cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5281/zenodo.7438758
title: BurstDECONV, artificial datasets

description: Artificial dataset used in the paper BurstDECONV: A signal deconvolution method to uncover mechanisms of transcriptional bursting in live cells. BurstDECONV is an innovative inference method that deconvolves live cell transcription imaging data to reconstruct each polymerase initiation event. This new version includes 297 synthetic datasets simulating live transcription imaging data for 2 states and 3 states promoters with various switching rate parameters. We provide the code used for generating these datasets and for producing a revised version of Figure 4 of the paper.
DOI: 10.5281/zenodo.7438759
title: BurstDECONV, artificial datasets

description: Artificial dataset used in the paper BurstDECONV: A signal deconvolution method to uncover mechanisms of transcriptional bursting in live cells. BurstDECONV is an innovative inference method that deconvolves live cell transcription imaging data to reconstruct each polymerase initiation event. The dataset simulates live transcription imaging data for 2 states and 3 states promoters with various switching rate parameters. We also provide the code used for testing the robustness of the BurstDECONV pipeline with respect to noise, experimental artifacts and suboptimal experimental conditions.
DOI: 10.5281/zenodo.8059926
title: BurstDECONV, artificial datasets

description: Artificial dataset used in the paper BurstDECONV: A signal deconvolution method to uncover mechanisms of transcriptional bursting in live cells. BurstDECONV is an innovative inference method that deconvolves live cell transcription imaging data to reconstruct each polymerase initiation event. This new version includes 297 synthetic datasets simulating live transcription imaging data for 2 states and 3 states promoters with various switching rate parameters. We provide the code used for generating these datasets and for producing a revised version of Figure 4 of the paper.
DOI: 10.5525/gla.researchdata.1451
title: High-efficiency digitally scanned light-sheet fluorescence lifetime microscopy (DSLM-FLIM)

description: Datasets and code for DSLM-FLIM microscopy
DOI: 10.25345/c5tm72b23
title: MassIVE MSV000092216 - GNPS - Temporal secondary metabolite production in Streptomyces sp. P9-2B2
title: 10 day temporal study investigation the production of various secondary metabolites produced by Dyrehaven isolate Streptomyces sp. P9-2B2, a producer of lydicamycins.
DOI: 10.5445/ir/1000156936
title: Enguri Catalog KIT (Version 2023-03-14)

description: In the frame of the DAMAST (Dams and Seismicity) (https://www.damast-caucasus.de/) project we deployed a dense high-fidelity seismological real-time network to investigate in detail the spatio-temporal seismicity distribution around the Enguri high dam, situated in the greater Caucasus in western Georgia. We aim at recording the weak seismicity in a 10 km distance around the dam structure. We installed an 8-station local seismic network to record weak seismicity in 10 km around the dam, with good coverage and high sensitivity around Ingirishi fault segments. To lower the detection threshold by reducing the ambient background noise, we installed four seismic stations in shallow (ca. 20 m) and deep boreholes. From these stations, KIT1 with a depth of ca. 250 m is the deepest seismological station in Georgia. The network installation was performed in three main stages, October 2020, December 2020, and September 2021. The published catalog, which is a collaboration between Geophysical Institute of KIT, and M. Nodia Institute of Geophysics, I. Javakhishvili Tbilisi State University (TSU), includes preliminary processing results of 316 earthquakes occurred between October 2020 to July 2022, within the longitude range between 41.64 and 42.34, and the latitude range between 42.53 and 43. For each event, origin time, latitude, longitude, depth (km), number of stations, GAP, RMS, magnitude (if applicable) and magnitude type are given. A 1-D velocity model of the upper mantle in Caucasus and adjacent regions is employed for the location process (Murusidze., G. 1987). Pg- and Sg-phases are manually picked using SEISAN-Earthquake analysis software (Havskov and Ottemoller, 1999.) and for each event, local magnitude (Ml) is estimated using S-phase amplitude read on both horizontal components. The catalog is presented and discussed in detail in Karamzadeh et. al 2023.
DOI: 10.5281/zenodo.7523057
title: Database of physicochemical and optical properties of black carbon fractal aggregates

description: In order to estimate the climate impact of highly absorbing black carbon (BC) aerosols, it is necessary to know their optical properties. The Lorentz-Mie theory, often used to calculate the optical properties of BC under the spherical morphological assumption, produces discrepancies when compared to measurements. In light of this, researchers are currently investigating the possibility of computing the optical properties of BC using a realistic fractal aggregate morphology. To determine the optical properties of such BC fractal aggregates, the Multiple Sphere T-Matrix method (MSTM) is used, which can take more than 24 hours for a single simulation depending on the aggregate properties. This study provides a highly accurate benchmark machine-learning algorithm that can be used to generate the optical properties of BC fractal aggregate in a fraction of a second. The machine learning algorithm was trained over an extensive database of physicochemical and optical properties of BC fractal aggregates. The extensive training data helped develop an ML algorithm that can accurately predict the optical properties of BC fractal aggregates with an average deviation of less than one percent from their actual values. Specifically, the ML algorithm provides the option to generate the optical properties in the visible spectrum using either kernel ridge regression (KRR) or artificial neural networks (ANN) for a BC fractal aggregate of desired physicochemical properties like size, morphology, and organic coating. The dataset of physicochemical and optical properties of BC fractal aggregates are provided here. The developed ML algorithm for predicting the optical properties of BC fractal aggregates (https://github.com/jaikrishnap/Machine-learning-for-prediction-of-BCFAs) is highly useful for real-world applications due to its wide parameter range, high accuracy, and low computational cost. <strong>Contents</strong> database_optical_properties_black_carbon_fractal_aggregtates.csv, data file, comma-separated values database_header.txt, metadata, text <strong>Citation for the database: </strong> B., Romshoo, T., Müller, B., Patil, J., Michels, T., Kloft, M., and Pöhlker, M.: Database of physicochemical and optical properties of black<br> carbon fractal aggregates, Dataset, https://doi.org/10.5281/zenodo.7523058, 2023.
DOI: 10.57745/wjnva2
title: rpg_complete_2021_d63.zip

description: :unav
DOI: 10.57745/ejdzmi
title: Notice_RPG_complété_2021.pdf

description: :unav
DOI: 10.57745/6tfxjj
title: rpg_complete_2021_d43.zip

description: :unav
DOI: 10.57745/chmqil
title: rpg_complete_2021_d15.zip

description: :unav
DOI: 10.57745/xpzvs8
title: rpg_complete_2021_d03.zip

description: :unav
DOI: 10.5281/zenodo.7669512
title: Phenotypic resistance to pyrethroid associated to metabolic mechanism in Vgsc-L995F resistant-Anopheles gambiae malaria mosquitoes

description: Pyrethroid resistance selection was performed over 20 generations with <em>Vgsc</em>-L995F <em>Anopheles gambiae</em> Tiassalé strain. <em>Vgsc</em>-L99F-resistant <em>An. gambiae</em> larvae were exposed to a sublethal dose (killing 20% of larvae) of deltamethrin (LS) and adults to PermaNet 2.0 (AS) at a sublethal time (killing 20% of adults) and combining exposure were realized at larvae and adult stages (LAS) and compared to unexposed group (NS). World Health Organization susceptible tube test was performed at each five generation to follow the evolutionary resistance to deltamethrin. The frequency of <em>Vgsc</em>-L995F/S mutation was screened using multiplex TaqMan qPCR method. Then, expression levels of detoxification enzymes associated to pyrethroid resistance, including CYP4G16, CYP6M2, CYP6P1, CYP6P3, CYP6P4, CYP6Z1 and CYP9K1, and glutathione S-transferase GSTe2 were measured.
DOI: 10.5281/zenodo.7669513
title: Phenotypic resistance to pyrethroid associated to metabolic mechanism in Vgsc-L995F resistant-Anopheles gambiae malaria mosquitoes

description: Pyrethroid resistance selection was performed over 20 generations with <em>Vgsc</em>-L995F <em>Anopheles gambiae</em> Tiassalé strain. <em>Vgsc</em>-L99F-resistant <em>An. gambiae</em> larvae were exposed to a sublethal dose (killing 20% of larvae) of deltamethrin (LS) and adults to PermaNet 2.0 (AS) at a sublethal time (killing 20% of adults) and combining exposure were realized at larvae and adult stages (LAS) and compared to unexposed group (NS). World Health Organization susceptible tube test was performed at each five generation to follow the evolutionary resistance to deltamethrin. The frequency of <em>Vgsc</em>-L995F/S mutation was screened using multiplex TaqMan qPCR method. Then, expression levels of detoxification enzymes associated to pyrethroid resistance, including CYP4G16, CYP6M2, CYP6P1, CYP6P3, CYP6P4, CYP6Z1 and CYP9K1, and glutathione S-transferase GSTe2 were measured.
DOI: 10.5281/zenodo.8059960
title: Phenotypic resistance to pyrethroid associated to metabolic mechanism in Vgsc-L995F resistant-Anopheles gambiae malaria mosquitoes

description: Pyrethroid resistance selection was performed over 20 generations with <em>Vgsc</em>-L995F <em>Anopheles gambiae</em> Tiassalé strain. <em>Vgsc</em>-L99F-resistant <em>An. gambiae</em> larvae were exposed to a sublethal dose (killing 20% of larvae) of deltamethrin (LS) and adults to PermaNet 2.0 (AS) at a sublethal time (killing 20% of adults) and combining exposure were realized at larvae and adult stages (LAS) and compared to unexposed group (NS). World Health Organization susceptible tube test was performed at each five generation to follow the evolutionary resistance to deltamethrin. The frequency of <em>Vgsc</em>-L995F/S mutation was screened using multiplex TaqMan qPCR method. Then, expression levels of detoxification enzymes associated to pyrethroid resistance, including CYP4G16, CYP6M2, CYP6P1, CYP6P3, CYP6P4, CYP6Z1 and CYP9K1, and glutathione S-transferase GSTe2 were measured.
DOI: 10.17909/tv8j-5z09
title: GLASS-JWST source imaging data

description: These NIRCam observations from JWST programs 1324, 2561, and 2756  were used to create mosaic'd images of the cluster Abell 2744 for the GLASS-JWST High-level Science Product collection.
DOI: 10.6084/m9.figshare.13241972.v11
title: DEBBIES. A database to compare life history strategies across ectotherms.

description: Demographic models are used to explore how survival, growth and reproduction rates structure variation in life history traits (e.g., longevity, generation time, age at maturity) and strategies (pace of life and reproductive strategy) across species. This study presents the DEBBIES dataset that contains estimates of eight life history traits (length at birth, puberty and maximum length, maximum reproduction rate, fraction energy allocated to respiration versus reproduction, von Bertalanffy growth rate, juvenile and adult mortality rate) for 185 ectotherm species. The dataset can be used to parameterise dynamic energy budget integral projection models (DEB-IPMs) to calculate key demographic quantities like population growth rate and demographic resilience, but also link to conservation status, biogeographical characteristics, and evolutionary biology. Our technical validation shows a satisfactory agreement between observed and predicted longevity, generation time, age at maturity across all species. Compared to existing datasets, DEBBIES accommodates (i) easy cross-taxonomical comparisons because all DEB-IPMs have the same structure, (ii) many data-deficient species because no long-term individual data are required, and (iii) population forecasts to novel conditions because DEB-IPMs include a mechanistic description of the tradeoff between growth and reproduction. This dataset has the potential for biologists to unlock general predictions on ectotherm population responses from only a few key life history traits.
DOI: 10.4121/cfcbc641-918e-4e1e-8de5-791d4d319019
title: Data underlying the publication: Axially rigid steerable needle with compliant active tip control

description: Raw data underlying the publication: Axially rigid steerable needle with compliant active tip control.<br>Steering performance of a new developed steerable needle prototype is assessed in US-guided experiments with tissue simulants and <em style="color:rgb(32, 32, 32);">ex-vivo</em> bovine tissue. In Experiment 1 the influence of the initial insertion depth on needle steering and the endpoint precision are assessed inside a homogeneous medium (N=33). US images are recorded at 20 Hz and the set of images is segmented using constant intensity thresholding to create a point cloud containing the silhouette of the instrument. The last point on the reconstructed 3D needle shape determines the achieved lateral needle steering. In Experiment 2 steering and real-time needle guidance via US imaging evaluates endpoint accuracy of the needle in inhomogeneous tissue simulants. In Experiment 3 needle steering towards targets is executed in <em style="color:rgb(32, 32, 32);">ex-vivo</em> bovine tissue with real-time US needle tracking. This experiment evaluates adaptive needle path control during insertions and final endpoint accuracy.<br>The data includes data of the silhouette of the instrument (csv) and videos of the needle insertion (avi) for experiment 1 and 3, photos of the endpoints of the inserted needle (jpg) for experiment 2, and data analysis for the X, Y, and Z-coordinates (xlsx).
DOI: 10.4121/cfcbc641-918e-4e1e-8de5-791d4d319019.v1
title: Data underlying the publication: Axially rigid steerable needle with compliant active tip control

description: Raw data underlying the publication: Axially rigid steerable needle with compliant active tip control.<br>Steering performance of a new developed steerable needle prototype is assessed in US-guided experiments with tissue simulants and <em style="color:rgb(32, 32, 32);">ex-vivo</em> bovine tissue. In Experiment 1 the influence of the initial insertion depth on needle steering and the endpoint precision are assessed inside a homogeneous medium (N=33). US images are recorded at 20 Hz and the set of images is segmented using constant intensity thresholding to create a point cloud containing the silhouette of the instrument. The last point on the reconstructed 3D needle shape determines the achieved lateral needle steering. In Experiment 2 steering and real-time needle guidance via US imaging evaluates endpoint accuracy of the needle in inhomogeneous tissue simulants. In Experiment 3 needle steering towards targets is executed in <em style="color:rgb(32, 32, 32);">ex-vivo</em> bovine tissue with real-time US needle tracking. This experiment evaluates adaptive needle path control during insertions and final endpoint accuracy.<br>The data includes data of the silhouette of the instrument (csv) and videos of the needle insertion (avi) for experiment 1 and 3, photos of the endpoints of the inserted needle (jpg) for experiment 2, and data analysis for the X, Y, and Z-coordinates (xlsx).
DOI: 10.17028/rd.lboro.23523975
title: Supplementary information files for Sedentary behaviour, but not moderate-to-vigorous physical activity, is associated with respiratory responses to acute psychological stress

description: Supplementary files for article Sedentary behaviour, but not moderate-to-vigorous physical activity, is associated with respiratory responses to acute psychological stress Background Acute psychological stress induces respiratory responses, and stress-induced respiratory changes can be used to non-invasively reflect metabolic regulation. Respiratory and cardiovascular responses to stress are both driven by sympathetic mechanisms. Higher volumes of sedentary behaviour and lower volumes of physical activity are associated with elevated sympathetic tone and larger cardiovascular responses to stress. The aim of this study was to test whether these associations translate to measures of respiratory stress reactivity. Methods Daily hours of sedentary behaviour (thigh-mounted activPAL) and moderate-to-vigorous physical activity (MVPA; wrist-mounted ActiGraph) were assessed across seven days. Breath-by-breath respiratory (e.g., breathing frequency [BF], end-tidal carbon dioxide partial pressure [PetCO2], carbon dioxide output [V̇CO2] and respiratory exchange ratio [RER]) responses to an 8-min Paced Auditory Serial Addition Test were then measured using a Cortex MetaLyzer3B. Results Healthy participants (N = 61, mean age ± SD = 25.7 ± 8.9 years) recorded high volumes of sedentary behaviour (9.96 ± 1.48 hours/day) and MVPA (1.70 ± 0.71 hours/day). In adjusted models (with the inclusion of sedentary behaviour, MVPA, and other a priori selected covariates) hours of daily sedentary behaviour were associated with baseline to stress changes in BF (Β = 0.695, 95% CI = 0.281 — 1.109, p =.014), VT (Β = -0.042, 95% CI = -0.058 — -0.026, p =.014), PetCO2 (Β = -0.537, 95% CI = -0.829 — -0.245, p =.014), V̇CO2 (Β = -0.008, 95% CI = -0.014 — -0.003, p =.030), and RER (Β = -0.013, 95% CI = -0.021 — -0.005, p =.022). Daily hours of MVPA were not linked with respiratory responses to stress. Discussion Sedentary behaviour, but not MVPA, is associated with respiratory stress reactivity. Future work should untangle the underlying mechanisms of these findings and explore the consequences for cardiometabolic disease.
DOI: 10.17028/rd.lboro.23523975.v1
title: Supplementary information files for Sedentary behaviour, but not moderate-to-vigorous physical activity, is associated with respiratory responses to acute psychological stress

description: Supplementary files for article Sedentary behaviour, but not moderate-to-vigorous physical activity, is associated with respiratory responses to acute psychological stress Background Acute psychological stress induces respiratory responses, and stress-induced respiratory changes can be used to non-invasively reflect metabolic regulation. Respiratory and cardiovascular responses to stress are both driven by sympathetic mechanisms. Higher volumes of sedentary behaviour and lower volumes of physical activity are associated with elevated sympathetic tone and larger cardiovascular responses to stress. The aim of this study was to test whether these associations translate to measures of respiratory stress reactivity. Methods Daily hours of sedentary behaviour (thigh-mounted activPAL) and moderate-to-vigorous physical activity (MVPA; wrist-mounted ActiGraph) were assessed across seven days. Breath-by-breath respiratory (e.g., breathing frequency [BF], end-tidal carbon dioxide partial pressure [PetCO2], carbon dioxide output [V̇CO2] and respiratory exchange ratio [RER]) responses to an 8-min Paced Auditory Serial Addition Test were then measured using a Cortex MetaLyzer3B. Results Healthy participants (N = 61, mean age ± SD = 25.7 ± 8.9 years) recorded high volumes of sedentary behaviour (9.96 ± 1.48 hours/day) and MVPA (1.70 ± 0.71 hours/day). In adjusted models (with the inclusion of sedentary behaviour, MVPA, and other a priori selected covariates) hours of daily sedentary behaviour were associated with baseline to stress changes in BF (Β = 0.695, 95% CI = 0.281 — 1.109, p =.014), VT (Β = -0.042, 95% CI = -0.058 — -0.026, p =.014), PetCO2 (Β = -0.537, 95% CI = -0.829 — -0.245, p =.014), V̇CO2 (Β = -0.008, 95% CI = -0.014 — -0.003, p =.030), and RER (Β = -0.013, 95% CI = -0.021 — -0.005, p =.022). Daily hours of MVPA were not linked with respiratory responses to stress. Discussion Sedentary behaviour, but not MVPA, is associated with respiratory stress reactivity. Future work should untangle the underlying mechanisms of these findings and explore the consequences for cardiometabolic disease.
DOI: 10.5282/ubm/data.386
title: Dog assisted education in children with rheumatic diseases and adolescents with chronic pain in Germany

description: Objectives: Animal assisted intervention is an increasingly accepted tool to improve human well-being. The present study was performed to assess whether dog assisted education has a positive effect on children suffering from rheumatic disorders with pain and adolescents with chronic pain syndrome. Design: Two groups of juvenile patients were recruited: 7-17-year-old children in children with rheumatic diseases and adolescents with chronic pain syndromes. Overall, n=26 participated in the intervention, and n=29 in the control group. Setting: The intervention group met once a month, 12 times overall, for working with man trailing dogs in various locations. Main outcome measures: The influence of dog assisted education on quality of life (PedsQLTM Scoring Algorithm), pain intensity, perception, coping (Paediatric Pain Coping Inventory-Revised), and state anxiety (State Trait Anxiety Inventory) was assessed. Results: The quality of life increased significantly in the investigated period, but for both, the intervention and the control group. The state anxiety of children was lower after the dog assisted education than before. After the dog training sessions, state anxiety was 18% to 30% lower than before the intervention. Some participants noted subjectively improved pain coping and changes in pain perception, which were not found in the data. Conclusion: Our results indicate that for children with rheumatic diseases and adolescents with chronic pain syndromes dog assisted education (1) might lead to an increase of the quality of life (2) leads to decreased state anxiety from pre to post intervention and (3) does not influence pain perception, frequency and intensity.
DOI: 10.5281/zenodo.8060054
title: Ocean iron fertilisation may amplify climate change pressures on marine animal biomass for limited climate benefit

description: Model output to support Global Change Biology paper: Ocean iron fertilisation may amplify climate change pressures on marine animal biomass for limited climate benefit
DOI: 10.5281/zenodo.8060053
title: Ocean iron fertilisation may amplify climate change pressures on marine animal biomass for limited climate benefit

description: Model output to support Global Change Biology paper: Ocean iron fertilisation may amplify climate change pressures on marine animal biomass for limited climate benefit