cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.48436/p2txr-xxy95
title: Data related to article "Advanced quantification of receptor–ligand interaction lifetimes via single-molecule FRET microscopy"

description: Simulated data files

Simulated single-molecule tracks for characterizing the algorithm described in the article. char_short_sim.h5, char_n_tracks_sim_1.0.h5, and char_long_sim.h5 were used to investigate the effect of changing recording intervals, char_n_tracks_sim_0.5.h5, char_n_tracks_sim_1.0.h5, char_n_tracks_sim_2.0.h5 to examine the impact of the dataset size.

h5 files contain tables created using to DataFrame.to_hdf method from the pandas Python package. Each table is identfied by the key /<interval>/<simulation run>, where <interval> is the simulated recording interval and <simulation run> is an integer identifying a particular simulation execution.

Raw data files

FRET microscopy image sequences of TCR–pMHC interactions of 5c.c7 and AND TCR-transgenic T cells as described in the article. Zip archives' POPC subfolders contain the recorded image sequences with recording delay (in ms) and number of donor excitation frames indicated in the file names. The beads subfolders contain images of fiducial markers for image registration.

Analysis files

Save files generated by the smfret-bondtime analysis software described in the article for 5c.c7 and AND T cell data. Note that these files were generated using a software version predating the version published as 1.0.0. They can nontheless be loaded with the newer version.

In order to load the experimental data,



install smfret-bondtime software

extract raw data

extract analysis files; the current folder should now contain 5cc7 and/or AND subfolders as well as 5cc7.yaml, 5cc7.h5, AND.yaml, andAND.h5 files. If raw data is extracted to a different place, open the respective YAML files using a text editor and adjusts the data_dir entry accordingly.

start the smfret-bondtime software

open the YAML file in the software
DOI: 10.48436/xqa72-6q878
title: Data related to article "Advanced quantification of receptor–ligand interaction lifetimes via single-molecule FRET microscopy"

description: Simulated data files

Simulated single-molecule tracks for characterizing the algorithm described in the article. char_short_sim.h5, char_n_tracks_sim_1.0.h5, and char_long_sim.h5 were used to investigate the effect of changing recording intervals, char_n_tracks_sim_0.5.h5, char_n_tracks_sim_1.0.h5, char_n_tracks_sim_2.0.h5 to examine the impact of the dataset size.

h5 files contain tables created using to DataFrame.to_hdf method from the pandas Python package. Each table is identfied by the key /<interval>/<simulation run>, where <interval> is the simulated recording interval and <simulation run> is an integer identifying a particular simulation execution.

Raw data files

FRET microscopy image sequences of TCR–pMHC interactions of 5c.c7 and AND TCR-transgenic T cells as described in the article. Zip archives' POPC subfolders contain the recorded image sequences with recording delay (in ms) and number of donor excitation frames indicated in the file names. The beads subfolders contain images of fiducial markers for image registration.

Analysis files

Save files generated by the smfret-bondtime analysis software described in the article for 5c.c7 and AND T cell data. Note that these files were generated using a software version predating the version published as 1.0.0. They can nontheless be loaded with the newer version.

In order to load the experimental data,



install smfret-bondtime software

extract raw data

extract analysis files; the current folder should now contain 5cc7 and/or AND subfolders as well as 5cc7.yaml, 5cc7.h5, AND.yaml, andAND.h5 files. If raw data is extracted to a different place, open the respective YAML files using a text editor and adjusts the data_dir entry accordingly.

start the smfret-bondtime software

open the YAML file in the software
DOI: 10.5281/zenodo.14012128
title: Data for predicting piglet survival until weaning using birth weight and within-litter birth weight variation as easily measured proxy predictors

description: The data was used in the analysis presented in the manuscript: Predicting piglet survival until weaning using birth weight and within-litter birth weight variation as easily measured proxy predictors. The manuscript is published in Animal journal. The data is for piglet survival survival at different time-points from birth to weaning from two research farms.
DOI: 10.5281/zenodo.14012129
title: Data for predicting piglet survival until weaning using birth weight and within-litter birth weight variation as easily measured proxy predictors

description: The data was used in the analysis presented in the manuscript: Predicting piglet survival until weaning using birth weight and within-litter birth weight variation as easily measured proxy predictors. The manuscript is published in Animal journal. The data is for piglet survival survival at different time-points from birth to weaning from two research farms.
DOI: 10.15468/dl.4hz6z4
title: Occurrence Download

description: A dataset containing 240131 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Costa Rica",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "TaxonKey is Quiscalus mexicanus (Gmelin, 1788)"
 ]
}

 The dataset includes 240131 records from 26 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0005193-250310093411724/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.sfsp4s
title: Occurrence Download

description: A dataset containing 2734 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is Human Observation",
 "Country is India",
 "DatasetKey is EOD – eBird Observation Dataset",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "TaxonKey is Timalia pileata Horsfield, 1821",
 "Year 2020-2024"
 ]
}

 The dataset includes 2734 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0005216-250310093411724/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.za93js
title: Occurrence Download

description: A dataset listing the 4032769 species recorded in GBIF matching the query:
{ }

 The dataset's 4032769 records were derived from 71646 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0005201-250310093411724/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.msc2j4
title: Occurrence Download

description: A dataset containing 1023534 species occurrences available in GBIF matching the query:
{
 "and" : [
 {
 "not" : {
 "InstitutionCode" : [
 "is one of (iNaturalist)"
 ]
 }
 },
 "SpeciesKey is one of (Passer domesticus (Linnaeus, 1758))",
 "Country is United States of America",
 "StateProvince is New York"
 ]
}

 The dataset includes 1023534 records from 35 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0005199-250310093411724/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.p9fxzf
title: Occurrence Download

description: A dataset containing 780519 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON((-2.21336 37.01164,-0.35505 37.01164,-0.35505 38.05961,-2.21336 38.05961,-2.21336 37.01164))",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "TaxonKey is Aves",
 "Year 2000-2025"
 ]
}

 The dataset includes 780519 records from 27 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0005190-250310093411724/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.mjzeh3
title: Occurrence Download

description: A dataset containing 171 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is Specimen",
 "Country is Canada",
 "TaxonKey is Fritillaria camschatcensis (L.) Ker Gawl."
 ]
}

 The dataset includes 171 records from 19 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0005219-250310093411724/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.2908/tps00122
title: Death due to suicide, by sex
title: Décès dus au suicide, par sexe
title: Tod durch Selbstmord, nach Geschlecht

description: Death rate due to intentional self-harm, by sex (number of deaths per 100 000 inhabitants, adjusted to a standard age distribution, and as defined by the International Statistical Classification of Diseases and Related Health Problems (ICD)).
description: Taux de mortalité liée au suicide, par sexe (nombre de décès pour 100 000 habitants, standardisé sur l’âge et tel que défini par la Classification statistique internationale des maladies et des problèmes de santé connexes (CIM)).
description: Sterberate durch vorsätzliche Selbstbeschädigung, nach Geschlecht (Anzahl der Todesfälle pro 100 000 Einwohner, angepasst an eine Standardaltersverteilung und gemäß der Internationalen statistischen Klassifikation von Krankheiten und verwandten Gesundheitsproblemen (ICD)).
DOI: 10.2908/tps00125
title: Death due to accidents, by sex
title: Décès dus aux accidents, par sexe
title: Tod durch Unfälle, nach Geschlecht

description: Sterberate durch Unfälle, nach Geschlecht (Anzahl der Todesfälle pro 100 000 Einwohner, angepasst an eine Standardaltersverteilung und gemäß der Internationalen statistischen Klassifikation von Krankheiten und verwandten Gesundheitsproblemen (ICD)).
description: Taux de mortalité liée aux accidents, par sexe (nombre de décès pour 100 000 habitants, standardisé sur l’âge et tel que défini par la Classification statistique internationale des maladies et des problèmes de santé connexes (CIM)).
description: Death rate due to accidents, by sex (number of deaths per 100 000 inhabitants, adjusted to a standard age distribution, and as defined by the International Statistical Classification of Diseases and Related Health Problems (ICD)).
DOI: 10.2908/tps00128
title: Death due to pneumonia, by sex
title: Décès dus à la pneumonie, par sexe
title: Tod durch Pneumonie, nach Geschlecht

description: Sterberate aufgrund von Lungenentzündung, nach Geschlecht (Anzahl der Todesfälle pro 100 000 Einwohner, angepasst an eine Standardaltersverteilung und gemäß der Internationalen statistischen Klassifikation von Krankheiten und verwandten Gesundheitsproblemen (ICD)).
description: Death rate due to pneumonia, by sex (number of deaths per 100 000 inhabitants, adjusted to a standard age distribution, and as defined by the International Statistical Classification of Diseases and Related Health Problems (ICD)).
description: Taux de mortalité liée à la pneumonie, par sexe (nombre de décès pour 100 000 habitants, standardisé sur l’âge et tel que défini par la Classification statistique internationale des maladies et des problèmes de santé connexes (CIM)).
DOI: 10.2908/tps00131
title: Death due to chronic liver disease, by sex
title: Décès dus aux maladies chroniques du foie, par sexe
title: Tod durch chronische Leberkrankheit, nach Geschlecht

description: Death rate due to chronic liver disease, by sex (number of deaths per 100 000 inhabitants, adjusted to a standard age distribution, and as defined by the International Statistical Classification of Diseases and Related Health Problems (ICD)).
description: Taux de mortalité liée aux maladies chroniques du foie, par sexe (nombre de décès pour 100 000 habitants, standardisé sur l’âge et tel que défini par la Classification statistique internationale des maladies et des problèmes de santé connexes (CIM)).
description: Sterberate aufgrund einer chronischen Lebererkrankung, nach Geschlecht (Anzahl der Todesfälle pro 100 000 Einwohner, angepasst an eine Standardaltersverteilung und gemäß der Internationalen statistischen Klassifikation von Krankheiten und verwandten Gesundheitsproblemen (ICD)).
DOI: 10.2908/tps00165
title: Death due to transport accidents, by sex
title: Décès dus aux accidents de transport, par sexe
title: Tod durch Verkehrsunfälle, nach Geschlecht

description: Taux de mortalité liée aux accidents de transport, par sexe (nombre de décès pour 100 000 habitants, standardisé sur l’âge et tel que défini par la Classification statistique internationale des maladies et des problèmes de santé connexes (CIM)).
description: Death rate due to transport accidents, by sex (number of deaths per 100 000 inhabitants, adjusted to a standard age distribution, and as defined by the International Statistical Classification of Diseases and Related Health Problems (ICD)).
description: Sterberate aufgrund von Verkehrsunfällen, nach Geschlecht (Anzahl der Todesfälle pro 100 000 Einwohner, angepasst an eine Standardaltersverteilung und gemäß der Internationalen statistischen Klassifikation von Krankheiten und verwandten Gesundheitsproblemen (ICD)).
DOI: 10.15468/dl.394tfm
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Rhizoecus cacticans (Hambleton, 1946)",
 "HasGeospatialIssue is false",
 "HasCoordinate is true"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0005221-250310093411724/datasets/export for details.
DOI: 10.15468/dl.73vqsw
title: Occurrence Download

description: A dataset containing 48820 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON((-73.6599 4.11384,-73.60007 4.10866,-73.59653 4.16181,-73.65718 4.16195,-73.6599 4.11384))",
 "HasCoordinate is true",
 "OccurrenceStatus is Present"
 ]
}

 The dataset includes 48820 records from 193 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0005218-250310093411724/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.3p8xu6
title: Occurrence Download

description: A dataset listing the 4032769 species recorded in GBIF matching the query:
{ }

 The dataset's 4032769 records were derived from 71646 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0005206-250310093411724/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.wga2ff
title: Occurrence Download

description: A dataset containing 505 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is Specimen",
 "Geometry POLYGON((-73.85548 3.92783,-73.78092 3.92783,-73.78092 3.98772,-73.85548 3.98772,-73.85548 3.92783))",
 "OccurrenceStatus is Present"
 ]
}

 The dataset includes 505 records from 19 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0005223-250310093411724/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.bt3vdh
title: Occurrence Download

description: A dataset containing 277 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Lessonia nigrescens Bory, 1826"
 ]
}

 The dataset includes 277 records from 37 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0005225-250310093411724/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.sukyad
title: Occurrence Download

description: A dataset listing the 1 species recorded in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON((-2.5 51.4,-2.4 51.4,-2.4 51.5,-2.5 51.5,-2.5 51.4))",
 "HasCoordinate is true",
 "TaxonKey is Pipistrellus pipistrellus (Schreber, 1774)",
 "Year 2013-2015"
 ]
}

 The dataset's 1 records were derived from 2 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0005213-250310093411724/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.rerkf5
title: Occurrence Download

description: A dataset containing 307375 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is Specimen",
 "Geometry POLYGON((-75.0051 4.12039,-72.68472 4.12039,-72.68472 5.70598,-75.0051 5.70598,-75.0051 4.12039))"
 ]
}

 The dataset includes 307375 records from 605 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0005205-250310093411724/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.6073/pasta/f1a1b415dd853f699def6c547f2243bf
title: Soil respiration rates, biogeochemical pools, and mineral-associated organic matter from high organic matter and high mineral content coastal wetland soils in Apalachicola, Florida, 2022

description: This data set was used to observe how the application of dredged sediment would impact soil respirations rates, biogeochemical pools, mineral associated organic matter of coastal wetland soils from Apalachicola, Florida. To achieve this, a combination of intact core and bottle incubations were used, comparing a high organic matter coastal wetland soil to a high mineral content wetland soil which were collected in June, 2022. All laboratory analysis was conducted at the University of Central Florida in Orlando, Florida.
DOI: 10.15468/dl.32awqf
title: Occurrence Download

description: A dataset containing 1 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Raglius vulgaris (Schilling, 1829)",
 "HasGeospatialIssue is false",
 "HasCoordinate is true"
 ]
}

 The dataset includes 1 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0005227-250310093411724/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.nydzz4
title: Occurrence Download

description: A dataset containing 1571 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is Specimen",
 "Geometry POLYGON((-73.72076 4.44991,-73.61875 4.44991,-73.61875 4.50092,-73.72076 4.50092,-73.72076 4.44991))",
 "OccurrenceStatus is Present"
 ]
}

 The dataset includes 1571 records from 31 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0005228-250310093411724/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.myw5qg
title: Occurrence Download

description: A dataset containing 160760 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "TaxonKey is Canis lupus Linnaeus, 1758"
 ]
}

 The dataset includes 160760 records from 614 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0005210-250310093411724/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.82144/f5a89c53
title: WADFW PSAMP W1997

description: Original provider:
Washington Department of Fish & Wildlife

Abstract:
The metadata edits are in progress. Please contact the contact person for detail.

Aerial surveys of marine birds have been conducted annually since 1992 by the Puget Sound Ambient Monitoring Program (PSAMP) staff during both a summer (July) and a winter (December to early February) survey window, sampling some part of every portion of the marine shoreline of the inner marine waters of Washington state by two strata: nearshore (&lt; 20 meters in depth) and offshore (&gt; 20 meters in depth). 

The datasets are split by season (summer or winter) and year.
DOI: 10.15468/dl.h2tvwh
title: Occurrence Download

description: A dataset containing 481 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Rusa timorensis (Blainville, 1822)",
 "Country is Indonesia",
 "HasCoordinate is true"
 ]
}

 The dataset includes 481 records from 10 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0082969-250525065834625/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.gwasea
title: Occurrence Download

description: A dataset containing 1 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Rusa timorensis (Blainville, 1822)",
 "Country is New Zealand",
 "HasCoordinate is true"
 ]
}

 The dataset includes 1 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0082970-250525065834625/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.evs6a4
title: Occurrence Download

description: A dataset containing 867 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Rusa timorensis (Blainville, 1822)",
 "Country is Australia",
 "HasCoordinate is true"
 ]
}

 The dataset includes 867 records from 11 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0082968-250525065834625/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.83x4k9
title: Occurrence Download

description: A dataset containing 1 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Colombia",
 "Geometry POLYGON((-76.59935 8.01673,-76.85025 7.66265,-76.54088 7.01489,-76.16276 5.64834,-74.75341 5.57992,-74.30878 5.84826,-73.93876 6.5646,-73.77977 7.04375,-73.77977 8.06602,-73.65402 8.3815,-73.79583 8.67492,-74.12559 8.4342,-74.681 8.31151,-76.18482 8.24486,-76.59935 8.01673))",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Oreochromis niloticus (Linnaeus, 1758)",
 "Year 2024-2025"
 ]
}

 The dataset includes 1 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0082971-250525065834625/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.tq899c
title: Occurrence Download

description: A dataset containing 35 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Doricha eliza (R.Lesson & Delattre, 1839)",
 "Year 2010-2010"
 ]
}

 The dataset includes 35 records from 2 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0082972-250525065834625/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.3886/icpsr200038.v3
title: National Neighborhood Data Archive (NaNDA): Libraries by Census Tract and ZIP Code Tabulation Area, United States, 1992-2021
title: Version 3

description: This dataset includes measures of the number and density of libraries per United States Census Tract or ZIP Code Tabulation Area (ZCTA) from 1992 through 2021. It comprises four separate files for four different geographic areas (GIS shapefiles from the United States Census Bureau) - Census Tract 2010, Census Tract 2020, ZIP Code Tabulation Area (ZCTA) 2010, and ZIP Code Tabulation Area (ZCTA) 2020.