Transactions on Information Theory, vol. 62, no. 6, pp. 3702–3720, 2016.

D. S. Pavlichin, J. Jiao, and T. Weissman, “Approximate Profile Maximum Likelihood,” J. Mach. Learn. Res., vol. 20, pp. 122:1 122:55, 2019.
DOI: 10.6084/m9.figshare.12978200.v1
title: Homogenization of terrestrial mammal assemblages in human-modified rainforests

description: Data on medium and large terrestrial mammal species was obtained in 22 forest patches and 4 continuous forest sites in the fragmented Lacandona rainforest, Chiapas, Mexico. We sampled mammals using camera-traps, ground tracks and direct sightings in 2011 and 2017. For each site, we measured metrics of landscape composition (i.e. percentage of forest cover and matrix openness) and landscape configuration (i.e. number of patches, edge density and mean inter-patch distance). We analyzed sample completeness in each site and removed sites with low sample coverage (Cn &lt; 0.65). Thus, the analyses are based on 20 forest sites (16 patches and 4 continuous forest sites). We calculated changes in beta diversity from 2017 to 2011 and decomposed it into its turnover and nestedness components, using a presence-absence matrix. We analyzed the association between changes in landscape variables and changes in beta diversity using Mantel tests. Landscape metrics were measured across different landscape sizes (range of radii = 200 to 1400 m, at 200-m intervals).
DOI: 10.6084/m9.figshare.16810090.v2
title: Dataset for Study on Scientometrics.xlsx

description: We use journal articles published by <i>Scientometrics</i> in 2016-2020 as the data source. Through the analysis of the data set usage records of scientometrics research, the frequency ranking of the usage of datasets on respectively social network, patents, academic literature, and encyclopedia are listed, so as to provide a reference for the selection of data sets for scientometrics research.
DOI: 10.6084/m9.figshare.c.3629252_d1.v1
title: Additional file 2 of Pooling across cells to normalize single-cell RNA sequencing data with many zero counts

description: Enriched GO terms for deconvolution. This file is in a tab-separated format and contains the top 200 GO terms that were enriched in the set of DE genes unique to deconvolution. The identifier and name of each term is shown along with the total number of genes associated with the term, the number of associated genes that are also DE, the expected number under the null hypothesis, and the Fisher p value. (13 KB PDF)
DOI: 10.6084/m9.figshare.10247489.v1
title: Potential and promisingness of technical options for mitigating greenhouse gas emissions from rice cultivation in Southeast Asian countries

description: Paddy fields are considered as one of the most important sources of anthropogenic methane (CH<sub>4</sub>) and nitrous oxide (N<sub>2</sub>O) emissions. While several technical options have been proposed to reduce these emissions, gaps in data and information based on application of these options in the field are a key barrier to scaling-up. To address these gaps, we conducted a review of literature to analyze the potential of technical options in Southeast Asia (SEA). Using screening criteria based on reliability of experimental data, 31 region-specific cases were selected for the analysis. A meta-analysis indicated that water management options, including single and multiple drainage approaches such as alternative wetting and drying (AWD), significantly reduced CH<sub>4</sub> emissions by 35% as a mean effect size (95% confidential interval: 41–29%), as well as the combined effects of CH<sub>4</sub>+N<sub>2</sub>O (net GWP) by 29% (36–23%). The effect on reducing CH<sub>4</sub> emissions in the dry season was significantly larger than that in the wet season. Application of biochar reduced both CH<sub>4</sub> and N<sub>2</sub>O emissions by 20% (40% to −7%), while significantly increased rice yield by 28% (8–52%). Other options such as removal of rice straw from the previous crop, composting rice straw and manure, application of sulfate-containing fertilizer, and soil drying in the fallow season also have recognized potential to reduce emissions but require further data and consideration of possible trade-offs. Based on the analysis of mitigation potential, promising technical options were assessed by considering together with constraints and additional co-benefits in order to provide a useful guide for policy makers and rice value chain operators in SEA countries for adopting mitigation options in rice cultivation to tackle climate change and enhance agriculture sector sustainability.
DOI: 10.6084/m9.figshare.14349647.v1
title: Supplementary Material for: Primary Retroperitoneal Filariasis Presenting with Acute Abdomen

description: Lymphatic filariasis is a common tropical parasitic infection caused by the Nematoda Filarioidae family. Filariasis predominantly affects the lymphoreticular system, leading to lymphedema, elephantiasis, hydrocele, and chyluria. However, its presentation as retroperitoneal cyst is very rare with a reported incidence rate of 1/105,000. We present a rare case of a previously healthy 26-year-old male presenting with abdominal and groin pain associated with chills and vomiting. Computerized tomography scan showed extensive cystic retroperitoneal lesion and ultrasound demonstrated “Dancing Filarial Sign.” Retroperitoneal filariasis can present without peripheral filarial signs. Hence, it should be considered in the differential diagnosis of acute abdominal pain of a patient who is originally from an endemic area.
DOI: 10.6084/m9.figshare.5121328.v1
title: Supplementary Material for: Association between Tumor Necrosis Factor-Alpha (–308G→A and –238G→A) Polymorphisms and Homocysteine Levels in Patients with Ischemic Strokes and Silent Brain Infarctions

description: <i>Background and Purpose:</i> The aims of this study were to evaluate the role of tumor necrosis factor-α <i>(TNF-</i>α<i>)</i> polymorphisms in patients susceptible to ischemic stroke and silent brain infarction (SBI), and to determine the relationship between <i>TNF-</i>α polymorphisms and plasma total homocysteine (tHcy) levels. <i>Methods:</i> We studied 237 patients with ischemic stroke, 257 patients with SBIs, and 216 control subjects. For control subjects, we selected healthy individuals matched for gender and age from those individuals who came to our hospital for health examinations. The <i>TNF-</i>α–308G→A and –238G→A genotypes were determined by the polymerase chain reaction-restriction fragment length polymorphism method. <i>Results:</i> The frequency of the <i>TNF-</i>α–308G→A polymorphism was significantly different between the patients with ischemic stroke and the control group (GG vs. GA+AA; adjusted odds ratio, AOR, 0.50; 95% CI 0.255–0.989). By subgroup analysis, when tHcy levels were stratified into high (&gt;10.80 µmol/l), moderate (8.21–10.80 µmol/l), and low levels (&lt;8.21 µmol/l), the frequency of the <i>TNF-</i>α–308GA+AA genotype in the highest tertile group was higher than in the lowest tertile group (AOR 2.46; 95% CI 1.063–5.699). However, the relationship between SBI susceptibility and polymorphisms of <i>TNF-</i>αwas not established. The tHcy levels were significantly and inversely correlated with folate levels in the <i>TNF-</i>α–308GG and <i>TNF-</i>α–238GG genotypes in the ischemic stroke, SBI, and control groups (p&lt; 0.05). <i>Conclusions:</i> Our results suggest that the <i>TNF-</i>α–308G→A polymorphism is responsible for susceptibility to ischemic stroke and is associated with high tHcy levels in Koreans.
DOI: 10.6084/m9.figshare.7466663.v1
title: N44 version by Knut

description: This is the version of the Nordic power system used by Knut
DOI: 10.17632/nntzswnfxz
title: Coupling stable isotope analyses and X-ray absorption spectroscopy to investigate the molecular mechanism of zinc sorption by calcite (1.0)

description: The dataset shows the results regarding Zn sorption on calcite, including macroscopic sorption data, Zn isotopic data, X-ray absorption spectroscopy data, XRD data and DFT input file. Summary of studies investigating Zn sorption mechanisms on calcite are shown in Table 1. Calculated bond length and 1000 lnβ (298 K) of aqueous Zn2+ clusters and Zn-containing solid phase and corresponding Zn isotopic fractionations are shown in Table 2. Summary of chemical and isotopic results of Zn sorption experiments are shown in Table 3. Structural parameters derived from EXAFS spectra fitting for Zn sorption samples and reference compounds are shown in Table 4. Ionic activity products (IAP) and saturation indices (SI) of possible precipitates for initial solution with [Zn]i of 5μM, 10 μM and 100 μM are shown in Table S1&S2. Mass percentages of Zn for Zn sorption samples calculated from LCF analysis are shown in Table S3.
DOI: 10.6084/m9.figshare.19618896.v1
title: Supplementary Material for: Prospective Study of Ageing Trajectories in the European DO-HEALTH Study

description: <b><i>Introduction:</i></b> Ageing trajectories range from delayed ageing with extended health to accelerated ageing, with an increased risk of frailty. We evaluated the prevalence and prospective change between health states among community-dwelling European older adults. <b><i>Methods:</i></b> This prospective study is a secondary analysis of DO-HEALTH, a randomized trial that included adults aged 70 years and older across 5 European countries. Healthy agers (HA) fulfilled the Nurses’ Health Study healthy ageing criteria and accelerated agers were non-HA being at least pre-frail according to the Fried frailty criteria. We assessed the proportion of participants changing between health states over 4 assessments and evaluated the odds of changing to a more favourable category. To increase reliability and avoid regression to the mean, we averaged the first 2 years and compared them to the average of the last 2 years. <b><i>Results:</i></b> Of 2,157 participants, 12.4% were excluded for meeting both healthy ageing and pre-frailty criteria simultaneously. Among the remaining 1,889 participants (mean age 75.1 years, 60.9% female), 23.1% were initially HA, 44.4% were non-HA but not pre-frail, and 32.6% were pre-frail or frail. Subsequently, 65.3% remained in the same health state, 12.0% improved to a healthier state, and 22.8% progressed to a less advantageous state. After adjusting for sex, study centre, treatment, and body mass index, each year of age was associated with 6% lower odds of improving health states. Women had 35% higher odds than men of following a disadvantageous trajectory. <b><i>Conclusion:</i></b> We observed dynamic trajectories of ageing where transitioning to a healthier state became less likely with advancing age and among women.
DOI: 10.6084/m9.figshare.22214188.v1
title: Datasets used for the analyses

description: Article title: Chimpanzees show the capacity to communicate about concomitant daily life eventsJournal: iScienceAuthors: Tatiana Bortolato, Angela D. Friederici, Cédric Girard-Buttoz, Roman M. Wittig, & Catherine CrockfordSummary: One universal of human language is its versatility in communicating about juxtapositions of everyday events. Versatile combinatorial systems of communication can be selected for if (a) several vocal units are flexibly combined into numerous and long vocal sequences and (b) vocal sequences relate to numerous daily life events. Chimpanzees fulfil (a) but there is limited evidence for (b) in non-human animals. We propose (b) is more likely during simultaneous or serial (concomitant) events than single events. We analysed 9391 vocal utterances across the repertoire of wild chimpanzees and their events of production. Chimpanzees used vocal sequences across a range of daily life events and twice as often during concomitant than single events. Also, utterance diversity correlated positively with event diversity. Our results show the potential of chimpanzee vocal sequences to convey combined information about numerous daily life events, a step from which generalised combinatoriality could have evolved.
DOI: 10.6084/m9.figshare.25127405.v1
title: Supplementary Material for: An integrated clinical and CT-based radiomics feature model to separate benign from malignant pleural effusion

description: Introduction: Distinguishing between malignant pleural effusion (MPE) and benign pleural effusion (BPE) poses a challenge in clinical practice. We aimed to construct and validate a combined model integrating radiomic features and clinical factors using computerized tomography (CT) images to differentiate MPE and BPE.
Methods: A retrospective inclusion of 315 patients with pleural effusion (PE) was conducted in this study (training cohort: n = 220; test cohort: n = 95). Radiomic features were extracted from CT images, and the dimensionality reduction and selection process were carried out to obtain the optimal radiomic features. Logistic regression (LR), support vector machine (SVM), and random forest (RF) were employed to construct radiomic models. Logistic regression analyses were utilized to identify independent clinical risk factors to develop a clinical model. The combined model was created by integrating the optimal radiomic features with the independent clinical predictive factors. The discriminative ability of each model was assessed by receiver operating characteristic (ROC) curves, calibration curves, and decision curve analysis (DCA). 
Results: Out of the total 1834 radiomic features extracted, 15 optimal radiomic features explicitly related to MPE were picked to develop the radiomics model. Among the radiomics models, the SVM model demonstrated the highest predictive performance[area under the curve (AUC),training cohort:0.876,test cohort:0.774]. Six clinically independent predictive factors, including age, effusion laterality, procalcitonin (PCT), carcinoembryonic antigen (CEA), carbohydrate antigen 125 (CA125), and neuron-specific enolase (NSE), were selected for constructing the clinical model. The combined model (AUC:0.932,0.870) exhibited superior discriminative performance in the training and test cohorts compared to the clinical model (AUC:0.850,0.820) and the radiomics model (AUC:0.876,0.774). The calibration curves and DCA further confirmed the practicality of the combined model.
Conclusion: This study presented the development and validation of a combined model for distinguishing MPE and BPE. The combined model was a powerful tool assisting in the clinical diagnosis of PE patients.
DOI: 10.6084/m9.figshare.5255005.v1
title: A case series of PLS patients with frontotemporal dementia and overview of the literature

description: <i>Objective:</i> Primary lateral sclerosis (PLS) is a rare form of motor neuron disease characterised by UMN degeneration leading to slowly progressive spasticity. Whether it is a separate disease or a subtype of ALS has been debated. In ALS comorbid frontotemporal dementia (FTD) is frequently seen (±15%). However, cognitive and behavioural changes are generally not considered to be a part of PLS. <i>Methods:</i> To report the clinical findings and frequency of PLS patients that developed FTD in a referral-based cohort and provide an overview of the literature. <i>Results:</i> In our cohort six out of 181 (3.3%) PLS patients developed FTD. In the literature a few cases of PLS with FTD have been reported and only a limited number of small studies have investigated cognition in PLS. However, when these studies are summarised a pattern emerges with FTD diagnoses in ±2% and frontotemporal impairment in 22% of patients. <i>Conclusions:</i> These findings suggest that PLS is part of the FTD-MND continuum and would favour viewing it as a subtype of ALS. It is, however, not a restricted (isolated UMN involvement) phenotype.
DOI: 10.17632/c9ptkvpt25
title: Sustainability profile and food waste management in schools in the Catalonia region (Spain)

description: Data from a survey on sustainability practices and food waste management administered to 548 public and private primary and secondary school headteachers in Catalonia (Spain) in 2018. The data include items relative to the canteen management system (section 2), the school sustainability profile (section 3), perceptions on food waste management and the level of interest in potential initiatives to fight against food waste (sections 4 and 5). School-level attributes (e.g. size, infrastructure) are also included.