cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5281/zenodo.8008094
title: CFdb: chromatograms

description: This upload contains processed chromatogram matrices for 411 CF-MS experiments. Database search and protein quantitation was performed with MaxQuant (version 1.6.5.0), and potential contaminants, reverse hits, and proteins identified only by modified peptides were filtered out. Multiple chromatograms are provided for each experiment, corresponding to different protein quantitation strategies. These include iBAQ, MaxLFQ, MS1 intensity, and spectral counts, for label-free datasets, and the isotopologue ratio for SILAC or dimethyl labelling datasets. Each directory also contains a metadata file, which contains further information about each row in the corresponding chromatogram matrices output by MaxQuant. Chromatograms are also provided for phosphorylation sites detected in a separate MaxQuant search including STY phosphorylation as a variable modification (in the "Phosphorylation" directory). Separate chromatograms are provided for raw phosphosite intensities and the ratio between modified and unmodified phosphosite intensities (phosphorylation stoichiometries). For datasets collected with SILAC or dimethyl labelling, isotopologue ratio chromatograms are also provided. For TMT datasets, reporter intensities for phosphosites were not output by MaxQuant, meaning that only aggregate measurements of phosphosite intensity and stoichiometry over all experiments in the TMT plex could be obtained. In addition to processed chromatograms, which are provided in the "Chromatograms" directory, the upload also contains the raw output files ('proteinGroups.txt' and 'Phospho(STY) sites.txt') from each MaxQuant search. These files are provided within the "Protein groups" directory. Complete MaxQuant outputs for each experiment are available from the PRIDE repository (see the manuscript for accession).
DOI: 10.5281/zenodo.8008093
title: CFdb: chromatograms

description: This upload contains processed chromatogram matrices for 411 CF-MS experiments. Database search and protein quantitation was performed with MaxQuant (version 1.6.5.0), and potential contaminants, reverse hits, and proteins identified only by modified peptides were filtered out. Multiple chromatograms are provided for each experiment, corresponding to different protein quantitation strategies. These include iBAQ, MaxLFQ, MS1 intensity, and spectral counts, for label-free datasets, and the isotopologue ratio for SILAC or dimethyl labelling datasets. Each directory also contains a metadata file, which contains further information about each row in the corresponding chromatogram matrices output by MaxQuant. Chromatograms are also provided for phosphorylation sites detected in a separate MaxQuant search including STY phosphorylation as a variable modification (in the "Phosphorylation" directory). Separate chromatograms are provided for raw phosphosite intensities and the ratio between modified and unmodified phosphosite intensities (phosphorylation stoichiometries). For datasets collected with SILAC or dimethyl labelling, isotopologue ratio chromatograms are also provided. For TMT datasets, reporter intensities for phosphosites were not output by MaxQuant, meaning that only aggregate measurements of phosphosite intensity and stoichiometry over all experiments in the TMT plex could be obtained. In addition to processed chromatograms, which are provided in the "Chromatograms" directory, the upload also contains the raw output files ('proteinGroups.txt' and 'Phospho(STY) sites.txt') from each MaxQuant search. These files are provided within the "Protein groups" directory. Complete MaxQuant outputs for each experiment are available from the PRIDE repository (see the manuscript for accession).
DOI: 10.6084/m9.figshare.23299163
title: Dataset Virtual Base and 4th wk after event

description: Dataset Virtual Race event
DOI: 10.15468/dl.vav7pb
title: Occurrence Download

description: A dataset containing 15447 species occurrences available in GBIF matching the query:
{
 "and" : [
 {
 "or" : [
 "BasisOfRecord is Observation",
 "BasisOfRecord is Human Observation",
 "BasisOfRecord is Material sample",
 "BasisOfRecord is Literature Occurrence",
 "BasisOfRecord is Specimen",
 "BasisOfRecord is Living Specimen"
 ]
 },
 "OccurrenceStatus is Present",
 "TaxonKey is Sisymbrium orientale L."
 ]
}

 The dataset includes 15447 records from 317 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0066411-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.32s8tv
title: Occurrence Download

description: A dataset containing 66583 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON ((5.075 52.025,5.125 52.025,5.125 52.075,5.075 52.075,5.075 52.025))",
 "DatasetKey is Observation.org, Nature data from around the World",
 "TaxonKey is Animalia"
 ]
}

 The dataset includes 66583 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0305762-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.f4ae6r
title: Occurrence Download

description: A dataset containing 4220 species occurrences available in GBIF matching the query:
{
 "and" : [
 {
 "or" : [
 "Country is United States of America",
 "Country is Canada",
 "Country is Mexico"
 ]
 },
 {
 "or" : [
 "Month is December",
 "Month is March",
 "Month is April",
 "Month is May",
 "Month is June",
 "Month is July",
 "Month is August",
 "Month is September",
 "Month is October",
 "Month is November"
 ]
 },
 "Year is 1997",
 "DatasetKey is EOD – eBird Observation Dataset",
 "HasCoordinate is true",
 "TaxonKey is Catharus ustulatus (Nuttall, 1840)",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 4220 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0001185-190415153152247/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.nt84hp
title: Occurrence Download

description: A dataset containing 15 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Coroebus undatus"
 ]
}

 The dataset includes 15 records from 3 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0043591-210914110416597/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.vc3krm
title: Occurrence Download

description: A dataset containing 97 species occurrences available in GBIF matching the query:
{
 "and" : [
 {
 "or" : [
 "BasisOfRecord is Human Observation",
 "BasisOfRecord is Material sample"
 ]
 },
 "Continent is South America",
 "Country is Colombia",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "TaxonKey is Ceroxylon quindiuense (H.Karst.) H.Wendl."
 ]
}

 The dataset includes 97 records from 8 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0051761-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.bcpft3
title: Occurrence Download

description: A dataset containing 119 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Anisodontea capensis (L.) D.M.Bates)",
 "HasCoordinate is true"
 ]
}

 The dataset includes 119 records from 23 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0052188-240506114902167/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.gysub4
title: Occurrence Download

description: A dataset containing 85276 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON ((5.075 52.225,5.125 52.225,5.125 52.275,5.075 52.275,5.075 52.225))",
 "DatasetKey is Observation.org, Nature data from around the World",
 "TaxonKey is Animalia"
 ]
}

 The dataset includes 85276 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0305757-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.keo5di
title: Occurrence Download

description: A dataset containing 7880 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Ara chloropterus G.R.Gray, 1859"
 ]
}

 The dataset includes 7880 records from 91 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0006890-180730143533302/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.srgrxn
title: Occurrence Download

description: A dataset containing 9815 species occurrences available in GBIF matching the query:
{
 "and" : [
 {
 "or" : [
 "BasisOfRecord is Human Observation",
 "BasisOfRecord is Observation"
 ]
 },
 "TaxonKey is Camelidae"
 ]
}

 The dataset includes 9815 records from 30 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0015536-210819072339941/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.jx8kup
title: Occurrence Download

description: A dataset containing 10662 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Mexico",
 "TaxonKey is Tigrisoma mexicanum Swainson, 1834"
 ]
}

 The dataset includes 10662 records from 48 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0073714-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.m66ewj
title: Occurrence Download

description: A dataset containing 25 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Metanephrops mozambicus Macpherson, 1990"
 ]
}

 The dataset includes 25 records from 4 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0286388-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.wi2nmn
title: Occurrence Download

description: A dataset containing 164 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is Planktic foraminifera abundance of Hole 94-610B"
 ]
}

 The dataset includes 164 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0001187-160910150852091/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.6cvjb6
title: Occurrence Download

description: A dataset containing 1031 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is Specimen",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Hominidae"
 ]
}

 The dataset includes 1031 records from 43 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0246323-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.cn7ekt
title: Occurrence Download

description: A dataset listing the 332 species recorded in GBIF matching the query:
{
 "DatasetKey" : [
 "is Estudios bióticos: Plantas, edafofauna epígea, anfibios y aves en el complejo de páramos Cruz Verde - Sumapaz"
 ]
}

 The dataset's 332 records were derived from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0069376-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.n62f6c
title: Occurrence Download

description: A dataset containing 96 species occurrences available in GBIF matching the query:
{
 "and" : [
 "CoordinateUncertaintyInMeters 0.0-5000.0",
 "Country is Chinese Taipei",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Chenopodium ambrosioides L."
 ]
}

 The dataset includes 96 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0036247-210914110416597/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.zgx6wm
title: Occurrence Download

description: A dataset containing 1696 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Grallaria squamigera Prevost & Des Murs, 1842"
 ]
}

 The dataset includes 1696 records from 49 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0001187-170822121629195/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.4j9sx9
title: Occurrence Download

description: A dataset containing 364 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is United States of America",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "TaxonKey is Calcinus seurati Forest, 1951"
 ]
}

 The dataset includes 364 records from 5 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0232480-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.lw6jo0
title: Occurrence Download

description: A dataset containing 98410 species occurrences available in GBIF matching the query:
{
 "and" : [
 {
 "or" : [
 "Country is Netherlands",
 "Country is Sweden",
 "Country is United Kingdom of Great Britain and Northern Ireland",
 "Country is Belgium",
 "Country is France",
 "Country is Denmark",
 "Country is Germany",
 "Country is Finland",
 "Country is Norway"
 ]
 },
 "Year 1970-2018",
 "HasCoordinate is true",
 "TaxonKey is Alisma plantago-aquatica L.",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 98410 records from 286 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0007659-180824113759888/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.837u9r
title: Occurrence Download

description: A dataset containing 14 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Vangueriella letestui Verdc."
 ]
}

 The dataset includes 14 records from 6 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0297990-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.pwglvt
title: Occurrence Download

description: A dataset containing 468 species occurrences available in GBIF matching the query:
{
 "and" : [
 "DatasetKey is RB - Rio de Janeiro Botanical Garden Herbarium Collection",
 "TaxonKey is Anadenanthera colubrina (Vell.) Brenan"
 ]
}

 The dataset includes 468 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0001187-190813142620410/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.6mstdc
title: Occurrence Download

description: A dataset containing 1972 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "TaxonKey is Pteris terminalis Wall."
 ]
}

 The dataset includes 1972 records from 51 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0246304-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.a3wxjh
title: Occurrence Download

description: A dataset containing 2757 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasCoordinate is true",
 "TaxonKey is Limacus flavus (Linnaeus, 1758)",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 2757 records from 87 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0007659-190320150433242/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.9tezqx
title: Occurrence Download

description: A dataset containing 22465 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasCoordinate is true",
 "Year is greater than or equal to 2000",
 "Year is less than or equal to 2024",
 "Geometry POLYGON ((-130.7383528944533 -59.46314024951374, -130.7383528944533 32.71876227804215, -26.26729810228821 32.71876227804215, -26.26729810228821 -59.46314024951374, -130.7383528944533 -59.46314024951374))",
 "OccurrenceStatus is Present",
 "TaxonKey is Oreothlypis gutturalis (Cabanis, 1861)"
 ]
}

 The dataset includes 22465 records from 7 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0052189-240506114902167/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.fbhs6h
title: Occurrence Download

description: A dataset containing 6183142 species occurrences available in GBIF matching the query:
(Query is too complex. Can be viewed on the landing page)

 The dataset includes 6183142 records from 1013 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0313145-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.v7zw3h
title: Occurrence Download

description: A dataset containing 14 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 "TaxonKey is Cephalothrix simula (Iwata, 1952)",
 {
 "or" : [
 "CoordinateUncertaintyInMeters is less than 10000",
 "CoordinateUncertaintyInMeters is null"
 ]
 }
 ]
}

 The dataset includes 14 records from 7 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0021834-250402121839773/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.25549/one-ouc17555279
title: Mattachine Society, Police-Community Relations, San Francisco (1967)
DOI: 10.25549/one-ouc17555282
title: Mattachine Society, Society for Individual Rights (1964-1967)
DOI: 10.25549/one-ouc17555284
title: Mattachine Society, Society for Individual Rights (1964-1967)
DOI: 10.25549/one-ouc17555285
title: Mattachine Society, Society for Individual Rights (1964-1967)
DOI: 10.6084/m9.figshare.17065978.v1
title: Additional file 3 of Transcriptional landscape of highly lignified poplar stems at single-cell resolution

description: Additional file 3: Table S2. List of the cluster-enriched genes.
DOI: 10.25549/one-ouc17555286
title: Mattachine Society, Society for Individual Rights (1964-1967)
DOI: 10.25549/one-ouc17555290
title: Mattachine Society, Long Beach (Harbor) area council meeting minutes (1954-1955)
DOI: 10.25549/one-ouc17555296
title: Mattachine Society, Long Beach (Harbor) Area Council correspondence and memoranda (1953-1956)
DOI: 10.25549/one-ouc17555287
title: Mattachine Society, The Rejected television special (1961-1962)
DOI: 10.25549/one-ouc17555291
title: Mattachine Society, Tavern Guild (1964-1967)
DOI: 10.25549/one-ouc17555295
title: Mattachine Society, Long Beach (Harbor) Area Council correspondence and memoranda (1953-1956)
DOI: 10.25549/one-ouc17555301
title: Mattachine Society, Long Beach (Harbor) Area Council correspondence and memoranda (1953-1956)
DOI: 10.25549/one-ouc17555302
title: Mattachine Society, Long Beach (Harbor) Area Council correspondence and memoranda (1953-1956)
DOI: 10.25549/one-ouc17555300
title: Mattachine Society, Long Beach (Harbor) Area Council correspondence and memoranda (1953-1956)
DOI: 10.25549/one-ouc17555298
title: Mattachine Society, Tay-Bush legal defense fund (1961-1962)
DOI: 10.25549/one-ouc17555303
title: Mattachine Society, Long Beach (Harbor) Area Council correspondence and memoranda (1953-1956)
DOI: 10.25549/one-ouc17555299
title: Mattachine Society, Tay-Bush legal defense fund (1961-1962)
DOI: 10.25549/one-ouc17559730
title: Mattachine Society, secretary general file (1954-1960)

description: Mattachine Society; file of the secretary general of the Mattachine Society, including administrative records from area councils; correspondence regarding Mattachine publications and financial donations; meeting minutes; membership information; and legal documents  (1954-1960)
DOI: 10.25549/one-ouc17559731
title: Mattachine Society, Los Angeles Area Council proposed bylaws and policies (1953-1954)

description: Mattachine Society; drafts for proposed bylaws and policies for the Los Angeles Area Council, also known as the Southern Area Council (1953-1954)
DOI: 10.6084/m9.figshare.19690184.v1
title: GATA binding protein 1 recruits histone deacetylase 2 to the promoter region of nuclear receptor binding protein 2 to affect the tumor microenvironment and malignancy of thyroid carcinoma

description: The tumor microenvironment (TME) and activated angiogenesis in thyroid carcinoma (TC) are critical for tumor growth and metastasis. Nuclear receptor binding protein 2 (<i>NRBP2</i>) has been suggested as a tumor suppressor. This study examines the function of <i>NRBP2</i> in the progression of TC and the regulatory mechanism. By analyzing bioinformatic tools including GSE165724 dataset and the Cancer Genome Atlas system, we predicted <i>NRBP2</i> as a poorly expressed gene in TC. Decreased <i>NRBP2</i> expression was detected in TC tumor tissues and cells. Poor expression of <i>NRBP2</i> was linked to unfavorable prognosis of patients. GATA binding protein 1 (<i>GATA1</i>) was found as a negative regulator of <i>NRBP2</i>. It recruited histone deacetylase2 (<i>HDAC2</i>) to the <i>NRBP2</i> promoter to trigger histone deacetylation. <i>NRBP2</i> overexpression suppressed growth of TC cells, and it reduced expression of TME markers, M2 polarization of macrophages, and angiogenesis in TC. Similar results were reproduced <i>in vivo</i> in nude mice. However, the anti-oncogenic roles of <i>NRBP2</i> were blocked after further overexpression of <i>GATA1</i> or <i>HDAC2</i>. In summary, this study demonstrates that <i>GATA1</i> recruits <i>HDAC2</i> to the <i>NRBP2</i> promoter and enhances the TME and angiogenesis in TC cells.
DOI: 10.6084/m9.figshare.11825970
title: Additional file 2 of Lisa: inferring transcriptional regulators through integrative modeling of public chromatin accessibility and ChIP-seq data

description: Additional file 2: Table S1. Cistrome profile annotation table including TR ChIP-seq and TF motifs.
DOI: 10.6084/m9.figshare.11825982
title: Additional file 4 of Lisa: inferring transcriptional regulators through integrative modeling of public chromatin accessibility and ChIP-seq data

description: Additional file 4: Table S3. Analysis of Lisa predictions of GR and ER regulated genes using data which does not match the specific cell type. The cell line and cell type of the highest ranked Lisa predicted target TR sample are shown in parentheses in each case.
DOI: 10.25549/one-ouc17559733
title: Mattachine Society, secretary general file (1954-1960)

description: Mattachine Society; file of the secretary general of the Mattachine Society, including administrative records from area councils; correspondence regarding Mattachine publications and financial donations; meeting minutes; membership information; and legal documents  (1954-1960)