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

description: A dataset containing 2125 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Parula pitiayumi (Vieillot, 1817)"
 ]
}

 The dataset includes 2125 records from 91 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0024979-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.g29rah
title: Occurrence Download

description: A dataset containing 217 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Portunus segnis (Forskål, 1775)"
 ]
}

 The dataset includes 217 records from 12 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0024980-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.12744758
title: AlphaFold-predicted structures of IL-6 dimers

description: 1. Pre-processed files

2. Processed files:



CIF files from AF3 were converted to PDB format

only C_alpha atoms were kept

 polyG linkers were deleted and chain IDs for the second part  were renamed to "B"

chain "A" was aligned to reference structure using the non-swapped amino acids

 the models were classified into "non-swapped", "swapped" and "other"





#
Approach
Weights name
Templates
Dropout
N_models (different weights)
N_runs (different seeds)


1
AlphaFold 2.3.2 as a monomer with 50×Gly linker
monomer_ptm
Y
N
5
5


2
 
monomer_ptm
N
N
5
5


3
ColabFold 1.5.5 as a monomer with 50×Gly linker
alphafold2_ptm
Y
Y
5
5


4
 
alphafold2_ptm
Y
N
5
5


5
 
alphafold2_ptm
N
Y
5
5


6
 
alphafold2_ptm
N
N
5
5


7
AlphaFold 2.3.2 as a dimer
multimer
Y
N
5
5


8
 
multimer
N
N
5
5


9
ColabFold 1.5.5 as a dimer
alphafold2_multimer_v3
Y
Y
5
5


10
 
alphafold2_multimer_v3
Y
N
5
5


11
 
alphafold2_multimer_v3
N
Y
5
5


12
 
alphafold2_multimer_v3
N
N
5
5


13
AlphaFold3 as a monomer with 50×Gly linker
Default (accessed on 24.06.2024)
 
 
5
20


14
AlphaFold3 as a dimer
Default (accessed on 24.06.2024)
 
 
5
20


15
SPEACH_AF
alphafold2_ptm
N
N
5
5
DOI: 10.5281/zenodo.12744759
title: AlphaFold-predicted structures of IL-6 dimers

description: 1. Pre-processed files

2. Processed files:



CIF files from AF3 were converted to PDB format

only C_alpha atoms were kept

 polyG linkers were deleted and chain IDs for the second part  were renamed to "B"

chain "A" was aligned to reference structure using the non-swapped amino acids

 the models were classified into "non-swapped", "swapped" and "other"





#
Approach
Weights name
Templates
Dropout
N_models (different weights)
N_runs (different seeds)


1
AlphaFold 2.3.2 as a monomer with 50×Gly linker
monomer_ptm
Y
N
5
5


2
 
monomer_ptm
N
N
5
5


3
ColabFold 1.5.5 as a monomer with 50×Gly linker
alphafold2_ptm
Y
Y
5
5


4
 
alphafold2_ptm
Y
N
5
5


5
 
alphafold2_ptm
N
Y
5
5


6
 
alphafold2_ptm
N
N
5
5


7
AlphaFold 2.3.2 as a dimer
multimer
Y
N
5
5


8
 
multimer
N
N
5
5


9
ColabFold 1.5.5 as a dimer
alphafold2_multimer_v3
Y
Y
5
5


10
 
alphafold2_multimer_v3
Y
N
5
5


11
 
alphafold2_multimer_v3
N
Y
5
5


12
 
alphafold2_multimer_v3
N
N
5
5


13
AlphaFold3 as a monomer with 50×Gly linker
Default (accessed on 24.06.2024)
 
 
5
20


14
AlphaFold3 as a dimer
Default (accessed on 24.06.2024)
 
 
5
20


15
SPEACH_AF
alphafold2_ptm
N
N
5
5
DOI: 10.21942/uva.26307895
title: Situational constraints.xlsx

description: Situational constraints.
DOI: 10.21942/uva.26307895.v1
title: Situational constraints.xlsx

description: Situational constraints.
DOI: 10.15468/dl.a2bmth
title: Occurrence Download

description: A dataset containing 50 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is BOLD:ADW7264"
 ]
}

 The dataset includes 50 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0024981-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.c2de7r
title: Occurrence Download

description: A dataset containing 1 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is BOLD:ADW7263"
 ]
}

 The dataset includes 1 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0024982-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.y6dcbv
title: Occurrence Download

description: A dataset containing 1030 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Porlieria chilensis I.M.Johnst."
 ]
}

 The dataset includes 1030 records from 32 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0024983-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.18739/a25m6286h
title: Complete ERA5 global atmospheric reanalysis 1940 to present

description: ERA5 (European Centre for Medium-Range Weather Forecasts (ECMWF) Re-Analysis) is the fifth generation ECMWF atmospheric reanalysis of the global climate covering the period from January 1940 to present. It is produced by the Copernicus Climate Change Service (C3S) at ECMWF and provides hourly estimates of a large number of atmospheric, land and oceanic climate variables. The data cover the Earth on a 31 kilometer (km) grid and resolve the atmosphere using 137 levels from the surface up to a height of 80 km. ERA5 includes an ensemble component at half the resolution to provide information on synoptic uncertainty of its products. ERA5.1 is a dedicated product with the same horizontal and vertical resolution that was produced for the years 2000 to 2006 inclusive to significantly improve a discontinuity in global-mean temperature in the stratosphere and uppermost troposphere that ERA5 suffers from during that period. Users that are interested in this part of the atmosphere in this era are advised to access ERA5.1 rather than ERA5. ERA5 and ERA5.1 use a state-of-the-art numerical weather prediction model to assimilate a variety of observations, including satellite and ground-based measurements, and produces a comprehensive and consistent view of the Earth's atmosphere. These products are widely used by researchers and practitioners in various fields, including climate science, weather forecasting, energy production and machine learning among others, to understand and analyse past and current weather and climate conditions.
DOI: 10.15468/dl.chdsae
title: Occurrence Download

description: A dataset containing 334207 species occurrences available in GBIF matching the query:
{
 "and" : [
 "DatasetKey is iNaturalist Research-grade Observations",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "Country is one of (Canada, Mexico, United States of America)",
 "EventDate is greater than or equal to 2024-06-20",
 "EventDate is less than or equal to 2024-07-20",
 {
 "not" : {
 "Issue" : [
 "is one of (Basis of record invalid, Coordinate reprojection failed, Coordinate reprojection suspicious, Coordinate precision invalid, Coordinate uncertainty meters invalid, Country mismatch, Country invalid, Geodetic datum invalid, Presumed swapped coordinate, Presumed negated longitude, Presumed negated latitude, Country coordinate mismatch)"
 ]
 }
 }
 ]
}

 The dataset includes 334207 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0024971-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.9yxpj5
title: Occurrence Download

description: A dataset listing the 1 species recorded in GBIF matching the query:
{
 "TaxonKey" : [
 "is Erythrina falcata Benth."
 ]
}

 The dataset's 1 records were derived from 164 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0024978-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.dzsg5s
title: Occurrence Download

description: A dataset containing 2104 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Buteogallus coronatus (Vieillot, 1817)"
 ]
}

 The dataset includes 2104 records from 11 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0024984-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.u225j4
title: Occurrence Download

description: A dataset containing 4977 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Furcraea foetida (L.) Haw."
 ]
}

 The dataset includes 4977 records from 206 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0024985-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.zf2cje
title: Occurrence Download

description: A dataset containing 43388 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is Colección plantas vasculares del Herbario Reinaldo Espinosa (Herbario LOJA) de la Universidad Nacional de Loja"
 ]
}

 The dataset includes 43388 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0024987-240626123714530/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.26307874
title: Integrin-alpha 4 (itga4) scRNA-seq

description: This project contains 15 samples processed using Parse platform for scRNA-seq, falling under the following four conditions:<i>integrin-alpha 4</i> (<i>itga4</i>) mutant young adult, 6mpf - 4 samples (2M, 2F)<i>vascular cell adhesion molecule 1b</i> (<i>vcam1b</i>) mutant young adult, 6mpf - 3 samples (2M, 1F)WT young adult, 6mpf - 4 samples (2M, 2F)WT old adult, 24mpf - 4 samples (2M, 2F)Whole kidney marrow (WKM) was isolated from each sample and red blood cell lysis was performed before cell counts, fixation, and processing for sequencing (according to Parse platform protocols). Sample barcoding, library prep, and sequencing performed by UW-Madison Gene Expression Center and Biotech Center. Initial processing, alignment, and QC of raw sequencing reads performed by UW-Madison Bioinformatics Resource Center.Raw reads can be found in the "DGE_unfiltered" folder for each individual sample, or for full experiment groups under the "all-sample"/"all-wells" files. The "DGE_filtered" files in the mentioned locations contain the pre-processed and aligned reads, as well as the count matrices (reads were aligned to custom GRCz11 genome file provided with data). <br>
DOI: 10.6084/m9.figshare.26307874.v1
title: Integrin-alpha 4 (itga4) scRNA-seq

description: This project contains 15 samples processed using Parse platform for scRNA-seq, falling under the following four conditions:<i>integrin-alpha 4</i> (<i>itga4</i>) mutant young adult, 6mpf - 4 samples (2M, 2F)<i>vascular cell adhesion molecule 1b</i> (<i>vcam1b</i>) mutant young adult, 6mpf - 3 samples (2M, 1F)WT young adult, 6mpf - 4 samples (2M, 2F)WT old adult, 24mpf - 4 samples (2M, 2F)Whole kidney marrow (WKM) was isolated from each sample and red blood cell lysis was performed before cell counts, fixation, and processing for sequencing (according to Parse platform protocols). Sample barcoding, library prep, and sequencing performed by UW-Madison Gene Expression Center and Biotech Center. Initial processing, alignment, and QC of raw sequencing reads performed by UW-Madison Bioinformatics Resource Center.Raw reads can be found in the "DGE_unfiltered" folder for each individual sample, or for full experiment groups under the "all-sample"/"all-wells" files. The "DGE_filtered" files in the mentioned locations contain the pre-processed and aligned reads, as well as the count matrices (reads were aligned to custom GRCz11 genome file provided with data). <br>
DOI: 10.5281/zenodo.10149476
title: Dataset for the paper "Test Polarity: Detecting Positive and Negative Tests".

description: Dataset for the paper "Test Polarity: Detecting Positive and Negative Tests".
Test polarity results for 12 Python Standard Libraries: gzip, email, calendar, ftplib, collections, os, tarfile, pathlib, logging, smtplib, argparse, and configparser.
DOI: 10.5281/zenodo.10149477
title: Dataset for the paper "Test Polarity: Detecting Positive and Negative Tests".

description: Dataset for the paper "Test Polarity: Detecting Positive and Negative Tests".
Test polarity results for 12 Python Standard Libraries: gzip, email, calendar, ftplib, collections, os, tarfile, pathlib, logging, smtplib, argparse, and configparser.
DOI: 10.15468/dl.93tqez
title: Occurrence Download

description: A dataset containing 9547 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Panthera leo (Linnaeus, 1758)"
 ]
}

 The dataset includes 9547 records from 83 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0024989-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.xj5fzu
title: Occurrence Download

description: A dataset containing 257686 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Mexico",
 "DatasetKey is one of (EOD – eBird Observation Dataset, iNaturalist Research-grade Observations, International Barcode of Life project (iBOL), Actualización de la base de datos sobre la flora de la Reserva de la Biósfera Sierra de Manantlán, Jalisco-Colima, México, Atlas de las Aves de México: Fase II, Actualización de la base de datos de hongos macroscópicos de Jalisco)",
 "GadmGid is one of (MEX.14_1, MEX.18_1)",
 "OccurrenceStatus is Present",
 "PublishingOrg is one of (28eb1a3f-1c15-4a95-931a-4af90ecb574d, ff90b050-c256-11db-b71b-b8a03c50a862)"
 ]
}

 The dataset includes 257686 records from 4 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0024988-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.acn6jx
title: Occurrence Download

description: A dataset containing 62 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Türkiye",
 "TaxonKey is Anatololacerta danfordi (Günther, 1876)",
 "Year 1980-2024"
 ]
}

 The dataset includes 62 records from 7 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0024991-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.uh5j99
title: Occurrence Download

description: A dataset containing 1629562 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Uganda",
 "DatasetKey is EOD – eBird Observation Dataset",
 "HasCoordinate is true",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 1629562 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0024986-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.axqmh6
title: Occurrence Download

description: A dataset containing 3093 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is Establecimiento de un área protegida en el Alto y Bajo Calima, área clave de biodiversidad en el Valle del Cauca, Colombia"
 ]
}

 The dataset includes 3093 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0024992-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15151/esrf-es-1719222415
title: Study of the domain structure transformation at field-induced first-order transition

description: Since the magnetic fields of first-order transitions, such as FOMP, spin-flop, are much higher than the demagnetizing field of the sample, most models imply that the sample is always in a single-domain state and the magnetic moments of the atoms rotate coherently in the field. Nonetheless, this assumption may be overly simplistic, and a high-field domain structure could emerge during such field-induced transition, resulting in an alternative transition mechanism, and it is crucial to thoroughly investigate this phenomenon in detail. The main goal of this proposal is to observe and explore an intermediate element-specific domain structure at the FOMP transition in Tb2Fe17 and Er2Fe17 single crystals. We also aim to study the nucleation and growth of ferromagnetic domains during spin-flop transition in Nd6Fe13Cu single crystals. The obtained results will serve as a base for new model of field induced transition, developing by our group.
DOI: 10.15468/dl.3dp38r
title: Occurrence Download

description: A dataset containing 26591880 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Colombia",
 "TaxonKey is Animalia"
 ]
}

 The dataset includes 26591880 records from 3475 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0024990-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.p8n5mh
title: Occurrence Download

description: A dataset containing 118 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Thomasomys gracilis Thomas, 1917"
 ]
}

 The dataset includes 118 records from 10 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0352440-210914110416597/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.fulooo
title: Occurrence Download

description: A dataset containing 20303 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Plantae",
 "DecimalLatitude is greater than 18.6399049011487",
 "DecimalLatitude is less than 20.5390615875849",
 "DecimalLongitude is greater than -156.347489154433",
 "DecimalLongitude is less than -154.66738052746"
 ]
}

 The dataset includes 20303 records from 53 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0006483-180824113759888/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.7udy9c
title: Occurrence Download

description: A dataset containing 285727 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is Field Museum of Natural History (Zoology) Amphibian and Reptile Collection"
 ]
}

 The dataset includes 285727 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0024871-191105090559680/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.u243qa
title: Occurrence Download

description: A dataset containing 8991 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is China",
 "DatasetKey is EOD – eBird Observation Dataset",
 "Geometry POLYGON((109.05029 20.03658,117.3999 20.24867,117.57568 25.78505,109.13818 25.54926,109.05029 20.03658))",
 "HasGeospatialIssue is false",
 "PublishingCountry is China",
 "TaxonKey is Charadriiformes"
 ]
}

 The dataset includes 8991 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0146339-210914110416597/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.r74em3
title: Occurrence Download

description: A dataset containing 323331 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Nymphaeales"
 ]
}

 The dataset includes 323331 records from 1341 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0192870-210914110416597/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.xv2wzq
title: Occurrence Download

description: A dataset containing 288904 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is Allan Herbarium (CHR)"
 ]
}

 The dataset includes 288904 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0030006-191105090559680/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.vrpb5x
title: Occurrence Download

description: A dataset containing 9947 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Dicranella cerviculata (Hedw.) Schimp., Dicranella staphylina H.Whitehouse)",
 "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 9947 records from 109 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0154888-210914110416597/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.