cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.tht76hf5n
title: Alignment of mitogenome sequences (FASTA file) for a paleogenomic investigation of overharvest implications in an endemic wild reindeer subspecies

description: Overharvest can severely reduce the abundance and distribution of a
 species and thereby impact its genetic diversity and threaten its future
 viability. Overharvest remains an ongoing issue for Arctic mammals, which
 due to climate change now also confront one of the fastest changing
 environments on Earth. The high-Arctic Svalbard reindeer (Rangifer
 tarandus platyrhynchus), endemic to Svalbard, experienced a
 harvest-induced demographic bottleneck that occurred during the 17–20th
 centuries. Here we investigate changes in genetic diversity, population
 structure, and gene-specific differentiation during and after this
 overharvesting event. Using whole-genome shotgun sequencing, we generated
 the first ancient and historical nuclear (n = 11) and mitochondrial (n =
 18) genomes from Svalbard reindeer (up to 4000 BP) and integrated these
 data with a large collection of modern genome sequences (n = 90), to infer
 temporal changes. We show that hunting resulted in major genetic changes
 and restructuring in reindeer populations. Near-extirpation followed by
 pronounced genetic drift have altered the allele frequencies of important
 genes contributing to diverse biological functions. Median heterozygosity
 was reduced by 23%, while the mitochondrial genetic diversity was reduced
 only to a limited extent, likely due to already low pre-harvest diversity
 and a complex post-harvest recolonization process. Such genomic erosion
 and genetic isolation of populations due to past anthropogenic disturbance
 will likely play a major role in metapopulation dynamics (i.e.,
 extirpation, recolonization) under further climate change. Our results
 from a high-arctic case study therefore emphasize the need to understand
 the long-term interplay of past, current, and future stressors in wildlife
 conservation.
description: # Alignment of mitogenome sequences (FASTA file)
 The FASTA file provides
 the final multiple sequence alignment of mitochondrial genome haplotypes
 used in the phylogenetic analyses in our study. ## Description of the data
 and file structure The multiple sequence alignment is in FASTA format. The
 FASTA identifier is consistent with the sample names used in our study and
 those from which we accessed public data. ## Sharing/Access information
 Data was derived from the following sources: * European Nucleotide Archive
 accession code PRJEB57293
DOI: 10.15468/dl.sndf2p
title: Occurrence Download

description: A dataset containing 165401 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Rhodeus amarus"
 ]
}

 The dataset includes 165401 records from 276 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0003785-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5061/dryad.b8gtht7km
title: Evolution of threat response-related polymorphisms at the SLC6A4 locus in callitrichid primates

description: Variation in an upstream repetitive region at the SLC6A4 locus, which
 encodes the serotonin transporter, is associated with anxiety-related
 behaviour in a few primate species, including humans and rhesus macaques,
 and has been suggested to be related to ecological adaptability among
 macaques. In this study we investigate evolution of SLC6A4 polymorphisms
 associated with anxiety-related behaviour in common marmosets (Callithrix
 jacchus). Assaying variation in the SLC6A4 repeat region across 14 species
 in 8 genera of callitrichid primates (marmosets and tamarins) we find
 large interspecific variation in the number of repeats present (24-43).
 The black tufted-ear marmoset (C. penicillata) has sequence polymorphisms
 similar to those found in the common marmoset, which is its sister
 species, and no other species has intraspecific variation at these sites.
 We conclude that, similar to humans and macaques, the functional
 polymorphism at SLC6A4 in common marmosets has a recent evolutionary
 origin, and that the anxiety-related allele is evolutionarily derived.
 Common/black tufted-ear marmosets and rhesus/bonnet macaques share high
 ecological adaptability and behavioural flexibility that we propose may be
 related to the maintenance of the polymorphism.
description: Sanger sequencing of PCR product
description: # Evolution of threat response-related polymorphisms at the SLC6A4 locus
 in callitrichid primates
 [https://doi.org/10.5061/dryad.b8gtht7km](https://doi.org/10.5061/dryad.b8gtht7km) The sequence dataset comprises the SLC6A4 gene upstream repeat region from individual callitrichid primates ## Description of the data and file structure Sequences are shown for each individual in a text file
DOI: 10.5281/zenodo.18405357
title: Adjusted transmission overhead lines data to test algorithms of lightning incidence

description: The dataset is actually a SQL database that contains detailed data on transmission system elements such as towers, lines, insulators, and wires.
These data are used for development and test operation of the ET-LEADS software.
DOI: 10.5281/zenodo.18405358
title: Adjusted transmission overhead lines data to test algorithms of lightning incidence

description: The dataset is actually a SQL database that contains detailed data on transmission system elements such as towers, lines, insulators, and wires.
These data are used for development and test operation of the ET-LEADS software.
DOI: 10.15468/dl.nt7mq8
title: Occurrence Download

description: A dataset containing 2185 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Lablab purpureus",
 "HasCoordinate is true",
 "BasisOfRecord is one of (Specimen)"
 ]
}

 The dataset includes 2185 records from 169 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0003839-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.6ywr5x
title: Occurrence Download

description: A dataset containing 1761758 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Living Specimen)"
 ]
 }
 },
 "Geometry POLYGON((140 36,139 36,139 35,140 35,140 36))",
 "Year is less than or equal to 2025"
 ]
}

 The dataset includes 1761758 records from 647 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0003795-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5061/dryad.7sqv9s504
title: Data from: Voucher specimens of Petrocosmea wangii sp. nov. and P. yei sp. nov.

description: In 2020, we conducted fieldwork in some limestone areas where there were
 no previous records of Petrocosmea. On August 5th, a small population of
 an unknown Petrocosmea species was discovered on the stone wall of a small
 sinkhole in a limestone valley occupied by Pinus yunnanensis Franch. in
 the northern part of Shiping County, Yunnan. Morphologically, the plant
 closely resembles P. sericea, but with an extremely short corolla tube
 (only 2 mm, the shortest in all known species of Petrocosmea) and glabrous
 and straight filaments. We describe this species as P. wangii. On
 September 19th, another unknown species of Petrocosmea was collected in
 Mojiang County. The individuals we planted in the greenhouse in December
 of that year produced flowers similar to P. forrestii, and we subsequently
 went to the same locality during flowering to confirm the prevalence of
 the flower morphology. Morphologically, it most closely resembles P.
 forrestii, but its filaments are adnate to the base of the corolla tube
 for about 2 mm, which easily differentiate it from all other known species
 of Petrocosmea, and we describe this species as P. yei.
description: # Type specimen information of *Petrocosmea wangii* and *P. yei*
 Information on the type
 specimens of two new species of *Petrocosmea* from Yunnan Province, China.
 A Microsoft Excel file contains information such as the locality where the
 type specimens of these two new species were collected, the date of
 collection, collector, the collection number, and the herbarium where they
 are stored. For the purpose of conservation of the new species described
 in the article, we do not provide coordinates of the collection site.
DOI: 10.5061/dryad.9cnp5hqr8
title: Data from: A maximum of two readily releasable vesicles per docking site at a cerebellar single active zone synapse

description: Recent research suggests that in central mammalian synapses, active zones
 contain several docking sites acting in parallel. Before release, one or
 several synaptic vesicles (SVs) are thought to bind to each docking site,
 forming the readily releasable pool (RRP). Determining the RRP size per
 docking site has important implications for short-term synaptic
 plasticity. Here, we take advantage of recently developed methods to count
 the number of released SVs at single glutamatergic synapses in response to
 trains of action potentials. In each recording, the number of docking
 sites was determined by fitting with a binomial model the number of
 released SVs in response to individual action potentials. After
 normalization with respect to the number of docking sites, the summed
 number of released SVs following a train of action potentials was used to
 estimate of the RRP size per docking site. To improve this estimate,
 various steps were taken to maximize the release probability of docked
 SVs, the occupancy of docking sites, as well as the extent of synaptic
 depression. Under these conditions, the RRP size reached a maximum value
 close to two SVs per docking site. The results indicate that each docking
 site contains two distinct SV binding sites that can simultaneously
 accommodate up to one SV each. They further suggest that under special
 experimental conditions, as both sites are close to full occupancy, a
 maximal RRP size of two SVs per docking site can be reached. More
 generally, the results validate a sequential two-step docking model
 previously proposed at this preparation.
description: Collected using HEKA amplifiers, patchmaster software.
 Analysed using Igor.
description: # A maximum of two readily releasable vesicles per docking site at a
 cerebellar single active zone synapse
 Datasets for: A maximum of
 two readily releasable vesicles per docking site at a cerebellar single
 active zone synapse DOI: 
 Here we make publicly available the data and analysis results used in this
 paper. Electrophysiological recordings of simple synapses in mouse
 cerebellar slices were deconvolved using Igor to obtain SV counts. Data:
 FigforN --- Igor file with variance mean and binomial individual and group
 data based on SV counts
DOI: 10.5281/zenodo.18371279
title: Cross-Platform Integration and Extension of Replicated Data Libraries in Distributed Systems

description: BabelRDL: Platform-Agnostic Replicated Data Library (RDL)




Overview


This repository contains the reference implementation of BabelRDL, a research framework for a cross-platform, language-agnostic replicated data library. BabelRDL allows replicas written in Go, Java, JavaScript, and Rust to interoperate seamlessly while supporting modular extensions via a plug-in architecture.

This artifact accompanies our research paper: Cross-Platform Integration and Extension of Replicated Data Libraries in Distributed Systems, submitted to the Journal of Parallel and Distributed Computing. The implementation is designed to be reproducible and has been tested on Linux and Windows environments.



Supported RDLs


Currently implemented RDLs:



Counter

Set

Map


Each RDL is implemented in Go, Java, JavaScript, and Rust.



Requirements




Go >= 1.19

Java >= 11

Node.js >= 16

Rust >= 1.70

Make (for Go, Java, JS builds)




Running BabelRDL




1. Setup




Open a terminal for each language: Go, Java, JavaScript, and Rust inside the directory of the desired RDL.

Build each replica:



make all (Go, Java, JS)

cargo build --release (Rust)






2. Unit Testing


To verify correctness:



make test       # Go, Java, JS
cargo test      # Rust

 




3. Running Replicas


Run each replica in its terminal:



./r{replicaID}.sh


 


where {replicaID} corresponds to the replica number.



4. Cleaning Build Artifacts




make clean      # Go, Java, JS
cargo clean     # Rust
DOI: 10.5061/dryad.cnp5hqcbx
title: Data from: Reevaluating monotypic Eleutherostylis from New Guinea and the Moluccas, and its inclusion in Grewia (Malvaceae: Grewioideae)

description: Morphological and molecular phylogenetic evidence indicate that
 Eleutherostylis Burret (Malvaceae: Grewioideae), a monotypic genus
 described from New Guinea, is best considered a synonym of Grewia L., a
 species-rich genus widespread across the paleotropics and found in Africa,
 Arabia, Asia, Australia, and the western Pacific. A new combination based
 on E. renistipulata Burret, G. renistipulata (Burret) Dorr, comb. nov., is
 proposed. Original material of the basionym could not be located and a
 neotype is designated. A lectotype is designated for G. morotaiensis
 Kosterm., a synonym of G. renistipulata.
description: This DNA dataset, based on nuclear ribosomal Internal Transcribed
 Spacer (ITS), is designed to reconstruct phylogenetic relationships of
 Eleutherostylis (Malvaceae) and is derived from fluorescent Sanger
 sequencing on an ABI 3730xl DNA Analyzer. The reads were assembled with
 Sequencher v5.2.4 and consensus sequences were aligned with MAFFT v.7.272
 (Katoh and Standley 2013) under the G-INS-i refinement method followed by
 minor manual refinements based on a similarity criterion.
description: # Reevaluating monotypic Eleutherostylis from New Guinea and the Moluccas,
 and its inclusion in Grewia (Malvaceae: Grewioideae) This DNA dataset,
 based on nuclear ribosomal Internal Transcribed Spacer (ITS), is designed
 to reconstruct phylogenetic relationships of Eleutherostylis (Malvaceae)
 and is derived from fluorescent Sanger sequencing on an ABI 3730xl DNA
 Analyzer. The reads were assembled with Sequencher v5.2.4 and consensus
 sequences were aligned with MAFFT v.7.272 (Katoh and Standley 2013) under
 the G-INS-i refinement method followed by minor manual refinements based
 on a similarity criterion. ## Description of the data and file structure
 This dataset is in the NEXUS file format with commands designed to be
 executed in PAUP*, and matrix derivatives then analyzed with other
 phylogenetic analysis programs. The dataset has pseudo-phylogenetic taxon
 order and a 119 bp deletion set (masking) is specified in the matrix which
 must be removed from brackets if implemented by the Exclude command. The
 published tree included all data and the masking was only used in a
 preliminary alignment-sensitivity analysis. ## Sharing/Access information
 All sequence data is publicly accessible in GenBank
 (). GenBank accession numbers
 are published in the article associated this submission.
DOI: 10.5281/zenodo.17604809
title: Cross-Platform Integration and Extension of Replicated Data Libraries in Distributed Systems

description: BabelRDL: Platform-Agnostic Replicated Data Library (RDL)




Overview


This repository contains the reference implementation of BabelRDL, a research framework for a cross-platform, language-agnostic replicated data library. BabelRDL allows replicas written in Go, Java, JavaScript, and Rust to interoperate seamlessly while supporting modular extensions via a plug-in architecture.

This artifact accompanies our research paper: Cross-Platform Integration and Extension of Replicated Data Libraries in Distributed Systems, submitted to the Journal of Parallel and Distributed Computing. The implementation is designed to be reproducible and has been tested on Linux and Windows environments.



Supported RDLs


Currently implemented RDLs:



Counter

Set

Map


Each RDL is implemented in Go, Java, JavaScript, and Rust.



Requirements




Go >= 1.19

Java >= 11

Node.js >= 16

Rust >= 1.70

Make (for Go, Java, JS builds)




Running BabelRDL




1. Setup




Open a terminal for each language: Go, Java, JavaScript, and Rust inside the directory of the desired RDL.

Build each replica:



make all (Go, Java, JS)

cargo build --release (Rust)






2. Unit Testing


To verify correctness:



make test       # Go, Java, JS
cargo test      # Rust

 




3. Running Replicas


Run each replica in its terminal:



./r{replicaID}.sh


 


where {replicaID} corresponds to the replica number.



4. Cleaning Build Artifacts




make clean      # Go, Java, JS
cargo clean     # Rust
DOI: 10.5061/dryad.bk3j9kdk5
title: Improved estimation of global gross primary productivity during 1981–2020 using the optimized P model

description: Accurate estimation of terrestrial gross primary productivity (GPP) is
 essential for quantifying the net carbon exchange between the atmosphere
 and biosphere. Light use efficiency (LUE) models are
 widely used to estimate GPP at different spatial scales. However,
 difficulties in proper determination of maximum LUE (LUEmax) and
 downregulation of LUEmax into actual LUE result in uncertainties in GPP
 estimated by LUE models. The recently developed P model, as a LUE-like
 model, captures the deep mechanism of photosynthesis and simplifies
 parameterization. Site-level studies have proved the outperformance of P
 model over LUE models. However, the global application of the P model is
 still lacking. Thus, the effectiveness of 5 water stress factors
 integrated into the P model was compared. The optimal P model was used to
 generate a new long-term (1981–2020) global monthly GPP dataset at a
 spatial resolution of 0.1° × 0.1°, called PGPP. Validation at globally
 distributed 109 FLUXNET sites indicated that PGPP is better than three
 widely-used GPP products. R2 between PGPP and observed GPP equals
 0.75, the corresponding root mean squared error (RMSE) and mean absolute
 error (MAE) equal to 1.77 g C m−2 d−1 and 1.28 g C
 m−2 d−1. During the period from 1981 to 2020, PGPP significantly
 increased in 69.02% of global vegetated regions (p &lt; 0.05).
 Overall, PGPP provides a new GPP product choice for global ecology studies
 and the comparison of various water stress factors provides a new idea for
 the improvement of the GPP model in the future.
description: # Improved estimation of global gross primary productivity during
 1981–2020 using the optimized P model
 A new monthly terrestrial
 GPP product (PGPP) derived from the P model with optimized water stress
 parameters. Spatial resolution: about 0.1deg (corresponding to the
 original resolution of ERA-5 LAND dataset). Time range: 1981-2020 (We will
 update it from time to time).
DOI: 10.7910/dvn/8ue0h9
title: Data and Model Checkpoints

description: These data include training, test, and validation splits used for models in Atanas et al, 2025.
Also included are model checkpoints from training.

For all files, decompress using zstd first, then extract from .tar to access internal files.
Full decompressed size of dataset ~980GB.
DOI: 10.5281/zenodo.18405296
title: Sociodemographic Determinants of Menopausal Symptom Severity Among Women in Southern Bangladesh: An Analytical Cross-Sectional Study Using the Menopause Rating Scale
title: Menopause Symptom Severity and Sociodemographic Predictors

description: Author list: ASM Rizwan1, Tasnim Ahmed2, Swasti Dev Nath3, Shahida Farhana4, Mahbuba Siddika Shuchi5, Sarmistha Ghosh6

Key-words: Menopause, Menopause Rating Scale, Symptom Severity, Ordinal Logistic Regression, Education, Age.
DOI: 10.5281/zenodo.18405297
title: Sociodemographic Determinants of Menopausal Symptom Severity Among Women in Southern Bangladesh: An Analytical Cross-Sectional Study Using the Menopause Rating Scale
title: Menopause Symptom Severity and Sociodemographic Predictors

description: Author list: ASM Rizwan1, Tasnim Ahmed2, Swasti Dev Nath3, Shahida Farhana4, Mahbuba Siddika Shuchi5, Sarmistha Ghosh6

Key-words: Menopause, Menopause Rating Scale, Symptom Severity, Ordinal Logistic Regression, Education, Age.
DOI: 10.5061/dryad.34tmpg4rv
title: Data from: Heat conduction in live tissue during radiofrequency electrosurgery

description: In this paper, we propose a method to model radiofrequency electrosurgery
 to capture the phenomena at higher temperatures and present the
 methods for parameter estimation. Experimental data taken from our
 surgical trials performed on in vivo porcine liver shows that a
 non-Fourier Maxwell-Cattaneo-type model can be suitable for this
 application when used in combination with an Arrhenius-type model
 that approximates the energy dissipation in physical and chemical
 reactions. The resulting model structure has the advantage of higher
 accuracy than existing ones, while reducing the computation time
 required.
description: # Data from: Heat conduction in live tissue during radiofrequency
 electrosurgery
 [https://doi.org/10.5061/dryad.34tmpg4rv](https://doi.org/10.5061/dryad.34tmpg4rv) Data files contains experimental data, numerical computing code and machine learning code for simulation of heat conduction in live tissue during radiofrequency electrosurgery and ablation. ## Description of the data and file structure Data files contains three directories: 1. Exprimental data; 2. Simulation Code; and 3. Machine learning code. Each directory contains supporting files and data corresponding to the sections in the manuscript.  The experimental data is stored in a .mat file that can be read by programs like MATLAB. The file includes temperature data recorded by infrared thermographer. The simulation code is written for MATLAB. The main file is named 't1_rk2_3d.m'. This file contains simulation of the heat transfer problem and can be run to generate a numerical solution. The other files include functions for calculate heat source, material property, and updating temperature. The machine learning code is provided in an ipython notebook. The code can be run with python to to generate parameter adaptation solution to the simulations. Traning dataset for the neural network is provided in the NNdata directory. These files are also provided in the .mat MATLAB dataset format.  ## Code/Software Simulation code is provided in MATLAB. No additional library is needed. Machine learning code is provided in Python. Pytorch is required for the computation.