cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.28360919
title: brainExtractionT1Hemi.h5

description: T1 hemi weights
DOI: 10.6084/m9.figshare.28360919.v1
title: brainExtractionT1Hemi.h5

description: T1 hemi weights
DOI: 10.6084/m9.figshare.28327367
title: <b>A bacterial effector manipulates host lysosomal protease activity-dependent plasticity in cell death modalities to facilitate infection</b>

description: Crosstalk between cell death programs confers appropriate host anti-infection immune responses, but how pathogens co-opt host molecular switches of cell death pathways to reprogram cell death modalities for facilitating infection remains largely unexplored. Here, we identify mammalian cell entry 3C (Mce3C) as a pathogenic cell death regulator secreted by<i> Mycobacterium tuberculosis</i> (Mtb), which causes tuberculosis featured with lung inflammation and necrosis. Mce3C binds host cathepsin B (CTSB), a non-caspase protease acting as a lysosome-derived molecular determinant of cell death modalities, to inhibit its protease activity towards BH3-interacting domain death agonist (BID) and receptor-interacting protein kinase 1 (RIPK1), thereby preventing the production of pro-apoptotic truncated BID (tBID) while maintaining the abundance of pro-necroptotic RIPK1. Disrupting the Mce3C-CTSB interaction promotes host apoptosis while suppressing necroptosis with attenuated Mtb survival and mitigated lung immunopathology in mice. Thus, pathogens manipulate host lysosomal protease activity-dependent plasticity in cell death modalities to promote infection and pathogenicity.
DOI: 10.15468/dl.mn6qjx
title: Occurrence Download

description: A dataset containing 145459 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Living Specimen)"
 ]
 }
 },
 "TaxonKey is Anthoxanthum odoratum L.",
 "Year is less than or equal to 2000",
 "Year is greater than or equal to 1970",
 {
 "or" : [
 {
 "not" : {
 "EstablishmentMeans" : [
 "is one of (MANAGED, INTRODUCED)"
 ]
 }
 },
 "EstablishmentMeans is null"
 ]
 },
 {
 "or" : [
 "CoordinateUncertaintyInMeters is less than 1000",
 "CoordinateUncertaintyInMeters is null"
 ]
 }
 ]
}

 The dataset includes 145459 records from 433 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0018465-250127130748423/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.gy7wad
title: Occurrence Download

description: A dataset containing 19 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is one of (Human Observation, Observation, Occurrence evidence)",
 "GadmGid is AUT.6_1",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "TaxonKey is Cucujus cinnaberinus (Scopoli, 1763)",
 "Year 2010-2025"
 ]
}

 The dataset includes 19 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0018491-250127130748423/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.28360916
title: brainExtractionT1Lobes.h5

description: T1 weights lobes
DOI: 10.6084/m9.figshare.28360916.v1
title: brainExtractionT1Lobes.h5

description: T1 weights lobes
DOI: 10.15468/dl.vnwaa9
title: Occurrence Download

description: A dataset containing 5 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Poppiana bulbifer (Rodríguez, 1992)"
 ]
}

 The dataset includes 5 records from 3 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0018492-250127130748423/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.wbrg7a
title: Occurrence Download

description: A dataset listing the 2 species recorded in GBIF matching the query:
{
 "and" : [
 "Continent is Africa",
 "Country is Morocco",
 "TaxonKey is Quercus suber L."
 ]
}

 The dataset's 2 records were derived from 31 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0018477-250127130748423/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.afxqxb
title: Occurrence Download

description: A dataset containing 35081 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Living Specimen)"
 ]
 }
 },
 "TaxonKey is Arenaria serpyllifolia L.",
 "Year is less than or equal to 2000",
 "Year is greater than or equal to 1970",
 {
 "or" : [
 {
 "not" : {
 "EstablishmentMeans" : [
 "is one of (MANAGED, INTRODUCED)"
 ]
 }
 },
 "EstablishmentMeans is null"
 ]
 },
 {
 "or" : [
 "CoordinateUncertaintyInMeters is less than 1000",
 "CoordinateUncertaintyInMeters is null"
 ]
 }
 ]
}

 The dataset includes 35081 records from 324 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0018493-250127130748423/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.xk6skr
title: Occurrence Download

description: A dataset containing 427 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Mexico",
 "TaxonKey is Gymnogyps californianus (Shaw, 1797)"
 ]
}

 The dataset includes 427 records from 10 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0018494-250127130748423/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.7fztvx
title: Occurrence Download

description: A dataset containing 802 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Living Specimen)"
 ]
 }
 },
 "TaxonKey is Aristida purpurea Nutt.",
 "Year is less than or equal to 2000",
 "Year is greater than or equal to 1970",
 {
 "or" : [
 {
 "not" : {
 "EstablishmentMeans" : [
 "is one of (MANAGED, INTRODUCED)"
 ]
 }
 },
 "EstablishmentMeans is null"
 ]
 },
 {
 "or" : [
 "CoordinateUncertaintyInMeters is less than 1000",
 "CoordinateUncertaintyInMeters is null"
 ]
 }
 ]
}

 The dataset includes 802 records from 71 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0018495-250127130748423/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.m628g7
title: Occurrence Download

description: A dataset containing 1155 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is one of (Human Observation, Observation, Occurrence evidence)",
 "GadmGid is AUT.6_1",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "TaxonKey is one of (Bombina variegata (Linnaeus, 1758), Bombinator variegata (Linnaeus, 1758), Bombina bombina x variegata, Bombina variegata kolombatovici (Bedriaga, 1890), Bombina variegata variegata, Bombina variegata csikii Fejérváry, 1922, Bombina variegata pachypus, Bombina variegata scabra (Küster, 1843), Bombina variegata gracilis Bolkay, 1929)",
 "Year 2010-2025"
 ]
}

 The dataset includes 1155 records from 7 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0018496-250127130748423/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.8a64zj
title: Occurrence Download

description: A dataset containing 42 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Living Specimen)"
 ]
 }
 },
 "TaxonKey is Aristida stricta Michx.",
 "Year is less than or equal to 2000",
 "Year is greater than or equal to 1970",
 {
 "or" : [
 {
 "not" : {
 "EstablishmentMeans" : [
 "is one of (MANAGED, INTRODUCED)"
 ]
 }
 },
 "EstablishmentMeans is null"
 ]
 },
 {
 "or" : [
 "CoordinateUncertaintyInMeters is less than 1000",
 "CoordinateUncertaintyInMeters is null"
 ]
 }
 ]
}

 The dataset includes 42 records from 13 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0018498-250127130748423/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5519/qd.tktmp36l
title: Query on the Natural History Museum Data Portal (data.nhm.ac.uk) (84 records)
DOI: 10.15468/dl.gt5chv
title: Occurrence Download

description: A dataset containing 1 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is one of (Human Observation, Observation, Occurrence evidence)",
 "GadmGid is AUT.6_1",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "TaxonKey is one of (Triturus cristatus (Laurenti, 1768), Triturus cristatus x T. marmoratus, Triturus cristatus x dobrogicus macrosomus, Triturus cristatus platycauda (Rusconi, 1821), Triturus cristatus danubialis (Wolterstorff, 1923), Triturus cristatus dobrogicus (Kiritzescu, 1903), Triturus cristatus cristatus, Triturus cristatus karelinii (Strauch, 1870), Triturus cristatus carnifex (Laurenti, 1768))",
 "Year 2010-2025"
 ]
}

 The dataset includes 1 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0018499-250127130748423/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.11085341
title: Updated: Data upload for Tagless LysoIP method for molecular profiling of lysosomal content in clinical samples

description: Lysosomes are implicated in a wide spectrum of human diseases including monogenic lysosomal storage disorders (LSDs), age-associated neurodegeneration and cancer. Profiling lysosomal content using tag-based lysosomal immunoisolation (LysoTagIP) in cell and animal models allowed major discoveries in the field, however, studying lysosomal dysfunction in human patients remains a challenge. Here, we report the development of the tagless LysoIP method to enable rapid enrichment of lysosomes, via immunoisolation, using the endogenous integral lysosomal membrane protein TMEM192, directly from clinical samples and human cell lines. Isolated lysosomes are intact and suitable for subsequent multimodal omics analyses. To validate the utility of our approach, we employed the tagless LysoIP to enrich lysosomes from peripheral blood mononuclear cells (PBMCs) derived from fresh blood of patients with CLN3 Batten disease, a neurodegenerative LSD. Metabolic profiling of isolated lysosomes showed massive accumulation of glycerophosphodiesters (GPDs) in patients’ lysosomes. Interestingly, a patient with a milder phenotype and genotype, displayed lower accumulation of lysosomal GPDs, consistent with their potential role as disease biomarkers. Altogether, the tagless LysoIP provides a framework to study native lysosomes from patient samples, identify novel biomarkers and discover human-relevant disease mechanisms.
DOI: 10.5281/zenodo.11085342
title: Data upload for Tagless LysoIP method for molecular profiling of lysosomal content in clinical samples

description: Lysosomes are implicated in a wide spectrum of human diseases including monogenic lysosomal storage disorders (LSDs), age-associated neurodegeneration and cancer. Profiling lysosomal content using tag-based lysosomal immunoisolation (LysoTagIP) in cell and animal models allowed major discoveries in the field, however, studying lysosomal dysfunction in human patients remains a challenge. Here, we report the development of the tagless LysoIP method to enable rapid enrichment of lysosomes, via immunoisolation, using the endogenous integral lysosomal membrane protein TMEM192, directly from clinical samples and human cell lines. Isolated lysosomes are intact and suitable for subsequent multimodal omics analyses. To validate the utility of our approach, we employed the tagless LysoIP to enrich lysosomes from peripheral blood mononuclear cells (PBMCs) derived from fresh blood of patients with CLN3 Batten disease, a neurodegenerative LSD. Metabolic profiling of isolated lysosomes showed massive accumulation of glycerophosphodiesters (GPDs) in patients’ lysosomes. Interestingly, a patient with a milder phenotype and genotype, displayed lower accumulation of lysosomal GPDs, consistent with their potential role as disease biomarkers. Altogether, the tagless LysoIP provides a framework to study native lysosomes from patient samples, identify novel biomarkers and discover human-relevant disease mechanisms.
DOI: 10.5281/zenodo.13946597
title: Updated: Data upload for Tagless LysoIP method for molecular profiling of lysosomal content in clinical samples

description: Lysosomes are implicated in a wide spectrum of human diseases including monogenic lysosomal storage disorders (LSDs), age-associated neurodegeneration and cancer. Profiling lysosomal content using tag-based lysosomal immunoisolation (LysoTagIP) in cell and animal models allowed major discoveries in the field, however, studying lysosomal dysfunction in human patients remains a challenge. Here, we report the development of the tagless LysoIP method to enable rapid enrichment of lysosomes, via immunoisolation, using the endogenous integral lysosomal membrane protein TMEM192, directly from clinical samples and human cell lines. Isolated lysosomes are intact and suitable for subsequent multimodal omics analyses. To validate the utility of our approach, we employed the tagless LysoIP to enrich lysosomes from peripheral blood mononuclear cells (PBMCs) derived from fresh blood of patients with CLN3 Batten disease, a neurodegenerative LSD. Metabolic profiling of isolated lysosomes showed massive accumulation of glycerophosphodiesters (GPDs) in patients’ lysosomes. Interestingly, a patient with a milder phenotype and genotype, displayed lower accumulation of lysosomal GPDs, consistent with their potential role as disease biomarkers. Altogether, the tagless LysoIP provides a framework to study native lysosomes from patient samples, identify novel biomarkers and discover human-relevant disease mechanisms.
DOI: 10.5281/zenodo.14827155
title: Updated: Data upload for Tagless LysoIP method for molecular profiling of lysosomal content in clinical samples

description: Lysosomes are implicated in a wide spectrum of human diseases including monogenic lysosomal storage disorders (LSDs), age-associated neurodegeneration and cancer. Profiling lysosomal content using tag-based lysosomal immunoisolation (LysoTagIP) in cell and animal models allowed major discoveries in the field, however, studying lysosomal dysfunction in human patients remains a challenge. Here, we report the development of the tagless LysoIP method to enable rapid enrichment of lysosomes, via immunoisolation, using the endogenous integral lysosomal membrane protein TMEM192, directly from clinical samples and human cell lines. Isolated lysosomes are intact and suitable for subsequent multimodal omics analyses. To validate the utility of our approach, we employed the tagless LysoIP to enrich lysosomes from peripheral blood mononuclear cells (PBMCs) derived from fresh blood of patients with CLN3 Batten disease, a neurodegenerative LSD. Metabolic profiling of isolated lysosomes showed massive accumulation of glycerophosphodiesters (GPDs) in patients’ lysosomes. Interestingly, a patient with a milder phenotype and genotype, displayed lower accumulation of lysosomal GPDs, consistent with their potential role as disease biomarkers. Altogether, the tagless LysoIP provides a framework to study native lysosomes from patient samples, identify novel biomarkers and discover human-relevant disease mechanisms.
DOI: 10.25345/c55718113
title: MassIVE MSV000097061 - Circulating proteins in the plasma of pregnant women with early and late onset preeclampsia versus healthy pregnant women
title: Preeclampsia (PE) is a multifactorial disease with a complex pathophysiology and no specific treatment currently available. Therefore, investigating altered pathways, proteins, and metabolites, as well as identifying potential biomarkers and therapeutic targets, becomes essential. Thus, the objective of this work is to identify the proteins altered or involved in the pathophysiology of PE.
DOI: 10.5281/zenodo.14166438
title: Visualizations of medium wave AM broadcaster carriers  from data recorded during HamSCI's 2023 Festivals of Eclipse Ionospheric Science

description: During the October 14, 2023 annular solar eclipse across the Americas, 13 HamSCI volunteers recorded the entire medium wave AM broadcast band (525-1705 kHz) using software defined radios (SDRs), from sites in Canada, the USA, Mexico and Portugal.    In addition, many participants made reference recordings of local sunrise and sunset periods on the day of the eclipse, as well as of the eclipse period on another day.

All of the resulting SDR files have been processed using Carrier Sleuth software, which enabled visualization of the AM broadcasters’ carrier frequencies over time, including any Doppler shift or spectral spreading, plus their signal strengths.  These visualization are in the form of 80Hz wide waterfall displays of all 117 domestic broadcast channels, which are spaced at 10kHz intervals across the medium wave band. 

The Carrier Sleuth files are available here for download, along with software and introductory documents, describing how those files can be used for a first look at the data set, as well as instructions for obtaining the raw SDR data.
description: For introduction to the contents of this site, please read “2023 Solar Eclipse MW Recording Details.pdf”, which describes the location of participants as well as details about their data sets.  In addition, it will direct the user to the Carrier Sleuth files and to each participant’s raw data.

“CarrierSleuthWindowsMay2024.zip” is a copy of Carrier Sleuth software (ready to run, once unzipped), courtesy of its developer, Chris Smolinski, W3HFU.  The most recent version of the software may be obtained at https://www.blackcatsystems.com/software/medium_wave_carrier_display_app.html

“CarrierSleuthOverview.pdf” provides a detailed introduction to Carrier Sleuth software, including instructions for deriving carrier signal strength vs. time for any slice of spectrum to a resolution of 0.1Hz.
DOI: 10.5281/zenodo.14166439
title: Visualizations of medium wave AM broadcaster carriers  from data recorded during HamSCI's 2023 Festivals of Eclipse Ionospheric Science

description: During the October 14, 2023 annular solar eclipse across the Americas, 13 HamSCI volunteers recorded the entire medium wave AM broadcast band (525-1705 kHz) using software defined radios (SDRs), from sites in Canada, the USA, Mexico and Portugal.    In addition, many participants made reference recordings of local sunrise and sunset periods on the day of the eclipse, as well as of the eclipse period on another day.

All of the resulting SDR files have been processed using Carrier Sleuth software, which enabled visualization of the AM broadcasters’ carrier frequencies over time, including any Doppler shift or spectral spreading, plus their signal strengths.  These visualization are in the form of 80Hz wide waterfall displays of all 117 domestic broadcast channels, which are spaced at 10kHz intervals across the medium wave band. 

The Carrier Sleuth files are available here for download, along with software and introductory documents, describing how those files can be used for a first look at the data set, as well as instructions for obtaining the raw SDR data.
description: For introduction to the contents of this site, please read “2023 Solar Eclipse MW Recording Details.pdf”, which describes the location of participants as well as details about their data sets.  In addition, it will direct the user to the Carrier Sleuth files and to each participant’s raw data.

“CarrierSleuthWindowsMay2024.zip” is a copy of Carrier Sleuth software (ready to run, once unzipped), courtesy of its developer, Chris Smolinski, W3HFU.  The most recent version of the software may be obtained at https://www.blackcatsystems.com/software/medium_wave_carrier_display_app.html

“CarrierSleuthOverview.pdf” provides a detailed introduction to Carrier Sleuth software, including instructions for deriving carrier signal strength vs. time for any slice of spectrum to a resolution of 0.1Hz.
DOI: 10.15468/dl.a7vhnv
title: Occurrence Download

description: A dataset containing 44 species occurrences available in GBIF matching the query:
{
 "and" : [
 "DatasetKey is Biodiversidad de macroinvertebrados bénticos de la región marina Tijuana-Ensenada Baja California, México",
 "Geometry POLYGON((-117.08107 32.36185,-117.07097 32.36185,-117.07097 32.36889,-117.08107 32.36889,-117.08107 32.36185))"
 ]
}

 The dataset includes 44 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0018502-250127130748423/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.13011/m3-6xz7-f943
title: Data files: Systematic discovery of new nano-scale metastable intermetallic eutectic phases in laser rapid solidified Aluminum-Germanium alloy Author links open overlay panel
DOI: 10.15468/dl.ed5agv
title: Occurrence Download

description: A dataset containing 158088 species occurrences available in GBIF matching the query:
{
 "and" : [
 {
 "or" : [
 "PublishingCountry is Colombia",
 {
 "and" : [
 "Country is Colombia",
 {
 "not" : {
 "Issue" : [
 "is Country coordinate mismatch"
 ]
 }
 }
 ]
 }
 ]
 },
 {
 "and" : [
 "StateProvince is one of (casanare)",
 "TaxonKey is one of (Mammalia)"
 ]
 }
 ]
}

 The dataset includes 158088 records from 113 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0018480-250127130748423/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.ftqeny
title: Occurrence Download

description: A dataset containing 14603 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Colombia",
 "TaxonKey is one of (Dasypus novemcinctus Linnaeus, 1758, Dasypus novemcinctus fenestratus Peters, 1864, Dasypus novemcinctus novemcinctus, Dasypus novemcinctus mexicanus Peters, 1864, Dasypus novemcinctus aequatorialis Lönnberg, 1913, Dasypus novemcinctus mexianae (Hagmann, 1908), Dasypus novemcinctus hoplites G.M.Allen, 1911)"
 ]
}

 The dataset includes 14603 records from 306 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0018503-250127130748423/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.m4275g
title: Occurrence Download

description: A dataset containing 5052 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Continent is South America",
 "Country is Colombia",
 "IucnRedListCategory is one of (CR, EN, VU, NT)",
 "OccurrenceStatus is Present",
 "StateProvince is one of (Valle del Cauca, Valle Del Cauca Department, Valle del Cauca Departamento, Valle del cauca, Valle del Cauca Dept., Valle del Cauca dept)",
 "TaxonKey is Plantae"
 ]
}

 The dataset includes 5052 records from 92 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0018506-250127130748423/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.