cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.24501708.v1
title: Berries-Gut Microbiota Interaction and Impact on Human Health: A Systematic Review of Randomized Controlled Trials

description: Berries represent an important source of bioactive compounds, among which, (poly)phenols are the main constituents. (Poly)phenols have been shown to have important biological activities and in particular, to take a relevant role in mediating the modulation of gut microbiota and human health. Gut microbiota constitute significant players in the metabolism of ingested (poly)phenols and consequently in their biological effects. However, the evidence regarding the mutual contribution between (poly)phenol intake and gut microbiota activity in humans is still unclear. The aim of the current systematic review was to collect and assess results from randomized clinical trials addressing the role of berries in the modulation of the gut microbiota composition and how this can contribute to the metabolism of berry (poly)phenols. When information was available, the interaction of berry-gut microbiota on human health was evaluated. A total of 16 trials were included and analyzed. Overall, berries and their (poly)phenols could represent a driver for the modulation of intestinal microbes. The gut microbiota catabolize (poly)phenols by producing bioactive metabolites which can positively affect both the composition of commensal microbiota and also the host health.
DOI: 10.6084/m9.figshare.24580653
title: Lead in Leafy Vegetables from Organic and Conventional Production Systems: Systematic Review and Meta-Analysis

description: Lead (Pb) is one the 10 chemicals of major public health concern listed by the World Health Organization. One reason for Pb occurrence in food is agricultural practices. In this context, organic production systems are highlighted for not using pesticides, which may result in less chemical contamination in food. Considering that, this systematic review (SR) and meta-analysis was conducted aiming to investigate if there are differences in Pb levels in organic (OLV) and conventional leafy vegetables (CLV). This SR and its protocol (PROSPERO CRD42022306048) were based on PRISMA. Only analytical, cross-sectional studies which reported data on the analysis of Pb in OLV and CLV were included. Searches were conducted in 12 electronic databases besides manual searches in articles, directory, and archives of thesis and dissertations. No restrictions regarding language or publication period were applied. After the selection stages, 24 studies were included, of which 22 (91.67%) presented low risk of bias, while two (8.33%) presented medium risk. Significant difference (<i>p</i> = 0.008) was observed in the meta-analysis considering results in fresh weight (mean difference = 0.01 mg/kg), indicating an inferior concentration of Pb in OLV, being classified as evidence of ‘moderate certainty’, which answers our research question.
DOI: 10.6084/m9.figshare.24580653.v1
title: Lead in Leafy Vegetables from Organic and Conventional Production Systems: Systematic Review and Meta-Analysis

description: Lead (Pb) is one the 10 chemicals of major public health concern listed by the World Health Organization. One reason for Pb occurrence in food is agricultural practices. In this context, organic production systems are highlighted for not using pesticides, which may result in less chemical contamination in food. Considering that, this systematic review (SR) and meta-analysis was conducted aiming to investigate if there are differences in Pb levels in organic (OLV) and conventional leafy vegetables (CLV). This SR and its protocol (PROSPERO CRD42022306048) were based on PRISMA. Only analytical, cross-sectional studies which reported data on the analysis of Pb in OLV and CLV were included. Searches were conducted in 12 electronic databases besides manual searches in articles, directory, and archives of thesis and dissertations. No restrictions regarding language or publication period were applied. After the selection stages, 24 studies were included, of which 22 (91.67%) presented low risk of bias, while two (8.33%) presented medium risk. Significant difference (<i>p</i> = 0.008) was observed in the meta-analysis considering results in fresh weight (mean difference = 0.01 mg/kg), indicating an inferior concentration of Pb in OLV, being classified as evidence of ‘moderate certainty’, which answers our research question.
DOI: 10.6084/m9.figshare.27604534
title: Space-time extremes of severe US thunderstorm environments

description: Severe thunderstorms cause substantial economic and human losses in the United States. Simultaneous high values of convective available potential energy (CAPE) and storm relative helicity (SRH) are favorable to severe weather, and both they and the composite variable PROD=CAPE×SRH can be used as indicators of severe thunderstorm activity. Their extremal spatial dependence exhibits temporal non-stationarity due to seasonality and large-scale atmospheric signals such as El Niño-Southern Oscillation (ENSO). In order to investigate this, we introduce a space-time model based on a max-stable, Brown–Resnick, field whose range depends on ENSO and on time through a tensor product spline. We also propose a max-stability test based on empirical likelihood and the bootstrap. The marginal and dependence parameters must be estimated separately owing to the complexity of the model, and we develop a bootstrap-based model selection criterion that accounts for the marginal uncertainty when choosing the dependence model. In the case study, the out-sample performance of our model is good. We find that extremes of PROD, CAPE and SRH are generally more localized in summer and, in some regions, less localized during El Niño and La Niña events, and give meteorological interpretations of these phenomena.
DOI: 10.5281/zenodo.13890862
title: Index of Datasets: Dynamic representation of appetitive and aversive stimuli in nucleus accumbens shell D1- and D2-medium spiny neurons

description: Dataset Title: Dynamic representation of appetitive and aversive stimuli in nucleus accumbens shell D1- and D2-medium spiny neurons

Authors: Ana Verónica Domingues, Tawan T. A. Carvalho, Gabriela J. Martins, Raquel Correia, Bárbara Coimbra, Ricardo Gonçalves, Marcelina Wezik, Rita Gaspar, Luísa Pinto, Nuno Sousa, Rui M. Costa, Carina Soares-Cunha & Ana João Rodrigues.

LAB: Reward & Aversion Lab (https://reward-aversion.org/)Address: Life and Health Sciences Research Institute (ICVS), Campus de Gualtar, 4710-057 Braga, Portugal.

Summary: This dataset contains single cell calcium imaging recordings of D1- and D2-MSNs in the nucleus accumbens shell of freely-moving mice during an appetitive and aversive Pavlovian conditioning protocol. The data was collected using one-photon microscopy and processed with CaImAn and IDPS software. The data can be used to study the differential response of D1- and D2-MSNs to conditioned stimulus (e.g. predictive cues) and unconditioned stimuli (e.g. sucrose, condensed milk, tail lift and foot-shock).

Keywords: single cell calcium imaging, pavlovian conditioning, D1-MSNs, D2-MSNs, nucleus accumbens, mice, appetitive and aversive conditioning.

Dataset Components:

1. Appetitive conditioning - Days 1 to 3   DOI: 10.5281/zenodo.10688739

2. Appetitive conditioning - Days 4 to 6   DOI: 10.5281/zenodo.10694889

3. Appetitive conditioning - Days 7 and 10   DOI: 10.5281/zenodo.10779637

4. Fear conditioning - Days 1 to 3   DOI: 10.5281/zenodo.11547656

5. US exposures   DOI: 10.5281/zenodo.11644255

6. Omission   DOI: 10.5281/zenodo.12676161

7. Extinction   DOI: 10.5281/zenodo.12826917

Each component can be accessed using the provided DOI. For more information on each dataset, please visit the respective Zenodo repository page.

For questions or further information, please contact us: carinacunha@med.uminho.pt, ajrodrigues@med.uminho.pt
DOI: 10.5281/zenodo.13890863
title: Index of Datasets: Dynamic representation of appetitive and aversive stimuli in nucleus accumbens shell D1- and D2-medium spiny neurons

description: Dataset Title: Dynamic representation of appetitive and aversive stimuli in nucleus accumbens shell D1- and D2-medium spiny neurons

Authors: Ana Verónica Domingues, Tawan T. A. Carvalho, Gabriela J. Martins, Raquel Correia, Bárbara Coimbra, Ricardo Gonçalves, Marcelina Wezik, Rita Gaspar, Luísa Pinto, Nuno Sousa, Rui M. Costa, Carina Soares-Cunha & Ana João Rodrigues.

LAB: Reward & Aversion Lab (https://reward-aversion.org/)Address: Life and Health Sciences Research Institute (ICVS), Campus de Gualtar, 4710-057 Braga, Portugal.

Summary: This dataset contains single cell calcium imaging recordings of D1- and D2-MSNs in the nucleus accumbens shell of freely-moving mice during an appetitive and aversive Pavlovian conditioning protocol. The data was collected using one-photon microscopy and processed with CaImAn and IDPS software. The data can be used to study the differential response of D1- and D2-MSNs to conditioned stimulus (e.g. predictive cues) and unconditioned stimuli (e.g. sucrose, condensed milk, tail lift and foot-shock).

Keywords: single cell calcium imaging, pavlovian conditioning, D1-MSNs, D2-MSNs, nucleus accumbens, mice, appetitive and aversive conditioning.

Dataset Components:

1. Appetitive conditioning - Days 1 to 3   DOI: 10.5281/zenodo.10688739

2. Appetitive conditioning - Days 4 to 6   DOI: 10.5281/zenodo.10694889

3. Appetitive conditioning - Days 7 and 10   DOI: 10.5281/zenodo.10779637

4. Fear conditioning - Days 1 to 3   DOI: 10.5281/zenodo.11547656

5. US exposures   DOI: 10.5281/zenodo.11644255

6. Omission   DOI: 10.5281/zenodo.12676161

7. Extinction   DOI: 10.5281/zenodo.12826917

Each component can be accessed using the provided DOI. For more information on each dataset, please visit the respective Zenodo repository page.

For questions or further information, please contact us: carinacunha@med.uminho.pt, ajrodrigues@med.uminho.pt
DOI: 10.5281/zenodo.12826916
title: Extinction

description: This dataset contains single cell calcium imaging recordings of D1- and D2-MSNs in the nucleus accumbens shell of freely-moving mice during an appetitive and aversive Pavlovian conditioning protocol. The data was collected using one-photon microscopy and processed with CaImAn and IDPS software. The data can be used to study the differential response of D1- and D2-MSNs to conditioned stimulus (e.g. predictive cues) and unconditioned stimuli (e.g. sucrose, condensed milk, tail lift and foot-shock). Read the "metadata" files for more information.
DOI: 10.5281/zenodo.12826917
title: Extinction

description: This dataset contains single cell calcium imaging recordings of D1- and D2-MSNs in the nucleus accumbens shell of freely-moving mice during an appetitive and aversive Pavlovian conditioning protocol. The data was collected using one-photon microscopy and processed with CaImAn and IDPS software. The data can be used to study the differential response of D1- and D2-MSNs to conditioned stimulus (e.g. predictive cues) and unconditioned stimuli (e.g. sucrose, condensed milk, tail lift and foot-shock). Read the "metadata" files for more information.
DOI: 10.5281/zenodo.12676160
title: Omission

description: This dataset contains single cell calcium imaging recordings of D1- and D2-MSNs in the nucleus accumbens shell of freely-moving mice during an appetitive and aversive Pavlovian conditioning protocol. The data was collected using one-photon microscopy and processed with CaImAn and IDPS software. The data can be used to study the differential response of D1- and D2-MSNs to conditioned stimulus (e.g. predictive cues) and unconditioned stimuli (e.g. sucrose, condensed milk, tail lift and foot-shock). Read the "metadata" files for more information.
DOI: 10.5281/zenodo.12676161
title: Omission

description: This dataset contains single cell calcium imaging recordings of D1- and D2-MSNs in the nucleus accumbens shell of freely-moving mice during an appetitive and aversive Pavlovian conditioning protocol. The data was collected using one-photon microscopy and processed with CaImAn and IDPS software. The data can be used to study the differential response of D1- and D2-MSNs to conditioned stimulus (e.g. predictive cues) and unconditioned stimuli (e.g. sucrose, condensed milk, tail lift and foot-shock). Read the "metadata" files for more information.
DOI: 10.15468/dl.qpbddt
title: Occurrence Download

description: A dataset containing 110 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is South Africa",
 "Geometry POLYGON((30.35567 -26.1035,32.10138 -26.1035,32.10138 -22.3162,30.35567 -22.3162,30.35567 -26.1035))",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Phragmites Adans."
 ]
}

 The dataset includes 110 records from 5 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0020715-241024112534372/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.10779636
title: Appetitive conditioning - Days 7 and 10

description: This dataset contains single cell calcium imaging recordings of D1- and D2-MSNs in the nucleus accumbens shell of freely-moving mice during an appetitive and aversive Pavlovian conditioning protocol. The data was collected using one-photon microscopy and processed with CaImAn and IDPS software. The data can be used to study the differential response of D1- and D2-MSNs to conditioned stimulus (e.g. predictive cues) and unconditioned stimuli (e.g. sucrose, condensed milk, tail lift and foot-shock). Read the "metadata" files for more information.
DOI: 10.5281/zenodo.10779637
title: Appetitive conditioning - Days 7 and 10

description: This dataset contains single cell calcium imaging recordings of D1- and D2-MSNs in the nucleus accumbens shell of freely-moving mice during an appetitive and aversive Pavlovian conditioning protocol. The data was collected using one-photon microscopy and processed with CaImAn and IDPS software. The data can be used to study the differential response of D1- and D2-MSNs to conditioned stimulus (e.g. predictive cues) and unconditioned stimuli (e.g. sucrose, condensed milk, tail lift and foot-shock). Read the "metadata" files for more information.
DOI: 10.5281/zenodo.11547655
title: Fear conditioning - Days 1 - 3

description: This dataset contains single cell calcium imaging recordings of D1- and D2-MSNs in the nucleus accumbens shell of freely-moving mice during an appetitive and aversive Pavlovian conditioning protocol. The data was collected using one-photon microscopy and processed with CaImAn and IDPS software. The data can be used to study the differential response of D1- and D2-MSNs to conditioned stimulus (e.g. predictive cues) and unconditioned stimuli (e.g. sucrose, condensed milk, tail lift and foot-shock). Read the "metadata" files for more information.
DOI: 10.5281/zenodo.11547656
title: Fear conditioning - Days 1 - 3

description: This dataset contains single cell calcium imaging recordings of D1- and D2-MSNs in the nucleus accumbens shell of freely-moving mice during an appetitive and aversive Pavlovian conditioning protocol. The data was collected using one-photon microscopy and processed with CaImAn and IDPS software. The data can be used to study the differential response of D1- and D2-MSNs to conditioned stimulus (e.g. predictive cues) and unconditioned stimuli (e.g. sucrose, condensed milk, tail lift and foot-shock). Read the "metadata" files for more information.
DOI: 10.5281/zenodo.11644254
title: US exposures

description: This dataset contains single cell calcium imaging recordings of D1- and D2-MSNs in the nucleus accumbens shell of freely-moving mice during an appetitive and aversive Pavlovian conditioning protocol. The data was collected using one-photon microscopy and processed with CaImAn and IDPS software. The data can be used to study the differential response of D1- and D2-MSNs to conditioned stimulus (e.g. predictive cues) and unconditioned stimuli (e.g. sucrose, condensed milk, tail lift and foot-shock). Read the "metadata" files for more information.
DOI: 10.5281/zenodo.11644255
title: US exposures

description: This dataset contains single cell calcium imaging recordings of D1- and D2-MSNs in the nucleus accumbens shell of freely-moving mice during an appetitive and aversive Pavlovian conditioning protocol. The data was collected using one-photon microscopy and processed with CaImAn and IDPS software. The data can be used to study the differential response of D1- and D2-MSNs to conditioned stimulus (e.g. predictive cues) and unconditioned stimuli (e.g. sucrose, condensed milk, tail lift and foot-shock). Read the "metadata" files for more information.
DOI: 10.5281/zenodo.10694888
title: Appetitive conditioning - Days 4 to 6

description: This dataset contains single cell calcium imaging recordings of D1- and D2-MSNs in the nucleus accumbens shell of freely-moving mice during an appetitive and aversive Pavlovian conditioning protocol. The data was collected using one-photon microscopy and processed with CaImAn and IDPS software. The data can be used to study the differential response of D1- and D2-MSNs to conditioned stimulus (e.g. predictive cues) and unconditioned stimuli (e.g. sucrose, condensed milk, tail lift and foot-shock). Read the "metadata" files for more information.
DOI: 10.5281/zenodo.10694889
title: Appetitive conditioning - Days 4 to 6

description: This dataset contains single cell calcium imaging recordings of D1- and D2-MSNs in the nucleus accumbens shell of freely-moving mice during an appetitive and aversive Pavlovian conditioning protocol. The data was collected using one-photon microscopy and processed with CaImAn and IDPS software. The data can be used to study the differential response of D1- and D2-MSNs to conditioned stimulus (e.g. predictive cues) and unconditioned stimuli (e.g. sucrose, condensed milk, tail lift and foot-shock). Read the "metadata" files for more information.
DOI: 10.5281/zenodo.10688738
title: Appetitive conditioning - Days 1 to 3

description: This dataset contains single cell calcium imaging recordings of D1- and D2-MSNs in the nucleus accumbens shell of freely-moving mice during an appetitive and aversive Pavlovian conditioning protocol. The data was collected using one-photon microscopy and processed with CaImAn and IDPS software. The data can be used to study the differential response of D1- and D2-MSNs to conditioned stimulus (e.g. predictive cues) and unconditioned stimuli (e.g. sucrose, condensed milk, tail lift and foot-shock). Read the "metadata" files for more information.
DOI: 10.5281/zenodo.10688739
title: Appetitive conditioning - Days 1 to 3

description: This dataset contains single cell calcium imaging recordings of D1- and D2-MSNs in the nucleus accumbens shell of freely-moving mice during an appetitive and aversive Pavlovian conditioning protocol. The data was collected using one-photon microscopy and processed with CaImAn and IDPS software. The data can be used to study the differential response of D1- and D2-MSNs to conditioned stimulus (e.g. predictive cues) and unconditioned stimuli (e.g. sucrose, condensed milk, tail lift and foot-shock). Read the "metadata" files for more information.
DOI: 10.5281/zenodo.14033655
title: Linkoeping Performance data
DOI: 10.5281/zenodo.14033656
title: Linkoeping Performance data
DOI: 10.15468/dl.ghwvtc
title: Occurrence Download

description: A dataset containing 1706 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is University of Amsterdam (NL) - Páramo pollen reference collection"
 ]
}

 The dataset includes 1706 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0020716-241024112534372/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.u7c8yf
title: Occurrence Download

description: A dataset listing the 2015 species recorded in GBIF matching the query:
{
 "and" : [
 "Country is Luxembourg",
 "Geometry POLYGON((5.7459 49.89113,5.83052 49.89113,5.83052 49.94451,5.7459 49.94451,5.7459 49.89113))",
 "HasGeospatialIssue is false"
 ]
}

 The dataset's 2015 records were derived from 32 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0020714-241024112534372/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.14033748
title: Madrid Performance data (1)
DOI: 10.5281/zenodo.14033749
title: Madrid Performance data (1)
DOI: 10.4121/d6e04156-f9a3-4235-bb57-a6620b1a100b
title: Data underlying the publication: Fermentative Substrates in Aerobic Granular Sludge

description: This is the research data related to the manuscript titled: Fermentative Substrates in Aerobic Granular Sludge. The objective of the research was to address key questions related to the knowledge gaps in AGS literature such as conversions, microbial community dynamics, granule formation and stability with fermentative substrates. This was done by long-term evaluation of bubble column bioreactors under various operational conditions and by conducting numerous analytical measurements and cycle studies.
DOI: 10.4121/d6e04156-f9a3-4235-bb57-a6620b1a100b.v1
title: Data underlying the publication: Fermentative Substrates in Aerobic Granular Sludge

description: This is the research data related to the manuscript titled: Fermentative Substrates in Aerobic Granular Sludge. The objective of the research was to address key questions related to the knowledge gaps in AGS literature such as conversions, microbial community dynamics, granule formation and stability with fermentative substrates. This was done by long-term evaluation of bubble column bioreactors under various operational conditions and by conducting numerous analytical measurements and cycle studies.
DOI: 10.15468/dl.tbzqam
title: Occurrence Download

description: A dataset containing 5929 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Aegiceras Gaertn."
 ]
}

 The dataset includes 5929 records from 113 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0020717-241024112534372/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.10285647
title: Aligning Data Management Plans with Community Standards using FAIR Implementation Profiles

description: Here you can find the files corresponding to our submission titled 'Aligning DMPs with Community Standards using FIPs'.

- VU DMP template and the mapping is included in the folder /VU-DMP-template-and-mapping

- All the FAIR Implementation Profiles are included in the folder /FIPs.

- The knowledge model we created for the project, and a small demo of the interface are in the folder /KM-and-demo.

- The folder /user-study consists of the following:

  a) The mock DMPs we provided to the participants of this research are in /mock_DMPs.

  b) We downloaded the resulting DMPs after participants completed their DMPs, they are in the folder /resulting_DMPs.

  c) Survey results can be found in the folder /survey_results.

  d) Some Python scripts were used for the analysis of the survey results. They are in the folder /Python_script_for_analysis.

The project is open source under the license CC-BY 4.0.

Contact: Shuai Wang (shuai.wang@vu.nl)