cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.15468/dl.nvg84s
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Eugenia alnifolia Mc Vaugh)",
 "BasisOfRecord is one of (Human Observation, Observation, Living Specimen)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "Continent is North America"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0016932-250127130748423/datasets/export for details.
DOI: 10.5281/zenodo.13788130
title: Interseismic Coupling Along the Java-Timor Subduction-Collision Transition Zone at East Indonesia
DOI: 10.15468/dl.mx48k7
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Eugenia amatenangensis Lundell)",
 "BasisOfRecord is one of (Human Observation, Observation, Living Specimen)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "Continent is North America"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0016934-250127130748423/datasets/export for details.
DOI: 10.6084/m9.figshare.27040714
title: Code and Data, Ram et al.

description: We generated a dataset that enables correlation of ERK activation to downstream target protein expression and modification by first collecting live ERK activity measurements under differential activation states of the RAS/ERK pathway. In MCF10A mammary epithelial cells, MCF7 breast cancer cells, and Hcc827 and A549 lung adenocarcinoma cells, we used EKAR3.1, a calibrated FRET-based biosensor that measures the balance between phosphorylation by ERK activity and dephosphorylation by competing phosphatases. ERK activity was stimulated in a dose-dependent manner with varying Epidermal Growth Factor (EGF) concentrations. To increase the temporal diversity of activity patterns, we added MEK inhibitor (MEKi) at varying times after EGF stimulation and included treatments where EGF was added at different timepoints of the experiment. These treatments generated a wide range of ERK signaling patterns, including sustained and pulsatile activity with varying duration and magnitude. Consistent with previous studies, we found that ERK activation is heterogenous from cell to cell within each stimulation condition. Immediately following live-cell data collection, we fixed the cells and conducted cyclic immunofluorescence (4i) staining to measure nuclear and cytoplasmic levels of protein targets potentially modulated by ERK activity. This repository contains all code and data needed to generate the figures in the paper.<br><br>Quick start guide (see the README file for more detailed instructions):<br>-Typical install time is about 30 minutes to one hour.-Unzip Code_files.zip to view the custom code associated with processing and plotting data.-To access the source MCF10A supplementary data tables, unzip SourceData.zip (in the same folder as you unzipped Code_files.zip)-To access the (large) cancer cell line data files needed to run the figure generation code, unzip Data_files.zip WITHIN the MATLABfiles subfolder that was extracted from Code_files.zip<br>
DOI: 10.6084/m9.figshare.27040714.v2
title: Code and Data, Ram et al.

description: We generated a dataset that enables correlation of ERK activation to downstream target protein expression and modification by first collecting live ERK activity measurements under differential activation states of the RAS/ERK pathway. In MCF10A mammary epithelial cells, MCF7 breast cancer cells, and Hcc827 and A549 lung adenocarcinoma cells, we used EKAR3.1, a calibrated FRET-based biosensor that measures the balance between phosphorylation by ERK activity and dephosphorylation by competing phosphatases. ERK activity was stimulated in a dose-dependent manner with varying Epidermal Growth Factor (EGF) concentrations. To increase the temporal diversity of activity patterns, we added MEK inhibitor (MEKi) at varying times after EGF stimulation and included treatments where EGF was added at different timepoints of the experiment. These treatments generated a wide range of ERK signaling patterns, including sustained and pulsatile activity with varying duration and magnitude. Consistent with previous studies, we found that ERK activation is heterogenous from cell to cell within each stimulation condition. Immediately following live-cell data collection, we fixed the cells and conducted cyclic immunofluorescence (4i) staining to measure nuclear and cytoplasmic levels of protein targets potentially modulated by ERK activity. This repository contains all code and data needed to generate the figures in the paper.<br><br>Quick start guide (see the README file for more detailed instructions):<br>-Typical install time is about 30 minutes to one hour.-Unzip Code_files.zip to view the custom code associated with processing and plotting data.-To access the source MCF10A supplementary data tables, unzip SourceData.zip (in the same folder as you unzipped Code_files.zip)-To access the (large) cancer cell line data files needed to run the figure generation code, unzip Data_files.zip WITHIN the MATLABfiles subfolder that was extracted from Code_files.zip<br>
DOI: 10.6084/m9.figshare.27040714.v1
title: Code and Data, Ram et al.

description: We generated a dataset that enables correlation of ERK activation to downstream target protein expression and modification by first collecting live ERK activity measurements under differential activation states of the RAS/ERK pathway. In MCF10A mammary epithelial cells, MCF7 breast cancer cells, and Hcc827 and A549 lung adenocarcinoma cells, we used EKAR3.1, a calibrated FRET-based biosensor that measures the balance between phosphorylation by ERK activity and dephosphorylation by competing phosphatases. ERK activity was stimulated in a dose-dependent manner with varying Epidermal Growth Factor (EGF) concentrations. To increase the temporal diversity of activity patterns, we added MEK inhibitor (MEKi) at varying times after EGF stimulation and included treatments where EGF was added at different timepoints of the experiment. These treatments generated a wide range of ERK signaling patterns, including sustained and pulsatile activity with varying duration and magnitude. Consistent with previous studies, we found that ERK activation is heterogenous from cell to cell within each stimulation condition. Immediately following live-cell data collection, we fixed the cells and conducted cyclic immunofluorescence (4i) staining to measure nuclear and cytoplasmic levels of protein targets potentially modulated by ERK activity. This repository contains all code and data needed to generate the figures in the paper.<br><br>Quick start guide (see the README file for more detailed instructions):<br>-Typical install time is about 30 minutes to one hour.-Unzip Code_files.zip to view the custom code associated with processing and plotting data.-To access the source MCF10A supplementary data tables, unzip SourceData.zip (in the same folder as you unzipped Code_files.zip)-To access the (large) cancer cell line data files needed to run the figure generation code, unzip Data_files.zip WITHIN the MATLABfiles subfolder that was extracted from Code_files.zip<br>
DOI: 10.15468/dl.nxw7ff
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Eugenia balancanensis Lundell)",
 "BasisOfRecord is one of (Human Observation, Observation, Living Specimen)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "Continent is North America"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0016935-250127130748423/datasets/export for details.
DOI: 10.15468/dl.z9ccew
title: Occurrence Download

description: A dataset containing 85 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Eugenia biflora (L.) DC.)",
 "BasisOfRecord is one of (Human Observation, Observation, Living Specimen)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "Continent is North America"
 ]
}

 The dataset includes 85 records from 5 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0016936-250127130748423/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.z22z82
title: Occurrence Download

description: A dataset containing 2 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Eugenia breedlovei Barrie)",
 "BasisOfRecord is one of (Human Observation, Observation, Living Specimen)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "Continent is North America"
 ]
}

 The dataset includes 2 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0016937-250127130748423/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.28254743.v1
title: Supp_data_S1-S14.xlsx

description: Advances in metagenomics have led to the identification of new intestinal temperate bacteriophages. However, their experimental characterization remains challenging due to a limited understanding of their lysogenic-lytic cycle and the common lack of plaque formation <i>in vitro</i>. In this study we investigated the hankyphage, a widespread transposable phage of prominent <i>Bacteroides </i>symbionts. Hankyphages spontaneously produced virions in laboratory conditions even in the absence of inducer, but virions did not show any evidence of infectivity. To increase virion production and raise the chances of observing infection events, we identified a master repressor of the hankyphage lytic cycle, RepC<sub>HP</sub><i>, </i>whose silencing amplified hankyphage gene expression, enhanced replicative transposition and virion production. However, attempts to infect or lysogenize new host cells with different capsular types remained unsuccessful. Transmission electron microscopy and capsid DNA sequencing revealed an abnormal virion morphology and incomplete DNA packaging of the hankyphage, suggesting that it cannot complete its assembly in laboratory conditions for reasons that are yet to be identified. Still, metavirome and phylogenetic analyses were suggestive of hankyphage horizontal transmission. We could also detect the activity of diversity-generating retroelements (DGRs) that mutagenize the hankyphage tail fiber, and likely contribute to its broad host range. This study sheds light on the life cycle of this this abundant intestinal bacteriophage and highlights important gaps in our understanding of the factors required for the completion of its life cycle. Elucidating this puzzle will be critical to gain a better understanding of the hankyphage biology and ecological role.
DOI: 10.6084/m9.figshare.28263716.v1
title: Supporting tables

description: Supporting tables for "Incomplete lytic cycle of a widespread Bacteroides bacteriophage leads to the formation of defective viral particles". Vendrell-Fernández et al. 2025
DOI: 10.6084/m9.figshare.26504458.v1
title: Depoers_Supplemental_Tables

description: Depoers_Supplemental_Tables
DOI: 10.15468/dl.45s668
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Eugenia bumelioides Standl.)",
 "BasisOfRecord is one of (Human Observation, Observation, Living Specimen)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "Continent is North America"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0016939-250127130748423/datasets/export for details.
DOI: 10.6084/m9.figshare.26504458
title: Depoers_Supplemental_Tables

description: Depoers_Supplemental_Tables
DOI: 10.15468/dl.s6rtp3
title: Occurrence Download

description: A dataset containing 119795 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON((-122.52387 37.77112,-122.49932 37.77112,-122.49932 37.791,-122.52387 37.791,-122.52387 37.77112))",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 119795 records from 66 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0050457-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.umk57k
title: Occurrence Download

description: A dataset containing 389 species occurrences available in GBIF matching the query:
{
 "and" : [
 "MediaType is Image",
 "TaxonKey is Ciona intestinalis (Linnaeus, 1767)"
 ]
}

 The dataset includes 389 records from 9 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0139965-220831081235567/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.8nz289
title: Occurrence Download

description: A dataset containing 496 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Otoba glycycarpa (Ducke) W.A.Rodrigues & T.S.Jaram."
 ]
}

 The dataset includes 496 records from 26 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0013192-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.vr7sxb
title: Occurrence Download

description: A dataset containing 16320 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Tardigrada"
 ]
}

 The dataset includes 16320 records from 125 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0060116-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.rywupu
title: Occurrence Download

description: A dataset containing 2446 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Phytomyza ranunculi (Schrank, 1803)"
 ]
}

 The dataset includes 2446 records from 73 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0413756-210914110416597/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.qbe4a2
title: Occurrence Download

description: A dataset containing 1884 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Ecuador",
 "TaxonKey is Ara macao (Linnaeus, 1758)"
 ]
}

 The dataset includes 1884 records from 10 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0041388-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.25574/csc2.obs.21736
title: Chandra X-ray Observatory ObsId 21736

description: CSC uses combined (i.e. overlapping) Chandra observations for detecting X-ray sources. This allows the catalog to include significantly fainter sources than CSC 1.1. The set of overlapping observations that have been combined in this way is known as a "stack".
DOI: 10.15468/dl.aqpvc5
title: Occurrence Download

description: A dataset listing the 278 species recorded in GBIF matching the query:
{
 "and" : [
 "Country is Tajikistan",
 "DatasetKey is A global database for the distributions of crop wild relatives"
 ]
}

 The dataset's 278 records were derived from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0086822-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.vgrxfp
title: Occurrence Download

description: A dataset containing 1 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Drepananthus minahassae (Boerl. ex Koord.) Survesw. & R.M.K.Saunders"
 ]
}

 The dataset includes 1 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0031331-191105090559680/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.25574/csc2.obs.11945
title: Chandra X-ray Observatory ObsId 11945

description: CSC uses combined (i.e. overlapping) Chandra observations for detecting X-ray sources. This allows the catalog to include significantly fainter sources than CSC 1.1. The set of overlapping observations that have been combined in this way is known as a "stack".
DOI: 10.15468/dl.5qe8rs
title: Occurrence Download

description: A dataset containing 2136 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is one of (Human Observation, Specimen, Occurrence evidence)",
 "OccurrenceStatus is Present",
 "TaxonKey is Pinus muricata D.Don"
 ]
}

 The dataset includes 2136 records from 129 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0057904-240506114902167/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.ahg7jm
title: Occurrence Download

description: A dataset containing 220481 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Silene vulgaris (Moench) Garcke"
 ]
}

 The dataset includes 220481 records from 813 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0041385-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.y4ab2a
title: Occurrence Download

description: A dataset containing 440 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Dermatemys mawii Gray, 1847"
 ]
}

 The dataset includes 440 records from 44 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0064123-210914110416597/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.dqtr24
title: Occurrence Download

description: A dataset containing 8 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Palicourea chrysotricha (Zahlbr.) Standl."
 ]
}

 The dataset includes 8 records from 5 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0013212-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.vjjv52
title: Occurrence Download

description: A dataset containing 11 species occurrences available in GBIF matching the query:
{
 "and" : [
 "DatasetKey is Aves Acuáticas de las sabanas inundables del Meta y Casanare",
 "TaxonKey is Porphyrio flavirostris (Gmelin, 1789)"
 ]
}

 The dataset includes 11 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0007294-180412121330197/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.25574/csc2.obs.08287
title: Chandra X-ray Observatory ObsId 08287

description: CSC uses combined (i.e. overlapping) Chandra observations for detecting X-ray sources. This allows the catalog to include significantly fainter sources than CSC 1.1. The set of overlapping observations that have been combined in this way is known as a "stack".
DOI: 10.15468/dl.etzjnk
title: Occurrence Download

description: A dataset containing 583 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Myotis occultus Hollister, 1909",
 "HasCoordinate is True",
 "Country is United States of America",
 "Year is greater than or equal to 1960",
 "Year is less than or equal to 2020",
 "Month is greater than or equal to January",
 "Month is less than or equal to December",
 "HasGeospatialIssue is False",
 "DecimalLatitude is greater than or equal to 24.5",
 "DecimalLatitude is less than or equal to 49.5",
 "DecimalLongitude is greater than or equal to -125.0",
 "DecimalLongitude is less than or equal to -66.5"
 ]
}

 The dataset includes 583 records from 14 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0115868-210914110416597/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.kbzjx6
title: Occurrence Download

description: A dataset containing 90 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is University of Amsterdam (NL) - Páramo Vegetation Research, paramo in the Sabana de Bogota area, Colombia"
 ]
}

 The dataset includes 90 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0025106-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.zlsmbp
title: Occurrence Download

description: A dataset containing 155330 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Geococcyx californianus (Lesson, 1829)"
 ]
}

 The dataset includes 155330 records from 111 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0009759-181003121212138/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.25574/csc2.obs.15395
title: Chandra X-ray Observatory ObsId 15395

description: CSC uses combined (i.e. overlapping) Chandra observations for detecting X-ray sources. This allows the catalog to include significantly fainter sources than CSC 1.1. The set of overlapping observations that have been combined in this way is known as a "stack".
DOI: 10.15468/dl.glhfqa
title: Occurrence Download

description: A dataset containing 5 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Odobenocetops Muizon, 1993"
 ]
}

 The dataset includes 5 records from 2 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0018918-191105090559680/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.25574/csc2.obs.15400
title: Chandra X-ray Observatory ObsId 15400

description: CSC uses combined (i.e. overlapping) Chandra observations for detecting X-ray sources. This allows the catalog to include significantly fainter sources than CSC 1.1. The set of overlapping observations that have been combined in this way is known as a "stack".
DOI: 10.15468/dl.m3f9hz
title: Occurrence Download

description: A dataset containing 10364 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasCoordinate is true",
 "TaxonKey is Dysphania ambrosioides (L.) Mosyakin & Clemants",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 10364 records from 283 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0004445-180508205500799/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.