cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.13145/bacdive13537.20221219.7.1
title: Agrobacterium sp.

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.13145/bacdive13538.20220920.7
title: Agrobacterium agile

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.13145/bacdive13538.20221219.7.1
title: Agrobacterium agile

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.13145/bacdive13539.20220920.7
title: Agrobacterium luteum

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.13145/bacdive13539.20221219.7.1
title: Agrobacterium luteum

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.13145/bacdive13540.20220920.7
title: Aminobacter carboxidus (Meyer et al. 1994) Hördt et al. 2020

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.13145/bacdive13540.20221219.7.1
title: Aminobacter carboxidus (Meyer et al. 1994) Hördt et al. 2020

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.13145/bacdive13541.20220920.7
title: Ensifer meliloti (Dangeard 1926) Young 2003

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.13145/bacdive13541.20221219.7.1
title: Ensifer meliloti (Dangeard 1926) Young 2003

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.13145/bacdive13542.20220920.7
title: Ensifer meliloti (Dangeard 1926) Young 2003

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.13145/bacdive13542.20221219.7.1
title: Ensifer meliloti (Dangeard 1926) Young 2003

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.13145/bacdive13543.20220920.7
title: Ensifer meliloti (Dangeard 1926) Young 2003

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.13145/bacdive13543.20221219.7.1
title: Ensifer meliloti (Dangeard 1926) Young 2003

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.13145/bacdive13544.20220920.7
title: Ensifer meliloti (Dangeard 1926) Young 2003

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.15468/dl.vbw738
title: Occurrence Download

description: A dataset containing 11 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Peru",
 "TaxonKey is Acanthagrion phallicorne Leonard, 1977"
 ]
}

 The dataset includes 11 records from 4 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0069676-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.xuapqg
title: Occurrence Download

description: A dataset containing 651321 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Teucrium L."
 ]
}

 The dataset includes 651321 records from 884 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0075100-210914110416597/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.2tzwcy
title: Occurrence Download

description: A dataset containing 41195 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasCoordinate is true",
 "Year is greater than or equal to 2000",
 "Year is less than or equal to 2024",
 "Geometry POLYGON ((-130.7383528944533 -59.46314024951374, -130.7383528944533 32.71876227804215, -26.26729810228821 32.71876227804215, -26.26729810228821 -59.46314024951374, -130.7383528944533 -59.46314024951374))",
 "OccurrenceStatus is Present",
 "TaxonKey is Myioborus ornatus (Boissonneau, 1840)"
 ]
}

 The dataset includes 41195 records from 113 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0052016-240506114902167/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.45f0lg
title: Occurrence Download

description: A dataset containing 370 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Micranthocereus Backeb."
 ]
}

 The dataset includes 370 records from 34 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0006690-180730143533302/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.qp9wjt
title: Occurrence Download

description: A dataset containing 42256 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is Human Observation",
 "TaxonKey is Rangifer tarandus (Linnaeus, 1758)"
 ]
}

 The dataset includes 42256 records from 160 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0015321-210819072339941/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.tbpzk9
title: Occurrence Download

description: A dataset containing 13 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Spinus cucullatus (Swainson, 1820), Spinus cucullatus (Swainson, 1820), Spinus cucullatus (Swainson, 1820))",
 "DecimalLatitude is greater than or equal to -14",
 "DecimalLatitude is less than or equal to 13",
 "DecimalLongitude is greater than or equal to -83",
 "DecimalLongitude is less than or equal to -60"
 ]
}

 The dataset includes 13 records from 6 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0066895-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.avpd0u
title: Occurrence Download

description: A dataset containing 6495 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Phytolacca icosandra L."
 ]
}

 The dataset includes 6495 records from 181 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0004041-190415153152247/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.7sq438
title: Occurrence Download

description: A dataset listing the 115 species recorded in GBIF matching the query:
{
 "and" : [
 "Country is Colombia",
 "DatasetKey is EOD – eBird Observation Dataset",
 "Locality is Finca Agroturistica Dulima, Ibagué CO-Tolima"
 ]
}

 The dataset's 115 records were derived from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0262582-210914110416597/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.6rtava
title: Occurrence Download

description: A dataset containing 411 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Cristaria plicata (Leach, 1814)"
 ]
}

 The dataset includes 411 records from 40 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0069415-200221144449610/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.lbycpe
title: Occurrence Download

description: A dataset containing 1708 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Year 1960-2018",
 "TaxonKey is Ginkgo L."
 ]
}

 The dataset includes 1708 records from 194 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0008158-180412121330197/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.hhs4rc
title: Occurrence Download

description: A dataset containing 789 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON((-85.57804 9.11138,-81.70940 9.11138,-81.70940 10.65818,-85.57804 10.65818,-85.57804 9.11138))",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Bombus ephippiatus Say, 1837"
 ]
}

 The dataset includes 789 records from 10 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0285293-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.updg8e
title: Occurrence Download

description: A dataset containing 29784 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Phlomis purpurea L."
 ]
}

 The dataset includes 29784 records from 96 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0039299-210914110416597/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.67t7km
title: Occurrence Download

description: A dataset containing 326 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Pterocarya hupehensis Skan"
 ]
}

 The dataset includes 326 records from 24 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0082169-240321170329656/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.kuvszx
title: Occurrence Download

description: A dataset containing 710 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is Specimen",
 "Geometry POLYGON((-4.50152 36.64274,-4.43312 36.64274,-4.43312 36.69539,-4.50152 36.69539,-4.50152 36.64274))",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present"
 ]
}

 The dataset includes 710 records from 36 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0082168-240321170329656/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.mvtg7a
title: Occurrence Download

description: A dataset containing 21 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Premna lepidella Moldenke"
 ]
}

 The dataset includes 21 records from 8 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0082170-240321170329656/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.bzc5ay
title: Occurrence Download

description: A dataset containing 5 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Psychotria leucocarpa Blume"
 ]
}

 The dataset includes 5 records from 4 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0082171-240321170329656/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.10907329
title: Impact of horizontal resolution and model time step on European precipitation extremes in the OpenIFS 43r3 atmosphere model

description: Python scripts used for GMD paper
DOI: 10.5281/zenodo.10907330
title: Impact of horizontal resolution and model time step on European precipitation extremes in the OpenIFS 43r3 atmosphere model

description: Python scripts used for GMD paper
DOI: 10.15468/dl.n4kg67
title: Occurrence Download

description: A dataset containing 46 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Pseudopodospermum suberosum (K.Koch) Kuth."
 ]
}

 The dataset includes 46 records from 15 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0082172-240321170329656/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.8363529
title: Supporting MD trajectories for the paper "In Situ Captured Antibacterial Action of Membrane-Incising Peptide Lamellae"

description: Molecular dynamics trajectories from the production runs of single beta-peptide strands in water + 150 mM NaCl + 50:1 MePO4^(2-):peptide. Altogether 8 runs were performed, each one starting from a different helical conformation (H10, H12 and H14, both positive and negative winding) of the peptide. In the first half (500 ns) of the simulation, the intra-chain hydrogen bonds responsible for the actual helix were kept together by distance restraints. In the second half (again 500 ns), these restraints were instantaneously lifted and the system was left to evolve from the same state. In all cases the helical structure unwound in a very short time (under 100 ns), and did not refold in any helix.
DOI: 10.5281/zenodo.10907297
title: Supporting MD trajectories for the paper "In Situ Captured Antibacterial Action of Membrane-Incising Peptide Lamellae"

description: Source data and molecular dynamic trajectories for the article "In Situ Captured Antibacterial Action of Membrane-Incising Peptide Lamellae"

New compounds with unique mechanisms of action are needed to combat the growing issue of antimicrobial resistance. Supramolecular assemblies, which combine the complex membrane attacking mechanisms of natural host defense peptides with the improved biostability of non-natural compounds offer a promising alternative to current small molecule antibiotics. However, for such membrane-targeting compounds the direct visual insight on the toxic agents in bacteria is still lacking. To this end, we employed a design strategy focusing on an inducible assembly mechanism and utilized electron microscopy (EM) to follow the formation of supramolecular peptide structures triggered by bacterial cell surface lipopolysaccharides (LPS). Inspired by the alternating chirality backbone pattern of some effective peptide antimicrobials, we designed lysine-rich heterochiral β3-peptides, termed lamellin-2K and lamellin-3K, with optimal residual spacing for enhanced coordination on the phosphate groups of LPS. Combined molecular dynamics simulations (MD), EM and bacterial assays confirmed that the phosphate-induced conformational change of these lamellins led to the formation of thin, striped lamellar layers, where each stripe represents double arrays of H-bonded peptide molecules that are interconnected by phosphate ions. EM micrographs of Gram-negative bacteria show that the lamellae incised the cell envelope, while leakage and antibacterial activity assays prove that growth inhibition starts already at submicromolar concentrations. Detailed image analysis demonstrated that the lamellae penetrating deep into the bacterial cell have a rather uniform size distribution and, surprisingly, only a few of these supramolecules are sufficient to cause major cell wall damage making them efficient in destroying target cells. Our findings also provide a missing mechanistic link for membrane-targeting agents, connecting how the antibiotic mechanism is built up from individual molecules through on-site formation of the active supramolecules that lead to bactericidal activity.

Molecular dynamics trajectories from the production runs of single beta-peptide strands in water + 150 mM NaCl + 50:1 MePO4^(2-):peptide. Altogether 8 runs were performed, each one starting from a different helical conformation (H10, H12 and H14, both positive and negative winding) of the peptide. In the first half (500 ns) of the simulation, the intra-chain hydrogen bonds responsible for the actual helix were kept together by distance restraints. In the second half (again 500 ns), these restraints were instantaneously lifted and the system was left to evolve from the same state. In all cases the helical structure unwound in a very short time (under 100 ns), and did not refold in any helix.
DOI: 10.5281/zenodo.8363528
title: Supporting MD trajectories for the paper "In Situ Captured Antibacterial Action of Membrane-Incising Peptide Lamellae"

description: Source data and molecular dynamic trajectories for the article "In Situ Captured Antibacterial Action of Membrane-Incising Peptide Lamellae"

New compounds with unique mechanisms of action are needed to combat the growing issue of antimicrobial resistance. Supramolecular assemblies, which combine the complex membrane attacking mechanisms of natural host defense peptides with the improved biostability of non-natural compounds offer a promising alternative to current small molecule antibiotics. However, for such membrane-targeting compounds the direct visual insight on the toxic agents in bacteria is still lacking. To this end, we employed a design strategy focusing on an inducible assembly mechanism and utilized electron microscopy (EM) to follow the formation of supramolecular peptide structures triggered by bacterial cell surface lipopolysaccharides (LPS). Inspired by the alternating chirality backbone pattern of some effective peptide antimicrobials, we designed lysine-rich heterochiral β3-peptides, termed lamellin-2K and lamellin-3K, with optimal residual spacing for enhanced coordination on the phosphate groups of LPS. Combined molecular dynamics simulations (MD), EM and bacterial assays confirmed that the phosphate-induced conformational change of these lamellins led to the formation of thin, striped lamellar layers, where each stripe represents double arrays of H-bonded peptide molecules that are interconnected by phosphate ions. EM micrographs of Gram-negative bacteria show that the lamellae incised the cell envelope, while leakage and antibacterial activity assays prove that growth inhibition starts already at submicromolar concentrations. Detailed image analysis demonstrated that the lamellae penetrating deep into the bacterial cell have a rather uniform size distribution and, surprisingly, only a few of these supramolecules are sufficient to cause major cell wall damage making them efficient in destroying target cells. Our findings also provide a missing mechanistic link for membrane-targeting agents, connecting how the antibiotic mechanism is built up from individual molecules through on-site formation of the active supramolecules that lead to bactericidal activity.

Molecular dynamics trajectories from the production runs of single beta-peptide strands in water + 150 mM NaCl + 50:1 MePO4^(2-):peptide. Altogether 8 runs were performed, each one starting from a different helical conformation (H10, H12 and H14, both positive and negative winding) of the peptide. In the first half (500 ns) of the simulation, the intra-chain hydrogen bonds responsible for the actual helix were kept together by distance restraints. In the second half (again 500 ns), these restraints were instantaneously lifted and the system was left to evolve from the same state. In all cases the helical structure unwound in a very short time (under 100 ns), and did not refold in any helix.
DOI: 10.5281/zenodo.8388600
title: Supporting MD trajectories for the paper "In Situ Captured Antibacterial Action of Membrane-Incising Peptide Lamellae"

description: Molecular dynamics trajectories from the production runs of single beta-peptide strands in water + 150 mM NaCl + 50:1 MePO4^(2-):peptide. Altogether 8 runs were performed, each one starting from a different helical conformation (H10, H12 and H14, both positive and negative winding) of the peptide. In the first half (500 ns) of the simulation, the intra-chain hydrogen bonds responsible for the actual helix were kept together by distance restraints. In the second half (again 500 ns), these restraints were instantaneously lifted and the system was left to evolve from the same state. In all cases the helical structure unwound in a very short time (under 100 ns), and did not refold in any helix.
DOI: 10.5281/zenodo.10782756
title: CTU-Hacktivist-RU_EN-1: A Dataset with Russian English Translation

description: This dataset was created as part of the research on using LLMs to translate hacktivist messages from Russian to English.

We split the dataset in two:



CTU-Hacktivist-Translations-FineTuning-RU_EN-v0.2.jsonl: The dataset used to fine-tune the LLM model in JSONL format.



The prompt used for fine-tuning the LLM

The original text in Russian from the hacktivist group NoName(057)16 or vocabulary annotations created by a language expert.

The English translation text for each Russian message or vocabulary



CTU-Hacktivist-Translations-Evaluation-RU_EN-v0.5.jsonl:  The dataset used to evaluate the fine-tuned LLM Model in JSONL format.



The original text in Russian

The ground-truth translation in English

The translation by the LLM model without fine-tuning

The translation by the LLM model with fine-tuning

The translation by Google Translate

The translation by DeepL




The ground-truth translation was generated with specific instructions so that the translations will preserve the original punctuation, including the use of guillemets «».
DOI: 10.5281/zenodo.10782757
title: CTU-Hacktivist-RU_EN-1: A Dataset with Russian English Translation

description: This dataset was created as part of the research on using LLMs to translate hacktivist messages from Russian to English.

We split the dataset in two:



CTU-Hacktivist-Translations-FineTuning-RU_EN-v0.2.jsonl: The dataset used to fine-tune the LLM model in JSONL format.



The prompt used for fine-tuning the LLM

The original text in Russian from the hacktivist group NoName(057)16 or vocabulary annotations created by a language expert.

The English translation text for each Russian message or vocabulary



CTU-Hacktivist-Translations-Evaluation-RU_EN-v0.5.jsonl:  The dataset used to evaluate the fine-tuned LLM Model in JSONL format.



The original text in Russian

The ground-truth translation in English

The translation by the LLM model without fine-tuning

The translation by the LLM model with fine-tuning

The translation by Google Translate

The translation by DeepL




The ground-truth translation was generated with specific instructions so that the translations will preserve the original punctuation, including the use of guillemets «».
DOI: 10.15468/dl.zuenq5
title: Occurrence Download

description: A dataset containing 1498 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is Amphibians and reptiles of Ireland"
 ]
}

 The dataset includes 1498 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0082173-240321170329656/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.