cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.15468/dl.u66dfu
title: Occurrence Download

description: A dataset containing 117 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Lepomis gibbosus",
 "Country is Croatia",
 "HasCoordinate is true"
 ]
}

 The dataset includes 117 records from 4 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0027010-250717081556266/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.gg3rr3
title: Occurrence Download

description: A dataset containing 9257 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Syrian Arab Republic",
 "DatasetKey is iNaturalist Research-grade Observations"
 ]
}

 The dataset includes 9257 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0027004-250717081556266/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.8ry59e
title: Occurrence Download

description: A dataset containing 125 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Passiflora mixta",
 "Country is New Zealand",
 "HasCoordinate is true"
 ]
}

 The dataset includes 125 records from 8 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0027008-250717081556266/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.8szurk
title: Occurrence Download

description: A dataset containing 188 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Holcus lanatus",
 "Country is Brazil",
 "HasCoordinate is true"
 ]
}

 The dataset includes 188 records from 39 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0027009-250717081556266/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.32xvm4
title: Occurrence Download

description: A dataset listing the 3711 species recorded in GBIF matching the query:
{
 "and" : [
 "GadmGid is ITA.15.6_1",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Animalia"
 ]
}

 The dataset's 3711 records were derived from 165 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0026986-250717081556266/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.17026/ar/qesqff
title: Centrumplan (Vaartkade 13), Sassenheim Eindrapport

description: &lt;p&gt;Archeologisch onderzoeksbureau IDDS Archeologie heeft op 20 november 2020 en van 12 t/m 13 april 2023 een Inventariserend Veldonderzoek d.m.v. Proefsleuven, uitgevoerd voor project Centrumplan in Sassenheim, gemeente Teylingen. De aanleiding voor dit onderzoek is de geplande sloop van de bebouwing en de realisatie van nieuwbouw. De planvorming omvat twee deelgebieden aan weerszijden van de Vaartkade/Kastanjelaan: blok 1 op de hoek van de Hoofdstraat en Kastanjelaan en blok 2 op de hoek van de Vaartkade en de Oude Haven.&lt;br&gt;In blok 1 (Hoofdstraat/Kastanjelaan) zijn twee waterputten aangetroffen met een datering in de 18e en 19e eeuw. In de top van de strandwal is één mogelijke paalkuil aangetroffen, al zou het ook om een restant van de bovenliggende veenlaag kunnen gaan. De waterputten verschillen qua constructiewijze. Zo was de oudste waterput dieper in het zand ingegraven en werd een houten ton gebruikt. Over de bovenzijde van de ton was een houten wagenwiel geplaatst, waar de spaken van waren verwijderd. Dit was de basis voor de bakstenen opbouw, welke tot aan het maaiveld heeft gereikt. Bij de jongere waterput is tot net onder het veen gegraven, waar een houten ring van oude hergebruikte planken werd geplaatst. Op deze houten plankenfundering werd de bakstenen opbouw gemetseld.&lt;br&gt;In de proefsleuven van blok 2 (Vaartkade/Oude Haven) zijn de meeste sporen aangetroffen. Het gaat om enkele muurfunderingen, kuilen, een paalkuil, een waterkelder en een sloot. De sporen zijn voornamelijk 19e-eeuws en zijn te relateren aan het pand dat recent was gesloopt en/of aan de bebouwing op het minuutplan. Alleen de sloot is ouder, omdat deze onder de 19e-eeuwse funderingen en kuilen is gelegen. Hoe oud de sloot precies is blijft onduidelijk, omdat er geen vondstmateriaal uit de slootvulling afkomstig is.&lt;br&gt;De aangetroffen sporen hebben betrekking op de historische kern van Sassenheim. De vindplaats is gewaardeerd en niet behoudenswaardig geacht.&lt;br&gt;Direct na het veldonderzoek is per blok in overleg met de adviseur van het bevoegd gezag besloten dat aangetroffen archeologische resten geen aanleiding gaven tot een doorstart naar een opgraving (mevr. K. van der Kant (Blok 1) en mevr. M. Rietkerk (Blok 2), Erfgoed Leiden en Omstreken)&lt;/p&gt;
DOI: 10.15468/dl.zkum8s
title: Occurrence Download

description: A dataset containing 643 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Holcus lanatus",
 "Country is Canada",
 "HasCoordinate is true"
 ]
}

 The dataset includes 643 records from 21 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0027011-250717081556266/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.btjy6s
title: Occurrence Download

description: A dataset containing 119 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON((142.02872 -13.60627,142.85282 2.12728,116.27587 9.09412,91.3471 5.62112,105.15064 -11.99912,142.02872 -13.60627))",
 "HasGeospatialIssue is false",
 "TaxonKey is Elaeis guineensis"
 ]
}

 The dataset includes 119 records from 11 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0027012-250717081556266/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.494ars
title: Occurrence Download

description: A dataset containing 1304 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Carya myristiciformis"
 ]
}

 The dataset includes 1304 records from 120 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0027013-250717081556266/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5517/ccdc.csd.cc2n25kh
title: CCDC 2444956: Experimental Crystal Structure Determination

description: Related Article: Hongwei Zhu, Lianghe Sun, Ming Lu, Yuangang Xu|2025|J.Mol.Struct.|1345|143111|doi:10.1016/j.molstruc.2025.143111
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5524/100359
title: Supporting data for "An Architecture for Genomics in a Clinical Setting Using Galaxy and Docker"

description: Next Generation Sequencing is used on a daily basis to perform molecular analysis to determine subtypes of disease (e.g. in cancer) and to assist in the selection of the optimal treatment. Clinical bioinformatics handles the manipulation of the data generated by the sequencer, from the generation to the analysis and interpretation. Reproducibility and traceability are crucial issues in a clinical setting. <br>
We have designed an approach based on the Docker container technology and Galaxy, the popular bioinformatics analysis support open-source software. Our solution simplifies the deployment of a small size analytical platform, and simplifies the process for the clinician. From the technical point of view, the tools embedded in the platform are isolated and versioned through docker images. Along the Galaxy platform, we also introduce the AnalysisManager, a solution allowing single-click analysis for the biologists and leveraging standardized bioinformatics APIs. We added a Shiny/R interactive environment to ease the visualization of the outputs.<br>
The platform relies on containers and ensures the data traceability by recording analytical actions, and by associating inputs and outputs of the tools to the EDAM ontology through ReGaTe. The source code is freely available on Github at https://github.com/CARPEM/GalaxyDocker .
DOI: 10.15468/dl.ecvgju
title: Occurrence Download

description: A dataset containing 405 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Asparagus racemosus",
 "HasCoordinate is true",
 "Geometry POLYGON ((-17.66889 -35.11691, 51.34702 -35.11691, 51.34702 37.62, -17.66889 37.62, -17.66889 -35.11691))"
 ]
}

 The dataset includes 405 records from 48 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0027014-250717081556266/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.x4yykm
title: Occurrence Download

description: A dataset containing 1028 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Briza maxima",
 "Country is Japan",
 "HasCoordinate is true"
 ]
}

 The dataset includes 1028 records from 47 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0027016-250717081556266/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.ukpf66
title: Occurrence Download

description: A dataset containing 6559 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Briza maxima",
 "Country is United States of America",
 "HasCoordinate is true"
 ]
}

 The dataset includes 6559 records from 77 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0027017-250717081556266/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.vfsjz4
title: Occurrence Download

description: A dataset containing 293 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Passiflora tarminiana",
 "Country is United States of America",
 "HasCoordinate is true"
 ]
}

 The dataset includes 293 records from 13 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0027019-250717081556266/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.me3y9q
title: Occurrence Download

description: A dataset containing 354 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Passiflora tarminiana",
 "Country is New Zealand",
 "HasCoordinate is true"
 ]
}

 The dataset includes 354 records from 7 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0027018-250717081556266/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.u5rbja
title: Occurrence Download

description: A dataset containing 1156 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Holcus lanatus",
 "Country is Colombia",
 "HasCoordinate is true"
 ]
}

 The dataset includes 1156 records from 62 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0027020-250717081556266/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.4mtyyq
title: Occurrence Download

description: A dataset containing 12 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is China",
 "TaxonKey is Castanopsis semifabri"
 ]
}

 The dataset includes 12 records from 2 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0027022-250717081556266/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.bsvjx9
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Holcus lanatus",
 "Country is Comoros",
 "HasCoordinate is true"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0027021-250717081556266/datasets/export for details.
DOI: 10.15468/dl.j2yrdv
title: Occurrence Download

description: A dataset containing 9695 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Carya alba"
 ]
}

 The dataset includes 9695 records from 264 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0027023-250717081556266/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.yd3bfn
title: Occurrence Download

description: A dataset containing 593 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Holcus lanatus",
 "Country is Japan",
 "HasCoordinate is true"
 ]
}

 The dataset includes 593 records from 37 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0027024-250717081556266/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.du5uf7
title: Occurrence Download

description: A dataset containing 608 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Chlorophytum comosum",
 "HasCoordinate is true",
 "Geometry POLYGON ((-17.66889 -35.11691, 51.34702 -35.11691, 51.34702 37.62, -17.66889 37.62, -17.66889 -35.11691))"
 ]
}

 The dataset includes 608 records from 30 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0027025-250717081556266/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.4119/unibi/3003278
title: Supplementary Material for "Interactive Sonification of 2D Quantum Systems"

description: This paper presents novel sonification methods for the auditory representation of 2D quantum systems and their temporal evolution, encompassing examples such as the tunnel effect, single and double slit interference or behavior of light or matter in a given potential function. The simulation involves numeric integration of the Schrödinger equation. The sonification is based on three paradigms: (a) scanning the probability amplitude along a 1D-manifold (i.e.~curve) as a waveform, (b) probing the probability amplitude as spectral activation along a 1D-manifold, (c) traversing the full 2D field as an audification. We illustrate the methods with sonification examples, discuss what can be learned about the behavior of quantum systems in non-stationary transitions and propose application scenarios in physical, musical and educational contexts.



<strong>Code Repository</strong>
The source code is published as open source in a git repository, available at GitHub here.



<strong>Sound & Video Examples</strong>
Example 1: Harmonic Oscillator

<strong>1a:</strong> <em>Path of Interest Audification of a Harmonic Oscillator</em>




<strong>1b:</strong> <em>Timbre Mapping of a Harmonic Oscillator</em>

 


<strong>1c:</strong> <em>2D Field Audification of a Harmonic Oscillator</em>

 




Example 2: Tunnel Effect

<strong>2a:</strong> <em>Path of Interest Audification of a Tunnel Effect Example</em>




<strong>2b:</strong> <em>Timbre Mapping of a Tunnel Effect Example</em>




<strong>2c:</strong> <em>2D Field Audifiaction of a Tunnel Effect Example</em>






Example 3: Single Slit Experiment

<strong>3a:</strong> <em>Path of Interest Audification of a Single Slit Experiment</em>




<strong>3b:</strong> <em>Timbre Mapping of a Single Slit Experiment</em>




<strong>3c:</strong> <em>2D Field Audification of a Single Slit Experiment</em>






Example 4: Double Slit Experiment

<strong>4a:</strong> <em>Path of Interest Audification of a Double Slit Experiment</em>




<strong>4b:</strong> <em>Timbre Mapping of a Double Slit Experiment</em>




<strong>4c:</strong> <em>2D Field Audification of a Double Slit Experiment</em>
DOI: 10.15468/dl.evujm2
title: Occurrence Download

description: A dataset containing 88 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Briza minor",
 "Country is Argentina",
 "HasCoordinate is true"
 ]
}

 The dataset includes 88 records from 13 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0027026-250717081556266/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.ubfemv
title: Occurrence Download

description: A dataset containing 7 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Briza minor",
 "Country is Bolivia (Plurinational State of)",
 "HasCoordinate is true"
 ]
}

 The dataset includes 7 records from 2 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0027027-250717081556266/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.3s9vjj
title: Occurrence Download

description: A dataset containing 150 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Briza minor",
 "Country is Brazil",
 "HasCoordinate is true"
 ]
}

 The dataset includes 150 records from 42 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0027028-250717081556266/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.cgkdrm
title: Occurrence Download

description: A dataset containing 80 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Idesia polycarpa",
 "Country is New Zealand",
 "HasCoordinate is true"
 ]
}

 The dataset includes 80 records from 6 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0027029-250717081556266/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.hgaftz
title: Occurrence Download

description: A dataset containing 3167 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Holcus lanatus",
 "Country is New Zealand",
 "HasCoordinate is true"
 ]
}

 The dataset includes 3167 records from 19 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0027030-250717081556266/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5524/100360
title: Supporting software for "VaDiR: an integrated approach to Variant Detection in RNA"

description: Advances in next-generation DNA sequencing technologies are now enabling detailed characterization of sequence variations in cancer genomes. With whole genome sequencing, variations in coding and non-coding sequences can be discovered. But the cost associated with it is currently limiting its general use in research. Whole exome sequencing is used to characterize sequence variations in coding regions, but the cost associated with capture reagents and biases in capture rate limit its full use in research. Additional limitations include uncertainty in assigning the functional significance of the mutations when these mutations are observed in the non-coding region or in genes that are not expressed in cancer tissue.<br>
We investigated the feasibility of uncovering mutations from expressed genes using RNA sequencing datasets with a method called "VaDiR: Variant Detection in RNA" that integrate three variant callers, namely: SNPiR, RVBoost and MuTect2. The combination of all three methods, which we called Tier1 variants, produced the highest precision with true positive mutations from RNA-seq that could be validated at the DNA level. We also found that the integration of Tier1 variants with those called by MuTect2 and SNPiR produced the highest recall with acceptable precision. Finally, we observed higher rate of mutation discovery in genes that are expressed at higher levels. 
<br>
Our method, VaDiR, provides a possibility of uncovering mutations from RNA sequencing datasets that could be useful in further functional analysis. In addition, our approach allows orthogonal validation of DNA-based mutation discovery by providing complementary sequence variation analysis from paired RNA/DNA sequencing data sets.
<br>
For testing purposes we utilised data kindly provided by Dr. Andrea Mariani of Mayo Clinic, Rochester, Minnesota. Due to ethical constraints these data cannot be shared publicly, but if researchers would like to request access to these data please contact Dr. Andrea Mariani (mariani.andrea@mayo.edu) with a short description of why you require access and how you would use the data.
DOI: 10.15468/dl.tkm6z4
title: Occurrence Download

description: A dataset containing 3626 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Carya texana"
 ]
}

 The dataset includes 3626 records from 126 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0027031-250717081556266/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.vvbe2p
title: Occurrence Download

description: A dataset containing 299283 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Juglans"
 ]
}

 The dataset includes 299283 records from 2501 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0026920-250717081556266/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15156/bio/sh0163265.10fu
title: SH0163265.10FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.