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

description: A dataset containing 8 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Tectaria hymenophylla (Bedd.) Holttum"
 ]
}

 The dataset includes 8 records from 3 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0121482-240321170329656/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.fvsc77
title: Occurrence Download

description: A dataset containing 334 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Taraxacum pholidocarpum Dahlst."
 ]
}

 The dataset includes 334 records from 11 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0121484-240321170329656/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.ymmdj7
title: Occurrence Download

description: A dataset containing 14 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Thesium conostylum Schltr."
 ]
}

 The dataset includes 14 records from 11 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0121485-240321170329656/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.s9f85c
title: Occurrence Download

description: A dataset listing the 9656 species recorded in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is one of (Observation, Machine Observation, Human Observation, Material sample, Material citation, Occurrence evidence)",
 "Continent is South America",
 "Country is Colombia",
 "TaxonKey is Chordata"
 ]
}

 The dataset's 9656 records were derived from 1238 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0121454-240321170329656/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.696t5q
title: Occurrence Download

description: A dataset containing 1336 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is one of (Cyperus aromaticus (Ridl.) Mattf. & Kük.)"
 ]
}

 The dataset includes 1336 records from 98 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0009727-240506114902167/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.64gwkf
title: Occurrence Download

description: A dataset containing 8450 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is one of (Cyperus blepharoleptos Steud.)"
 ]
}

 The dataset includes 8450 records from 260 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0009728-240506114902167/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.weaxya
title: Occurrence Download

description: A dataset containing 2688 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is one of (Cyperus congestus Vahl)"
 ]
}

 The dataset includes 2688 records from 125 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0009729-240506114902167/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.wewdu7
title: Occurrence Download

description: A dataset containing 2009 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is one of (Cyperus cyperinus (Retz.) Valck.Sur.)"
 ]
}

 The dataset includes 2009 records from 93 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0009730-240506114902167/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.bnbgtj
title: Occurrence Download

description: A dataset containing 8186 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is one of (Cyperus cyperoides (L.) Kuntze)"
 ]
}

 The dataset includes 8186 records from 277 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0009731-240506114902167/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.3e62x7
title: Occurrence Download

description: A dataset containing 1773 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is one of (Cyperus entrerianus Boeckeler)"
 ]
}

 The dataset includes 1773 records from 162 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0009732-240506114902167/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.11133988
title: Gene expression ATLAS of Arabidopsis thaliana (accession Columbia) across its lifecycle

description: Abstract: Arabidopsis thaliana (accession- Columbia) is an important model plant. RNA-Seq based study of 36 gene expression libraries was carried out to explore transcriptional programs operating in different plant parts (seedling, rosette, root, inflorescence, flower, fruit silique, and seed) and developmental stages (2-leaf stage, 6-leaf stage, 12-leaf stage, senescence stage, dry mature and imbibed seed stage). For each tissue type and developmental stage, three individual plants were used as biological replicates.

Organism part: inflorescence, whole plant, seed, root, silique fruit, flower, rosette

 

Developmental stage: LP.02 two leaves visible stage, IL.00 inflorescence just visible stage, fruit size 30 to 50% stage, LP.12 twelve leaves visible stage, root development stage, fruit size 70% to final stage, LP.06 six leaves visible stage, dry seed stage, flowering stage, seed imbibition stage, sporophyte senescent stage, inflorescence development stage

 



Organism: Arabidopsis thaliana

 

Ecotype: Col-0

 

Genotype: wild type genotype

 

Age: Samples are from 20-day, 49-day, 39-day, 15-day, 21-day, 9-day, 22-day, 55-day, 26-day, 45-day

 

Experimental Designs: growth chamber study EFO, development or differentiation design EFO, organism part comparison design EFO

 

For more description of the data and sample types see the file PRJEB24664_Sample_descriptors.xlsx or visit   or visit https://www.ebi.ac.uk/biostudies/arrayexpress/studies/E-MTAB-6422/sdrf

 

Original data was submitted from 





EMBL-EBI ArraExpress: https://www.ebi.ac.uk/biostudies/arrayexpress/studies/E-MTAB-6422

NCBI SRA: https://www.ncbi.nlm.nih.gov/bioproject/PRJEB24664


Protocol description:




Name
Type
Description
Hardware




P-MTAB-71349
growth protocol EFO
Seeds were planted in pots containing commercial potting mix with fertilizers. Pots were covered with clear perforated plastic wrap and kept at 4 degrees celsius for 3 days to break the dormancy. After 3 days plants were transferred to the Intellus Ultra growth chamber (Percival Scientific, IA, USA) which was set to temperature 22-23 degrees celsius, light intensity 120-150 micromol/m2sec under the cycle of 16h light and 8h dark. Soil was kept moist by gently spraying with water every 72 hours to maintain humidity to 50-60%. Sampling time point is given in days after germination.
 


P-MTAB-71350
nucleic acid extraction protocol EFO
Total RNA from frozen samples was extracted as a method described in Filichkin et al., 2010. Total RNA was used to isolate large RNA as per manufacturer's protocol for miRNeasy Mini kits (Qiagen Inc., USA), and RNase-free DNase (Life Technologies Inc., USA).
 


P-MTAB-71351
nucleic acid library construction protocol EFO
True-Seq kit (Illumina Inc.) was used to prepare RNA-seq libraries, according to the manufacturer’s protocol.
 


P-MTAB-71352
nucleic acid sequencing protocol EFO
101bp paired-end sequencing of mRNA was performed by using the standard protocols on Illumina HiSeq 3000.
Illumina HiSeq 3000
DOI: 10.5281/zenodo.11133989
title: Gene expression ATLAS of Arabidopsis thaliana (accession Columbia) across its lifecycle

description: Abstract: Arabidopsis thaliana (accession- Columbia) is an important model plant. RNA-Seq based study of 36 gene expression libraries was carried out to explore transcriptional programs operating in different plant parts (seedling, rosette, root, inflorescence, flower, fruit silique, and seed) and developmental stages (2-leaf stage, 6-leaf stage, 12-leaf stage, senescence stage, dry mature and imbibed seed stage). For each tissue type and developmental stage, three individual plants were used as biological replicates.

Organism part: inflorescence, whole plant, seed, root, silique fruit, flower, rosette

 

Developmental stage: LP.02 two leaves visible stage, IL.00 inflorescence just visible stage, fruit size 30 to 50% stage, LP.12 twelve leaves visible stage, root development stage, fruit size 70% to final stage, LP.06 six leaves visible stage, dry seed stage, flowering stage, seed imbibition stage, sporophyte senescent stage, inflorescence development stage

 



Organism: Arabidopsis thaliana

 

Ecotype: Col-0

 

Genotype: wild type genotype

 

Age: Samples are from 20-day, 49-day, 39-day, 15-day, 21-day, 9-day, 22-day, 55-day, 26-day, 45-day

 

Experimental Designs: growth chamber study EFO, development or differentiation design EFO, organism part comparison design EFO

 

For more description of the data and sample types see the file PRJEB24664_Sample_descriptors.xlsx or visit   or visit https://www.ebi.ac.uk/biostudies/arrayexpress/studies/E-MTAB-6422/sdrf

 

Original data was submitted from 





EMBL-EBI ArraExpress: https://www.ebi.ac.uk/biostudies/arrayexpress/studies/E-MTAB-6422

NCBI SRA: https://www.ncbi.nlm.nih.gov/bioproject/PRJEB24664


Protocol description:




Name
Type
Description
Hardware




P-MTAB-71349
growth protocol EFO
Seeds were planted in pots containing commercial potting mix with fertilizers. Pots were covered with clear perforated plastic wrap and kept at 4 degrees celsius for 3 days to break the dormancy. After 3 days plants were transferred to the Intellus Ultra growth chamber (Percival Scientific, IA, USA) which was set to temperature 22-23 degrees celsius, light intensity 120-150 micromol/m2sec under the cycle of 16h light and 8h dark. Soil was kept moist by gently spraying with water every 72 hours to maintain humidity to 50-60%. Sampling time point is given in days after germination.
 


P-MTAB-71350
nucleic acid extraction protocol EFO
Total RNA from frozen samples was extracted as a method described in Filichkin et al., 2010. Total RNA was used to isolate large RNA as per manufacturer's protocol for miRNeasy Mini kits (Qiagen Inc., USA), and RNase-free DNase (Life Technologies Inc., USA).
 


P-MTAB-71351
nucleic acid library construction protocol EFO
True-Seq kit (Illumina Inc.) was used to prepare RNA-seq libraries, according to the manufacturer’s protocol.
 


P-MTAB-71352
nucleic acid sequencing protocol EFO
101bp paired-end sequencing of mRNA was performed by using the standard protocols on Illumina HiSeq 3000.
Illumina HiSeq 3000
DOI: 10.15468/dl.v7u9xe
title: Occurrence Download

description: A dataset containing 1386414 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Mexico",
 "Geometry POLYGON((-105.25378 24.68551,-105.4977 22.95884,-104.11775 20.12631,-101.08187 20.37325,-101.47406 24.80361,-105.25378 24.68551))",
 "HasCoordinate is true",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 1386414 records from 908 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0009723-240506114902167/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.25549/pcra-c14-11649
title: Put' = Voie = [The way], no. 25 (December 1930)

description: [description english/roman)] Irregular frequency
DOI: 10.15468/dl.5thx33
title: Occurrence Download

description: A dataset containing 184574 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 Tringa solitaria A.Wilson, 1813"
 ]
}

 The dataset includes 184574 records from 62 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0065356-230224095556074/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.c4293d
title: Occurrence Download

description: A dataset containing 167 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Campylium hispidulum var. sommerfeltii (Myrin) Lindb."
 ]
}

 The dataset includes 167 records from 16 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0320120-210914110416597/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.25549/pcra-c14-11633
title: Put' = Voie = [The way], no. 25 (December 1930)

description: [description english/roman)] Irregular frequency
DOI: 10.15468/dl.848cjq
title: Occurrence Download

description: A dataset containing 82 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Asperula crassifolia L."
 ]
}

 The dataset includes 82 records from 24 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0065361-230224095556074/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.25549/pcra-c14-8723
title: Put' = Voie = [The way], no. 3 (March-April 1926)

description: [description english/roman)] Irregular frequency
DOI: 10.15468/dl.fvdrxg
title: Occurrence Download

description: A dataset containing 1700 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Inocybe umbratica Quél., Inocybe valida Malençon, Inocybe bulbinella Matheny & Bougher, Inonotus cuticularis (Bull.) P.Karst.)",
 "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 1700 records from 65 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0320116-210914110416597/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.sarttb
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Pristimantis fasciatus Barrio-Amorós, Rojas-Runjaic & Infante-Rivero, 2008)",
 "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/0065359-230224095556074/datasets/export for details.
DOI: 10.25549/pcra-c14-8706
title: Put' = Voie = [The way], no. 3 (March-April 1926)

description: [description english/roman)] Irregular frequency
DOI: 10.25549/pcra-c14-8678
title: Put' = Voie = [The way], no. 3 (March-April 1926)

description: [description english/roman)] Irregular frequency
DOI: 10.15468/dl.ptvmzx
title: Occurrence Download

description: A dataset containing 496 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasCoordinate is true",
 "TaxonKey is Aristolochia clematitis L.",
 "Country is one of (Switzerland)"
 ]
}

 The dataset includes 496 records from 9 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0348329-210914110416597/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.pfrgph
title: Occurrence Download

description: A dataset containing 293 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Hyla sanchiangensis Pope, 1929)",
 "BasisOfRecord is one of (Specimen, Human Observation, Observation, Machine Observation)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 293 records from 3 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0065333-230224095556074/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.25549/pcra-c14-6162
title: Baptist Ukrainy = [Ukrainian Baptist], no. 8 (August 1928)

description: [description english/roman)] Monthly
DOI: 10.25549/pcra-c14-6167
title: Baptist Ukrainy = [Ukrainian Baptist], no. 8 (August 1928)

description: [description english/roman)] Monthly
DOI: 10.15468/dl.6s39j2
title: Occurrence Download

description: A dataset containing 7 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Crocidura macarthuri St.Leger, 1934"
 ]
}

 The dataset includes 7 records from 3 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0348337-210914110416597/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.j8prpf
title: Occurrence Download

description: A dataset containing 38 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Thoropa saxatilis Cocroft & Heyer, 1988)",
 "BasisOfRecord is one of (Specimen, Human Observation, Observation, Machine Observation)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 38 records from 2 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0065328-230224095556074/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.25549/pcra-c14-14120
title: Put' = Voie = [The way], no. 2 (January 1926)

description: [description english/roman)] Irregular frequency
DOI: 10.15468/dl.33gj5z
title: Occurrence Download

description: A dataset containing 580 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Proteles cristata (Sparrman, 1783)"
 ]
}

 The dataset includes 580 records from 57 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0348348-210914110416597/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.25549/pcra-c14-14167
title: Put' = Voie = [The way], no. 2 (January 1926)

description: [description english/roman)] Irregular frequency
DOI: 10.15468/dl.7sd7y2
title: Occurrence Download

description: A dataset containing 30 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Zachaenus parvulus (Girard, 1853))",
 "BasisOfRecord is one of (Specimen, Human Observation, Observation, Machine Observation)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 30 records from 6 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0065355-230224095556074/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.25549/pcra-c14-7853
title: Khristianin = [The Christian], 1927, no. 8 (1927)

description: [description english/roman)] Monthly
DOI: 10.15468/dl.ch7rx9
title: Occurrence Download

description: A dataset containing 676 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Silo piceus (Brauer, 1857))",
 "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 676 records from 25 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0253152-210914110416597/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.eudgpz
title: Occurrence Download

description: A dataset containing 6 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Asperula congesta Tschern."
 ]
}

 The dataset includes 6 records from 3 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0065352-230224095556074/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.25549/pcra-c14-7861
title: Khristianin = [The Christian], 1927, no. 8 (1927)

description: [description english/roman)] Monthly
DOI: 10.25549/pcra-c14-7658
title: Khristianin = [The Christian], 1927, no. 4 (1927)

description: [description english/roman)] Monthly