cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.14095681
title: GDPR Access & Portability - Supplementary Material of a User Study

description: This folder contains supplementary material of a user study performedin late 2020 in Flanders, Belgium.<br>Within the user study, participants had to request their personal data from data controllersaccording to the General Data Protection Regulation (GDPR).Access requests were made regarding the Right of Access (RoA) and Right to Portability (RtP).<br>There was one questionnaire used to register participants for the study,i.e. provide consent and indicate for which data controller they would like to request their personal data(consent-and-registration-questionnaire) available in English and Dutch.<br>Participants were supported with guidance in how to request their data,i.e. email templates and step-by-step instructions (guidance-requests folder)<br>After receiving their data, participants had to fill in a second questionnaire,resembled in the questionnaire-analysis.ipynb file.<br>Pictures of the zip file images-survey are used within the Python notebook.<br><br>The file dummy-survey.csv contains the export of the second questionnaireused for the analysis but wherein participant answers were removed.<br>
DOI: 10.6084/m9.figshare.14095681.v1
title: GDPR Access & Portability - Supplementary Material of a User Study

description: This folder contains supplementary material of a user study performedin late 2020 in Flanders, Belgium.<br>Within the user study, participants had to request their personal data from data controllersaccording to the General Data Protection Regulation (GDPR).Access requests were made regarding the Right of Access (RoA) and Right to Portability (RtP).<br>There was one questionnaire used to register participants for the study,i.e. provide consent and indicate for which data controller they would like to request their personal data(consent-and-registration-questionnaire) available in English and Dutch.<br>Participants were supported with guidance in how to request their data,i.e. email templates and step-by-step instructions (guidance-requests folder)<br>After receiving their data, participants had to fill in a second questionnaire,resembled in the questionnaire-analysis.ipynb file.<br>Pictures of the zip file images-survey are used within the Python notebook.<br><br>The file dummy-survey.csv contains the export of the second questionnaireused for the analysis but wherein participant answers were removed.<br>
DOI: 10.15161/oar.it/73541
title: CovidStat project data

description: This record contains the daily updated data of the CovidStat project. CovidStat is a project carried out by the CovidStat Working Group at INFN, whose creation was promoted within the Italian National Institute of Nuclear Physics with the aim of making a statistical analysis of the data provided daily by the Civil Protection on the spread of the pandemic in Italy. CovidStat data can interactively be browsed at https://covid19.infn.it.
description: The software to process this Root TTree is in the related identifier. Be sure to use the right corresponding version, based on the data in which Root TTree was generated.
DOI: 10.20351/29gd20060420
title: HERMES-II_CORAL-3 Cruise, RV García del Cid

description: HERMES-II_CORAL-3 Cruise (29GD20060420) carried out on the Research Vessel García del Cid in 2006
DOI: 10.5281/zenodo.4556877
title: High-pressure phase stability and thermoelastic properties of iron carbonitrides and nitrogen in the deep Earth

description: Dataset for "High-pressure phase stability and thermoelastic properties of iron carbonitrides and nitrogen in the deep Earth".
DOI: 10.20351/29gd20050607
title: CARBOGIBOP-I Cruise, RV García del Cid

description: CARBOGIBOP-I Cruise (29GD20050607) carried out on the Research Vessel García del Cid in 2005
DOI: 10.6084/m9.figshare.8166902
title: Complexity of human walking: the attractor complexity index is sensitive to gait synchronization with visual and auditory cues

description: The dataset contains raw signals recorded by a treadmill equipped with an embedded force platform (C-mill, Motek). The signals are the trajectories of the centers of pressure of 36 individuals walking at preferred walking speed. Signals are sampled at a frequency of 100Hz. Each file contains two columns corresponding the anteroposterior and the mediolateral directions.<br>Coding for files is:<br>subj_XX_YY.csv<br>XX: Subject's ID<br>YY: Experimental condition:<br>NC: No cueing. Normal treadmill walkingAC: Auditory cueing. Treadmill walking in time with an isochronous metronome set to the preferred step frequency.VC: Visual cueing. Treadmill walking while aligning footsteps with forms projected onto the treadmill belt ("stepping stones"). The distance between the forms corresponds to the preferred step length.<br><br> Please cite the following studies that provide further details <br> [1] P. Terrier, Fractal Fluctuations in Human Walking: Comparison Between Auditory and Visually Guided Stepping, Ann Biomed Eng. 44 (2016) 2785–2793. doi:10.1007/s10439-016-1573-y. [2] P. Terrier, Complexity of human walking: the attractor complexity index is sensitive to gait synchronization with visual and auditory cues, PeerJ Inc., 2019. doi:10.7287/peerj.preprints.27711v1.
DOI: 10.6084/m9.figshare.8166902.v1
title: Complexity of human walking: the attractor complexity index is sensitive to gait synchronization with visual and auditory cues

description: The dataset contains raw signals recorded by a treadmill equipped with an embedded force platform. The signals are the trajectories of the centers of pressure of 36 individuals walking at preferred walking speed. Signals are sampled at a frequency of 100Hz. Each file contains two columns corresponding the anteroposterior and the mediolateral directions. Please cite the following study that provide further details <br> [1] P. Terrier, Fractal Fluctuations in Human Walking: Comparison Between Auditory and Visually Guided Stepping, Ann Biomed Eng. 44 (2016) 2785–2793. doi:10.1007/s10439-016-1573-y. [2] P. Terrier, Complexity of human walking: the attractor complexity index is sensitive to gait synchronization with visual and auditory cues, PeerJ Inc., 2019. doi:10.7287/peerj.preprints.27711v1.
DOI: 10.20351/29gd20050503
title: MINAS-I Cruise, RV García del Cid

description: MINAS-I Cruise (29GD20050503) carried out on the Research Vessel García del Cid in 2005
DOI: 10.5281/zenodo.4556916
title: Dataset from Monti CB, Codari M, Cozzi A, Alì M, Saggiante L, Sardanelli F, Secchi F. Image quality of late gadolinium enhancement in cardiac magnetic resonance with different doses of contrast material in patients with chronic myocardial infarction. Eur Radiol Exp. 2020 Apr 3;4(1):21. doi: 10.1186/s41747-020-00149-2. PMID: 32242266; PMCID: PMC7118177.

description: Dataset from the article Monti CB, Codari M, Cozzi A, Alì M, Saggiante L, Sardanelli F, Secchi F. Image quality of late gadolinium enhancement in cardiac magnetic resonance with different doses of contrast material in patients with chronic myocardial infarction. Eur Radiol Exp. 2020 Apr 3;4(1):21. doi: 10.1186/s41747-020-00149-2. PMID: 32242266; PMCID: PMC7118177. This is the abstract: Background: Contrast-enhanced cardiac magnetic resonance (CMR) is pivotal for evaluating chronic myocardial infarction (CMI). Concerns about safety of gadolinium-based contrast agents favour dose reduction. We assessed image quality of scar tissue in CMRs performed with different doses of gadobutrol in CMI patients. Methods: Informed consent was waived for this Ethics Committee-approved single-centre retrospective study. Consecutive contrast-enhanced CMRs from CMI patients were retrospectively analysed according to the administered gadobutrol dose (group A, 0.10 mmol/kg; group B, 0.15 mmol/kg; group C, 0.20 mmol/kg). We calculated the signal-to-noise ratio for scar tissue (SNR<sub>scar</sub>) and contrast-to-noise ratio between scar and either remote myocardium (CNR<sub>scar-rem</sub>) or blood (CNR<sub>scar-blood</sub>). Results: Of 79 CMRs from 79 patients, 22 belonged to group A, 26 to group B, and 31 to group C. The groups were homogeneous for age, sex, left ventricular morpho-functional parameters, and percentage of scar tissue over whole myocardium (p ≥ 0.300). SNR<sub>scar</sub> was lower in group A (46.4; 40.3-65.1) than in group B (70.1; 52.2-111.5) (p = 0.013) and group C (72.1; 59.4-100.0) (p = 0.002), CNR<sub>scar-rem</sub> was lower in group A (62.9; 52.2-87.4) than in group B (96.5; 73.1-152.8) (p = 0.008) and in group C (103.9; 83.9-132.0) (p = 0.001). No other significant differences were found (p ≥ 0.335). Conclusions: Gadobutrol at 0.10 mmol/kg provides inferior scar image quality of CMI than 0.15 and 0.20 mmol/kg; the last two dosages seem to provide similar LGE. Thus, for CMR of CMI, 0.15 mmol/kg of gadobutrol can be suggested instead of 0.20 mmol/kg, with no hindrance to scar visualisation. Dose reduction would not impact on diagnostic utility of CMR examinations.
DOI: 10.5281/zenodo.4556915
title: Dataset from Monti CB, Codari M, Cozzi A, Alì M, Saggiante L, Sardanelli F, Secchi F. Image quality of late gadolinium enhancement in cardiac magnetic resonance with different doses of contrast material in patients with chronic myocardial infarction. Eur Radiol Exp. 2020 Apr 3;4(1):21. doi: 10.1186/s41747-020-00149-2. PMID: 32242266; PMCID: PMC7118177.

description: Dataset from the article Monti CB, Codari M, Cozzi A, Alì M, Saggiante L, Sardanelli F, Secchi F. Image quality of late gadolinium enhancement in cardiac magnetic resonance with different doses of contrast material in patients with chronic myocardial infarction. Eur Radiol Exp. 2020 Apr 3;4(1):21. doi: 10.1186/s41747-020-00149-2. PMID: 32242266; PMCID: PMC7118177. This is the abstract: Background: Contrast-enhanced cardiac magnetic resonance (CMR) is pivotal for evaluating chronic myocardial infarction (CMI). Concerns about safety of gadolinium-based contrast agents favour dose reduction. We assessed image quality of scar tissue in CMRs performed with different doses of gadobutrol in CMI patients. Methods: Informed consent was waived for this Ethics Committee-approved single-centre retrospective study. Consecutive contrast-enhanced CMRs from CMI patients were retrospectively analysed according to the administered gadobutrol dose (group A, 0.10 mmol/kg; group B, 0.15 mmol/kg; group C, 0.20 mmol/kg). We calculated the signal-to-noise ratio for scar tissue (SNR<sub>scar</sub>) and contrast-to-noise ratio between scar and either remote myocardium (CNR<sub>scar-rem</sub>) or blood (CNR<sub>scar-blood</sub>). Results: Of 79 CMRs from 79 patients, 22 belonged to group A, 26 to group B, and 31 to group C. The groups were homogeneous for age, sex, left ventricular morpho-functional parameters, and percentage of scar tissue over whole myocardium (p ≥ 0.300). SNR<sub>scar</sub> was lower in group A (46.4; 40.3-65.1) than in group B (70.1; 52.2-111.5) (p = 0.013) and group C (72.1; 59.4-100.0) (p = 0.002), CNR<sub>scar-rem</sub> was lower in group A (62.9; 52.2-87.4) than in group B (96.5; 73.1-152.8) (p = 0.008) and in group C (103.9; 83.9-132.0) (p = 0.001). No other significant differences were found (p ≥ 0.335). Conclusions: Gadobutrol at 0.10 mmol/kg provides inferior scar image quality of CMI than 0.15 and 0.20 mmol/kg; the last two dosages seem to provide similar LGE. Thus, for CMR of CMI, 0.15 mmol/kg of gadobutrol can be suggested instead of 0.20 mmol/kg, with no hindrance to scar visualisation. Dose reduction would not impact on diagnostic utility of CMR examinations.
DOI: 10.5281/zenodo.2635661
title: Sample data measurement machine and mill VDL Weweler

description: Sample data measurement machine and mill VDL Weweler
DOI: 10.5281/zenodo.2635660
title: Sample data measurement machine and mill VDL Weweler

description: Sample data measurement machine and mill VDL Weweler
DOI: 10.20351/29gd20061024
title: HERMES-III_CORAL-5 Cruise, RV García del Cid

description: HERMES-III_CORAL-5 Cruise (29GD20061024) carried out on the Research Vessel García del Cid in 2006
DOI: 10.6084/m9.figshare.14095709.v1
title: LM7c_refStd.txt

description: ref table
DOI: 10.17632/ymn3ykkmyx.1
title: A systematic CRISPR screen defines mutational mechanisms underpinning signatures caused by replication errors and endogenous DNA damage

description: Mutational signatures are imprints of pathophysiological processes arising through tumorigenesis. Here, we generate isogenic CRISPR-Cas9 knockouts (∆) of 43 genes in human induced pluripotent stem cells, culture them in the absence of added DNA damage, and perform whole-genome sequencing of 173 daughter subclones. ∆OGG1, ∆UNG, ∆EXO1, ∆RNF168, ∆MLH1, ∆MSH2, ∆MSH6, ∆PMS1, and ∆PMS2 produce marked mutational signatures indicative of being critical mitigators of endogenous DNA changes. Detailed analyses reveal that 8-oxo-dG removal by different repair proteins is sequence-context-specific while uracil clearance is sequence-context-independent. Signatures of mismatch repair (MMR) deficiency show components of C&gt;A transversions due to oxidative damage, T&gt;C and C&gt;T transitions due to differential misincorporation by replicative polymerases, and T&gt;A transversions for which we propose a ‘reverse template slippage’ model. ∆MLH1, ∆MSH6, and ∆MSH2 signatures are similar to each other but distinct from ∆PMS2. We validate these gene-specificities in cells from patients with Constitutive Mismatch Repair Deficiency Syndrome. Based on these experimental insights, we develop a classifier, MMRDetect, to detect MMR-deficient tumors. Application of MMRDetect to 7359 WGS cancers shows improved clinical detection of patients with MMR deficient whom could have responsiveness to immunotherapy agents.
DOI: 10.20351/29gd20051130
title: RODA-2 Cruise, RV García del Cid

description: RODA-2 Cruise (29GD20051130) carried out on the Research Vessel García del Cid in 2005
DOI: 10.5281/zenodo.4556855
title: Dataset to support 'Numerical-continuation-enhanced flexible boundary condition scheme applied to Mode I and Mode III fracture'

description: This dataset supports the publication: M. Buze and J. R. Kermode. Numerical-continuation-enhanced flexible boundary condition scheme applied to Mode I and Mode III fracture, Physical Review E, 2021. It comprises one .tar.gz archive containing a number of sub-directories and files as described in more detail below. <strong>Part I - Toy Model</strong> Code and data needed to generate Figures 1-9, coded in Julia 1.1.1. (1) Folder "setups" includes Julia scripts in which all the numerical schemes are coded. <br> (2) Folder "computations" includes Jupyter notebooks that use these scripts to generate the data.<br> (3) Folder "data" includes all the necessary data that was computed in the Jupyter notebooks. <br> (4) Jupyter notebooks "plots1.ipynb" and "plots2.ipynb" contain all the codes used to generate Figures 1-9 in the paper. <br> Disclaimers: (a) "plots1.ipynb" and "plots2.ipynb" work as given and can be run to reproduce all the figures. <br> (b) data in the folder "data" is the original data computed.<br> (c) Jupyter notebooks in the folder "computations" are a loose collection and are not intended to be reproducible - they are merely added for completeness, in the sense this is precisely the code that was used for numerical computation associated with the paper, but it was used in an ad-hoc manner. Any potential reader is advised to get in touch with Maciej Buze (see current contact details at https://mbuze.github.io ) to discuss how to use them properly. <strong>Part 2 - application to Silicon (111) Fracture</strong> Code and data needed to generate Figures 10-13 is contained in the Si-111 subdirectory. See the `figures.ipynb` Jupyter notebook for further details. This is coded in Python 3.6. Details of the packages and scripts required are given at the top of the notebook.
DOI: 10.5281/zenodo.4556854
title: Dataset to support 'Numerical-continuation-enhanced flexible boundary condition scheme applied to Mode I and Mode III fracture'

description: This dataset supports the publication: M. Buze and J. R. Kermode. Numerical-continuation-enhanced flexible boundary condition scheme applied to Mode I and Mode III fracture, Physical Review E, 2021. It comprises one .tar.gz archive containing a number of sub-directories and files as described in more detail below. <strong>Part I - Toy Model</strong> Code and data needed to generate Figures 1-9, coded in Julia 1.1.1. (1) Folder "setups" includes Julia scripts in which all the numerical schemes are coded. <br> (2) Folder "computations" includes Jupyter notebooks that use these scripts to generate the data.<br> (3) Folder "data" includes all the necessary data that was computed in the Jupyter notebooks. <br> (4) Jupyter notebooks "plots1.ipynb" and "plots2.ipynb" contain all the codes used to generate Figures 1-9 in the paper. <br> Disclaimers: (a) "plots1.ipynb" and "plots2.ipynb" work as given and can be run to reproduce all the figures. <br> (b) data in the folder "data" is the original data computed.<br> (c) Jupyter notebooks in the folder "computations" are a loose collection and are not intended to be reproducible - they are merely added for completeness, in the sense this is precisely the code that was used for numerical computation associated with the paper, but it was used in an ad-hoc manner. Any potential reader is advised to get in touch with Maciej Buze (see current contact details at https://mbuze.github.io ) to discuss how to use them properly. <strong>Part 2 - application to Silicon (111) Fracture</strong> Code and data needed to generate Figures 10-13 is contained in the Si-111 subdirectory. See the `figures.ipynb` Jupyter notebook for further details. This is coded in Python 3.6. Details of the packages and scripts required are given at the top of the notebook.
DOI: 10.5281/zenodo.4556912
title: Dataset related to article "Risk of Covert Submucosal Cancer in Patients With Granular Mixed Laterally Spreading Tumors"

description: This record contains raw data related to article “Risk of Covert Submucosal Cancer in Patients With Granular Mixed Laterally Spreading Tumors" <strong>Background and aims: </strong> Granular mixed laterally spreading tumors (GM-LSTs) have an intermediate level of risk for submucosal invasive cancer (SMICs) without clear signs of invasion (covert); the optimal resection method is uncertain. We aimed to determine the risk of covert SMIC in GM-LSTs based on clinical and endoscopic factors. <strong>Methods: </strong> We collected data from 693 patients (50.6% male; median age, 69 years) with colorectal GM-LSTs, without signs of invasion, who underwent endoscopic resection (74.2%) or endoscopic submucosal dissection (25.2%) at 7 centers in Italy from 2016 through 2019. We performed multivariate and univariate analyses to identify demographic and endoscopic factors associated with risk of SMIC. We developed a multivariate model to calculate the number needed to treat (NNT) to detect 1 SMIC. <strong>Results: </strong> Based on pathology analysis, 66 patients (9.5%) had covert SMIC. In multivariate analyses, increased risk of covert SMIC were independently associated with increasing lesion size (odds ratio per mm increase, 1.02, 95% CI, 1.01-1.03; P = .003) and rectal location (odds ratio, 2.85; 95% CI, 1.48-5.48; P = .012). A logistic regression model based on lesion size (with a cutoff of 40 mm) and rectal location identified patients with covert SMIC with 47.0% sensitivity, 82.6% specificity, and an area under the curve of 0.69. The NNT to identify 1 patient with a rectal SMIC smaller than 4 cm was 20; the NNT to identify 1 patient with a rectal SMIC of 4 cm or more was 5. <strong>Conclusions: </strong> In an analysis of data from 693 patients, we found the risk of covert SMIC in patients with GM-LSTs to be approximately 10%. GM-LSTs of 4 cm or more and a rectal location are high risk and should be treated by en-bloc resection. ClinicalTrials.gov, Number: NCT03836131.
DOI: 10.5281/zenodo.4556911
title: Dataset related to article "Risk of Covert Submucosal Cancer in Patients With Granular Mixed Laterally Spreading Tumors"

description: This record contains raw data related to article “Risk of Covert Submucosal Cancer in Patients With Granular Mixed Laterally Spreading Tumors" <strong>Background and aims: </strong> Granular mixed laterally spreading tumors (GM-LSTs) have an intermediate level of risk for submucosal invasive cancer (SMICs) without clear signs of invasion (covert); the optimal resection method is uncertain. We aimed to determine the risk of covert SMIC in GM-LSTs based on clinical and endoscopic factors. <strong>Methods: </strong> We collected data from 693 patients (50.6% male; median age, 69 years) with colorectal GM-LSTs, without signs of invasion, who underwent endoscopic resection (74.2%) or endoscopic submucosal dissection (25.2%) at 7 centers in Italy from 2016 through 2019. We performed multivariate and univariate analyses to identify demographic and endoscopic factors associated with risk of SMIC. We developed a multivariate model to calculate the number needed to treat (NNT) to detect 1 SMIC. <strong>Results: </strong> Based on pathology analysis, 66 patients (9.5%) had covert SMIC. In multivariate analyses, increased risk of covert SMIC were independently associated with increasing lesion size (odds ratio per mm increase, 1.02, 95% CI, 1.01-1.03; P = .003) and rectal location (odds ratio, 2.85; 95% CI, 1.48-5.48; P = .012). A logistic regression model based on lesion size (with a cutoff of 40 mm) and rectal location identified patients with covert SMIC with 47.0% sensitivity, 82.6% specificity, and an area under the curve of 0.69. The NNT to identify 1 patient with a rectal SMIC smaller than 4 cm was 20; the NNT to identify 1 patient with a rectal SMIC of 4 cm or more was 5. <strong>Conclusions: </strong> In an analysis of data from 693 patients, we found the risk of covert SMIC in patients with GM-LSTs to be approximately 10%. GM-LSTs of 4 cm or more and a rectal location are high risk and should be treated by en-bloc resection. ClinicalTrials.gov, Number: NCT03836131.
DOI: 10.20351/29gd20060518
title: RODA-3 Cruise, RV García del Cid

description: RODA-3 Cruise (29GD20060518) carried out on the Research Vessel García del Cid in 2006
DOI: 10.20351/29gd20061124
title: CARBOGIBOP-3 Cruise, RV García del Cid

description: CARBOGIBOP-3 Cruise (29GD20061124) carried out on the Research Vessel García del Cid in 2006
DOI: 10.6084/m9.figshare.14095705
title: LM7c_refMean.txt

description: Reference table of means
DOI: 10.20351/29gd20070504
title: THRESHOLDS-II Cruise, RV García del Cid

description: THRESHOLDS-II Cruise (29GD20070504) carried out on the Research Vessel García del Cid in 2007
DOI: 10.6084/m9.figshare.14095709
title: LM7c_refStd.txt

description: ref table
DOI: 10.6084/m9.figshare.14095709.v2
title: LM7c_refStd.txt

description: ref table