cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.15468/dl.9bv9r9
title: Occurrence Download

description: A dataset containing 1 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Acidithiobacillia",
 "HasCoordinate is true",
 "Country is one of (Portugal)",
 "HasGeospatialIssue is false",
 "Year is greater than 2009"
 ]
}

 The dataset includes 1 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0232242-210914110416597/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.kveanr
title: Occurrence Download

description: A dataset containing 732 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is Suivi des oiseaux de passage : programme ACT - Programme ACT : Répartition Faisan commun 2011 - 2015 Coordonnées GPS Lambert 93"
 ]
}

 The dataset includes 732 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0011959-200221144449610/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.gbt8sy
title: Occurrence Download

description: A dataset containing 3830 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasCoordinate is true",
 "Country is one of (United States of America, Mexico, Canada)",
 "Year is greater than 1978",
 "Year is less than 2014",
 "HasGeospatialIssue is false",
 "TaxonKey is Zaprora silenus Jordan, 1896"
 ]
}

 The dataset includes 3830 records from 24 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0110330-230224095556074/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.augvev
title: Occurrence Download

description: A dataset containing 1 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Letheobia manni (Loveridge, 1941)"
 ]
}

 The dataset includes 1 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0285486-210914110416597/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.ncbrf7
title: Occurrence Download

description: A dataset containing 1253 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasCoordinate is true",
 "Country is one of (United States of America, Mexico, Canada)",
 "Year is greater than 1978",
 "Year is less than 2014",
 "HasGeospatialIssue is false",
 "TaxonKey is Alliaria petiolata (M.Bieb.) Cavara & Grande"
 ]
}

 The dataset includes 1253 records from 78 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0110259-230224095556074/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.vczc11
title: Occurrence Download

description: A dataset containing 1829 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is Préfiguration d'un Observatoire de la biodiversité végétale de la Communauté Urbaine de Bordeaux 2009 - Inventaire de la flore de la Communauté Urbaine de Bordeaux 2009"
 ]
}

 The dataset includes 1829 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0011939-200221144449610/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.s8y6a3
title: Occurrence Download

description: A dataset containing 648 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Otocolobus manul (Pallas, 1776)"
 ]
}

 The dataset includes 648 records from 19 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0008035-240202131308920/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.ppcvrg
title: Occurrence Download

description: A dataset containing 2074172 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Gastropoda",
 "DecimalLongitude is greater than or equal to -179",
 "DecimalLongitude is less than or equal to -12",
 "DecimalLatitude is greater than or equal to -56",
 "DecimalLatitude is less than or equal to 84"
 ]
}

 The dataset includes 2074172 records from 900 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0110260-230224095556074/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.bpgblx
title: Occurrence Download

description: A dataset containing 2413 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is Literature based species occurrence data of birds of North-East India"
 ]
}

 The dataset includes 2413 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0040855-191105090559680/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.wenxhv
title: Occurrence Download

description: A dataset containing 235773 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Lolium pratense (Huds.) Darbysh.",
 "HasCoordinate is true",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 235773 records from 714 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0300203-210914110416597/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.ewc4be
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Hyloxalus chlorocraspedus (Caldwell, 2005))",
 "BasisOfRecord is one of (Specimen, Human Observation, Observation, Machine Observation)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0068254-230224095556074/datasets/export for details.
DOI: 10.25549/pcra-c14-44848
title: Redemption tidings, vol. 15, nos. 1-26, 2 Jan. - 15 Dec. 1939

description: [description english/roman)] Issued fortnightly (every two weeks). "A full gospel magazine for all believers" -- subtitle. Includes Tidings from our missionaries in each issue (2 Jan. - 15 Dec. 1939).
DOI: 10.15468/dl.9qnma6
title: Occurrence Download

description: A dataset containing 653 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Tylomys nudicaudus (Peters, 1866)"
 ]
}

 The dataset includes 653 records from 45 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0347161-210914110416597/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.dkyp9e
title: Occurrence Download

description: A dataset containing 305 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON((-75.65117 9.41735,-75.58525 9.34554,-75.54817 9.36587,-75.49461 9.44716,-75.47127 9.52572,-75.47539 9.64353,-75.53169 9.71934,-75.61134 9.69091,-75.59074 9.653,-75.57152 9.62593,-75.57426 9.54332,-75.61684 9.45258,-75.65117 9.41735))",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Plantae"
 ]
}

 The dataset includes 305 records from 17 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0105555-210914110416597/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.25549/pcra-c14-44868
title: Redemption tidings, vol. 15, nos. 1-26, 2 Jan. - 15 Dec. 1939

description: [description english/roman)] Issued fortnightly (every two weeks). "A full gospel magazine for all believers" -- subtitle. Includes Tidings from our missionaries in each issue (2 Jan. - 15 Dec. 1939).
DOI: 10.5281/zenodo.10990182
title: Benchmarking tools for transcription factor prioritization

description: Abstract:

Spatiotemporal regulation of gene expression is controlled by transcription factor (TF) binding to regulatory elements, resulting in a plethora of cell types and cell states from the same genetic information.  Due to the importance of regulatory elements, various sequencing methods have been developed to localise them in genomes, for example using ChIP-seq profiling of the histone mark H3K27ac that marks active regulatory regions. Moreover, multiple tools have been developed to predict TF binding to these regulatory elements based on DNA sequence. As altered gene expression is a hallmark of disease phenotypes, identifying TFs driving such gene expression programs is critical for the identification of novel drug targets.In this study, we curated 84 chromatin profiling experiments (H3K27ac ChIP-seq) where TFs were perturbed through e.g., genetic knockout or overexpression. We ran nine published tools to prioritize TFs using these real-world data sets and evaluated the performance of the methods in identifying the perturbed TFs. This allowed the nomination of three frontrunner tools, namely RcisTarget, MEIRLOP and monaLisa. Our analyses revealed opportunities and commonalities of tools that will help to guide further improvements and developments in the field.

Dataset description:



tf_tool_benchmark_atacseq_diffPeaks.tar.gz -Archive containing differential peak statistics, tool diff peak input files (fore- and background) for all currated ATAC-seq datasets. 

tf_tool_benchmark_h3K27ac_chipseq_diffPeaks.tar.gz - Archive containing differential peak statistics, tool diff peak input files (fore- and background) for all currated H3K27ac ChIP-seq datasets. 

tf_tool_benchmark_atacseq_results.tar.gz - Archive containing the raw tool results for each ATAC-seq dataset.

tf_tool_benchmark_chipseq_results.tar.gz - Archive containing the raw tool results for each H3K27ac ChIP-seq dataset.

tf_tool_benchmark_results.tar.gz - Archive containing tool results summary for plotting (rds files).


Contact:  Sebastian Steinhauser - sebastian.steinhauser@novartis.com
DOI: 10.5281/zenodo.10990183
title: Benchmarking tools for transcription factor prioritization

description: Abstract:

Spatiotemporal regulation of gene expression is controlled by transcription factor (TF) binding to regulatory elements, resulting in a plethora of cell types and cell states from the same genetic information.  Due to the importance of regulatory elements, various sequencing methods have been developed to localise them in genomes, for example using ChIP-seq profiling of the histone mark H3K27ac that marks active regulatory regions. Moreover, multiple tools have been developed to predict TF binding to these regulatory elements based on DNA sequence. As altered gene expression is a hallmark of disease phenotypes, identifying TFs driving such gene expression programs is critical for the identification of novel drug targets.In this study, we curated 84 chromatin profiling experiments (H3K27ac ChIP-seq) where TFs were perturbed through e.g., genetic knockout or overexpression. We ran nine published tools to prioritize TFs using these real-world data sets and evaluated the performance of the methods in identifying the perturbed TFs. This allowed the nomination of three frontrunner tools, namely RcisTarget, MEIRLOP and monaLisa. Our analyses revealed opportunities and commonalities of tools that will help to guide further improvements and developments in the field.

Dataset description:



tf_tool_benchmark_atacseq_diffPeaks.tar.gz -Archive containing differential peak statistics, tool diff peak input files (fore- and background) for all currated ATAC-seq datasets. 

tf_tool_benchmark_h3K27ac_chipseq_diffPeaks.tar.gz - Archive containing differential peak statistics, tool diff peak input files (fore- and background) for all currated H3K27ac ChIP-seq datasets. 

tf_tool_benchmark_atacseq_results.tar.gz - Archive containing the raw tool results for each ATAC-seq dataset.

tf_tool_benchmark_chipseq_results.tar.gz - Archive containing the raw tool results for each H3K27ac ChIP-seq dataset.

tf_tool_benchmark_results.tar.gz - Archive containing tool results summary for plotting (rds files).


Contact:  Sebastian Steinhauser - sebastian.steinhauser@novartis.com
DOI: 10.15468/dl.pt5xg3
title: Occurrence Download

description: A dataset containing 487 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Continent is North America",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "TaxonKey is Dermacentor albipictus Packard, 1869"
 ]
}

 The dataset includes 487 records from 12 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0068268-230224095556074/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.t3u27m
title: Occurrence Download

description: A dataset containing 208 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasCoordinate is true",
 "TaxonKey is Synagapetus dubitans McLachlan, 1879",
 "Country is one of (Switzerland)"
 ]
}

 The dataset includes 208 records from 2 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0347139-210914110416597/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.17632/zdsk7yjpk9.1
title: LDHU3_13.0320

description: N-acetyltransferase domain-containing protein; Leishmania donovani (HU3 strain)
DOI: 10.25549/pcra-c14-45112
title: Redemption tidings, vol. 15, nos. 1-26, 2 Jan. - 15 Dec. 1939

description: [description english/roman)] Issued fortnightly (every two weeks). "A full gospel magazine for all believers" -- subtitle. Includes Tidings from our missionaries in each issue (2 Jan. - 15 Dec. 1939).
DOI: 10.15468/dl.2v82pw
title: Occurrence Download

description: A dataset containing 3656632 species occurrences available in GBIF matching the query:
{
 "and" : [
 {
 "or" : [
 "BasisOfRecord is Observation",
 "BasisOfRecord is Machine Observation",
 "BasisOfRecord is Human Observation",
 "BasisOfRecord is Material sample",
 "BasisOfRecord is Material citation",
 "BasisOfRecord is Occurrence evidence"
 ]
 },
 "Country is China"
 ]
}

 The dataset includes 3656632 records from 296 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0193044-210914110416597/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.5jv5hm
title: Occurrence Download

description: A dataset containing 36 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Aspidoglossum delagoense (Schltr.) Kupicha"
 ]
}

 The dataset includes 36 records from 9 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0068256-230224095556074/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.9cfdfx
title: Occurrence Download

description: A dataset containing 6388 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Gymnopus fusipes (Bull.) Gray, Gymnopus impudicus (Fr.) Antonín, Halling & Noordel., Gymnopus oreadoides (Pass.) Antonín & Noordel.)",
 "Geometry POLYGON((-9.36035 44.71551,-10.59082 42.81152,-11.82129 36.80928,-7.69043 36.17336,-3.38379 35.88905,3.12012 38.13456,9.18457 38.20366,11.7334 37.16032,12.78809 34.74161,17.09473 33.79741, 23.15918 34.23451,30.10254 32.62087,33.2666 32.99024,35.72754 35.03,33.00293 35.53223,28.69629 35.17381,28.34473 36.31513,25.7959 37.50973,24.91699 39.90974,28.78418 40.6473,30.71777 41.17865,36.87012 45.213,38.18848 46.98025,38.71582 47.7541,39.94629 47.93107,40.20996 49.61071,37.0459 50.34546,35.72754 50.40152,33.79395 52.26816,31.68457 51.94426,31.4209 53.27835,32.56348 53.43572,30.98145 54.77535,30.89355 55.52863,28.43262 56.02295,27.20215 57.65716,27.37793 58.30949,27.90527 59.17593,29.66309 59.88894,27.6416 60.58697,31.50879 62.75473,28.78418 69.83962,30.89355 70.28912,29.22363 71.55274,21.75293 71.30079,14.28223 70.14036,11.38184 67.47492,4.87793 63.66576,-5.53711 71.52491,-10.63477 71.69129,-21.5332 67.74276,-28.56445 65.36684,-24.3457 61.35461,-9.36035 44.71551))",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "Year is greater than or equal to 1980",
 "Year is less than or equal to 2021"
 ]
}

 The dataset includes 6388 records from 124 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0319356-210914110416597/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.25549/pcra-c14-44524
title: Redemption tidings, vol. 14, nos. 1-26, 1 Jan. - 16 Dec. 1938

description: [description english/roman)] Issued fortnightly (every two weeks). "A full gospel magazine for all believers" -- subtitle. Includes Tidings from our missionaries in each issue (1 Jan. - 16 Dec. 1938) except vol. 14, no. 21.
DOI: 10.15468/dl.2mdrky
title: Occurrence Download

description: A dataset containing 82282 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Clupea pallasii Valenciennes, 1847",
 "Year 1946-1951"
 ]
}

 The dataset includes 82282 records from 14 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0188391-210914110416597/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.uh34vw
title: Occurrence Download

description: A dataset containing 3 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Cycloramphus acangatan Verdade & Rodrigues, 2003)",
 "BasisOfRecord is one of (Specimen, Human Observation, Observation, Machine Observation)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 3 records from 2 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0068271-230224095556074/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.25549/pcra-c14-44440
title: Redemption tidings, vol. 14, nos. 1-26, 1 Jan. - 16 Dec. 1938

description: [description english/roman)] Issued fortnightly (every two weeks). "A full gospel magazine for all believers" -- subtitle. Includes Tidings from our missionaries in each issue (1 Jan. - 16 Dec. 1938) except vol. 14, no. 21.
DOI: 10.15468/dl.ywg7pr
title: Occurrence Download

description: A dataset containing 27 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Amatitlania nanolutea (Allgayer, 1994)"
 ]
}

 The dataset includes 27 records from 9 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0336955-210914110416597/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.sjrub6
title: Occurrence Download

description: A dataset containing 62 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Japan",
 "TaxonKey is Raphanus raphanistrum L."
 ]
}

 The dataset includes 62 records from 19 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0107529-230530130749713/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.u3cteb
title: Occurrence Download

description: A dataset containing 190 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Batocera rufomaculata (Degeer, 1775)"
 ]
}

 The dataset includes 190 records from 9 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0193053-210914110416597/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.25549/pcra-c14-44692
title: Redemption tidings, vol. 14, nos. 1-26, 1 Jan. - 16 Dec. 1938

description: [description english/roman)] Issued fortnightly (every two weeks). "A full gospel magazine for all believers" -- subtitle. Includes Tidings from our missionaries in each issue (1 Jan. - 16 Dec. 1938) except vol. 14, no. 21.
DOI: 10.15468/dl.uy5mev
title: Occurrence Download

description: A dataset containing 678794 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Linaria Mill."
 ]
}

 The dataset includes 678794 records from 2415 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0036169-240229165702484/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.s5ubpk
title: Occurrence Download

description: A dataset containing 3366 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Thymus pulegioides × serpyllum",
 "HasCoordinate is TRUE",
 "HasGeospatialIssue is False",
 "DecimalLatitude is less than 90",
 "DecimalLongitude is less than 180",
 "DecimalLatitude is greater than -90",
 "DecimalLongitude is greater than -180"
 ]
}

 The dataset includes 3366 records from 3 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0008786-230810091245214/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.4xc86j
title: Occurrence Download

description: A dataset containing 979 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Physalaemus albonotatus (Steindachner, 1864)"
 ]
}

 The dataset includes 979 records from 36 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0305001-210914110416597/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.sjadzq
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Epepeotes luscus (Fabricius, 1787)",
 {
 "not" : {
 "DatasetKey" : [
 "is Global database of alien macrofungi"
 ]
 }
 },
 {
 "or" : [
 "Country is United States of America",
 "Country is United States",
 "Country is United States of America",
 "Country is Canada",
 "Continent is North America"
 ]
 }
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0368479-210914110416597/datasets/export for details.
DOI: 10.15468/dl.ybr8dy
title: Occurrence Download

description: A dataset containing 3747 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Tephrocybe rancida (Fr.) Donk"
 ]
}

 The dataset includes 3747 records from 177 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0139686-230530130749713/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.dwzv36
title: Occurrence Download

description: A dataset containing 2 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Themeda yunnanensis S.L.Chen & T.D.Zhuang"
 ]
}

 The dataset includes 2 records from 2 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0012738-230810091245214/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.