cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.28070933.v1
title: Photon budgets and the effects of relative CDOM and pigment absorptions on primary production along a coastal salinity gradient

description: AbstractThe study highlights the critical role of CDOM in coastal light attenuation and its impact on primary production (PP). We investigated the spectral attenuation of light due to water, phytoplankton pigments, detritus and coloured dissolved organic matter (CDOM) along a salinity gradient in the outer Oslofjord, Norway. By examining the effects of these components across different seasons, we aimed to elucidate their relative contributions to light absorption and PP. The findings suggest that increased terrestrial CDOM inputs, driven by climate, changed atmospheric deposition and land-use changes, could significantly affect coastal ecosystems by altering light attenuation and consequently PP and potentially leading to other ecological pressures. CDOM consistently dominated light absorption across all stations and seasons, contributing 50-80% of the total absorption of photosynthetically active radiation. The absorption by CDOM and detritus decreased with increasing salinity, while phytoplankton absorption followed a seasonal succession. PP estimates show high seasonal variability from maximums in June to minimums in November, mainly attributed to , changes in seasonal light availability and phytoplankton biomass, followed by light attenuation by CDOM and differences in quantum yields of photosystem II (PSII). Nutrient analysis showed a seasonal pattern, with the highest nitrogen concentrations in November and depletion during more productive seasons, as well as conservative mixing throughout the salinity gradient. CDOM absorption played substantial, albeit not leading, role in influencing PP estimates, derived from a bio-optical model. CDOM was the main determinant of light attenuation across most wavelegnths.
DOI: 10.6084/m9.figshare.22548124.v2
title: The genome annotation file, genome estimation, statistics of assembled genome sequences, integrated function annotation, statistics of gene family clustering, and list of the expanded and constracted gene families

description: 1. Genome annotaton file for Neixiu Blood orange 2. Supplementary Tables are as follows: Supplementary Table 1. Genome estimatiion for Neixiu blood orange Supplementary Table 2. Statistics of assembled genome sequences for Neixiu blood orange Supplementary Table 3. Integrated function annotation of Neixiu blood genome Supplementary Table 4. Statistics of gene family clustering among Neixiu blood orange and other 11 representative plant species Supplementary Table 5. List of the expanded and constracted gene families 3. Supplementary Figures are as follows: Supplementary Figure 1. GO enrichment analysis for the specific genes of Neixiu blood orange Supplementary Figure 2. GO enrichment analysis for the contracted gene families of Neixiu blood orange Supplementary Figure 3. GO enrichment analysis for the expanded gene families of Neixiu blood orange Supplementary Figure 4. KEGG enrichment analysis for the contracted gene families of Neixiu blood orange Supplementary Figure 5. KEGG enrichment analysis for the expanded gene families of Neixiu blood orange Supplementary Figure 6. GO enrichment analysis for the SNPs between Neixiu blood orange and sweet orange Supplementary Figure 7. KEGG enrichment analysis for the SNPs between Neixiu blood orange and sweet orange Supplementary Figure 8. GO enrichment analysis for the InDels between Neixiu blood orange and sweet orange Supplementary Figure 9. KEGG enrichment analysis for the InDels between Neixiu blood orange and sweet orange Supplementary Figure 10. GO enrichment analysis for the SVs between Neixiu blood orange and sweet orange Supplementary Figure 11. KEGG enrichment analysis for the SVs between Neixiu blood orange and sweet orange Supplementary Figure 12. GO enrichment analysis for the Presence variations between Neixiu blood orange and sweet orange Supplementary Figure 13. KEGG enrichment analysis for the Presence variations between Neixiu blood orange and sweet orange Supplementary Figure 14. GO enrichment analysis for the Absence variations between Neixiu blood orange and sweet orange Supplementary Figure 15. KEGG enrichment analysis for the Absence variations between Neixiu blood orange and sweet orange Supplementary Figure 16. GO enrichment analysis for the CNVs between Neixiu blood orange and sweet orange Supplementary Figure 17. KEGG enrichment analysis for the CNVs between Neixiu blood orange and sweet orange
DOI: 10.6084/m9.figshare.24043410.v1
title: Integrated analysis of XRD patterns and PDFs

description: XRD patterns and PDFs used to validate the models for the task of phase identification.
DOI: 10.17632/5yy7sdt4dh
title: Effect of dietary protein level and fasting length on enzymatic activity of cathepsin B in live muscle and in meat from heavy finishing pigs

description: To evaluate the effect of dietary protein level (13.0% and 9.5% CP) and duration of fasting on the enzymatic activity of cathepsin B in live muscle and pig, 44 fattening pigs weighing 138 + 9 kg were reared to slaughter (171 + 9 kg). The feed allowance was set at 3.2 kg / day. Two weeks prior to slaughter, subjects on each diet were randomly subjected to one of two different fasting treatments (no fasting or 48 hour fasting). After this treatment, an individual longissimus dorsi (LD) muscle sample was taken from each pig by biopsy at the level of the 3rd lumbar vertebra and frozen in liquid nitrogen until analysis. Then the subjects within each diet x fasting interaction were assigned to different fasting times before slaughter (4 or 28 or 52 hours). One day after slaughter, LD and semimembranous muscle (SM) samples were taken from each carcass, kept at 4 ° C for 24 h and then frozen in liquid nitrogen. The activity of cathepsin B was measured in muscle homogenates by colorimetric method. 
Descrption of parameters: PIG; LITTER = litter of origin; GENDER; CP diet: A=High CP diet, B=Low CP diet;	In vivo fasting: 0=no fasting, 2=48 h fasting; Starting LW, live weight, kg; Cathepsin, biopsy: enzymatic activity of cathepsin B on Longissimus dorsi muscle; Final live weight, kg; Days in trial;	Average daily gain, kg; Feed to gain; Pre-slaughter fasting: 0 = 4 h fasting, 1 = 28 h fasting, 2 = 52 h fasting; Batch of slaughtering; Carcass weight, kg; Carcass yield %; Lean meat, %, calculated with reference equation;	BL = backfat thickness, 3rd/4th lumbar vertebra, 8 cm laterally; BR = backfat thickness, 3rd/4th last rib, 8 cm, laterally; MR	 = muscle thickness, 3rd/4th last rib, 8 cm, laterally; Cathepsin post mortem LD (Longissimus dorsi), enzymatic activity of cathepsin B; Cathepsin post mortem SM (Semimembranosus), enzymatic activity of cathepsin B; pH1 LD; pH1 SM;  pH1 BF (Biceps femoris); pHu SM; pHu BF; Color L* SM; Color a* SM; Color b* SM; Fresh Loin Weight, mg; Loin, 48h, mg; Cooked Loin, mg; Drip loss %; Cooking loss %; Total loin losses %
DOI: 10.6084/m9.figshare.27928602.v1
title: <b>Data file 3.</b> BUSCOs completeness statistics of <i>Ralstonia syzygii </i>subsp. <i>celebesensis</i> UGMITBRKI_24001

description: The data present BUSCOs statistics of of <i>Ralstonia syzygii </i>subsp. <i>celebesensis</i> UGMITBRKI_24001
DOI: 10.6084/m9.figshare.9954986.v2
title: MNIST dataset for Outliers Detection - [ MNIST4OD ]

description: Here we present a dataset, MNIST4OD, of large size (number of dimensions and number of instances) suitable for Outliers Detection task.The dataset is based on the famous MNIST dataset (http://yann.lecun.com/exdb/mnist/).<br><br>We build MNIST4OD in the following way:To distinguish between outliers and inliers, we choose the images belonging to a digit as inliers (e.g. digit 1) and we sample with uniform probability on the remaining images as outliers such as their number is equal to 10% of that of inliers. We repeat this dataset generation process for all digits. <br>For implementation simplicity we then flatten the images (28 X 28) into vectors.<br><br>Each file MNIST_x.csv.gz contains the corresponding dataset where the inlier class is equal to x.The data contains one instance (vector) in each line where the last column represents the outlier label (yes/no) of the data point. The data contains also a column which indicates the original image class (0-9).<br>See the following numbers for a complete list of the statistics of each datasets ( Name | Instances | Dimensions | Number of Outliers in % ):MNIST_0 | 7594 | 784 | 10MNIST_1 | 8665 | 784 | 10MNIST_2 | 7689 | 784 | 10MNIST_3 | 7856 | 784 | 10MNIST_4 | 7507 | 784 | 10MNIST_5 | 6945 | 784 | 10MNIST_6 | 7564 | 784 | 10MNIST_7 | 8023 | 784 | 10MNIST_8 | 7508 | 784 | 10MNIST_9 | 7654 | 784 | 10
DOI: 10.6084/m9.figshare.15226875.v1
title: ReadCounts

description: SampleID: Name of samplesReadcount: Number of reads for each sample after decontamination of human reads
DOI: 10.6084/m9.figshare.28031981.v2
title: Supplementary Material for: Navigating Gynecological Oncology with Different Versions of ChatGPT: A Transformative Breakthrough or the Next Black Box Challenge?

description: Introduction: The study evaluates the performance of large language model (LLM) versions of ChatGPT—ChatGPT-3.5, ChatGPT-4, and ChatGPT-Omni—in addressing inquiries related to the diagnosis and treatment of gynecological cancers, including ovarian, endometrial, and cervical cancers. 
Methods: A total of 804 questions were equally distributed across four categories: True/False, Multiple-Choice, Open-Ended, and Case-scenario, with each question type representing varying levels of complexity. Performance was assessed using a six-point Likert scale, focusing on accuracy, completeness, and alignment with established clinical guidelines. 
Results: For True/False queries, ChatGPT-Omni achieved accuracy rates of 100% for easy, 98% for medium, and 97% for complicated questions, higher than ChatGPT-4 (94%, 90%, 85%) and ChatGPT-3.5 (90%, 85%, 80%) (p=0.041, 0.023, 0.014, respectively). In Multiple-Choice, ChatGPT-Omni maintained superior accuracy with 100% for easy, 98% for medium, and 93% for complicated queries, compared to ChatGPT-4 (92%, 88%, 80%) and ChatGPT-3.5 (85%, 80%, 70%) (p=0.035, 0.028, 0.011). For Open-Ended questions, ChatGPT-Omni had mean Likert scores of 5.8 for easy, 5.5 for medium, and 5.2 for complex levels, outperforming ChatGPT-4 (5.4, 5.0, 4.5) and ChatGPT-3.5 (5.0, 4.5, 4.0) (p=0.037, 0.026, 0.015). Similar trends were observed in Case-Scenario questions, where ChatGPT-Omni achieved scores of 5.6, 5.3, and 4.9 for easy, medium, and hard levels, respectively (p=0.017, 0.008, 0.012).
Conclusions: ChatGPT-Omni exhibited superior performance in responding to clinical queries related to gynecological cancers, underscoring its potential utility as a decision-support tool and an educational resource in clinical practice.
DOI: 10.6084/m9.figshare.14461980.v1
title: Project Score Chronos

description: This dataset consists of Chronos results for the Project Score CRISPR KO dataset generated by the Sanger Institute.
DOI: 10.6084/m9.figshare.21820983.v1
title: Supplementary Material for: Association between Early Feeding Patterns and Neonatal Outcomes in Very Preterm Infants: A Retrospective Cohort Study

description: <b><i>Objective:</i></b> Mother’s own milk (MOM) is the optimal feed for premature infants but may not always be sufficiently available. Alternative feeding includes donor human milk (DONOR), with or without fortification and preterm formula. This study evaluated the association between early feeding with exclusively and predominantly MOM (MAINLY-MOM) versus MOM supplemented with fortified DONOR (MOM + DONOR) or preterm formula (MOM + FORMULA) and in-hospital growth and neonatal morbidities. <b><i>Method:</i></b> This was a multicentre (<i>n</i> = 13 units) cohort study of infants born at &lt;32 weeks’ gestation. Data captured at the point of care were extracted from the UK National Neonatal Research Database. The study groups were defined based on feeding patterns within the first 2 weeks of life using predefined cut-offs. The primary outcome was the in-hospital growth rate. <b><i>Results:</i></b> Data from 1,272 infants were analysed. Infants fell into two groups: extremely preterm (EPT) infants and very preterm (VPT) infants, born after &lt;28 weeks and 28 to &lt;32 weeks of gestation, respectively. Only 11 of 365 EPT infants received formula supplements, precluding a useful comparison of MOM + DONOR and MOM + FORMULA. There was no difference in median (25th–75th centile) growth velocity over the first 30 days of life between the MAINLY-MOM (<i>n</i> = 248) and MOM + DONOR (<i>n</i> = 106) groups: 10 (8–13) versus 10 (7–13) g/kg/day. Similarly, for VPT infants, there was no difference in growth velocities between MAINLY-MOM (<i>n</i> = 407), MOM + DONOR (<i>N</i> = 196), and MOM + FORMULA (<i>N</i> = 304): 11 (8–14) versus 11 (8–14) versus 11 (8–14) g/kg/day. Head growth did not differ (<i>p</i> value = 0.670). Cox regression analysis showed no difference in time to discharge between feeding types or any difference in major neonatal morbidities. In both EPT and VPT infants, growth velocity from the time of regaining birth weight to discharge was significantly lower in the MAINLY-MOM group compared to the MOM-DONOR group (EPT: 12.5 [11–14.2] vs. 14 [12.3–15.9] <i>p</i> = 0.45, VPT 13.5 [11–15.7] vs. 14.5 [12.6–16.8] <i>p</i> = 0.015). <b><i>Conclusion:</i></b> Early feeding with fortified DONOR, in comparison to formula, to supplement MOM was not associated with any differences in short-term growth, length of stay, and neonatal morbidities. However, early feeding with mainly maternal milk, compared to maternal milk supplemented with DONOR, was associated with significantly lower overall weight gain.
DOI: 10.6084/m9.figshare.22313731.v1
title: tweetID_original.txt

description: The Twitter IDs of tweets containing the hashtag #ChatGPT and posted on the following dates: December 15th, 2022, January 2nd, 2023, January 15th, 2023, February 1st, 2023, February 15th, 2023, and March 1st, 2023.
DOI: 10.6084/m9.figshare.27021580.v1
title: Generation BB, X, Y, Z, and Sustainability in Poland

description: SPSS file and questionnaire for the research conducted in February 2023 by SW Research on a quota sample of Poles.
DOI: 10.6084/m9.figshare.28792340.v2
title: <b>Code and data for the paper: A flexible multi-scale spatio-temporal modeling approach for disentangling meteorological and anthropogenic drivers of air pollution</b>

description: simulation.R is used to implement the simulation experiment introduced in the third part of the article.empirical model.R implements the method proposed for air pollution empirical study.multiscale nested typology.html is an online version of the synthetic multi-scale nested typology (Figure 1) used in simulation experiment introduced.data folder contains all the data in simulation experiment and empirical study. The details are as follows： Table 1 Details for data and useData files Useshapefiles for sub_regions, sub_cities, and sub_grids simulation.Rshapefiles for regions, cities, and grids. empirical model.Rair_data.csv simulation.R and empirical model.R<br><br>
DOI: 10.6084/m9.figshare.17213441.v5
title: A scoping review of interventions delivered by occupational therapists in school settings.

description: These data support the findings of the study <strong>A scoping review of interventions delivered by occupational therapists in school settings</strong>. There are four Microsoft excel sheets available: Search strategy, Eligibility criteria, data extracted at study level and data extracted at intervention level. In the sheet Search strategy, there is the complete strategy used in this review for OVID and EBSCO. The Eligibility criteria sheet describes details about the criteria used in this review. The characteristics of the 50 articles included in this review are available in thedata extracted at study level sheet and includes: full references, years of publication, language in which the articles were written, the country in which the studies took place, the primary aim of the articles, outcome measures, the characteristics of the schools in which the studies were conducted, and the characteristics of the samples. These are all presented depending on the methodological design of each of the papers. These data supported the findings of the occupational therapy outcomes addressed by these papers. The components of the interventions analysed in this review are available in the data extracted at intervention level sheet<em>, which</em> includes: the name of the intervention, the reference, the focus of the intervention (why), the materials used and the procedures carried out (what), who provided it, the mechanism and people involved (how), the location and infrastructure used (where), the duration of the whole intervention and the number of sessions including their schedule and duration (when and how much), and the planned and actual fidelity measures (how well). These aspects were based on the TIDER Checklist. These data were used to classify the interventions according to a multi-tiered perspective.
DOI: 10.6084/m9.figshare.14500143.v1
title: Supplementary Material for: Cystamine Treatment Fails to Prevent the Development of Pulmonary Hypertension in Chronic Hypoxic Rats

description: <b><i>Introduction:</i></b> Pulmonary hypertension is characterized by vasoconstriction and remodeling of pulmonary arteries, leading to right ventricular hypertrophy and failure. We have previously found upregulation of transglutaminase 2 (TG2) in the right ventricle of chronic hypoxic rats. The hypothesis of the present study was that treatment with the transglutaminase inhibitor, cystamine, would inhibit the development of pulmonary arterial remodeling, pulmonary hypertension, and right ventricular hypertrophy. <b><i>Methods:</i></b> Effect of cystamine on transamidase activity was investigated in tissue homogenates. Wistar rats were exposed to chronic hypoxia and treated with vehicle, cystamine (40 mg/kg/day in mini-osmotic pumps), sildenafil (25 mg/kg/day), or the combination for 2 weeks. <b><i>Results:</i></b> Cystamine concentration-dependently inhibited TG2 transamidase activity in liver and lung homogenates. In contrast to cystamine, sildenafil reduced right ventricular systolic pressure and hypertrophy and decreased pulmonary vascular resistance and muscularization in chronic hypoxic rats. Fibrosis in the lung tissue decreased in chronic hypoxic rats treated with cystamine. TG2 expression was similar in the right ventricle and lung tissue of drug and vehicle-treated hypoxic rats. <b><i>Discussion/Conclusions:</i></b> Cystamine inhibited TG2 transamidase activity, but cystamine failed to prevent pulmonary hypertension, right ventricular hypertrophy, and pulmonary arterial muscularization in the chronic hypoxic rat.
DOI: 10.6084/m9.figshare.28546304.v1
title: The genome annotation of the leaf roller, <i>Eumorphobotys obscuralis</i> (Lepidoptera: Pyralidae)

description: The leaf roller, <i>Eumorphobotys obscuralis</i>, is a destructive pest causing severe defoliation that reduces plant vigor, leads to culm death, and results in significant economic and ecological losses. Despite its devastating impact, effective prevention and control measures remain elusive, exacerbating the damage caused by this pest. To address the critical lack of genomic resources, we generated a high-quality genome assembly for <i>E. obscuralis</i> using Illumina short reads, PacBio HiFi reads, and Hi-C data. The assembled genome spans 701.9 Mb across 31 chromosomes, including the one sexual chromosome Z. Key metrics include contig and scaffold N50 values of 1.73 Mb and 23.70 Mb, respectively, with an estimated genome completeness of 96.7%. Annotation efforts identified 15,855 protein-coding genes and revealed that 58.9% of the genome comprises repetitive sequences. This genomic resource provides a foundation for understanding the genetic mechanisms underlying the pest’s biology and behaviour, while also offering a valuable reference for developing targeted control strategies.
DOI: 10.6084/m9.figshare.1359858.v1
title: Self-Organisation in Spatial Systems − From Fractal Chaos to Regular Patterns and Vice Versa

description: Fig.6b
DOI: 10.6084/m9.figshare.24046965.v1
title: <b>Analysis of chromosomal structural variations in patients with </b><b>recurrent</b><b> </b><b>spontaneous</b><b> </b><b>abortion</b><b> using optical genome mapping</b>

description: The results of OGM, ONT, Sanger sequencing and karyotypes of seven patients.
DOI: 10.6084/m9.figshare.6448631.v1
title: Temperature data

description: Temperature of the sphere and ambient liquid water are contained within the files for each experimental trial. <br><b>Data from experiments using a rough sphere: </b>RO1-temperature.csv, RO2-temperature.csv, RO3-temperature.csv, and RO4-temperature.csv<br><br><b>Data from experiments using a smooth sphere: </b>SM2-temperature.csv, SM3-temperature.csv, SM4-temperature.csv, and SM5-temperature.csv<br><br><b>Data from experiments using a thermoprobe: </b>TP1-temperature.csv, TP2-temperature.csv, and TP3-temperature.csv
DOI: 10.6084/m9.figshare.23538078.v1
title: InputData.xlsx

description: none
DOI: 10.6084/m9.figshare.27840468.v1
title: The plastome, rDNA, recovered putative SCOs alignments and species trees of <i>Cymbidium</i> subgus <i>Jensoa</i>

description: The plastome, rDNA, recovered putative SCOs alignments and species trees of <i>Cymbidium</i> subgus <i>Jensoa</i>.
DOI: 10.6084/m9.figshare.5709253.v1
title: Additional file 7: DataÂ 5. of Diversification of defensins and NLRs in Arabidopsis species by different evolutionary mechanisms

description: Results for all LRTs of NLR and DEFL families. (XLSX 52Â kb)
DOI: 10.6084/m9.figshare.7735103.v5
title: Analysis of the conservation of lncRNAs

description: Analysis of sequence conservation and positional conservation of lncRNAs
DOI: 10.17632/shchv9hcgy
title: The Global Burden of Varicella and Herpes Zoster in Adults Aged 65 Years and Older

description: The global population is aging at an accelerated rate. There is a lack of data on the burden of varicella and herpes zoster in adults aged 65 years and older. This data assesses the global burden of varicella and herpes zoster among adults aged 65 and older from 1992 to 2021.
DOI: 10.6084/m9.figshare.16545681.v1
title: parental Involvement

description: The dataset contains retrieved responses to three questionnaires to investigate parental involvement with children's language learning and their achievements.
DOI: 10.6084/m9.figshare.20359083.v1
title: acoustic_features_CASE.zip

description: Extracted acoustic features via the software CASE of harpy eagles and giant otters
DOI: 10.6084/m9.figshare.28784912.v1
title: Dataset for Primary Care Quality Assessment in West of Iran (PCAT Study)

description: This dataset contains anonymized responses to the WHO PCAT questionnaire collected from 500 participants in Kabudarahang, Iran, in 2024. It includes variables on service quality, patient satisfaction, and urban-rural differences.
DOI: 10.6084/m9.figshare.3521912.v1
title: Appendix A. Abundance (number per square meter), biomass (mg AFDM per square meter), and production (mg AFDM per square meter per day) of all taxa studied during the two seasons.

description: Abundance (number per square meter), biomass (mg AFDM per square meter), and production (mg AFDM per square meter per day) of all taxa studied during the two seasons.
DOI: 10.6084/m9.figshare.14794056.v1
title: RDP database .qza file

description: RDP database .qza file for use with Qiime2's feature-classifier command. Created from https://figshare.com/s/7881ff1724948e513162 & https://figshare.com/s/86d9b343729e4c67ea08See https://forum.qiime2.org/t/rdp-reference-database-in-qiime2-format/15146/10 for more.<br>
DOI: 10.6084/m9.figshare.24564505.v3
title: SNP markers used in the <i>Musa</i> genetic diversity and population structure study

description: Raw data of 56840 DArTseq-SNP markers for all individuals used in the genetic diversity and population structure study.