cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.35077/ace-die
title: Baseline oxygen consumption decreases with cortical depth: Artery04_012419_VG716

description: The cerebral cortex is organized in cortical layers that differ in their cellular density, composition, and wiring. Cortical laminar architecture is also readily revealed by staining for cytochrome oxidase – the last enzyme in the respiratory electron transport chain located in the inner mitochondrial membrane. It has been hypothesized that a high-density band of cytochrome oxidase in cortical layer IV reflects higher oxygen consumption under baseline (unstimulated) conditions. Here, we tested the above hypothesis using direct measurements of the partial pressure of O2 (pO2) in cortical tissue by means of 2-photon phosphorescence lifetime microscopy (2PLM). We revisited our previously developed method for extraction of the cerebral metabolic rate of O2 (CMRO2) based on 2-photon pO2 measurements around diving arterioles and applied this method to estimate baseline CMRO2 in awake mice across cortical layers. To our surprise, our results revealed a decrease in baseline CMRO2 from layer I to layer IV. This decrease of CMRO2 with cortical depth was paralleled by an increase in tissue oxygenation. Higher baseline oxygenation and cytochrome density in layer IV may serve as an O2 reserve during surges of neuronal activity or certain metabolically active brain states rather than baseline energy needs. Our study provides the first quantification of microscopically resolved CMRO2 across cortical layers as a step towards better understanding of the brain energy metabolism.
description: The MathWorks Matlab files (‘.mat’) are named after the cortical depth and contain Oxyphor2P decay data (‘Oxyphor2P.decay’), the derived pO2 values (‘Oxyphor2P.pO2Value’) and their coordinates (X: ‘Oxyphor2P.X_reference _coordinates’ and Y: ‘Oxyphor2P.Y_reference _coordinates’), which relate to the reference images with astrocyte-staining with SR101 (‘reference.SR101’), vasculature containing FITC (‘reference.FITC’) and the Oxyphor2P distribution (‘reference.Oxyphor2P’). DATASET METADATA: title:'Baseline oxygen consumption decreases with cortical depth: Artery04_012419_VG716', Other:'Phosphorescence Lifetime Oxygen Imaging' SPECIMEN METADATA: LocalID:'VG716', Species:'Mouse', NCBITaxonomy:'NCBI:txid10090', Age:'151.0', Ageunit:'Days', Sex:'Male', Genotype:'C57BL6', OrganName:'Brain', SampleLocalID:'Artery04_012419_VG716', Locations:'somatosensory cortex' INSTRUMENT METADATA: MicroscopeType:'Two Photon Laser Scanning Microscopy', MicroscopeManufacturerAndModel:'Bruker Ultima', ObjectiveName:'Olympus UMPlanFL N, Olympus XLUMPlanFl', ObjectiveImmersion:'Water', ObjectiveNA:'0.5, 0.95', ObjectiveMagnification:'20x', DetectorType:'PMT', IlluminationTypes:'Chameleon Ultra femtosecond Ti:Sapphire laser (Coherent)' IMAGE METADATA: xAxis:'posterior-to-anterior', yAxis:'left-to-right', zAxis:'superior-to-inferior', Number:'1, 2, red, green', displayColor:'(1.0, 0.0, 0.0),(0.0, 1.0, 0.0)', Representation:'1: Oxyphor 2P; 2: FITC,', Flurophore:'Oxyphor2P, FITC-dextran, Alexa680-dextran', stepSizeX:'0.58 um, 1.16 um', stepSizeY:'0.58 um, 1.16 um', stepSizeZ:'3 um'
DOI: 10.35077/ace-dig
title: Baseline oxygen consumption decreases with cortical depth: Artery05_012119_VG717

description: The cerebral cortex is organized in cortical layers that differ in their cellular density, composition, and wiring. Cortical laminar architecture is also readily revealed by staining for cytochrome oxidase – the last enzyme in the respiratory electron transport chain located in the inner mitochondrial membrane. It has been hypothesized that a high-density band of cytochrome oxidase in cortical layer IV reflects higher oxygen consumption under baseline (unstimulated) conditions. Here, we tested the above hypothesis using direct measurements of the partial pressure of O2 (pO2) in cortical tissue by means of 2-photon phosphorescence lifetime microscopy (2PLM). We revisited our previously developed method for extraction of the cerebral metabolic rate of O2 (CMRO2) based on 2-photon pO2 measurements around diving arterioles and applied this method to estimate baseline CMRO2 in awake mice across cortical layers. To our surprise, our results revealed a decrease in baseline CMRO2 from layer I to layer IV. This decrease of CMRO2 with cortical depth was paralleled by an increase in tissue oxygenation. Higher baseline oxygenation and cytochrome density in layer IV may serve as an O2 reserve during surges of neuronal activity or certain metabolically active brain states rather than baseline energy needs. Our study provides the first quantification of microscopically resolved CMRO2 across cortical layers as a step towards better understanding of the brain energy metabolism.
description: The MathWorks Matlab files (‘.mat’) are named after the cortical depth and contain Oxyphor2P decay data (‘Oxyphor2P.decay’), the derived pO2 values (‘Oxyphor2P.pO2Value’) and their coordinates (X: ‘Oxyphor2P.X_reference _coordinates’ and Y: ‘Oxyphor2P.Y_reference _coordinates’), which relate to the reference images with astrocyte-staining with SR101 (‘reference.SR101’), vasculature containing FITC (‘reference.FITC’) and the Oxyphor2P distribution (‘reference.Oxyphor2P’). DATASET METADATA: title:'Baseline oxygen consumption decreases with cortical depth: Artery05_012119_VG717', Other:'Phosphorescence Lifetime Oxygen Imaging' SPECIMEN METADATA: LocalID:'VG717', Species:'Mouse', NCBITaxonomy:'NCBI:txid10090', Age:'165.0', Ageunit:'Days', Sex:'Male', Genotype:'C57BL6', OrganName:'Brain', SampleLocalID:'Artery05_012119_VG717', Locations:'somatosensory cortex' INSTRUMENT METADATA: MicroscopeType:'Two Photon Laser Scanning Microscopy', MicroscopeManufacturerAndModel:'Bruker Ultima', ObjectiveName:'Olympus UMPlanFL N, Olympus XLUMPlanFl', ObjectiveImmersion:'Water', ObjectiveNA:'0.5, 0.95', ObjectiveMagnification:'20x', DetectorType:'PMT', IlluminationTypes:'Chameleon Ultra femtosecond Ti:Sapphire laser (Coherent)' IMAGE METADATA: xAxis:'posterior-to-anterior', yAxis:'left-to-right', zAxis:'superior-to-inferior', Number:'1, 2, red, green', displayColor:'(1.0, 0.0, 0.0),(0.0, 1.0, 0.0)', Representation:'1: Oxyphor 2P; 2: FITC,', Flurophore:'Oxyphor2P, FITC-dextran, Alexa680-dextran', stepSizeX:'0.58 um, 1.16 um', stepSizeY:'0.58 um, 1.16 um', stepSizeZ:'3 um'
DOI: 10.35077/ace-dim
title: Baseline oxygen consumption decreases with cortical depth: Artery06_010919_VG729

description: The cerebral cortex is organized in cortical layers that differ in their cellular density, composition, and wiring. Cortical laminar architecture is also readily revealed by staining for cytochrome oxidase – the last enzyme in the respiratory electron transport chain located in the inner mitochondrial membrane. It has been hypothesized that a high-density band of cytochrome oxidase in cortical layer IV reflects higher oxygen consumption under baseline (unstimulated) conditions. Here, we tested the above hypothesis using direct measurements of the partial pressure of O2 (pO2) in cortical tissue by means of 2-photon phosphorescence lifetime microscopy (2PLM). We revisited our previously developed method for extraction of the cerebral metabolic rate of O2 (CMRO2) based on 2-photon pO2 measurements around diving arterioles and applied this method to estimate baseline CMRO2 in awake mice across cortical layers. To our surprise, our results revealed a decrease in baseline CMRO2 from layer I to layer IV. This decrease of CMRO2 with cortical depth was paralleled by an increase in tissue oxygenation. Higher baseline oxygenation and cytochrome density in layer IV may serve as an O2 reserve during surges of neuronal activity or certain metabolically active brain states rather than baseline energy needs. Our study provides the first quantification of microscopically resolved CMRO2 across cortical layers as a step towards better understanding of the brain energy metabolism.
description: The MathWorks Matlab files (‘.mat’) are named after the cortical depth and contain Oxyphor2P decay data (‘Oxyphor2P.decay’), the derived pO2 values (‘Oxyphor2P.pO2Value’) and their coordinates (X: ‘Oxyphor2P.X_reference _coordinates’ and Y: ‘Oxyphor2P.Y_reference _coordinates’), which relate to the reference images with astrocyte-staining with SR101 (‘reference.SR101’), vasculature containing FITC (‘reference.FITC’) and the Oxyphor2P distribution (‘reference.Oxyphor2P’). DATASET METADATA: title:'Baseline oxygen consumption decreases with cortical depth: Artery06_010919_VG729', Other:'Phosphorescence Lifetime Oxygen Imaging' SPECIMEN METADATA: LocalID:'VG729', Species:'Mouse', NCBITaxonomy:'NCBI:txid10090', Age:'163.0', Ageunit:'Days', Sex:'Male', Genotype:'C57BL6', OrganName:'Brain', SampleLocalID:'Artery06_010919_VG729', Locations:'somatosensory cortex' INSTRUMENT METADATA: MicroscopeType:'Two Photon Laser Scanning Microscopy', MicroscopeManufacturerAndModel:'Bruker Ultima', ObjectiveName:'Olympus UMPlanFL N, Olympus XLUMPlanFl', ObjectiveImmersion:'Water', ObjectiveNA:'0.5, 0.95', ObjectiveMagnification:'20x', DetectorType:'PMT', IlluminationTypes:'Chameleon Ultra femtosecond Ti:Sapphire laser (Coherent)' IMAGE METADATA: xAxis:'posterior-to-anterior', yAxis:'left-to-right', zAxis:'superior-to-inferior', Number:'1, 2, red, green', displayColor:'(1.0, 0.0, 0.0),(0.0, 1.0, 0.0)', Representation:'1: Oxyphor 2P; 2: FITC,', Flurophore:'Oxyphor2P, FITC-dextran, Alexa680-dextran', stepSizeX:'0.58 um, 1.16 um', stepSizeY:'0.58 um, 1.16 um', stepSizeZ:'3 um'
DOI: 10.5281/zenodo.7158499
title: doryrhamphus_excisus_zanfona_1.fasta.gz

description: .
DOI: 10.5281/zenodo.7158498
title: doryrhamphus_excisus_zanfona_1.fasta.gz

description: .
DOI: 10.6084/m9.figshare.21298296
title: Dataset - Laraib et al - KAPS Leishmaniasis.csv

description: The data describes the raw responses of a KAPs survey from community-based in Islamabad and Rawalpindi regions.
DOI: 10.6084/m9.figshare.21298296.v1
title: Dataset - Laraib et al - KAPS Leishmaniasis.csv

description: The data describes the raw responses of a KAPs survey from community-based in Islamabad and Rawalpindi regions.
DOI: 10.21227/0gtx-6v30
title: RadioMapSeer

description: Dataset of RSS and ToA
DOI: 10.5281/zenodo.7158645
title: hibiscus_sabdariffa_zanfona_1.fasta.gz

description: .
DOI: 10.5281/zenodo.7158644
title: hibiscus_sabdariffa_zanfona_1.fasta.gz

description: .
DOI: 10.6084/m9.figshare.19387442
title: Murray et al 2022 - Antibacterial effects of propolis and brood comb extracts on the causative agent of European Foulbrood (Melissococcus plutonius) in honey bees (Apis mellifera) - Supplemental Data and Figures

description: "Murray et al 2022 - Suppl. data": OD<sub>600</sub> readings of wells containing bacteria and treatment (od) or bacteria and solvent (od_solvent) at the mid-growth phase (tmid; as determined by a standard growth control) over a 12-hour period. The difference between these two OD600 readings was recorded (od_diff) to account for the bacterial inhibition by the 70% ethanol solvent. Controls for each replicate included the aforementioned solvent control (solv.ctrl), untreated standard growth control (avg.std), and a positive control of antibiotic oxytetracycline hydrochloride (avg.otc). Each treatment extract was subject to a series of eight two-fold dilutions. Diluted treatments are indicated by numbers, where honey.1 would be the crude extract and honey.8 would be the most dilute. <br> "Murray et al 2022 - ecoli analysis; ssaprophyticus analysis; mplutonius analysis": R scripts for MIC analysis of honey comb extract, brood comb extract, and propolis ectract on three bacterial species: E. coli, S. saprophyticus, and M. plutonius. <br> "Raw data" zip files: Zip files for each bacterium tested. Files contain raw data for all 96-well plates in which bacteria were treated with honey comb extract, brood comb extract, or propolis extract. Files also contain associated R scripts in which the mid-log phase was determined for each plate. <br> "Murray et al 2022 - Suppl. - Ecoli; Ssaprophyticus; Mplutonius raw curves": Each pdf file contains raw growth curves for either E. coli, S. saprophyticus, or M. plutonius when treated with honey comb extract, brood com extract, propolis extract, as well as controls (positive control, solvent control, standard growth control, and sterility control).
DOI: 10.15468/dl.269wtn
title: Occurrence Download

description: A dataset containing 152 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Lagarosiphon cordofanus Casp."
 ]
}

 The dataset includes 152 records from 35 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0041606-240321170329656/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.qrdrqd
title: Occurrence Download

description: A dataset containing 37384 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Lathyrus aphaca L."
 ]
}

 The dataset includes 37384 records from 996 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0041605-240321170329656/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.n4nakk
title: Occurrence Download

description: A dataset containing 3271 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Phlebotomus Rondani & Berté, 1840"
 ]
}

 The dataset includes 3271 records from 20 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0041607-240321170329656/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.j3t4nm
title: Occurrence Download

description: A dataset containing 274499 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Leontodon hispidus L."
 ]
}

 The dataset includes 274499 records from 1355 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0041578-240321170329656/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5255/ukda-sn-857278
title: Exploring if Partial and Distributed Tests Enhance New Learning, 2020-2024

description: The study explores the impact of partial testing on learning processes. The research aims to understand whether taking tests on a portion of the material can improve the learning and retention of new information. The data collection involved controlled experiments where participants were subjected to partial tests, and their performance on subsequent learning tasks was analyzed. The study covers topics related to memory, learning techniques, and educational psychology, providing insights that could inform teaching strategies and improve educational outcomes.
DOI: 10.15468/dl.u6g2xw
title: Occurrence Download

description: A dataset containing 297100 species occurrences available in GBIF matching the query:
{
 "and" : [
 {
 "and" : [
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Living Specimen)"
 ]
 }
 }
 ]
 },
 "SpeciesKey is Papilio machaon Linnaeus, 1758",
 "Year is greater than or equal to 2004",
 "Year is less than or equal to 2023"
 ]
}

 The dataset includes 297100 records from 2535 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0080879-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15156/bio/sh3346437.08fu
title: SH3346437.08FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.15156/bio/sh3346438.08fu
title: SH3346438.08FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.15156/bio/sh3346439.08fu
title: SH3346439.08FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.15156/bio/sh3346440.08fu
title: SH3346440.08FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.15156/bio/sh3346441.08fu
title: SH3346441.08FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.15156/bio/sh3346442.08fu
title: SH3346442.08FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.15156/bio/sh3346443.08fu
title: SH3346443.08FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.