cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.15468/dl.wah4by
title: Occurrence Download

description: A dataset containing 1162 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Tuta absoluta (Meyrick, 1917)"
 ]
}

 The dataset includes 1162 records from 41 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0050275-241126133413365/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.3m9rbz
title: Occurrence Download

description: A dataset containing 7766 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON((65 20,135 20,135 60,65 60,65 20))",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "TaxonKey is one of (Betula luminifera H.J.P.Winkl., Betula dahurica Pall., Betula chinensis Maxim., Betula tianschanica Rupr., Betula pubescens Ehrh., Betula rotundifolia Spach)"
 ]
}

 The dataset includes 7766 records from 88 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0050276-241126133413365/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.s4nfkn
title: Occurrence Download

description: A dataset containing 1966 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "TaxonKey is Bambusa Schreb.",
 "Year 1970-2000"
 ]
}

 The dataset includes 1966 records from 171 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0050277-241126133413365/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.28692332
title: Data for the paper: Changes in subalpine moorland plant community diversity and trait composition in response to woody plant encroachment.

description: Dataset used in the paper: Changes in subalpine moorland plant community diversity and trait composition in response to woody plant encroachment.
DOI: 10.15151/esrf-es-2099750353
title: Structural Biology in Marseille

description: The BAG groups 9 teams from 6 Marseille laboratories. Mutual understanding amongst all PIs provides a solid base for efficient organization of the BAG. Research revolves around infection, health and biotechnology. For the next beam time allocation period (6 months) we could make efficient use of 12 MX and 2 SAXS shifts. Three teams combine structural biology with medicinal chemistry and beam time at MASSIF for large ligand-screening campaigns will mostly suit their purpose. Access to beamlines with tunable energy will be instrumental for projects requiring experimental phasing. One team uses exclusively Bio-SAXS. Allocation of one shift per session would be welcomed. Remote access for MX sessions has become very popular whereas scientists prefer to be on-site for Bio-SAXS experiments. The BAG uses also beam time at Synchrotron SOLEIL and overlap in experiment scheduling engenders in certain instances beam time cancellations.
DOI: 10.6084/m9.figshare.28692335
title: How repair proteins identify DNA damage in the nucleosome

description: The DNA base-excision repair (BER) pathway shares the second part of its enzymatic chain with the single-strand break (SSB) repair pathway. BER is initiated by a glycosylase, such as UDG, while SSBR is initiated by the multifunctional enzyme PARP1. The very early steps in the identification of the DNA damage are crucial to the correct initiation of the repair chains, and become even more complex when considering the realistic environment of damage to the DNA in the nucleosome. We performed molecular dynamics computer simulations of the interaction between the glycosylase UDG and a mutated uracil (as resulting from oxidative deamination of cytosine), and between the Zn1-Zn2 fragment of PARP1 and a simulated SSB. The model system is a whole nucleosome in which DNA damage is inserted at various typical positions along the 145-bp sequence. It is shown that damage recognition by the enzymes requires very strict conditions, unlikely to be matched by pure random search along the DNA. We propose that mechanical deformation of the DNA around the defective sites may help signaling the presence of the defect, accelerating the search process.
DOI: 10.6084/m9.figshare.28692116
title: CD, solution NMR, Chemical Probing and EMSA raw data: core and extended ROQ with ADE RNA wt and derivatives

description: Local RNA structure is decisive for specific engagement with gene-regulatory proteins and, as a consequence, correct cellular function. However, its structure is often dynamic and, thus, challenging to study. Here, we show NMR and single-molecule force spectroscopy efficiently complement each other to provide high-resolution, time-resolved data on RNA folding intermediates during dynamic complex formation with the immune-regulating protein Roquin, which exploits multiple RNA-binding sites. Our data reveal a dual-mode binding of Roquin to RNA by firmly attaching to the stem-loop and, at the same time, destabilizing other regions, making them accessible to downstream interaction partners.The Excel dataset contains CD melting curve raw data for ADE RNA and bound Roquin proteins. The NMR zip folder contains raw and relevant processed data for core and ext ROQ with ADE RNA derivaties, ADE temperature series, ADE halves' NMR data, ADE mirrored data, and HNNCOSY data for ADE alone and with coreROQ. The EMSAs excel files contains all quantified and normalized bands for titrations, utilizable for fitting. The chemical probing data contain greyscale values for the ADR RNA alone and together with core and ext ROQ domains, as well as the alkalic ladder.All datasets are for: Tants, Walbrun et al., <i>Roquin exhibits opposing effects on RNA stem-loop stability through its two ROQ domain binding sites.</i> PNAS, 2025.See also related dataset specifically for SMFS data (optical tweezers) from this study: https://doi.org/10.6084/m9.figshare.28690193.v1
DOI: 10.6084/m9.figshare.28692338
title: Hippocampal-Cortical High-Fidelity Memory Networks in Healthy Older Adults During the Mnemonic Discrimination Task

description: This data accompanies manuscript entitled: "Hippocampal-Cortical High-Fidelity Memory Networks in Healthy Older Adults During the Mnemonic Discrimination Task"
DOI: 10.15468/dl.28w8w6
title: Occurrence Download

description: A dataset containing 1 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is Human Observation",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "TaxonKey is Papilio mayo Atkinson, 1873"
 ]
}

 The dataset includes 1 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0006770-250325103851331/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.28692356
title: TMES - adaptation (TOME)

description: Database from validation study of TMES tool
DOI: 10.5281/zenodo.15097508
title: SAUNA paper - cfDNA Fragment dataset

description: SAUNA - Simulated Annealing for Unique Nucleosome Arrangements

The dataset contains the data used in the publication of the SAUNA tool. 9 medium coverage (14-30x) cfDNA-sequencing files were mapped to the hg38 build of the human genome using bwa mem. Mapped sequence (Bam) files were converted into paired-end bed files using the `bedtools -pe` command. Consequently, the fragment information was extracted using the following commands.

gunzip -c $file | awk 'BEGIN {OFS="\t"} $1 == $4 && ($6 - $2) <= 2000' | cut --output-delimiter=$'\t' -f1,2,6,8,9 | sort -k1,1V -k2,2n -k3,3n | bgzip > "${file%.sortByName.bed.gz}_hg38.frag.tsv.bgz"

The resulting data files do not contain sequence information but can be converted back into bam files using Fragmentstein (https://github.com/uzh-dqbm-cmi/fragmentstein/, https://academic.oup.com/bioinformatics/article/40/1/btae017/7550024) and can be used for most analyses relevant in cfDNA-sequencing, with the exception of calling point mutations.
DOI: 10.5281/zenodo.15097509
title: SAUNA paper - cfDNA Fragment dataset

description: SAUNA - Simulated Annealing for Unique Nucleosome Arrangements

The dataset contains the data used in the publication of the SAUNA tool. 9 medium coverage (14-30x) cfDNA-sequencing files were mapped to the hg38 build of the human genome using bwa mem. Mapped sequence (Bam) files were converted into paired-end bed files using the `bedtools -pe` command. Consequently, the fragment information was extracted using the following commands.

gunzip -c $file | awk 'BEGIN {OFS="\t"} $1 == $4 && ($6 - $2) <= 2000' | cut --output-delimiter=$'\t' -f1,2,6,8,9 | sort -k1,1V -k2,2n -k3,3n | bgzip > "${file%.sortByName.bed.gz}_hg38.frag.tsv.bgz"

The resulting data files do not contain sequence information but can be converted back into bam files using Fragmentstein (https://github.com/uzh-dqbm-cmi/fragmentstein/, https://academic.oup.com/bioinformatics/article/40/1/btae017/7550024) and can be used for most analyses relevant in cfDNA-sequencing, with the exception of calling point mutations.
DOI: 10.15468/dl.eux26n
title: Occurrence Download

description: A dataset containing 29646 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Procellariiformes",
 "Geometry POLYGON ((147.2455 -44.10022, 149.2455 -44.10022, 149.2455 -42.10022, 147.2455 -42.10022, 147.2455 -44.10022))",
 "EventDate is greater than or equal to 2018-01-01",
 "EventDate is less than or equal to 2023-12-31",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "BasisOfRecord is one of (Human Observation, Observation, Machine Observation)"
 ]
}

 The dataset includes 29646 records from 14 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0006771-250325103851331/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.vgk97x
title: Occurrence Download

description: A dataset containing 195742 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Riparia riparia (Linnaeus, 1758)",
 "Year 2023-2023"
 ]
}

 The dataset includes 195742 records from 114 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0006767-250325103851331/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.p3r75h
title: Occurrence Download

description: A dataset containing 12278176 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Ecuador",
 "OccurrenceStatus is Present"
 ]
}

 The dataset includes 12278176 records from 2029 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0006769-250325103851331/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.deweyb
title: Occurrence Download

description: A dataset containing 32334 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is University of British Columbia Herbarium (UBC) - Fungi Collection"
 ]
}

 The dataset includes 32334 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0013903-181003121212138/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.2dnwja
title: Occurrence Download

description: A dataset containing 31 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Amazona oratrix Ridgway, 1887",
 "Year 2021-2021"
 ]
}

 The dataset includes 31 records from 2 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0266972-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.urywkw
title: Occurrence Download

description: A dataset containing 304174 species occurrences available in GBIF matching the query:
{
 "and" : [
 "OccurrenceStatus is Present",
 "TaxonKey is Erinaceus europaeus Linnaeus, 1758"
 ]
}

 The dataset includes 304174 records from 628 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0220202-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.wr0s5g
title: Occurrence Download

description: A dataset containing 1131 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasCoordinate is true",
 "TaxonKey is Pheidole hyatti Emery, 1895",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 1131 records from 15 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0013903-181108115102211/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.y3ugcr
title: Occurrence Download

description: A dataset containing 52 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Verbesina langlassei B.L.Rob."
 ]
}

 The dataset includes 52 records from 19 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0028289-230810091245214/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.887vtt
title: Occurrence Download

description: A dataset containing 60 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is Specimen",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "TaxonKey is Sagittariidae"
 ]
}

 The dataset includes 60 records from 16 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0256886-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.8ua925
title: Occurrence Download

description: A dataset containing 247 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Pegasus laternarius Cuvier, 1816"
 ]
}

 The dataset includes 247 records from 30 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0059464-220831081235567/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.m58wec
title: Occurrence Download

description: A dataset containing 120 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Juniperus deppeana var. zacatecensis Martínez"
 ]
}

 The dataset includes 120 records from 20 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0229745-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.dckvas
title: Occurrence Download

description: A dataset containing 3110 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is Human Observation",
 "Country is United States of America",
 "Year 1960-2018",
 "HasCoordinate is true",
 "TaxonKey is Acer rubrum L.",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 3110 records from 4 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0013904-180508205500799/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.fdyzxp
title: Occurrence Download

description: A dataset containing 167 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Ecuador",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Tremarctos ornatus (F.G.Cuvier, 1825)"
 ]
}

 The dataset includes 167 records from 7 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0259383-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.6ug876
title: Occurrence Download

description: A dataset containing 287 species occurrences available in GBIF matching the query:
{
 "and" : [
 "GadmGid is one of (CHN.15_1, CHN.31_1, CHN.1_1, CHN.24_1)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Falco amurensis Radde, 1863"
 ]
}

 The dataset includes 287 records from 4 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0014190-231002084531237/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.ghs3sm
title: Occurrence Download

description: A dataset containing 254 species occurrences available in GBIF matching the query:
{
 "and" : [
 "GadmGid is CHN.30_1",
 "TaxonKey is Lithocarpus dealbatus (Hook.f. & Thomson ex Miq.) Rehder"
 ]
}

 The dataset includes 254 records from 15 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0234999-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.sb6iba
title: Occurrence Download

description: A dataset containing 115 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Persea americana var. drymifolia (Schltdl. & Cham.) S.F.Blake"
 ]
}

 The dataset includes 115 records from 24 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0013904-190415153152247/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.nyncax
title: Occurrence Download

description: A dataset containing 1138 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Brazil",
 "TaxonKey is Miconia calvescens DC."
 ]
}

 The dataset includes 1138 records from 79 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0275482-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.dub2f5
title: Occurrence Download

description: A dataset containing 48 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "TaxonKey is Rhododendron proteoides Balf.fil. & W.W.Sm."
 ]
}

 The dataset includes 48 records from 8 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0215445-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.ydymvd
title: Occurrence Download

description: A dataset containing 234 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is Human Observation",
 "Country is Indonesia",
 {
 "or" : [
 "DatasetKey is EOD – eBird Observation Dataset",
 "DatasetKey is Biodiverskripsi: Biodiversity Theses Database",
 "DatasetKey is Observation.org, Nature data from around the World",
 "DatasetKey is iNaturalist Research-grade Observations"
 ]
 },
 {
 "or" : [
 "GadmGid is IDN.16_1",
 "GadmGid is IDN.24_1",
 "GadmGid is IDN.30_1",
 "GadmGid is IDN.31_1",
 "GadmGid is IDN.32_1",
 "GadmGid is IDN.8_1",
 "GadmGid is IDN.17_1",
 "GadmGid is IDN.1_1",
 "GadmGid is IDN.3_1",
 "GadmGid is IDN.5_1"
 ]
 },
 {
 "or" : [
 "Month is January",
 "Month is February",
 "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",
 "Month is December"
 ]
 },
 {
 "or" : [
 "PublishingOrg is 28eb1a3f-1c15-4a95-931a-4af90ecb574d",
 "PublishingOrg is e2e717bf-551a-4917-bdc9-4fa0f342c530",
 "PublishingOrg is c8d737e0-2ff8-42e8-b8fc-6b805d26fc5f",
 "PublishingOrg is 6d4d47b0-cfd2-4c4e-9cf8-799143d3adfc"
 ]
 },
 "TaxonKey is Buceros rhinoceros Linnaeus, 1758",
 "Year 2009-2019"
 ]
}

 The dataset includes 234 records from 4 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0261418-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.htrjh6
title: Occurrence Download

description: A dataset containing 167 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Ecuador",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Tremarctos ornatus (F.G.Cuvier, 1825)"
 ]
}

 The dataset includes 167 records from 7 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0259388-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.qnvhyf
title: Occurrence Download

description: A dataset containing 627 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Spain",
 "TaxonKey is Pennisetum setaceum (Forssk.) Chiov."
 ]
}

 The dataset includes 627 records from 34 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0013905-180131172636756/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.ne96r7
title: Occurrence Download

description: A dataset containing 56350 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Barbarea vulgaris R.Br."
 ]
}

 The dataset includes 56350 records from 216 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0261426-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.dvrkgm
title: Occurrence Download

description: A dataset containing 7126462 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is Fossil",
 "HasCoordinate is true",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 7126462 records from 4610 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0226449-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.r3h6ys
title: Occurrence Download

description: A dataset containing 2257 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Smilisca fodiens (Boulenger, 1882)"
 ]
}

 The dataset includes 2257 records from 46 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0084918-200221144449610/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.25549/inscriptifact-ouc112026439
title: Cuneiform Tablet 1913.14.1508, Spurlock 1913.14.1508

description: [Text Description:] Administrative tablet ❧ [Text or Publication Number Note:] Spurlock 1913.14.1508; CDLI P421360 ❧ [Medium:] Clay ❧ [Script Note:] Non-Alphabetic Cuneiform ❧ [Physical Object Description:] Yellowish White (5Y 9/1.5) Moderate Yellowish Pink (5YR 7/4) Dark Gray (N 4/ 12.0% R) ❧ [Physical Object Note:] 5 x 2.9 x 1.7 cm (26g)