cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.26208/15q9-mm49
title: Influence of Local Water Vapor Analysis Uncertainty on Ensemble Forecasts of Tropical Cyclogenesis Using Hurricane Irma (2017) as a Testbed

description: Tropical cyclone formation is known to require abundant water vapor in the lower to middle troposphere. In this study, we assess the impacts of water vapor analysis uncertainty on the predictability of the formation of Hurricane Irma (2017). To this end, we reduce the magnitude of the incipient disturbance’s water vapor perturbations obtained from an ensemble-based data assimilation system that constrained moisture by assimilating all-sky infrared and microwave radiances. Five-day convection-permitting ensemble forecasts are initialized two days prior to genesis using each set of modified analysis perturbations. Growth of convective differences and intensity uncertainty are evaluated for each ensemble forecast.

We observe that initial moisture uncertainty within the nascent disturbance explains more than half of the intensity uncertainty at every lead time compared to that of an ensemble containing perturbations to all variables. Although each ensemble reveals a similar pathway to genesis, uncertainty in genesis timing varies substantially across ensembles since moister members exhibit earlier spin-up of the low-level vortex. These differences in genesis timing are traced

back to the first six to twelve hours of integration. By the end of that period, ensembles with greater initial moisture uncertainty have larger intensity uncertainty. The rapid growth of intensity uncertainty during the early hours of integration results from earlier development of mesoscale convective system dislocation and larger meso-β- to meso-α-scale errors when initial moisture uncertainty is greater. Ultimately, this study underscores the importance of targeting the incipient disturbance for high spatio-temporal water vapor observations for ingestion into data assimilation systems.
DOI: 10.5281/zenodo.10153250
title: Dataset related to article "Outcome of high-dose chemotherapy followed by autologous stem cell transplantation in relapsed/refractory Hodgkin lymphoma after different numbers of salvage regimens"

description: This record contains raw data related to article "Outcome of high-dose chemotherapy followed by autologous stem cell transplantation in relapsed/refractory Hodgkin lymphoma after different numbers of salvage regimens"

Abstract



The introduction of novel drugs (PD-1 inhibitors and/or brentuximab vedotin) into salvage regimens has improved the response rate and the outcome of patients with relapsed/refractory Hodgkin lymphoma. However, the impact of new drugs on the outcome has not been adequately investigated so far. We retrospectively analyzed 42 consecutive patients treated at our institution with high-dose chemotherapy/autologous stem cell transplantation after either one standard chemotherapy represented by BEGEV (n = 28) or >1 salvage therapy (ST) comprising novel drugs (n = 14). With a median follow-up of 24 months, the 2-year cumulative incidence of relapse was similar between the two cohorts: 26% for 1 ST and 18% for >1 ST (p = 0.822). Consistently, overall survival and progression-free survival did not differ among the two groups: 3-year overall survival was 91% and 89% (p = 0.731), respectively, and 3-year progression-free survival was 74% and 83% (p = 0.822) for only one and more than one salvage regimens, respectively. Of note, the post-transplant side effects and engraftment rates were similar between the 1 ST and >1 ST cohorts. In conclusion, consolidation with high-dose chemotherapy/autologous stem cell transplantation is a safe and curative option, even for patients achieving disease response after more than one rescue line of therapy.
DOI: 10.5281/zenodo.10153251
title: Dataset related to article "Outcome of high-dose chemotherapy followed by autologous stem cell transplantation in relapsed/refractory Hodgkin lymphoma after different numbers of salvage regimens"

description: This record contains raw data related to article "Outcome of high-dose chemotherapy followed by autologous stem cell transplantation in relapsed/refractory Hodgkin lymphoma after different numbers of salvage regimens"

Abstract



The introduction of novel drugs (PD-1 inhibitors and/or brentuximab vedotin) into salvage regimens has improved the response rate and the outcome of patients with relapsed/refractory Hodgkin lymphoma. However, the impact of new drugs on the outcome has not been adequately investigated so far. We retrospectively analyzed 42 consecutive patients treated at our institution with high-dose chemotherapy/autologous stem cell transplantation after either one standard chemotherapy represented by BEGEV (n = 28) or >1 salvage therapy (ST) comprising novel drugs (n = 14). With a median follow-up of 24 months, the 2-year cumulative incidence of relapse was similar between the two cohorts: 26% for 1 ST and 18% for >1 ST (p = 0.822). Consistently, overall survival and progression-free survival did not differ among the two groups: 3-year overall survival was 91% and 89% (p = 0.731), respectively, and 3-year progression-free survival was 74% and 83% (p = 0.822) for only one and more than one salvage regimens, respectively. Of note, the post-transplant side effects and engraftment rates were similar between the 1 ST and >1 ST cohorts. In conclusion, consolidation with high-dose chemotherapy/autologous stem cell transplantation is a safe and curative option, even for patients achieving disease response after more than one rescue line of therapy.
DOI: 10.5281/zenodo.10562691
title: SOCIAL EXPERIENCE OF GROUP CREATION IN A PHYSICAL-ARTISTIC INTERVENTION

description: Se adjuntan las trasncripciones de las entrevistas en profundidad de una investigación que consistió en analizar la experiencia social en eel proceso de creación grupal en un programa interdisciplinar físico-artístico.
DOI: 10.5281/zenodo.10562692
title: SOCIAL EXPERIENCE OF GROUP CREATION IN A PHYSICAL-ARTISTIC INTERVENTION

description: Se adjuntan las trasncripciones de las entrevistas en profundidad de una investigación que consistió en analizar la experiencia social en eel proceso de creación grupal en un programa interdisciplinar físico-artístico.
DOI: 10.5281/zenodo.10102664
title: Dataset: Thermal noise calibration of functionalized cantilevers for force microscopy: effects of the colloidal probe position.

description: Dataset for article "Thermal noise calibration of functionalized cantilevers for force microscopy: effects of the colloidal probe position"
The raw data is in the 6 zip files (AIO*.zip), which contains thermal noise spectra measured on the raw cantilevers close to the free end (folders AIO#, where #=1, 2 or 3 for samples A, B or C), or on the loaded cantilever at various positions along its length (folders AIO#-ScanHF, where #=1, 2 or 3 for samples A, B or C). The file format is Matlab data file (.mat), it include the vectors f (for frequency axis, in Hz) and p (power spectrum density, in m^2/Hz). Other variables are erreur (some internal check that the calibration of the interferometer is pertinent) and PointW (mean intensity collected by the interferometer, and mean contrast on the 2 quadrature signals). For the loaded cantilever, we also record the laser spot position (XFaisceau and YFaisceau, in µm, origin close to the free end on the cantilever), some timing information to track for drifts, and ellipse (a calibration step of the quadrature phase interferometer).
The SEM images of the samples are included in the zip file SEMimages.zip
All analysis scripts (Matlab .m files) are included:

AnalyseAll.m reads the raw data files and extract all the pertinent information, saving it to file AnalyseAll.mat
Analysis_cp analyses the pre-processed data with the single contact point model
Analysis_endload analyses the pre-processed data with the rigid end load model
figspectrum.m creates Fig. 4 of the article
plot_cp_endload.m creates Fig. 5 and 6 of the article
All other scripts (.m) are dependencies that are necessary for the 3 former scripts to run. All scripts are commented and should be self explanatory. Of interest are the scripts mode_shape_cp.m and mode_shape_endload.m, which compute the resonant mode shape of a loaded cantilever for the two models, when given the parameters on the load size and position.
DOI: 10.5281/zenodo.10235017
title: Data for "An insect pheromone primes tolerance of herbivory in goldenrod plants"

description: Data for "An insect pheromone primes tolerance of herbivory in goldenrod plants"
Data include all raw data necessary for the analyses of the manuscript.  These include data on the growth, flower production, rhizome production, and gall induction of goldenrod plants (Solidago altissima) after exposure to a priming cue gradient and a specialist herbivore that is the source of the priming cue.  It also contains data on female herbivore oviposition preference.
 
Description of the data and file structure
The data are divided into four sheets.  The first contains data necessary for analyses presented in the main text.  The second contains data for analyses presented in the supplement.  The third presents data from a separate experiment presented in the supplement, and the fourth contains R code for the analyses performed.
 
Sharing/Access information
These data are currently only available on Zenodo.
DOI: 10.5281/zenodo.10562780
title: Data for "An insect pheromone primes tolerance of herbivory in goldenrod plants"

description: Data for "An insect pheromone primes tolerance of herbivory in goldenrod plants"
Data include all raw data necessary for the analyses of the manuscript.  These include data on the growth, flower production, rhizome production, and gall induction of goldenrod plants (Solidago altissima) after exposure to a priming cue gradient and a specialist herbivore that is the source of the priming cue.  It also contains data on female herbivore oviposition preference.
 
Description of the data and file structure
The data are divided into four sheets.  The first contains data necessary for analyses presented in the main text.  The second contains data for analyses presented in the supplement.  The third presents data from a separate experiment presented in the supplement, and the fourth contains R code for the analyses performed.
 
Sharing/Access information
These data are currently only available on Zenodo.
DOI: 10.5281/zenodo.10558028
title: Data for "An insect pheromone primes tolerance of herbivory in goldenrod plants"

description: Data for "An insect pheromone primes tolerance of herbivory in goldenrod plants"
Data include all raw data necessary for the analyses of the manuscript.  These include data on the growth, flower production, rhizome production, and gall induction of goldenrod plants (Solidago altissima) after exposure to a priming cue gradient and a specialist herbivore that is the source of the priming cue.  It also contains data on female herbivore oviposition preference.
 
Description of the data and file structure
The data are divided into four sheets.  The first contains data necessary for analyses presented in the main text.  The second contains data for analyses presented in the supplement.  The third presents data from a separate experiment presented in the supplement, and the fourth contains R code for the analyses performed.
 
Sharing/Access information
These data are currently only available on Zenodo.
DOI: 10.6084/m9.figshare.24798780
title: Supplementary Table 1

description: list_sample_ids_191023
DOI: 10.6084/m9.figshare.24798831
title: Supplementary table 3

description: Detailed statistics about the estimated evolution rate in each month
DOI: 10.6084/m9.figshare.24798873
title: Supplementary table 4

description: Mutation Frequency in African SARS-CoV-2 Sequences (August 2020 and August 2021)
DOI: 10.6084/m9.figshare.24798831.v1
title: Supplementary table 2

description: Detailed statistics about the estimated evolution rate in each month
DOI: 10.5281/zenodo.10562835
title: Social Media and Social Isolation
DOI: 10.5281/zenodo.10562836
title: Social Media and Social Isolation
DOI: 10.6084/m9.figshare.25055045
title: Supplementary table 2

description: List of mutations identified, their positions,date of location of identification in our dataset and their frequency
DOI: 10.25345/c5rx93q73
title: MassIVE MSV000093911 - GNPS Trial1_final step in Mzmine_removing min. peaks and let isotopes
title: to identify the compounds related to this species to be able to know their biological activities.
DOI: 10.5281/zenodo.10562549
title: in-Silico TRials guide optimal stratification of ATrIal FIbrillation patients to Catheter Ablation vs pharmacological medicaTION: The i-STRATIFICATION Study

description: This dataset includes the meshes of ten atrial anatomies (AA) ready for simulation using MonoAlg3D (https://github.com/rsachetto/MonoAlg3D_C). Ten folders are provided with the name AtrialAnatomyX (X being an integer from 1 to 10). Inside each folder there are many subfolders. The baseline atrial mesh is inside a folder called Baseline, which includes: 







Geometry with atrial region tags: atria_AA_X.alg  




Fibers for the corresponding anatomy: atria_AA_X.fibers 




Stimulation files for stimulating the sinoatrial node (SAN) and left pulmonary veins (lPV): atria_AA_X_SAN.pts and atria_AA_X_lPV.pts 






These atrial anatomies might be presented with absence of low voltage areas (FB_0) or with 15% low voltage areas in the right and left atrium (FB_1). Therefore, the actual names that can be found inside the Baseline folder are: 








atria_AA_X_FB_0.alg 




atria_AA_X_FB_1.alg 




atria_AA_X_FB_0.fibers 




atria_AA_X_FB_1.fibers 






Inside the Baseline folder there is an additional file with the suffix (*SV_AF.txt). This file includes the State Variables (or initial conditions) needed to impose AF in the tissue for each geometry: 








atria_AA_1_SV_AF.txt 






Apart from the Baseline subfolder, each AtrialAnatomyX folder has 9 additional subfolders. These correspond to 9 catheter ablation treatments: 








Ablation of low voltage areas (LVA) 




Marshal-Plan 




Left atrial anterior mitral line (MiLine) 




MiLine and cavo-tricuspid isthmus block (MiLine+CTI) 




MiLine+CTI + right atrial MiLine (MiLine+CTI+MiLineRA) 




Pulmonary vein isolation (PVI) 




Posterior wall isolation (PWI) 




PWI plus mitral isthmus block (PWI+MI) 




PWI+MI+CTI 






These treatment subfolders include the mesh file (.alg), fibers file (.fibers) and the initial conditions file to impose AF (*SV_AF.txt) considering the ablation lesion already in the tissue. For example, for PVI the files look like: 








atria_AA_1_FB_0_PVI.alg (without low voltage areas) 




atria_AA_1_FB_1_PVI.alg (with low voltage areas) 




atria_AA_1_FB_0_PVI.fibers 




atria_AA_1_FB_1_PVI.fibers 




atria_AA_1_SV_AF_PVI.txt 






 

Additional to the atrial anatomies, configuration files for running simulations are provided in the folder ConfigurationFiles.  








Each configuration file corresponds to a different virtual patient (VirtPat) and has the following name: 










VirtPat_EP_X_AA_Y_FB_Z_Treatment.ini 





EP_X (electrophysiology): X is an integer ranging from 1 to 40. Different electrophysiology is reflected in the different scaling factors used for the maximal conductance of ionic currents. 




AA_Y (Atrial anatomy). Y is an integer ranging from 1 to 10. Call to the atrial meshes described above.




FB_Z (Fibrosis). Z is a boolean value, either 0 (no LVA) or 1 (15% LVA).




Treatment: This is a string that needs to be replaced by the treatment names described above: PVI, PWI, MiLine, etc.
DOI: 10.5281/zenodo.10562550
title: in-Silico TRials guide optimal stratification of ATrIal FIbrillation patients to Catheter Ablation vs pharmacological medicaTION: The i-STRATIFICATION Study

description: This dataset includes the meshes of ten atrial anatomies (AA) ready for simulation using MonoAlg3D (https://github.com/rsachetto/MonoAlg3D_C). Ten folders are provided with the name AtrialAnatomyX (X being an integer from 1 to 10). Inside each folder there are many subfolders. The baseline atrial mesh is inside a folder called Baseline, which includes: 







Geometry with atrial region tags: atria_AA_X.alg  




Fibers for the corresponding anatomy: atria_AA_X.fibers 




Stimulation files for stimulating the sinoatrial node (SAN) and left pulmonary veins (lPV): atria_AA_X_SAN.pts and atria_AA_X_lPV.pts 






These atrial anatomies might be presented with absence of low voltage areas (FB_0) or with 15% low voltage areas in the right and left atrium (FB_1). Therefore, the actual names that can be found inside the Baseline folder are: 








atria_AA_X_FB_0.alg 




atria_AA_X_FB_1.alg 




atria_AA_X_FB_0.fibers 




atria_AA_X_FB_1.fibers 






Inside the Baseline folder there is an additional file with the suffix (*SV_AF.txt). This file includes the State Variables (or initial conditions) needed to impose AF in the tissue for each geometry: 








atria_AA_1_SV_AF.txt 






Apart from the Baseline subfolder, each AtrialAnatomyX folder has 9 additional subfolders. These correspond to 9 catheter ablation treatments: 








Ablation of low voltage areas (LVA) 




Marshal-Plan 




Left atrial anterior mitral line (MiLine) 




MiLine and cavo-tricuspid isthmus block (MiLine+CTI) 




MiLine+CTI + right atrial MiLine (MiLine+CTI+MiLineRA) 




Pulmonary vein isolation (PVI) 




Posterior wall isolation (PWI) 




PWI plus mitral isthmus block (PWI+MI) 




PWI+MI+CTI 






These treatment subfolders include the mesh file (.alg), fibers file (.fibers) and the initial conditions file to impose AF (*SV_AF.txt) considering the ablation lesion already in the tissue. For example, for PVI the files look like: 








atria_AA_1_FB_0_PVI.alg (without low voltage areas) 




atria_AA_1_FB_1_PVI.alg (with low voltage areas) 




atria_AA_1_FB_0_PVI.fibers 




atria_AA_1_FB_1_PVI.fibers 




atria_AA_1_SV_AF_PVI.txt 






 

Additional to the atrial anatomies, configuration files for running simulations are provided in the folder ConfigurationFiles.  








Each configuration file corresponds to a different virtual patient (VirtPat) and has the following name: 










VirtPat_EP_X_AA_Y_FB_Z_Treatment.ini 





EP_X (electrophysiology): X is an integer ranging from 1 to 40. Different electrophysiology is reflected in the different scaling factors used for the maximal conductance of ionic currents. 




AA_Y (Atrial anatomy). Y is an integer ranging from 1 to 10. Call to the atrial meshes described above.




FB_Z (Fibrosis). Z is a boolean value, either 0 (no LVA) or 1 (15% LVA).




Treatment: This is a string that needs to be replaced by the treatment names described above: PVI, PWI, MiLine, etc.
DOI: 10.15128/r2rb68xb893
title: A device for magnetic-field angle control in magneto-optical filters using a solenoid-permanent magnet pair [dataset]

description: Atomic bandpass filters are used in a variety of applications due to their narrow bandwidths and high transmission at specific frequencies. Predominantly these filters in the Faraday (Voigt) geometry, using an applied axial(transverse) magnetic field with respect to the laser propagation direction. Recently, there has been interest in filters realized with arbitrary-angle magnetic fields, which have been made by rotating permanent magnets with respect to the $k$-vector of the interrogating laser beam. However, the magnetic-field angle achievable with this method is limited as field uniformity across the cell decreases as the rotation angle increases. In this work, we propose and demonstrate a new method of generating an arbitrary-angle magnetic field, using a solenoid to produce a small, and easily alterable, axial field, in conjunction with fixed permanent magnets to produce a large transverse field. We directly measure the fields produced by both methods, finding them to be very similar over the length of the vapor cell. We then compare the transmission profiles of filters produced using both methods, again finding excellent agreement. Finally, we demonstrate the sensitivity of filter profile to changing magnetic-field angle (solenoid current), which becomes easier to exploit with the much improved angle control and precision offered by our new design.
DOI: 10.5281/zenodo.10562768
title: Datasets for the paper "Automated structure discovery in atomic force microscopy"

description: Molecule dataset and experimental atomic force microscopy (AFM) data of 1S-camphor used in the paper "Automated structure discovery in atomic force microscopy".

The molecules are saved in the xyz format containing the atomic types, coordinates, and partial charges. The AFM data is saved as Numpy .npy files.
DOI: 10.5281/zenodo.10562769
title: Datasets for the paper "Automated structure discovery in atomic force microscopy"

description: Molecule dataset and experimental atomic force microscopy (AFM) data of 1S-camphor used in the paper "Automated structure discovery in atomic force microscopy".

The molecules are saved in the xyz format containing the atomic types, coordinates, and partial charges. The AFM data is saved as Numpy .npy files.
DOI: 10.5281/zenodo.10074895
title: Occurrence cubes at species level for European countries

description: This package contains aggregated occurrence data ("occurrence cubes") at species level for European countries. These occurrence cubes were generated by grouping species occurrence data from the Global Biodiversity Information Facility (GBIF) by year (year), 1x1km spatial EEA reference grid cell (eea_cell_code) and species (speciesKey). For each grouping, the number of occurrences found in GBIF (n) and the minimum coordinateUncertaintyInMeters (min_coord_uncertainty) are provided. The provided coordinateUncertaintyInMeters of an occurrence is taken into account when assigning it to a grid cell (see this code). The occurrence cubes can be used as input data for indicators, mapping and species distribution modelling.
The occurrence cubes are built on open science principles and intended to be completely reproducible:

The input data are publicly available on GBIF, with the download DOIs listed in the related identifiers of this package.
The code to process the data to cubes is publicly available on GitHub at https://github.com/trias-project/occ-cube (version 20231120).
Files

Occurrence cubes at species level per country: filename format countrycode_species_cube.csv.
Taxonomic information for species in a cube: filename format countrycode_species_info.csv.
Included countries

Belgium (BE): based on https://doi.org/10.15468/dl.9qx3ba
Italy (IT): based on https://doi.org/10.15468/dl.jghpm5
Lithuania (LT): based on https://doi.org/10.15468/dl.duegx2
Slovenia (SI): based on https://doi.org/10.15468/dl.9eky98
Romania (RO): based on https://doi.org/10.15468/dl.b7z5vw
Portugal (PT): based on https://doi.org/10.15468/dl.b89nr4
Occurrence cubes are added on demand. To include occurrence cubes for other European countries, leave an issue or contact the main author, or generate your own cube using the code in this repository.
description: This version adds the occurrence cube for Portugal and updates the other occurrence cubes with more recent occurrence data, see datasets mentioned above and in Related works.
description: This version contains incorrect data and should not be used.