cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.17632/jxdx8fy6z6
title: Data for: Reactive hot pressing route for dense ZrB2-SiC and ZrB2-SiC-CNT ultra-high temperature ceramics

description: docx files - mechanical property measurements xlsx files - sintering process txt - X-ray diffractometry Unfortunately, SEM files could not be uploaded because of some tecnical issues
DOI: 10.6084/m9.figshare.19425302.v1
title: Raw data bulkRNAseq.csv

description: Bulk RNA-seq data (smartseq2; raw freature counts) of naive murine CD4+ T cells co-cultured with murine HSPCs (THSPC), or with murine DCs (TDC), or murine LSKs as control condition, in the presence or absence of antigen (ova,ctrl)
DOI: 10.6084/m9.figshare.24216858.v2
title: Characterizing Python Library Migrations - artifacts

description: Artifacts for the paper <i>Characterizing Python Library Migrations</i>.This is the archival data linked to the paper. Please visit our GitHub repository for any future updates.
DOI: 10.17632/szp6hyfj7m
title: PPGL epidemiology SR search terms and dates

description: The search terms and dates for a systematic review of the epidemiology of phaeochromocytoma and paraganglioma
DOI: 10.6084/m9.figshare.11409675.v1
title: Dataset_S1_Lyons_et_al_Toxins

description: Dataset associated with the analysis in Lyons et al.
DOI: 10.6084/m9.figshare.12034617.v1
title: pysamstats pileup-based statistics

description: Pileup-based statistics of ONT reads aligned to correspondent Illumina-derived virus genomes<br><br>Della Bartola M.; Byrne S.; Mullins E. Characterization of potato virus Y isolates and assessment of Nanopore sequencing to detect and genotype potato viruses. <i>Viruses</i> 2020<br><br><br>
DOI: 10.6084/m9.figshare.19146548.v2
title: Cell lines, antibodies and primers used for oxidative stress profiling of ALS and control lymphoblasts

description: Cell lines, antibodies and primers used for oxidative stress profiling of ALS and control lymphoblasts
DOI: 10.6084/m9.figshare.7813520.v1
title: Zoom in to a fractal based DNA structure

description: We zoom in to a continuous Hilbert curve that has been cut into a spherical shape. This shape can serve as an effective surrogate for large scale DNA structures when conducting radiation damage simulations with the track structure code Geant4-DNA.<br>This structure is typically populated by chromatin segments such as the straight segment pictured.
DOI: 10.17632/52stfbb2h6
title: “Data for: Commander’s decisions: Challenges in domestic violence response published by RAC-Revista de Administração Contemporânea”

description: This dataset accompanies the article titled “Commander’s decisions: Challenges in domestic violence response”, published in the Revista de Administração Contemporânea (RAC). The data were collected as part of an empirical investigation into the challenges faced by commanders of police units in decision-making processes related to domestic violence response.
The dataset includes anonymized records of domestic violence cases, operational indicators, and institutional documents used in the analysis. The data have been organized and curated to enable replication of the study’s analysis, as well as to support future research on management, public policy, and police practices in the context of domestic violence.
The authors contributed to the theoretical conceptualization, formal analysis, data curation and validation, methodological design, and writing of the article.
DOI: 10.6084/m9.figshare.24487714.v1
title: Data Matrix

description: This is the data matrix of our research on "<b>A person-centred view of citizen participation in civic crowdfunding platforms</b>". The data matrix represents the fuzzy set data we used for understanding civic bakers' profiles.
DOI: 10.6084/m9.figshare.7830800.v1
title: Supplementary Material for: Cytochrome <b><i>bcc-aa3</i></b> Oxidase Supercomplexes in the Aerobic Respiratory Chain of <b><i>Streptomyces coelicolor</i></b> A3(2)

description: <i>Streptomyces coelicolor</i> A3(2), an obligately aerobic, oxidase-positive, and filamentous soil bacterium, lacks a soluble cytochrome <i>c</i> in its respiratory chain, having instead a membrane-associated diheme <i>c</i>-type cytochrome, QcrC. This necessitates complex formation to allow electron transfer between the cytochrome <i>bcc</i> and <i>aa3</i> oxidase respiratory complexes. Combining genetic complementation studies with in-gel cytochrome oxidase activity staining, we demonstrate that the complete <i>qcrCAB-ctaCDFE</i> gene locus on the chromosome, encoding, respectively, the <i>bcc</i> and <i>aa3</i> complexes, is required to manifest a cytochrome oxidase enzyme activity in both spores and mycelium of a <i>qcr-cta</i> deletion mutant. Blue-native-PAGE identified a cytochrome <i>aa3</i> oxidase complex of approximately 270 kDa, which catalyzed oxygen-dependent diaminobenzidine oxidation without the requirement for exogenously supplied cytochrome <i>c</i>, indicating association with QcrC. Furthermore, higher molecular mass complexes were identified upon addition of soluble cytochrome <i>c</i>, suggesting the supercomplex is unstable and readily dissociates into subcomplexes lacking QcrC. Immunological and mass spectrometric analyses of active, high-molecular mass oxidase-containing complexes separated by clear-native PAGE identified key<i></i> subunits of both the <i>bcc</i> complex and the <i>aa3</i> oxidase, supporting supercomplex formation. Our data also indicate that the cytochrome <i>b</i> QcrB of the <i>bcc</i> complex is less abundant in spores compared with mycelium.
DOI: 10.17632/vy9ygxbmzd
title: iFobot

description: Generic Design Aided Robotically Facade pick and place in Construction Site Dataset
DOI: 10.6084/m9.figshare.21257703.v1
title: CAGE-seq clusters

description: Cluster count table from frontal CAGE-seq data of RiMod-FTD resource (https://www.rimod-ftd.org/). <br> The data was processed as follows: Sequencing adapters and barcodes in CAGE-seq FastQ files were trimmed using Skewer (v.0.1.126). Sequencing artefacts were removed using TagDust (v1.0)1 Processed reads were then aligned against the human genome hg38 using STAR (v.2.4.1). On average, 16,306,077 could be uniquely mapped per sample (76% uniquely mapped on average reads per sample). CAGE detected TSS (CTSS) files were created using CAGEr (v1.10.0). With CAGEr, we removed the first G nucleotide if it was a mismatch. CTSS were clustered using the ‘distclu’ method with a maximum distance of 20 bp. For exact commands used we refer to the reader to the scripts used in this pipeline: https://github.com/dznetubingen/cageseq-pipeline-mf. In total, we could identify 47,298 different peaks. Data was normalized to counts per million (CPM) for visualization on the website.
DOI: 10.6084/m9.figshare.27196293.v1
title: EXCEL SHEET.xlsx

description: This prospective observational study was aimed to evaluate pulmonary sequelae in individuals with mild to severe cases of post-COVID-19 infection over period of 12 months focusing on the examination of pulmonary complications.
DOI: 10.6084/m9.figshare.11955270.v2
title: Assembled unigenes for Curcuma kwangsiensis

description: <i>C. kwangsiensis</i> RNA was used to construct cDNA libraries with fragment a length of 200 bp. Then, paired-end sequencing was performed using an Illumina HiSeq<sup>TM</sup> 2500 following the manufacturer’s instructions (Illumina, San Diego, CA). The quality of the raw reads was assessed using SeqQC-V2.2 software, and high-quality reads (Q &lt; 20) were assembled using the Trinity software with default parameters. Only these high-quality, filtered reads were utilized for further analysis. The assembled sequences were compared against the nonredundant protein database (nr) using BLASTX with a threshold E-value of 10<sup>-6</sup>.
DOI: 10.6084/m9.figshare.22723769.v2
title: <strong>Magnetism: Further Proof of Wave Particle Duality Data</strong>

description: These are the results for experiments that were designed to test and confirm or reject the results of the paper Magnetism: Insights from the Thomas Young Experiment, https://doi.org/10.24297/jap.v19i.9090. In the mentioned paper slits were cut into metal slabs and the behaviour of magnetism was tested, it always organized into a wave. It must be a particle. <br> In these experiments, the cut outs were used to create the interference. And indeed, though starting of with what can be considered “opposite” interference patterns, the magnetic phenomenon organizes into a wave. Further confirming conclusions that magnetism organizes into a wave and must be a particle. The name of the particle was given as a khumalon.
DOI: 10.6084/m9.figshare.28180577.v1
title: Raw sanger files.zip

description: Raw sanger sequencing files
DOI: 10.17632/hy7xrzp6nr
title: IAT Validation

description: Dataset for Chinese IAT scale validation study
DOI: 10.17632/8k86t83wy5
title: Vehicles traffic recordings dataset on public road

description: This dataset provides a set of videos and images (from these videos) of Vehicles traffic recordings on a public road in Oran, Algeria. Videos and Images are available in two resolutions (1080p and 720p) . Images were extracted from videos using FFMPEG tool. Recordings were done using a JVC GZ-R415BE, in a sunny afternoon. This dataset is provided to be used in several applications such as : - Vehicle flow analysis - Vehicle counting - Vehicle detection and classification - Unsafe and dangerous driving style detection - driving errors and violations monitoring - collision prevision - .....
DOI: 10.6084/m9.figshare.13012661.v1
title: Data mining analyses for precision medicine in acromegaly

description: <b>Context:</b> Predicting which acromegaly patients could benefit from somatostatin receptor ligand (SRL) is crucial to avoid months of ineffective treatment for non-responding cases. Although many biomarkers linked to SRL response have been identified, there is no consensus criterion on how to assign pharmacologic treatment according to biomarker levels. <b>Objective:</b> Our aim is to provide better predictive tools for a more accurate acromegaly patient stratification regarding the ability to respond to SRL. <b>Design and patients:</b> Retrospective multicenter study of 71 acromegaly patients. <b>Methods:</b> We used advanced mathematical modelling and artificial intelligence to predict SRL response combining molecular and clinical information. <b>Results:</b> Different models of patient stratification were obtained regarding SRL response, with a much higher accuracy when the studied cohort is fragmented according to relevant clinical characteristics. Considering all the models, a patient stratification based on the extrasellar growth of the tumor, sex, age and the expression of E-cadherin, <i>GHRL</i>, <i>IN1-GHRL</i>, <i>DRD2</i>, <i>SSTR5</i> and <i>PEBP1</i> is proposed, with accuracies that stand between 71 to 95%. Furthermore, we show an association between extrasellar growth and high BMI for SRL non-responding patients. <b>Conclusion.</b> The use of data mining is necessary for implementation of personalized medicine in acromegaly and requires an interdisciplinary effort between computer science, mathematics, biology and medicine. This new methodology opens a door to more precise personalized medicine for acromegaly patients.
DOI: 10.6084/m9.figshare.14355863.v3
title: Supplementary material JDS19861

description: Evaluating the performance of machine learning methods and variable selection methods for predicting difficult-to-measure traits in Holstein dairy cattle using milk infrared spectral data
DOI: 10.6084/m9.figshare.27916566.v1
title: Supplementary Material for: Diosgenin improves lipid metabolism in diabetic nephropathy via regulation of miR-148b-3p/DNMT1/FOXO1 axis

description: Background: The progression of diabetic nephropathy (DN) is closely associated with lipid accumulation. Diosgenin (Dio) plays a beneficial role in the lipid metabolism associated with multiple diseases. Thus, the mechanism underlying Dio’s function in DN associated with aberrant lipid accumulation warrants further investigation.
Methods: To model DN in vitro, HK-2 cells were treated with high glucose (HG) and palmitic acid. Cell viability was evaluated using MTT assay. The triglyceride (TG) content in HK-2 cells was measured using a commercial assay kit. The formation of lipid droplets in HK-2 cells was observed using Oil Red O staining. The expression levels of mRNA and protein were detected using RT-qPCR and western blot, respectively. The DNA methylation of FOXO1 was assessed using MSP. The interaction between DNMT1 and the FOXO1 promoter was confirmed by ChIP assay.
Results: Dio treatment reduced TG levels and lipid droplet formation in HK-2 cells co-treated with HG and palmitic acid. Simultaneously, the levels of miR-148b-3p and FOXO1 were increased by Dio, while Dio decreased the expression levels of DNMT1 and SREBP-2. Meanwhile, miR-148b-3p can bind to DNMT1, which in turn inhibits the expression of FOXO1 by mediating the DNA methylation of FOXO1. In addition, FOXO1 negatively regulates the expression of SREBP-2 by interacting with the SREBP-2 promoter. MiR-148b-3p inhibition or silencing of FOXO1 abolished the inhibitory effect of Dio on TG production and lipid droplet formation. This effect was further exacerbated by the downregulation of DNMT1. FOXO1 overexpression may counteract the promotive effects of miR-148b-3p inhibitor on lipid accumulation.
Conclusion: Dio treatment reduced TG production and lipid droplet formation in HK-2 cells during the progression of DN by modulating the miR-148b-3p/DNMT1/FOXO1/SREBP-2 axis. This finding provides new evidence supporting the therapeutic potential of Dio for DN.
DOI: 10.6084/m9.figshare.4522895.v5
title: Australian Employee Salary/Wages DATAbase by detailed occupation, location and year (2002-14); (plus Sole Traders)

description: The ATO (Australian Tax Office) made a dataset openly available (see links) showing all the Australian Salary and Wages (2002, 2006, 2010, 2014) by detailed occupation (around 1,000) and over 100 SA4 regions. Sole Trader sales and earnings are also provided. This open data (csv) is now packaged into a database (*.sql) with 45 sample SQL queries (backupSQL[date]_public.txt).<br>See more description at related Figshare #datavis record. <br>Versions:V5: Following #datascience course, I have made main data (individual salary and wages) available as csv and Jupyter Notebook. Checksum matches #dataTotals. In 209,xxx rows.Also provided Jobs, and SA4(Locations) description files as csv. More details at: Where are jobs growing/shrinking? Figshare DOI: 4056282 (linked below). Noted 1% discrepancy ($6B) in 2010 wages total - to follow up.<br>#dataTotals - Salary and WagesYearWorkers (M)Earnings ($B) 20028.5285<br>20069.4372<br>201010.2481<br>201410.3584<br><br><br>#dataTotal - Sole TradersYearWorkers (M)Sales ($B)Earnings ($B)20020.9611320061.0881920101.11122620141.19630<br>#links See ATO request for data at ideascale link below.See original csv open data set (CC-BY) at data.gov.au link below.This database was used to create maps of change in regional employment - see Figshare link below (m9.figshare.4056282).<br>#packageThis file package contains a database (analysing the open data) in SQL package and sample SQL text, interrogating the DB. DB name: test. There are 20 queries relating to Salary and Wages.<br>#analysisThe database was analysed and outputs provided on Nectar(.org.au) resources at: http://118.138.240.130.(offline)This is only resourced for max 1 year, from July 2016, so will expire in June 2017. Hence the filing here. The sample home page is provided here (and pdf), but not all the supporting files, which may be packaged and added later. Until then all files are available at the Nectar URL. Nectar URL now offline - server files attached as package (html_backup[date].zip), including php scripts, html, csv, jpegs.<br>#installIMPORT: DB SQL dump e.g. test_2016-12-20.sql (14.8Mb)1.Started MAMP on OSX.1.1 Go to PhpMyAdmin2. New Database: 3. Import: Choose file: test_2016-12-20.sql -&gt; Go (about 15-20 seconds on MacBookPro 16Gb, 2.3 Ghz i5)4. four tables appeared: jobTitles 3,208 rows | salaryWages 209,697 rows | soleTrader 97,209 rows | stateNames 9 rowsplus views e.g. deltahair, Industrycodes, states5. Run test query under **#; Sum of Salary by SA4 e.g. 101 $4.7B, 102 $6.9B<br>#sampleSQLselect sa4,<br>(select sum(count) from salaryWageswhere year = '2014' and sa4 = sw.sa4) as thisYr14,<br>(select sum(count) from salaryWageswhere year = '2010' and sa4 = sw.sa4) as thisYr10,<br>(select sum(count) from salaryWageswhere year = '2006' and sa4 = sw.sa4) as thisYr06,<br>(select sum(count) from salaryWageswhere year = '2002' and sa4 = sw.sa4) as thisYr02<br>from salaryWages sw<br>group by sa4order by sa4
DOI: 10.6084/m9.figshare.17197574.v1
title: Supplementary Material for: The 370 Da inhibitor of the sodium pump in the plasma of haemodialysis patients

description: Background: Previous studies have shown that a molecule of mass 370 Da that inhibits the sodium pump can be extracted from human placentas and from the concentrated plasma or ultrafiltrate of volume-expanded patients. Aim: To study the abundance of the 370 Da molecule and its changes across dialysis in a population of patients with renal failure treated by haemodialysis. Methods: 4 mL pre- and post-dialysis blood samples (2 mL plasma) were taken from patients receiving intermittent haemodialysis and analysed by high performance liquid chromatography (HPLC) coupled to high sensitivity mass spectrometry. Results: In over half the study population, the 370 Da molecule was present in an abundance that exceeded the limit of quantitation. Most patients experienced a marked fall in the abundance of the molecule over a haemodiafiltration (HDF) session, though exceptions were seen in two individuals both of whom showed clear evidence for the presence of two structural isomers of the 370 Da molecule. Conclusions: Advanced renal failure is frequently accompanied by an increased abundance of a 370 Da inhibitor of the sodium pump and that abundance is strongly impacted by haemodialysis. The technique described here could readily be applied to other clinical situations where sodium pump inhibition might be anticipated, such as hypertension, pregnancy and fetal medicine and thereby lead to a better understanding of the physiology and patho-physiology of these conditions.
DOI: 10.6084/m9.figshare.22012538.v1
title: Synapse2015

description: A platform for end-to-end development of machine learning solutions in biomedical imaging. Challenges in medical image analysis became popular after the organization of the Grand Challenges for Medical Image Analysis at the MICCAI conference in 2007. Hosting challenge events quickly became commonplace for conferences: MICCAI, ISBI, and SPIE Medical Imaging, amongst others, have hosted challenge events. Leading journals such as IEEE Transactions on Medical Imaging and Medical Image Analysis have welcomed overview papers that described the results of individual challenges. <br> Maintaining a challenge, so that new submissions are quickly processed upon submission, is a lot of work. Typically, a junior researcher at some institution is responsible for maintaining a challenge website, but at some point the researcher moves on and the site is no longer kept up-to-date. <br> Grand Challenge was created in 2010 to make it easy for organizers of challenges to set up a website for a particular challenge. Its aim was to bring all information on challenges in the domain of biomedical image analysis available in a single place. In 2012 we switched to Django web framework, marking 2012 as our founding year.
DOI: 10.6084/m9.figshare.21438027.v1
title: infants/preprocessed

description: description
DOI: 10.6084/m9.figshare.978878.v2
title: File 2. Surface Nanoroughness Parameters.xlsx

description: This data file contains one worksheet containing raw data and descriptive statistics regarding surface roughness parameters obtained from square areas of height images (dynamic mode) of the spider silk fibres using Gwyddion software, and are described in its manual. The column descriptions for the raw data worksheet are as follows: COLUMN A – Sample Label COLUMN B – Average Value COLUMN C – Minimum COLUMN D – Maximum COLUMN E – Median COLUMN F – Ra COLUMN G – Rms COLUMN H – Skew COLUMN I – Kurtosis COLUMN J – Surface Area COLUMN K – Projected Area COLUMN L – Inclination (theta) COLUMN M – Inclination (phi)
DOI: 10.17632/tt7mhvyfmk
title: A brief introduction to PYTHIA 8.1

description: This program has been imported from the CPC Program Library held at Queen's University Belfast (1969-2018) Abstract The Pythia program is a standard tool for the generation of high-energy collisions, comprising a coherent set of physics models for the evolution from a few-body hard process to a complex multihadronic final state. It contains a library of hard processes and models for initial- and final-state parton showers, multiple parton-parton interactions, beam remnants, string fragmentation and particle decays. It also has a set of utilities and interfaces to external programs. While previous versions ... Title of program: Pythia 8.1 Catalogue Id: ACTU_v3_0 Nature of problem high-energy collisions between elementary particles normally give rise to complex final states, with large multiplicities of hadrons, leptons, photons and neutrinos. The relation between these final states and the underlying physics description is not a simple one, for two main reasons. Firstly, we do not even in principle have a complete understanding of the physics. Secondly, any analytical approach is made intractable by the large multiplicities. Versions of this program held in the CPC repository in Mendeley Data ACTU_v1_0; PYTHIA 5.7 AND JETSET 7.4; 10.1016/0010-4655(94)90132-5 ACTU_v2_0; PYTHIA V6.154; 10.1016/S0010-4655(00)00236-8 ACTU_v2_1; PYTHIA Version number: 6.420; 10.1016/j.cpc.2009.08.008 ACTU_v3_0; Pythia 8.1; 10.1016/j.cpc.2008.01.036 ACTU_v4_0; Pythia 8.2; 10.1016/j.cpc.2015.01.024