cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5281/zenodo.4778986
title: BIBLIOTECONOMIA NO CONTEXTO DA E-SCIENCE: a formação do(a) bibliotecário(a) de dados em instituições de ensino superior brasileiras

description: A profissão do bibliotecário surge de atividades como organizar, representar e disseminar informações, e a Ciência da Informação surge dessa mesma necessidade expandida, após o evidenciado aumento exponencial de informação no pós-guerra. Os dados científicos existem desde o surgimento da ciência e a organização desses dados para uso por outros pesquisadores já foi verificado no século XVI. Porém, essa preocupação em organizá-los e disseminá-los se intensifica com o surgimento da e-Science, e está intimamente ligado com a profissão do Bibliotecário. Este trabalho tem como objetivo analisar a formação do bibliotecário com enfoque em uma formação direcionada ao bibliotecário de dados, no contexto da e-Science, no Brasil. Para o alcance deste objetivo, delineou-se os seguintes objetivos específicos: Discutir o surgimento e consolidação da e-Science; Identificar o perfil do bibliotecário de dados no contexto da Ciência de Dados; Analisar os currículos dos cursos de Graduação em Biblioteconomia no Brasil; e, Apontar o panorama de formação dos cursos de Biblioteconomia frente às demandas informacionais no contexto da e-Science. Trata-se de uma pesquisa documental, de natureza qualitativa, que analisará os projetos políticos pedagógicos dos cursos de Biblioteconomia, e utilizará a técnica de Análise de Conteúdo para identificar nos seus respectivos conteúdos de formação, elementos que caracterizem as competências do profissional no contexto da e-Science, com base nos estudos desenvolvidos por Sales, Sayão, Maranhão, Drumond e Silva (2019). Busca-se como resultado um panorama da formação do bibliotecário no país e a atualização dessa formação frente às demandas informacionais do mundo do trabalho.
DOI: 10.5281/zenodo.13378121
title: Data and code for: A naturally occurring mitochondrial genome variant confers broad protection from infection in Drosophila (doi: https://doi.org/10.1101/2024.03.28.587162)

description:  Raw data and R code for:

Tiina S. Salminen, Laura Vesala,  Yuliya Basikhina, Megan Kutzer, Tea Tuomela, Ryan Lucas, Katy Monteith, Arun Prakash, Tilman Tietz and Pedro F. Vale. A naturally occurring mitochondrial genome variant confers broad protection from infection in Drosophila  (doi: https://doi.org/10.1101/2024.03.28.587162)

 

Data files:

CFU_stats.R: statistics for CFU data

Prettgeri_CFU.csv: colony forming units (CFUs) in P. rettgeri-infected flies

Saureus_CFU.csv: colony forming units (CFUs) in S. aureus-infected flies

 

gene exp_mitotypes-stats.R: statistics for the qPCR data

gene exp_mitotypes.csv: data on the relative gene expression of FucTC, AANATL3, Acp1 and CG3397 among mitotypes

 

copynumber_stats.R: statistics for the copynumber data

copynumber.csv: Mitochondrial copy number as copies of the mtDNA target gene 16S relative to nuclear target gene RpL32 

 

respirometry_stats.R: statistics for the respirometry data

respirometry.csv: Mitochondrial respiration measured in uninfected male flies by measuring oxygen consumption of the OXPHOS complexes I, III and IV

 

ROS_stats.R: statistics for ROS

ROS.csv: hydrogen peroxide (H2O2) quantification (whole flies)

 

wasp_stats.R: Statistics on the proportion of melanised and unmelanised wasp larvae

Wasps_data.csv: Data on proportion of melanised (killed) and unmelanised (living) L. boulardi parasitoid wasp larvae found in Drosophila larvae

 

CC_stats.R: statistics on crystal cell counts

CC.csv: amount of hemocytes called crystal cell in the larvae

 

HC_stats.R: statistics on hemocyte counts

hc_uninf.csv: total and activated hemocyte (blood cell) counts in uninfected larvae

hc_inf.csv: total and activated hemocyte (blood cell) counts in infected larvae (48 h after infection by L. boulardi parasitoid wasps)

 

PPO3.R: statistics on PPO3 expression levels

PPO3.csv: data on gene expression level of prophenoloxidase (PPO3)

 

MMP.R: statistics on MMP

cybridMMP.csv: mitochondrial membrane potential (MMP) measured from larval hemocytes using the TMRM dye

 

CellROX.R: statistics on CellROXTM signal

CellROX.csv: Reactive oxygen species (ROS) measured from larval hemocytes using CellROXTM green reagent

 

Hazard.Rmd: hazard ratios

Combined.xlsx: data on hazard ratios Hazard ratios of survival post P. rettgeri, S. aureus, Kallithea and DCVinfections

 

Mito_priming.R: Statistics on the effect of priming

mito_priming.csv: data on the effect of immune priming with heat-killed bacteria prior to infection

 

hc_stats_supplementary.R: statistics for sex-specific differences in hemocyte counts (data: hc_uninf.csv & hc_inf.csv )

PI_hc_stats.R: statistics on dead (Propidium iodide, PI-positive) vs. living (PI-negative) larval hemocytes (data: hc_uninf.csv & hc_inf.csv )

 

melanisation_stats.R: statistics on melanisation response

melanisation_males.csv: melanisation response in hemolymph
DOI: 10.5281/zenodo.13378120
title: Data and code for: A naturally occurring mitochondrial genome variant confers broad protection from infection in Drosophila (doi: https://doi.org/10.1101/2024.03.28.587162)

description:  Raw data and R code for:

Tiina S. Salminen, Laura Vesala,  Yuliya Basikhina, Megan Kutzer, Tea Tuomela, Ryan Lucas, Katy Monteith, Arun Prakash, Tilman Tietz and Pedro F. Vale. A naturally occurring mitochondrial genome variant confers broad protection from infection in Drosophila  (doi: https://doi.org/10.1101/2024.03.28.587162)

 

Data files:

CFU_stats.R: statistics for CFU data

Prettgeri_CFU.csv: colony forming units (CFUs) in P. rettgeri-infected flies

Saureus_CFU.csv: colony forming units (CFUs) in S. aureus-infected flies

 

gene exp_mitotypes-stats.R: statistics for the qPCR data

gene exp_mitotypes.csv: data on the relative gene expression of FucTC, AANATL3, Acp1 and CG3397 among mitotypes

 

copynumber_stats.R: statistics for the copynumber data

copynumber.csv: Mitochondrial copy number as copies of the mtDNA target gene 16S relative to nuclear target gene RpL32 

 

respirometry_stats.R: statistics for the respirometry data

respirometry.csv: Mitochondrial respiration measured in uninfected male flies by measuring oxygen consumption of the OXPHOS complexes I, III and IV

 

ROS_stats.R: statistics for ROS

ROS.csv: hydrogen peroxide (H2O2) quantification (whole flies)

 

wasp_stats.R: Statistics on the proportion of melanised and unmelanised wasp larvae

Wasps_data.csv: Data on proportion of melanised (killed) and unmelanised (living) L. boulardi parasitoid wasp larvae found in Drosophila larvae

 

CC_stats.R: statistics on crystal cell counts

CC.csv: amount of hemocytes called crystal cell in the larvae

 

HC_stats.R: statistics on hemocyte counts

hc_uninf.csv: total and activated hemocyte (blood cell) counts in uninfected larvae

hc_inf.csv: total and activated hemocyte (blood cell) counts in infected larvae (48 h after infection by L. boulardi parasitoid wasps)

 

PPO3.R: statistics on PPO3 expression levels

PPO3.csv: data on gene expression level of prophenoloxidase (PPO3)

 

MMP.R: statistics on MMP

cybridMMP.csv: mitochondrial membrane potential (MMP) measured from larval hemocytes using the TMRM dye

 

CellROX.R: statistics on CellROXTM signal

CellROX.csv: Reactive oxygen species (ROS) measured from larval hemocytes using CellROXTM green reagent

 

Hazard.Rmd: hazard ratios

Combined.xlsx: data on hazard ratios Hazard ratios of survival post P. rettgeri, S. aureus, Kallithea and DCVinfections

 

Mito_priming.R: Statistics on the effect of priming

mito_priming.csv: data on the effect of immune priming with heat-killed bacteria prior to infection

 

hc_stats_supplementary.R: statistics for sex-specific differences in hemocyte counts (data: hc_uninf.csv & hc_inf.csv )

PI_hc_stats.R: statistics on dead (Propidium iodide, PI-positive) vs. living (PI-negative) larval hemocytes (data: hc_uninf.csv & hc_inf.csv )

 

melanisation_stats.R: statistics on melanisation response

melanisation_males.csv: melanisation response in hemolymph
DOI: 10.5281/zenodo.14162508
title: Data and code for: A naturally occurring mitochondrial genome variant confers broad protection from infection in Drosophila (doi: https://doi.org/10.1101/2024.03.28.587162)

description:  Raw data and R code for:

Tiina S. Salminen, Laura Vesala,  Yuliya Basikhina, Megan Kutzer, Tea Tuomela, Ryan Lucas, Katy Monteith, Arun Prakash, Tilman Tietz and Pedro F. Vale. A naturally occurring mitochondrial genome variant confers broad protection from infection in Drosophila  (doi: https://doi.org/10.1101/2024.03.28.587162)

 

Data files:

CFU_stats.R: statistics for CFU data

Prettgeri_CFU.csv: colony forming units (CFUs) in P. rettgeri-infected flies

Saureus_CFU.csv: colony forming units (CFUs) in S. aureus-infected flies

 

gene exp_mitotypes-stats.R: statistics for the qPCR data

gene exp_mitotypes.csv: data on the relative gene expression of FucTC, AANATL3, Acp1 and CG3397 among mitotypes

 

copynumber_stats.R: statistics for the copynumber data

copynumber.csv: Mitochondrial copy number as copies of the mtDNA target gene 16S relative to nuclear target gene RpL32 

 

respirometry_stats.R: statistics for the respirometry data

respirometry.csv: Mitochondrial respiration measured in uninfected male flies by measuring oxygen consumption of the OXPHOS complexes I, III and IV

 

ROS_stats.R: statistics for ROS

ROS.csv: hydrogen peroxide (H2O2) quantification (whole flies)

 

wasp_stats.R: Statistics on the proportion of melanised and unmelanised wasp larvae

Wasps_data.csv: Data on proportion of melanised (killed) and unmelanised (living) L. boulardi parasitoid wasp larvae found in Drosophila larvae

 

CC_stats.R: statistics on crystal cell counts

CC.csv: amount of hemocytes called crystal cell in the larvae

 

HC_stats.R: statistics on hemocyte counts

hc_uninf.csv: total and activated hemocyte (blood cell) counts in uninfected larvae

hc_inf.csv: total and activated hemocyte (blood cell) counts in infected larvae (48 h after infection by L. boulardi parasitoid wasps)

 

PPO3.R: statistics on PPO3 expression levels

PPO3.csv: data on gene expression level of prophenoloxidase (PPO3)

 

MMP.R: statistics on MMP

cybridMMP.csv: mitochondrial membrane potential (MMP) measured from larval hemocytes using the TMRM dye

 

CellROX.R: statistics on CellROXTM signal

CellROX.csv: Reactive oxygen species (ROS) measured from larval hemocytes using CellROXTM green reagent

 

Hazard.Rmd: hazard ratios

Combined.xlsx: data on hazard ratios Hazard ratios of survival post P. rettgeri, S. aureus, Kallithea and DCVinfections

 

Mito_priming.R: Statistics on the effect of priming

mito_priming.csv: data on the effect of immune priming with heat-killed bacteria prior to infection

 

hc_stats_supplementary.R: statistics for sex-specific differences in hemocyte counts (data: hc_uninf.csv & hc_inf.csv )

PI_hc_stats.R: statistics on dead (Propidium iodide, PI-positive) vs. living (PI-negative) larval hemocytes (data: hc_uninf.csv & hc_inf.csv )

 

melanisation_stats.R: statistics on melanisation response

melanisation_males.csv: melanisation response in hemolymph
DOI: 10.15468/dl.77jcj2
title: Occurrence Download

description: A dataset containing 42 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Dominican Republic",
 "TaxonKey is Pheidole hispaniolae"
 ]
}

 The dataset includes 42 records from 4 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0014436-241107131044228/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.455hsa
title: Occurrence Download

description: A dataset listing the 31806 species recorded in GBIF matching the query:
{
 "Country" : [
 "is Dominican Republic"
 ]
}

 The dataset's 31806 records were derived from 917 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0014419-241107131044228/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.17632/ntfg5hdbch.1
title: Post-Correctional Improvement of T2-Weighted Fast Spin Echo Magnetic Resonance Imaging Pulse Sequence for Detecting High Intensity Focused Ultrasound Thermal Lesions - K-Space MRI Dataset

description: This dataset contains raw k-space data acquired through magnetic resonance imaging (MRI) using a T2-weighted fast spin-echo (T2W-FSE) pulse sequence. Stored in MATLAB .mat format, the data includes k-space information with dimensions of 256x1x256, which is essential for reproducing the results presented in the associated manuscript titled "Post-Correctional Improvement of T2-Weighted Fast Spin-Echo Magnetic Resonance Imaging Pulse Sequence for Detecting High Intensity Focused Ultrasound Thermal Lesions." The dataset provides unprocessed raw data that can be utilized for image reconstruction and further analysis.
DOI: 10.23708/lnzlzf
title: Wind erosion, meteorological and wind profile monitoring in a groundnut field in Bambey, Senegal, 2020-2021 (ENCAS project)

description: In order to measure horizontal flux of aeolian sediment and the main dynamic parameters (wind erosion threshold, aerodynamic roughness length), a set of instruments was set up in February 2020 in the framework of the ENCAS research project. In a groundnut field of about 100 m x 100 m, we installed 5 anemometers (2 dimensional (2D) sonic anemometers WindSonicTM Gill Instruments Ltd) at 0.25m, 0.66m, 1m, 1.5m, and 1.9m agl, a rain gauge (ARG100 Tipping Bucket rain gauge Campbell® Scientific company), and a Saltiphone, that detects the impacts of saltating grains. All these measurements were performed with 5-minute time resolution. Missing data were rare (less than 1%) over the whole year 2020 for these ENCAS dataset (wind speed and Saltiphone). Simultaneously, horizontal sediment flux was monitored using five masts of 5 sand traps each (Modified Wilson and Cooke – MWAC) set up downwind the main wind directions of the study plot, i.e. at its southwestern corner. The sand-traps were set up at heights of 0.05m, 0.1m, 0.2m, 0.4m, 0.8m agl. They were regularly collected (approximately every 2 weeks) and their content was weighed with 1 mg precision. The groundnut field was made bare and tilled during February 2020; wind speed (sand traps) measurements started on February 22nd (24th). Then, groundnut was cropped during the rainy season (short-cycle cultivar, sown on July 8th and 20th because of labor availability, and harvested on October 26th).
DOI: 10.15468/dl.axyc9a
title: Occurrence Download

description: A dataset containing 143 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Cyclura ricordi (Duméril & Bibron, 1837)"
 ]
}

 The dataset includes 143 records from 18 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0014437-241107131044228/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.6084/m9.figshare.27725313
title: Codes for panvariome construction.docx

description: Codes for the construction of panvariome of 1020 peach accessions.
DOI: 10.5281/zenodo.12805821
title: The data for: LCR in fungi display functional groups and are depleted in positively charged amino-acids

description: Abstract

The dataset consists of a TAB formatted table (Main_Dataset.tsv), that integrates information about protein domains (pfam_scan, GO terms), low complexity regions (SEG), signal peptides (SignalP), and transmembrane elements (TMHMM) for each of the analysed proteins within 183 fungal proteomes. The Main Dataset has been designed to ease further searches with Linux bash commands, for e.g. sorting and subsetting by the aforementioned traits. This resource can be used by users interested in detailed annotation of particular protein families, sets of organisms, low complexity regions, types of proteins (for instance transmembrane proteins). Thanks to its simple and clear format, it may also be easily enriched with additional data.

Data types:

Main_Dataset.tsv is a TSV table with protein annotations

Estimate of dataset size:

 245MBReadme file:

Main_Dataset.tsv is a TSV table with the following columns:





Assembly ID from NCBI




Protein ID (NCBI accession)




Protein length




Presence of protein domains; Boolean




symbolic localization of protein domains; 10 bins scaled to sum up to total protein length




number of transmembrane elements predicted with TMHMM




total length of transmembrane elements




Symbolic localization of transmembrane elements; 10 bins scaled to sum up to total protein length




Presence of signal peptide; Boolean




Total number of LCR




Total length of LCR




Symbolic localization of LCR; 3 bins: N-termini (0-0.25 of protein length), middle (0.25-0.75 of protein length), and C-term (0.75-1 protein length)




Symbolic localization of LCR; 10 bins scaled to sum up to total protein length




LCR sequences in the N-terminal part of protein, separated by a comma




LCR sequences in the middle part of protein, separated by a comma




LCR sequences in the  C-terminal part of the protein, separated by a comma




Pfam domains overlapping with LCRs (>80% of LCR length)




Pfam domains in protein (ordered by domain start)




GO terms based on Pfam domains obtained by mapping on pfam2go, separated with the pipe symbol '|'



 

Acknowledgements

This work was supported by National Science Centre grants (#2021/41/B/NZ2/02426 to AM, #2019/35/D/NZ2/03411 to K.S).
DOI: 10.5281/zenodo.12805822
title: The data for: LCR in fungi display functional groups and are depleted in positively charged amino-acids

description: Abstract

The dataset consists of a TAB formatted table (Main_Dataset.tsv), that integrates information about protein domains (pfam_scan, GO terms), low complexity regions (SEG), signal peptides (SignalP), and transmembrane elements (TMHMM) for each of the analysed proteins within 183 fungal proteomes. The Main Dataset has been designed to ease further searches with Linux bash commands, for e.g. sorting and subsetting by the aforementioned traits. This resource can be used by users interested in detailed annotation of particular protein families, sets of organisms, low complexity regions, types of proteins (for instance transmembrane proteins). Thanks to its simple and clear format, it may also be easily enriched with additional data.

Data types:

Main_Dataset.tsv is a TSV table with protein annotations

Estimate of dataset size:

 245MBReadme file:

Main_Dataset.tsv is a TSV table with the following columns:





Assembly ID from NCBI




Protein ID (NCBI accession)




Protein length




Presence of protein domains; Boolean




symbolic localization of protein domains; 10 bins scaled to sum up to total protein length




number of transmembrane elements predicted with TMHMM




total length of transmembrane elements




Symbolic localization of transmembrane elements; 10 bins scaled to sum up to total protein length




Presence of signal peptide; Boolean




Total number of LCR




Total length of LCR




Symbolic localization of LCR; 3 bins: N-termini (0-0.25 of protein length), middle (0.25-0.75 of protein length), and C-term (0.75-1 protein length)




Symbolic localization of LCR; 10 bins scaled to sum up to total protein length




LCR sequences in the N-terminal part of protein, separated by a comma




LCR sequences in the middle part of protein, separated by a comma




LCR sequences in the  C-terminal part of the protein, separated by a comma




Pfam domains overlapping with LCRs (>80% of LCR length)




Pfam domains in protein (ordered by domain start)




GO terms based on Pfam domains obtained by mapping on pfam2go, separated with the pipe symbol '|'



 

Acknowledgements

This work was supported by National Science Centre grants (#2021/41/B/NZ2/02426 to AM, #2019/35/D/NZ2/03411 to K.S).
DOI: 10.5281/zenodo.13928873
title: The data for: LCR in fungi display functional groups and are depleted in positively charged amino-acids

description: Abstract

The dataset consists of a TAB formatted table (Main_Dataset.tsv), that integrates information about protein domains (pfam_scan, GO terms), low complexity regions (SEG), signal peptides (SignalP), and transmembrane elements (TMHMM) for each of the analysed proteins within 183 fungal proteomes. The Main Dataset has been designed to ease further searches with Linux bash commands, for e.g. sorting and subsetting by the aforementioned traits. This resource can be used by users interested in detailed annotation of particular protein families, sets of organisms, low complexity regions, types of proteins (for instance transmembrane proteins). Thanks to its simple and clear format, it may also be easily enriched with additional data.

Data types:

Main_Dataset.tsv is a TSV table with protein annotations

Estimate of dataset size:

 245MBReadme file:

Main_Dataset.tsv is a TSV table with the following columns:





Assembly ID from NCBI




Protein ID (NCBI accession)




Protein length




Presence of protein domains; Boolean




symbolic localization of protein domains; 10 bins scaled to sum up to total protein length




number of transmembrane elements predicted with TMHMM




total length of transmembrane elements




Symbolic localization of transmembrane elements; 10 bins scaled to sum up to total protein length




Presence of signal peptide; Boolean




Total number of LCR




Total length of LCR




Symbolic localization of LCR; 3 bins: N-termini (0-0.25 of protein length), middle (0.25-0.75 of protein length), and C-term (0.75-1 protein length)




Symbolic localization of LCR; 10 bins scaled to sum up to total protein length




LCR sequences in the N-terminal part of protein, separated by a comma




LCR sequences in the middle part of protein, separated by a comma




LCR sequences in the  C-terminal part of the protein, separated by a comma




Pfam domains overlapping with LCRs (>80% of LCR length)




Pfam domains in protein (ordered by domain start)




GO terms based on Pfam domains obtained by mapping on pfam2go, separated with the pipe symbol '|'



 

Acknowledgements

This work was supported by National Science Centre grants (#2021/41/B/NZ2/02426 to AM, #2019/35/D/NZ2/03411 to K.S).
DOI: 10.15468/dl.afpejn
title: Occurrence Download

description: A dataset containing 858 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Crocus ligusticus Mariotti"
 ]
}

 The dataset includes 858 records from 15 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0014438-241107131044228/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.ab5xjy
title: Occurrence Download

description: A dataset containing 533 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Melursus Meyer, 1793"
 ]
}

 The dataset includes 533 records from 20 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0014440-241107131044228/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.gursyw
title: Occurrence Download

description: A dataset containing 533 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Melursus Meyer, 1793"
 ]
}

 The dataset includes 533 records from 20 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0014439-241107131044228/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.