cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.22811333.v1
title: Excel workbook containing primary collected field data and further analyses

description: McLeod et al Supplementary dataset S3 S3a: Data log outlining collected datasets S3b: Cross-set height distributions S3c: Maximum cross-set height measurements S3d: Accretion and bedding measurements S3e: Package thickness measurements S3f: Woody debris measurements S3g: <em>CV</em> of cross-sets associated with woody debris S3h: Statistical test on cross-set heights between members S3i: Statistical test on <em>CV</em> between members S3j: Statistical test on <em>CV</em> between debris-associated and non-debris-associated cross-sets
DOI: 10.6084/m9.figshare.28579040.v2
title: Warm temperature regulates the biosynthesis of andrographolide through the JA signaling mediated by the ApMYC2-ApHSFB2b module in Andrographis paniculata

description: Andrographis_paniculata_temperature_metabolome
DOI: 10.6084/m9.figshare.27240216.v1
title: SSP370

description: The data consist of simulations of the carbon cycle in the terrestrial ecosystems of China from 2015 to 2100, using the Community Earth System Model (CESM) under the SSP3-7.0 scenario. The SSP3-7.0 scenario represents a high-emission pathway, characterized by regional rivalry and slow progress in climate mitigation, leading to rising greenhouse gas emissions. The dataset includes variables such as net primary production (NPP), soil carbon stocks, vegetation carbon, and carbon fluxes between the atmosphere and land. These simulations provide insights into how land-use changes and climate change under this scenario affect carbon dynamics over time, specifically within China's terrestrial ecosystems.
DOI: 10.6084/m9.figshare.14575650.v1
title: Supplemental_Data_1_DESeq2 _DEGs_By_Segment.xlsx

description: Differentially expressed genes (DEGs) between formats and substrates within the same segment via DESeq2 with FPKMs for each DEG.
DOI: 10.6084/m9.figshare.28692614.v1
title: Analysis of Intergenic Regions and CpG Distribution in SARS-CoV-2 (Wuhan-Hu-1 Genome)

description: <br>This project focuses on the analysis of intergenic regions and CpG distribution in the SARS-CoV-2 genome (Wuhan-Hu-1). The study involves extracting intergenic regions from the GenBank annotation file (<code>wuhan_hu_1.gb</code>), calculating CpG counts and densities, and visualizing the results. Key components of this project include:<b>Python Script (</b><code><strong>process_python.py</strong></code><b>) </b>: A script used to process the GenBank file, identify gaps between annotated features, and calculate CpG metrics (counts and densities) for intergenic regions.<b>Results File (</b><code><strong>intergenic_regions.csv</strong></code><b>) </b>: A CSV file containing detailed results of the analysis, including the length, CpG count, and CpG density (per 100 nucleotides) for each intergenic region.<b>Visualization Plots (</b><code><strong>cpg_counts_plot.png</strong></code><b> and </b><code><strong>cpg_densities_plot.png</strong></code><b>) </b>: Bar charts showing the number of CpG sites and their densities across intergenic regions, providing insights into the sparse distribution of CpG dinucleotides in non-coding regions.<b>Input File (</b><code><strong>wuhan_hu_1.gb</strong></code><b>) </b>: The GenBank file (MN908947.3) containing the annotated genome sequence of SARS-CoV-2, used as input for the analysis.<br>Each part of the study is uploaded as a separate file, and these components will later be combined to produce a comprehensive final article on the genomic characteristics of SARS-CoV-2, particularly focusing on its intergenic regions and CpG suppression mechanisms.<br>
DOI: 10.6084/m9.figshare.12462407.v1
title: JARVIS-DFT Finite Difference Elastic Constants (JVASP-60610 to JVASP-66027)

description: Contains input/output files for finite difference method based elastic calculations in the JARVIS-DFT.
DOI: 10.17028/rd.lboro.7479887.v2
title: Office of Ordnance employees in the long eighteenth century

description: This is a database which aims to create a full list of administrative employees of the Office of Ordnance in the French Revolutionary and Napoleonic Wars. The database currently provides information such as: name, establishment where the employee was based, salary level, length of service, approximate year of birth. The source material is all available in the UK National Archives. <br> This database has not yet been cleaned and so some of the information will likely be incorrect and/or inaccurate. <br> The database will be updated to include source material covering additional years. The focus at this time is on the French Revolutionary and Napoleonic Wars period but this may be expanded over time (subject to resource and the source material). <br> The attached readme file explains the column headings of each table and how the tables are related to each other. <br> At this stage the database has focussed on administrative employees e.g. Storekeepers, Clerks etc. and has limited information on artificers, armourers, labourers etc. <br> The database was created in Microsoft Access as part of the Office 365 suite. <br> Version 2 was uploaded on 7th September 2022. <br> Please contact Gareth Cole if you have any questions about the database.
DOI: 10.6084/m9.figshare.4542745.v1
title: Supplementary Material for: Does ß-Catenin Cross-Regulate NFκB Signalling in Pancreatic Cancer and Chronic Pancreatitis?

description: <b><i>Background:</i></b> It is not clear by which mechanism nuclear factor-kappaB (NFκB) induces cell proliferation and escapes from the apoptotic pathway in pancreatic carcinogenesis. This study aimed to investigate ß<i>-</i>catenin and NFκB signalling in chronic pancreatitis and pancreatic cancer. <b><i>Materials and Methods:</i></b> On tissue samples of chronic pancreatitis and pancreatic cancer, we performed immunohistochemistry for detecting the expression of tumour necrosis factor alpha (TNFa), ß<i>-</i>catenin and NFκB, Western blot for TNFa, NFκB, ß-catenin, c-Myc and FasL, co-immunoprecipitation for ß-catenin with NFκB and RT-PCR for cyclin D1, c-Myc and Fas. <b><i>Results:</i></b> TNFa and NFκB expression was increased in chronic pancreatitis and pancreatic cancer. ß-Catenin and cyclin D1 expression was intense in pancreatic cancer and moderate in chronic pancreatitis. Of the NFκB response elements, the expression of pro-proliferative c-Myc is intense in pancreatic cancer and moderate in chronic pancreatitis, but the pro-apoptotic factors, Fas and FasL were down-regulated in pancreatic cancer and moderately expressed in chronic pancreatitis. The co-immunoprecipitation results showed a significant interaction of ß-catenin with NFκB in pancreatic cancer and a non-significant interaction in chronic pancreatitis. <b><i>Conclusions:</i></b> ß<i>-</i>Catenin might cross-regulate NFκB by interrupting the balance of cell death and cell survival via recruiting NFκB into the cell survival pathway alone in most cases of pancreatic cancer and some cases of chronic pancreatitis.
DOI: 10.6084/m9.figshare.25439632.v1
title: ARPES-data: Detecting thermodynamic phase transition via explainable machine learning of photoemission spectroscopy

description: ZIP file includes raw experimental, simulated, and processed experimental and simulated spectra data for our paper "Detecting thermodynamic phase transition via explainable machine learning of photoemission spectroscopy". The ZIP file consists of three folders: "Experimental_data", "Simulated_data" and "Processed_data", and a README.txt file briefly describing the contents.
DOI: 10.6084/m9.figshare.3397603.v8
title: Custom toolbars and mini applications with Action Bar

description: The Action Bar ImageJ plugin facilitates creation of additional custom toolbars, using simple macro-like toolbar description file. Readers will learn how to setup a basic action bar, and how to use the latest features of this plugin. Button actions are basically macro programs, so action bars can interact with all standard ImageJ components. Primary use of these custom toolbars is to keep at hand often used commands, plugins and macros, but toolbars sets can be turned into mini applications with minimal effort. With these highly task-oriented applications, end users can focus on just using a simple system with absolutely no prior knowledge of ImageJ. This paper is aimed at ImageJ users with some previous experience with the macro language. First version was published in June 2006, and this is the support material for a workshop I first gave at the 2008 ImageJ conference in Luxembourg.
DOI: 10.6084/m9.figshare.13157594.v1
title: personality and cognition_data.xlsx

description: Personality and cognition data - Morris water maze, Active allothetic place avoidance, Open field test, Elevated plus maze test, T-maze test
DOI: 10.6084/m9.figshare.13795589.v1
title: Supplementary Material for: Daprodustat Compared with Epoetin Beta Pegol for Anemia in Japanese Patients Not on Dialysis: A 52-Week Randomized Open-Label Phase 3 Trial

description: <b><i>Background:</i></b> Daprodustat is an oral agent that stimulates erythropoiesis by inhibiting the prolyl hydroxylases which mark hypoxia-inducible factor for degradation through hydroxylation. Its safety and efficacy (noninferiority) were assessed in this 52-week, open-label study. <b><i>Methods:</i></b> Japanese patients not on dialysis (ND) (<i>N</i> = 299) with anemia of CKD (stages G3, G4, and G5) with iron parameters of ferritin &gt;100 ng/mL or transferrin saturation &gt;20% at screening were randomized to daprodustat or epoetin beta pegol (continuous erythropoietin receptor activator [CERA], also known as methoxy polyethylene glycol-epoetin beta). After initiation of the study, the daprodustat starting dose for erythropoiesis-stimulating agent (ESA)-naïve participants was revised, and daprodustat was started at 2 or 4 mg once daily depending on baseline hemoglobin. ESA users switched to daprodustat 4 mg once daily. CERA was started at 25 μg every 2 weeks for ESA-naïve patients and 25–250 μg every 4 weeks for ESA users based on previous ESA dose. In both treatment groups, dose was adjusted every 4 weeks based on hemoglobin level and changed according to a prespecified algorithm. The primary endpoint was mean hemoglobin level during weeks 40–52 in the intention-to-treat (ITT) population. ESA-naïve patients who entered before the protocol amendment revising the daprodustat starting dose were excluded from the ITT population. <b><i>Results:</i></b> Mean hemoglobin levels during weeks 40–52 were 12.0 g/dL in the daprodustat group (<i>n</i> = 108; 95% confidence interval [CI], 11.8–12.1) and 11.9 g/dL for CERA (<i>n</i> = 109; 95% CI 11.7–12.0); the difference between the groups was 0.1 g/dL (95% CI −0.1 to 0.3 g/dL). The lower limit of the 95% CI of the difference was greater than the prespecified margin of −1.0 g/dL. The mean hemoglobin level was within the target range (11.0–13.0 g/dL) during weeks 40–52 for 92% of participants in both groups. There was no meaningful difference in the frequencies of adverse events. <b><i>Conclusions:</i></b> Oral daprodustat was noninferior to CERA in achieving and maintaining target hemoglobin levels in Japanese ND patients. Daprodustat was well tolerated, with no new safety concerns identified.
DOI: 10.6084/m9.figshare.5106529.v3
title: The anti-apoptotic protein survivin can improve the prognostication of meningioma patients

description: Dataset from the study "The anti-apoptotic protein survivin can improve the prognostication of meningioma patients"
DOI: 10.6084/m9.figshare.11365607.v1
title: A Large Scale Study of Wikipedia Users' Perceived Quality of Experience

description: This set of data is the result of a joint Web QoE work conducted by the Telecom Paris researchers and the Wikimedia Foundation (https://meta.wikimedia.org/wiki/Research:Study_of_performance_perception_on_Wikimedia_projects, https://webqoe.telecom-paristech.fr/ ).<br>Both the datasets contain the user answers to the survey question appeared to the French and Russian Wikipedias during the time span ranging from 25/05/2018 to 15/10/2018. The first file ("<i>wikiqoe_datetime.csv</i>") contains three columns each one indicating respectively for every record: - the <b>wiki </b>of the page for which the user answer to the survey has been collected (either French or Russian), - the <b>time </b>rounded to the hour (in order to prevent user deanonymization) as a datetime object, - the <b>survey response</b> provided by the user (positive = 1, negative = -1, neutral = 0).<br>The second file ("<i>wikiqoe_public_available_features.csv</i>") contains 20 columns each one indicating respectively for every record:- the <b>wiki </b>from which the request was issued (ruwiki or frwiki),- 18 <b>performance</b> <b>metrics</b> (e.g., fetchStart, domInteractive, etc.<strong></strong>),- the <b>survey response</b> provided by the user (positive = 1, negative = -1, neutral = 0).<br>Note that the two dataset comprise the same set of users, but, for the second one, the time information is not provided, in order to avoid potential deanonymization using other (unknown) dataset.<br>The Wikimedia legal team has given clearance for the publication of these datasets, after having fully prevented user deanonymization and content-linkability.<br>More information and details regarding methodology and results can be found in the papers and in the technical report stored here: https://webqoe.telecom-paristech.fr/<br>If you use these datasets in your research, you can reference to the appropriate paper(s):<br>1) <pre><i>@inproceedings{salutari19www,</i><i>title = {A large-scale study of Wikipedia users’ quality of experience},</i><i>author = {Salutari, Flavia and Hora, Diego Da and Dubuc, Gilles and Rossi, Dario},</i><i>booktitle = {In proceedings of the 30th Web Conference (WWW'19)},</i><i>address = {San Francisco, CA, USA},</i><i>month = may,</i><i>year = {2019},</i><i>howpublished = {https://nonsns.github.io/paper/rossi19www.pdf}</i><i>}</i></pre>
DOI: 10.6084/m9.figshare.19530528.v1
title: ARcode: HPC Application Recognition Through Image-encoded Monitoring Data

description: This tar file contains the docker image for building the ARcode model and baseline models for application recognition for the SC22 paper with the same title.<br>The files/folders in this image contains:<br>notebooks: The notebooks for models and experiment results.-- ARcode.ipynb: The interactive Jupyter Notebook for the ARcode model.-- ARcode_unknown.ipynb: The interactive Jupyter Notebook for the ARcode model for detecting unknown applications.-- ARcode_partial.ipynb: The interactive Jupyter Notebook for the ARcode model on partial job signatures.-- ARcode_channel.ipynb: The interactive Jupyter Notebook for the ARcode model on one channel of job signatures.-- baselines.ipynb: The interactive Jupyter Notebook for the baseline models. These models are Random Forest, LinearSVC and SVC; all of them are implemented through Taxonomist(https://doi.org/10.6084/m9.figshare.6384248.v1).-- baselines_unknown.ipynb: The interactive Jupyter Notebook for the baseline models for detecting unknown applications.<br>dataset: The dataset for training the models mentioned above.-- ARcode_labels.npy: A numpy array of the signatures' labels.-- ARcode_signatures.npy: A numpy array of the generated signatures.-- baseline_labels.npy: A numpy array of the labels for the baseline dataset.-- baseline_features.npy: A numpy array of the statistic features generated from the raw monitoring data.-- knl_app_code.json: Mapping of IDs to application names. This mapping is used when creating the dataset.<br>models: The saved models.-- arcode.h5: An HDF5 file containing the serialized weights for the ARcode model.-- arcode.json: A JSON file describing the ARcode model.<br>results: The saved experiment results.<br>Following these steps to start Jupyter Notebook in the image:<br>1. Load the image into Docker on your local machine:docker load &lt; archive-arcode.tar<br>2. Start the Jupyter notebook in the docker image:docker run --init --user root -p 8888:8888 artlands/arcode<br>3. Copy the URL shown in your terminal and paste in a brower: http://127.0.0.1:8888/?token=your_token<br>Acknowledgement: This research used resources of the National Energy Research Scientific Computing Center (NERSC), a U.S. Department of Energy Office of Science User Facility located at Lawrence Berkeley National Laboratory, operated under Contract No. DE-AC02-05CH11231
DOI: 10.15482/usda.adc/1503960
title: Frankliniella occidentalis genome assembly v1.0
DOI: 10.6084/m9.figshare.16567452.v1
title: Supplementary Material for: The Formation of Spore-Like Akinetes: A Survival Strategy of Filamentous Cyanobacteria

description: Some cyanobacteria of the order Nostocales can form akinetes, spore-like dormant cells resistant to various unfavorable environmental fluctuations. Akinetes are larger than vegetative cells and contain large quantities of reserve products, mainly glycogen and the nitrogen storage polypeptide polymer cyanophycin. Akinetes are enveloped in a thick protective coat containing a multilayered structure and are able to germinate into new vegetative cells under suitable growth conditions. Here, we summarize the significant morphological and physiological changes that occur during akinete differentiation and germination and present our investigation of the physiological function of the storage polymer cyanophycin in these cellular processes. We show that the cyanophycin production is not required for formation and germination of the akinetes in the filamentous cyanobacterium <i>Anabaena variabilis</i> ATCC 29413.
DOI: 10.6084/m9.figshare.28890323
title: <b>The genome annotation data </b><b><i>for</i></b><b> Neijiang pig</b>

description: The genome annotation data of Neijiang pig.
DOI: 10.6084/m9.figshare.21391449.v1
title: This research was supported by the Ministry of Science and ICT(MSIT, Korea), (Project No.: 2021-DD-UP-0379).

description: This research is a project to breed medicinal hemp (<em>Cannabis sativa</em> L.) varieties in Korea and promote domestic industrialization of hemp.
DOI: 10.6084/m9.figshare.24596520.v1
title: High-quality chromosome-level genome of <i>Ajuga decumbens</i>

description: High-quality chromosome-level genome of <i>Ajuga decumbens</i>
DOI: 10.6084/m9.figshare.24233629.v17
title: <b>Unlocking Optimal ORM Database Designs: Accelerated Tradeoff Analysis with Transformers</b>

description: Optimizing object-relational database mapping (ORM) design is essential for software system performance. However, current ORM design tools widely used in practice offer limited support for evaluating performance implications. State-of-the-art relying on systematic tradeoff analysis provides greater assistance but becomes impractical for large-scale, real-world systems. In this paper, we introduce an innovative solution grounded in machine learning to efficiently and scalably identify optimal ORM database tradeoffs.Our approach involves training a transformer model using a dataset of formally analyzed object-relational database designs to identify Pareto-optimal design tradeoffs, significantly reducing the number of design candidates. The extensive experiments across various software database systems demonstrate the high effectiveness of the approach in identifying optimal design alternatives overlooked by leading ORM tools. Additionally, our results show a remarkable 98.21 % improvement in analysis efficiency compared to the current state-of-the-art, reducing tradeoff analysis time from over 15 days to around 18 minutes on average.<br><br>
DOI: 10.6084/m9.figshare.19114460.v1
title: Supplementary Material for: Take-Home Naloxone Kits: Attitudes and Likelihood-Of-Use Outcomes from a European Survey of Potential Overdose Witnesses

description: <b><i>Background:</i></b> Injectable naloxone is already provided as take-home naloxone (THN), and new concentrated intranasal naloxone is now being introduced in Europe. Despite evidence of the effectiveness and cost-effectiveness of THN, little is known about the attitudes of key target populations: people who use opioids (PWUO), family/friends, and staff. We examined the acceptability of different naloxone devices (ampoule, prefilled syringe, and concentrated nasal spray) across 5 European countries. <b><i>Objectives:</i></b> The aim of this study was to compare THN target groups (PWUO vs. family/friends vs. staff) in their past rates of witnessed overdose and THN administration (as indicators of future use), current THN device preference, and THN carriage on the day of survey. <b><i>Method:</i></b> Cross-sectional survey of respondents (age ≥18) in addiction treatment, harm reduction, and recovery services in Denmark, England, Estonia, Norway, and Scotland. A purpose-developed questionnaire (59 items) was administered in the local language electronically or in a pen-and-paper format. <b><i>Results:</i></b> Among <i>n</i> = 725 participants, 458 were PWUO (63.2%), 214 staff (29.5%), and 53 (7.3%) family members. The groups differed significantly in their likelihood-of-future THN use (<i>p</i> &lt; 0.001): PWUO had the highest rate of previously witnessing overdoses (352; 77.7%), and staff members reported the highest past naloxone use (62; 30.1%). Across all groups, most respondents (503; 72.4%) perceived the nasal spray device to be the easiest to use. Most reported willingness to use the spray in an overdose emergency (508; 73.5%), followed by the prefilled syringe (457; 66.2%) and ampoules (64; 38.2%). Average THN carriage was 18.6%, ranging from 17.4% (PWUO) to 29.6% (family members). <b><i>Conclusion:</i></b> Respondents considered the concentrated naloxone nasal spray the easiest device to use. Still, most expressed willingness to use the nasal spray as well as the prefilled syringe in an overdose emergency. Carriage rates were generally low, with fewer than 1 in 5 respondents carrying their THN kit on the day of the survey.
DOI: 10.6084/m9.figshare.19858336.v1
title: Simultaneous acquisition data

description: Comparison of reconstrucition techniques on SIM data of labelled mitochondria in COS7 cells.
DOI: 10.15468/dl.36swqx
title: Occurrence Download

description: A dataset containing 2386 species occurrences available in GBIF matching the query:
{
 "and" : [
 "GadmGid is DEU",
 "TaxonKey is Alytes obstetricans (Laurenti, 1768)"
 ]
}

 The dataset includes 2386 records from 27 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0009564-250426092105405/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.12968171.v1
title: Heavy Metals exposure through quarry Operations

description: Dataset for Heavy Metals' exposure through quarry opertaions in Ago Iwoye, Ogun state, Nigeria<b> </b><b><br></b>
DOI: 10.6084/m9.figshare.13651442.v1
title: Supplementary tables in CSV and xlsx formats

description: Supplementary tables in csv and xlsx formats for the paper "<i>In vivo</i> negative regulation of SARS-CoV-2 receptor, ACE2, by interferons and its genetic control".
DOI: 10.6084/m9.figshare.26550862.v1
title: Additional file 4 of Smooth muscle cell fate decisions decipher a high-resolution heterogeneity within atherosclerosis molecular subtypes

description: Additional file 4: Table S2. Information of mfuzz gene modules.