cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5281/zenodo.15525268
title: Ocean velocity data from a vessel-mounted acoustic Doppler current profiler from a day-long ice-drift station during the PS131 expedition with RV Polarstern in July 2022

description: This dataset is a subset from the underway ocean current profiler data during the scientific cruise PS131 on RV Polarstern to the northern Fram Strait/Yermak Plateau region. The subset was compiled for fulfilling the data availability requirements of a manuscript submission. The full processed dataset of the underway current measurements will be published on PANGAEA (https://www.pangaea.de/?q=ps131) in due time.

The data were collected using a 150 kHz Ocean Surveyor ADCP from Teledyne RDI (USA), mounted in the ship's hull at 11 m below the sea surface. The instrument was configured in narrowband mode and set up to use a 4 m bin size, covering a range from 15 m to about 200–300 m depending on sea state, ice conditions, ship’s speed, and backscatter intensity. This data subset covers 24 h and a depth to 250 m. The data were collected as part of a sea ice-based process study, during which the ship was drifting next to a sea ice floe. 

Data processing was done using the OSSI toolbox developed by GEOMAR Helmholtz-Zentrum für Ozeanforschung Kiel and included a correction of the misalignment angle (0.8015°) and amplitude factor (1.014001) of the Ocean Surveyor signal. An averaging interval of 60 seconds was used. 

The drift trajectory, based on the ship's navigation system, is included as latitude and longitude data. The data provided here has variables u and v (eastward and northward velocity components), depth, and time, as well as lon (longitude) and lat (latitude). 

More information can be found in the cruise report: https://doi.org/10.57738/BzPM_0770_2023.
DOI: 10.5281/zenodo.15525269
title: Ocean velocity data from a vessel-mounted acoustic Doppler current profiler from a day-long ice-drift station during the PS131 expedition with RV Polarstern in July 2022

description: This dataset is a subset from the underway ocean current profiler data during the scientific cruise PS131 on RV Polarstern to the northern Fram Strait/Yermak Plateau region. The subset was compiled for fulfilling the data availability requirements of a manuscript submission. The full processed dataset of the underway current measurements will be published on PANGAEA (https://www.pangaea.de/?q=ps131) in due time.

The data were collected using a 150 kHz Ocean Surveyor ADCP from Teledyne RDI (USA), mounted in the ship's hull at 11 m below the sea surface. The instrument was configured in narrowband mode and set up to use a 4 m bin size, covering a range from 15 m to about 200–300 m depending on sea state, ice conditions, ship’s speed, and backscatter intensity. This data subset covers 24 h and a depth to 250 m. The data were collected as part of a sea ice-based process study, during which the ship was drifting next to a sea ice floe. 

Data processing was done using the OSSI toolbox developed by GEOMAR Helmholtz-Zentrum für Ozeanforschung Kiel and included a correction of the misalignment angle (0.8015°) and amplitude factor (1.014001) of the Ocean Surveyor signal. An averaging interval of 60 seconds was used. 

The drift trajectory, based on the ship's navigation system, is included as latitude and longitude data. The data provided here has variables u and v (eastward and northward velocity components), depth, and time, as well as lon (longitude) and lat (latitude). 

More information can be found in the cruise report: https://doi.org/10.57738/BzPM_0770_2023.
DOI: 10.15468/dl.5cebsy
title: Occurrence Download

description: A dataset containing 14 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 "BasisOfRecord is one of (Human Observation, Machine Observation, Occurrence evidence, Observation)",
 "TaxonKey is one of (Motacilla flava Linnaeus, 1758)",
 "Country is one of (Bermuda, Canada, Greenland, Saint Pierre and Miquelon, United States of America)"
 ]
}

 The dataset includes 14 records from 4 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0017409-250525065834625/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.rnh933
title: Occurrence Download

description: A dataset containing 36448 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasCoordinate is true",
 "TaxonKey is Streptomyces Waksman & Henrici, 1943"
 ]
}

 The dataset includes 36448 records from 425 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0017407-250525065834625/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.7910/dvn/aznkqo
title: PDB - 6AL5: COMPLEX BETWEEN CD19 and B43 FAB (313K, 40°C, 100 ns): RMSD, SASA, RMSF, Rg, H-bonds

description: PDB - 6AL5: COMPLEX BETWEEN CD19 and B43 FAB (313K, 40°C, 100 ns): RMSD, SASA, RMSF, Rg, H-bonds
DOI: 10.15468/dl.3yes7b
title: Occurrence Download

description: A dataset containing 126031 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is Mosquito Occurrence Dataset"
 ]
}

 The dataset includes 126031 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0017406-250525065834625/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.15462278
title: De novo transcriptome assemblies and functional annotations from embryos and juvenile cuttlefish (Sepia officinalis) heads under various metal and pCO2 conditions. [Structural & functional annotation files]

description: Here are the files containing structural (from Transdecoder_V5.7.0) and functional (from BLAST_v2.16.0; eggnog-mapper_v2.1.12 ; Reactome) annotation files of the transcriptome assembly available at E.N.A (project accession: PRJEB88225).

Briefly, transcriptomic data were produced from head tissues of juveniles S. officinalis reared under control, elevated pCO2, dietary MeHg contaminated, and combination of elevated pCO2 and dietary MeHg contaminated conditions for 42 days after hatching. See E.N.A metadata for a more detailed protocol.
DOI: 10.15468/hnvndq
title: A checklist of plant species observed in some parts of a degraded Thyolo mountain forest Reserve

description: This is a list of plant observations from a 5 day trip to Thyolo mountains which was once brachystegia/miombo woodland but has of late been degraded due to farming and charcoal burning. The area needs urgent attention because there is rampant soil erosion taking place.
DOI: 10.15468/dl.5mqjuy
title: Occurrence Download

description: A dataset containing 414 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is Elymus L. in the flora of Uzbekistan"
 ]
}

 The dataset includes 414 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0017411-250525065834625/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/k6vlka
title: Status and spatial diversity of Sorghum wild species in Malawi.

description: Status and spatial diversity of sorghum wild species project is supported by the European Union through Global Biodiversity Information Facility(GBIF) and Biodiversity Information for Development(BID).The project has a goal of generating data about crop wild relatives of sorghum that occur in Malawi for research and sustainable conservation purposes.

Sorghum wild species occurrence data documented and published through this project is an overview of Sorghum crop wild species occurring in Malawi. The Malawi Plant Genetic Resources Centre leads the project in collaboration with University of Birmingham, Lilongwe University of Agriculture and Natural Resources, National Herbarium and Botanic Gardens of Malawi and National Commission for Science and Technology.
DOI: 10.5281/zenodo.15025493
title: Raw data associated with the article "Microscale generation and control of nanosecond light by light in a liquid crystal"

description: Raw data associated with the article "Microscale generation and control of nanosecond light by light in a liquid crystal". The documentation can be found in the README.docx file.

Corresponding author: Igor Muševič (igor.musevic@ijs.si)
DOI: 10.5281/zenodo.15025494
title: Raw data associated with the article "Microscale generation and control of nanosecond light by light in a liquid crystal"

description: Raw data associated with the article "Microscale generation and control of nanosecond light by light in a liquid crystal". The documentation can be found in the README.docx file.

Corresponding author: Igor Muševič (igor.musevic@ijs.si)
DOI: 10.5281/zenodo.15583188
title: Nucleotide sequences for the 16S rRNA gene fragment (Apostichopus japonicus)
DOI: 10.5281/zenodo.15583189
title: Nucleotide sequences for the 16S rRNA gene fragment (Apostichopus japonicus)
DOI: 10.15468/dl.hnayds
title: Occurrence Download

description: A dataset containing 5 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON((19.85725 -33.49967,20.24423 -33.49967,20.24423 -33.17457,19.85725 -33.17457,19.85725 -33.49967))",
 "IucnRedListCategory is one of (CR, EN, VU, NT, DD)",
 "OccurrenceStatus is Present",
 "TaxonKey is Insecta"
 ]
}

 The dataset includes 5 records from 2 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0017413-250525065834625/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.2vpvnz
title: Occurrence Download

description: A dataset containing 3400 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Androsace vandellii (Turra) Chiov."
 ]
}

 The dataset includes 3400 records from 74 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0017412-250525065834625/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.17632/5hg3z85wf4.1
title: HESML_vs_SML: scalability and performance benchmarks between the HESML V1R2 and SML 0.9 semantic measures libraries

description: This dataset introduces a companion reproducibility Java console program, called HESML_vs_SML_test.jar, of the work introduced by Lastra-Díaz and García-Serrano [1]. This latter work introduces the Half-Edge Semantic Measures Library (HESML), and carries-out an experimental survey between HESML V1R2, the Semantic Measures Library (SML) 0.9 [2] and the WNetSS [4] semantic measures libraries. The HESML_vs_SML_test.jar program runs the set of performance and scalability benchmarks detailed in [1] and generates the figures and tables of results reported in the aforementioned work, which are also enclosed as complementary files of this dataset (see files below). Licensing note: The 'HESML_vs_SML_test.jar' program is based on the HESML V1R2 [3], SML 0.9 [2] and WNetSS [4] semantic measures libraries, and it includes these libraries in its distribution, as well as WordNet 3.0 [6] and the SimLex665 [5] dataset. Thus, if you use this dataset, you should also cite the works related to these resources. References: [1] Lastra-Díaz, J. J., and García-Serrano, A. (2016). HESML: a scalable ontology-based semantic similarity measures library with a set of reproducible experiments and a replication dataset. To appear in Information Systems Journal. [2] Harispe, S., Ranwez, S., Janaqi, S., and Montmain, J. (2014). The Semantic Measures Library: Assessing Semantic Similarity from Knowledge Representation Analysis. In E. Métais, M. Roche, & M. Teisseire (Eds.), Proc. of the 19th International Conference on Applications of Natural Language to Information Systems (NLDB 2014) (Vol. 8455, pp. 254–257). Montpelier, France: Springer. http://dx.doi.org/10.1007/978-3-319-07983-7_37 [3] Lastra-Díaz, J. J., & García-Serrano, A. (2016). HESML V1R2 Java software library of ontology-based semantic similarity measures and information content models. Mendeley Data, v2. https://doi.org/10.17632/t87s78dg78.2 [4] Ben Aouicha, M., Taieb, M. A. H., and Ben Hamadou, A. (2016). SISR: System for integrating semantic relatedness and similarity measures. Soft Computing, 1–25. http://dx.doi.org/10.1007/s00500-016-2438-x [5] Hill, F., Reichart, R., & Korhonen, A. (2015). SimLex-999: Evaluating Semantic Models with (Genuine) Similarity Estimation. Computational Linguistics, 41(4), 665–695. http://dx.doi.org/10.1162/COLI_a_00237 [6] Miller, G. A. (1995). WordNet: A Lexical Database for English. Communications of the ACM, 38(11), 39–41. http://dx.doi.org/10.1145/219717.219748
DOI: 10.17632/65pxgskhz9.1
title: WordNet-based word similarity reproducible experiments based on HESML V1R1 and ReproZip

description: This dataset is provided as supplementary material of the paper by Lastra-Díaz, J. J., & García-Serrano, A. (2016). HESML: a scalable ontology-based semantic similarity measures library with a set of reproducible experiments and a replication dataset. Information Systems. This dataset contains a ReproZip reproducible experiment file, called "HESMLv1r1_reproducible_exps.rpz", which allows the experimental surveys on word similarity on WordNet introduced in the three papers below to be reproduced exactly. [1] Lastra-Díaz, J. J., & García-Serrano, A. (2015). A novel family of IC-based similarity measures with a detailed experimental survey on WordNet. Engineering Applications of Artificial Intelligence Journal, 46, 140–153. http://dx.doi.org/10.1016/j.engappai.2015.09.006 [2] Lastra-Díaz, J. J., & García-Serrano, A. (2015). A new family of information content models with an experimental survey on WordNet. Knowledge-Based Systems, 89, 509–526. http://dx.doi.org/10.1016/j.knosys.2015.08.019 [3] Lastra-Díaz, J. J., & García-Serrano, A. (2016). A refinement of the well-founded Information Content models with a very detailed experimental survey on WordNet (No. TR-2016-01). NLP and IR Research Group. ETSI Informática. Universidad Nacional de Educación a Distancia (UNED). http://e-spacio.uned.es/fez/view/bibliuned:DptoLSI-ETSI-Informes-Jlastra-refinement
DOI: 10.17632/mpr2m8pycs.1
title: WNSimRep: a framework and replication dataset for ontology-based semantic similarity measures and information content models

description: The WNSImRep v1 dataset is provided as supplementary material of the paper by Lastra-Díaz, J. J., & García-Serrano, A. (2016). HESML: a scalable ontology-based semantic similarity measures library with a set of reproducible experiments and a replication dataset. Information Systems. In the aforementioned work, we introduce a scalable Java software library of ontology-based semantic similarity measures and IC models, called HESML, and a set of reproducible experiments on word similarity. The WNSimRep v1 dataset is detailed in the enclosed file called "appendixB_WNSimRep_dataset_LastraGarcia_v1.pdf". This work introduces a framework whose aim is to allow the exact replication of most intrinsic Information Content (IC) models and ontology-based similarity measures reported in the literature by using the publicly available accompanying dataset, called the WNSimRep v1 dataset. This work has been carried-out in the context of a large evaluation campaign of ontology-based semantic similarity measures and IC models on WordNet based on HESML. Our work is encouraged by the identification of several reproducibility problems in a series of recent experimental surveys carried-out by the authors, together with the lack of a framework and gold standard to assist in the replication of ontology-based similarity measures and IC models. To bridge this gap, we introduce herein a replication framework defined by three different types of data file: (a) node-based data files which contain an explicit representation of the WordNet taxonomy together with a specific IC model and a collection of node-based taxonomical features, (b) edge-based data files which contain a family of edge-valued IC models based on the conditional probability between child and parent concepts, and (c) synset-pair-based data files which contain the synset pairs of the Rubenstein-Goodenough word similarity benchmark, together with a collection of taxonomical features based on synset pairs and all the ontology-based similarity measures evaluated on them. The framework is implemented in the accompanying dataset which includes a collection of intrinsic and corpus-based IC models based on WordNet 3.0, enriched with a broad set of taxonomical features used by most intrinsic IC models and ontology-based similarity measures.
DOI: 10.17632/t87s78dg78.4
title: HESML V1R4 Java software library of ontology-based semantic similarity measures and information content models

description: HESML V1R4 is the fourth release of the Half-Edge Semantic Measures Library (HESML) detailed in [1], which is a new, linerarly scalable and efficient Java software library of ontology-based semantic similarity measures and Information Content (IC) models based on WordNet. HESML V1R4 implements most ontology-based semantic similarity measures and Information Content (IC) models based on WordNet reported in the literature, as well as the evaluation of three pre-trained word embedding models. It also provides a XML-based input file format in order to specify the execution of reproducible experiments on WordNet-based similarity, even with no software coding. HESML V1R4 introduces the following novelties: (1) a software implementation for the evaluation of three pre-trained word embedding file formats which support most of state-of--the-art models reported in the literature; (2) a software implementation of an intrinsic IC model and two new IC-based semantic similarity measures introduced by Cai et al. (2017); (3) a software implementation of a fast approximation of the Wu&Palmer (1994) measure commonly used in the literature; (4) the integration of a very large set of word similarity benchmarks; and finally (5), the correction of an error in our software implementation of the Leacock&Chodorow (1998) measure in previous HESML versions. HESML library is freely distributed for any non-commercial purpose under a CC By-NC-SA-4.0 license, subject to the citing of the main HESML paper [1] as attribution requirement. On other hand, the commercial use of the similarity measures introduced in [2], as well as part of the intrinsic IC models introduced in [3] and [4], is protected by a patent application [5]. In addition, any user of HESML must fulfill other licensing terms described in [1] related to other resources distributed with the library. References: [1] Lastra-Díaz, J. J., García-Serrano, A., Batet, M., Fernández, M., & Chirigati, F. (2017). HESML: a scalable ontology-based semantic similarity measures library with a set of reproducible experiments and a replication dataset. Information Systems, 66, 97–118. [2] Lastra-Díaz, J. J., & García-Serrano, A. (2015). A novel family of IC-based similarity measures with a detailed experimental survey on WordNet. Engineering Applications of Artificial Intelligence Journal, 46, 140–153. [3] Lastra-Díaz, J. J., & García-Serrano, A. (2015). A new family of information content models with an experimental survey on WordNet. Knowledge-Based Systems, 89, 509–526. [4] Lastra-Díaz, J. J., & García-Serrano, A. (2016). A refinement of the well-founded Information Content models with a very detailed experimental survey on WordNet. Universidad Nacional de Educación a Distancia (UNED). [5] Lastra Díaz, J. J., & García Serrano, A. (2016). System and method for the indexing and retrieval of semantically annotated data using an ontology-based information retrieval model. USPTO App, US2016/0179945 A1.
DOI: 10.5281/zenodo.15578664
title: Polympact

description: # Simulation Results Directory Structure

This directory contains results from impact simulations of projectiles on polymeric films. The data is organized hierarchically to represent different simulation parameters.

## Directory Structure

polympact/├── N<chain_length>/│ └── sample_<sample_number>/|   ├──rp_<projectile_radius>|   | └── H<film_thickness>/|   |   └── V<impact_velocity>/|   |     └── A<alpha_parameter>/|   |       ├── config2.ini|   |       └── Impact_R.dat│   └── mp_<projectile_xmass>/ (only N512)|     └── H<film_thickness>/|         ├── config2.ini│         └── Impact_R.dat|└── figures-values: contains the values used in each figure as csv data. 

## Parameter Definitions

### Top-level Parameters- **N** : Polymeric chain length (number of monomers per chain)

### Projectile Parameters- **mp** : Projectile mass   - Mass of the impacting projectile  - Example: mp_8000 = projectile mass of 8000 units

### Film Parameters- **H** : Film thickness  - Thickness of the polymeric film

### Derived Parameters- **A** : Mass ratio parameter (alpha)  - Defined as α = mp/(m_film + mp)  - Where:    - mp = projectile mass    - m_film = mass of the polymeric film  - Represents the relative mass ratio between projectile and film

## File DescriptionsEach leaf directory contains:

1. **config2.ini** :    - Simulation configuration file   - Contains all input parameters for the simulation

2. **Impact_R.dat** :   - Impact results data file   - Contains output metrics from the impact simulation:          #timestep: self-explanatory         Tau: simulation time         MR: projectile mass (mp)         RR:projectile radius (rp)         VRi: impact velocity (vi)         VR: projectile velocity during the simulation         kinetic_energy_groupR: kinetic energy of the projectile         potential_energy_groupR: potential energy of the projectile
DOI: 10.5281/zenodo.15578665
title: Polympact

description: # Simulation Results Directory Structure

This directory contains results from impact simulations of projectiles on polymeric films. The data is organized hierarchically to represent different simulation parameters.

## Directory Structure

polympact/├── N<chain_length>/│ └── sample_<sample_number>/|   ├──rp_<projectile_radius>|   | └── H<film_thickness>/|   |   └── V<impact_velocity>/|   |     └── A<alpha_parameter>/|   |       ├── config2.ini|   |       └── Impact_R.dat│   └── mp_<projectile_xmass>/ (only N512)|     └── H<film_thickness>/|         ├── config2.ini│         └── Impact_R.dat|└── figures-values: contains the values used in each figure as csv data. 

## Parameter Definitions

### Top-level Parameters- **N** : Polymeric chain length (number of monomers per chain)

### Projectile Parameters- **mp** : Projectile mass   - Mass of the impacting projectile  - Example: mp_8000 = projectile mass of 8000 units

### Film Parameters- **H** : Film thickness  - Thickness of the polymeric film

### Derived Parameters- **A** : Mass ratio parameter (alpha)  - Defined as α = mp/(m_film + mp)  - Where:    - mp = projectile mass    - m_film = mass of the polymeric film  - Represents the relative mass ratio between projectile and film

## File DescriptionsEach leaf directory contains:

1. **config2.ini** :    - Simulation configuration file   - Contains all input parameters for the simulation

2. **Impact_R.dat** :   - Impact results data file   - Contains output metrics from the impact simulation:          #timestep: self-explanatory         Tau: simulation time         MR: projectile mass (mp)         RR:projectile radius (rp)         VRi: impact velocity (vi)         VR: projectile velocity during the simulation         kinetic_energy_groupR: kinetic energy of the projectile         potential_energy_groupR: potential energy of the projectile