cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.fttdz08xf
title: A direct comparison of ecological theories for predicting the relationship between plant traits and growth

description: Despite long-standing theory for classifying plant ecological strategies,
 limited data directly links organismal traits to whole-plant growth rates.
 We compared trait-growth relationships based on three prominent theories:
 growth analysis, Grime’s competitive-stress tolerant-ruderal (CSR)
 triangle, and the leaf economics spectrum (LES). Under these schemes,
 growth is hypothesized to be predicted by traits related to relative
 biomass investment, leaf structure or gas exchange, respectively. We also
 considered traits not included in these theories, but that might provide
 potential alternative best predictors of growth. In phylogenetic analyses
 of 30 diverse milkweeds (Asclepias spp.) and 21 morphological and
 physiological traits, growth rate (total biomass produced per day) varied
 50-fold and was best predicted by biomass allocation to leaves (as
 predicted by growth analysis) and the CSR traits of leaf size and leaf dry
 matter content. Total leaf area and plant height were also excellent
 predictors of whole-plant growth rate. Despite two LES traits correlating
 with growth (mass-based leaf nitrogen and area-based leaf phosphorus
 contents), these were in the opposite direction predicted by LES, such
 that higher N and P contents corresponded to slower growth. The remaining
 LES traits (e.g., leaf gas exchange) were not predictive of plant growth
 rates. Overall, differences in growth rate were driven more by whole-plant
 characteristics such as biomass fractions and total leaf area than
 individual leaf-level traits such as photosynthetic rate or specific leaf
 area. Our results are most consistent with classical growth analysis -
 combining leaf traits with whole-plant allocation to best predict growth.
 However, given that destructive biomass measures are often not feasible,
 applying easy-to-measure leaf traits associated with the CSR
 classification appear more predictive of whole plant growth than LES
 traits. Testing the generality of this result across additional taxa would
 further improve our ability to predict whole-plant growth from functional
 traits across scales.
DOI: 10.5061/dryad.cfxpnvx94
title: Costus pulverulentus genome annotations

description: The spiral gingers (Costus L.) are a pantropical genus of herbaceous
 perennial monocots; the Neotropical clade of Costus radiated rapidly in
 the past few million years into over 60 species. The Neotropical spiral
 gingers have a rich history of evolutionary and ecological research that
 can motivate and inform modern genetic investigations. Here, we present
 the first two chromosome-level genome assemblies in the genus, for C.
 pulverulentus and C. lasius, and briefly compare their synteny. We
 assembled the C. pulverulentus genome from a combination of short-read
 data, Chicago and Dovetail Hi-C chromatin-proximity sequencing, and
 alignment with a linkage map. We assembled the C. lasius genome with
 Pacific Biosciences HiFi long reads and alignment to the C. pulverulentus
 genome. These two assemblies are the first published genomes for
 non-cultivated tropical plants. These genomes solidify the spiral gingers
 as a model system and will facilitate research on the poorly understood
 genetic basis of tropical plant diversification.
description: To create a draft annotation for the <em>C. pulverulentus </em>genome, we mapped a transcriptome of <em>C. pulverulentus</em> (GenBank accession SRX7544604, Vargas et al. 2020) to the draft genome using PASApipeline (Haas et al., 2003). To search for potential gene functions in our draft annotation, we queried our mapped transcripts against a protein database (GO; Harris et al., 2004) using EnTAP (Hart et al., 2020). Matching protein names and functions were added as annotation notes in the .gff3 annotation file generated with PASA using a custom python script available with the annotation files in this repository.
description: We include both general .gff3 annotation files and Genious Prime
 format files for viewing in Genious Prime 2022.2.1. We also include a .gff
 file with just the 9 chromosomes exported from Genious.
DOI: 10.17632/vtb3ygt62k
title: Dados da pesquisa: Inteligência Artificial em Audiolivros: Aplicações e Perspectivas

description: Material de pesquisa da Revisão de Literatura sobre inteligência artificial em plataformas de audiolivros. 
Relação das strings utilizadas nas bases de dados e documentos recuperados e selecionados para leitura na íntegra para a revisão de literatura sobre inteligência artificial em plataformas de audiolivros no contexto da Ciência da Informação, realizada em 2025.
DOI: 10.17632/vtb3ygt62k.3
title: Dados da pesquisa: Inteligência Artificial em Audiolivros: Aplicações e Perspectivas

description: Material de pesquisa da Revisão de Literatura sobre inteligência artificial em plataformas de audiolivros. 
Relação das strings utilizadas nas bases de dados e documentos recuperados e selecionados para leitura na íntegra para a revisão de literatura sobre inteligência artificial em plataformas de audiolivros no contexto da Ciência da Informação, realizada em 2025.
DOI: 10.5061/dryad.vt4b8gtws
title: The stress- and fluid-pressure-driven frictional slip data for variably roughened fractures in Gonghe granite

description: We explore the impacts of stress- and fluid-pressure-driven frictional
 slip on variably roughened fractures in Gonghe granite (Qinghai province,
 China). Slip is on an inclined fracture under simple triaxial stresses
 with concurrent fluid throughflow allowing fault permeability to be
 measured both pre- and post-reactivation. Under stress-drive, smooth
 faults are first slip-weakening and transition to slip-strengthening with
 rough faults slip-strengthening, alone. A friction criterion accommodating
 a change in friction coefficient and fault angle is able to fit the data
 of stable-slip and stick-slip. Under fluid-pressure-drive, excess pore
 pressures must be significantly larger than average pore pressures
 suggested by the stress-drive-derived failure criterion. This overpressure
 is conditioned by the heterogeneity of the pore pressure distribution in
 radial flow on the fault and related to the change in permeability. Fault
 roughness impacts both the coefficient of friction and the permeability
 and therefore exerts important controls in fluid-injection-induced
 earthquakes. The results potentially improve our ability to assess and
 mitigate the risk of injection-induced earthquakes in EGS.
DOI: 10.17632/d75dzbjd4k
title: Table of Large Degree/Diameter Graphs

description: A graph, G=(V,E), consists of a non empty finite set V of elements called vertices and a set E of pairs of elements of V called edges. The number of vertices N=|G|=|V| is the order of the graph. If (x,y) is an edge of E, we say that x and y (or y and x) are adjacent and this is usually written x --&gt; y. It is also said that x and y are the endvertices of the edge (x,y). The degree of a vertex δ(x) is the number of vertices adjacent to x. The degree of G is Δ=max_{x ∈ V} δ(x). A graph is regular of degree Δ or Δ - regular if the degree of all vertices equal Δ. The distance between two vertices x and y, d(x,y) , is the number of edges of a shortest path between x and y , and its maximum value over all pair of vertices, D=max_{x, y ∈ V}d(x,y) , is the diameter of the graph. A (Δ,D) graph is a graph with maximum degree Δ and diameter at most D. The order of a graph with degree Δ, Δ &gt; 2), of diameter D is easily seen to be bounded by

1 + Δ + Δ (Δ-1) + ...+ Δ (Δ-1) D-1 = (Δ (Δ-1)D -2) / (Δ-2) = N(Δ, D)

Hoffman and Singleton introduced the concept of Moore graphs, named after Edward Forrest Moore, as graphs that attain this value, known as Moore bound. They also showed that, for D ≥ 2 and Δ ≥ 3, Moore graphs exist for D=2 and Δ =3,7 , and (perhaps) 57. In this context, it is of great interest to find graphs that, for a given maximum diameter and maximum degree, have a number of vertices as close as possible to the Moore bound.

Download the .zip package, unpack it and open in a browser the file 
 table_degree_diameter.html or the file taula_delta_d.html.

The table on that page presents the state of the art, as of January 2026, for the largest known (Δ, D)-graphs.
Entries in boldface are optimal. Clicking on a position provides more information about that entry, including graph construction details, the Moore bound, the author, references, and more. Entries with a border include a SageMath script for computing their relevant properties. Adjacency lists are available for most graphs with fewer than 20,000 vertices.
By clicking on entry (8,3) = 253, you can access a ZIP file containing the programs used to obtain the results for this graph, as well as for the graphs (3,5), (6,8), (7,6), (7,7), (8,5), (9,4), (10,4), (10,5), (11,5), (12,5), (13,5), (14,5), and (15,5) , all found by the author in 2024. The C program used is the same as the one that produced the entry (8,3) in 1994, with only minor modifications to the output.
Journal publications associated with this data:
F. Comellas. Table of large graphs with given degree and diameter. arXiv:2406.18994 [math.CO]. doi: 10.48550/arXiv.2406.18994v2
F. Comellas. New results on the degree-diameter problem for undirected graphs. Electron. J. Graph Theory Appl. 13 (1) (2025), 211-215. doi:10.5614/ejgta.2025.13.1.14.
DOI: 10.17632/d75dzbjd4k.11
title: Table of Large Degree/Diameter Graphs

description: A graph, G=(V,E), consists of a non empty finite set V of elements called vertices and a set E of pairs of elements of V called edges. The number of vertices N=|G|=|V| is the order of the graph. If (x,y) is an edge of E, we say that x and y (or y and x) are adjacent and this is usually written x --&gt; y. It is also said that x and y are the endvertices of the edge (x,y). The degree of a vertex δ(x) is the number of vertices adjacent to x. The degree of G is Δ=max_{x ∈ V} δ(x). A graph is regular of degree Δ or Δ - regular if the degree of all vertices equal Δ. The distance between two vertices x and y, d(x,y) , is the number of edges of a shortest path between x and y , and its maximum value over all pair of vertices, D=max_{x, y ∈ V}d(x,y) , is the diameter of the graph. A (Δ,D) graph is a graph with maximum degree Δ and diameter at most D. The order of a graph with degree Δ, Δ &gt; 2), of diameter D is easily seen to be bounded by

1 + Δ + Δ (Δ-1) + ...+ Δ (Δ-1) D-1 = (Δ (Δ-1)D -2) / (Δ-2) = N(Δ, D)

Hoffman and Singleton introduced the concept of Moore graphs, named after Edward Forrest Moore, as graphs that attain this value, known as Moore bound. They also showed that, for D ≥ 2 and Δ ≥ 3, Moore graphs exist for D=2 and Δ =3,7 , and (perhaps) 57. In this context, it is of great interest to find graphs that, for a given maximum diameter and maximum degree, have a number of vertices as close as possible to the Moore bound.

Download the .zip package, unpack it and open in a browser the file 
 table_degree_diameter.html or the file taula_delta_d.html.

The table on that page presents the state of the art, as of January 2026, for the largest known (Δ, D)-graphs.
Entries in boldface are optimal. Clicking on a position provides more information about that entry, including graph construction details, the Moore bound, the author, references, and more. Entries with a border include a SageMath script for computing their relevant properties. Adjacency lists are available for most graphs with fewer than 20,000 vertices.
By clicking on entry (8,3) = 253, you can access a ZIP file containing the programs used to obtain the results for this graph, as well as for the graphs (3,5), (6,8), (7,6), (7,7), (8,5), (9,4), (10,4), (10,5), (11,5), (12,5), (13,5), (14,5), and (15,5) , all found by the author in 2024. The C program used is the same as the one that produced the entry (8,3) in 1994, with only minor modifications to the output.
Journal publications associated with this data:
F. Comellas. Table of large graphs with given degree and diameter. arXiv:2406.18994 [math.CO]. doi: 10.48550/arXiv.2406.18994v2
F. Comellas. New results on the degree-diameter problem for undirected graphs. Electron. J. Graph Theory Appl. 13 (1) (2025), 211-215. doi:10.5614/ejgta.2025.13.1.14.
DOI: 10.17632/9prkv8r5vx
title: Codes and Data for Liquidity Characteristics of Market Anomalies and Institutional Trading

description: This package contains the codes and data for replicating the tables and figures in the paper "Liquidity Characteristics of Market Anomalies and Institutional Trading"
DOI: 10.17632/9prkv8r5vx.1
title: Codes and Data for Liquidity Characteristics of Market Anomalies and Institutional Trading

description: This package contains the codes and data for replicating the tables and figures in the paper "Liquidity Characteristics of Market Anomalies and Institutional Trading"
DOI: 10.5061/dryad.zcrjdfnhd
title: Condition dependence and sexual dimorphism in Drosophila prolongata

description: Directional sexual selection drives the evolution of traits that are most
 closely linked to reproductive success, giving rise to trait exaggeration
 and sexual dimorphism. Exaggerated structures are often costly and,
 therefore, thought to be expressed in a condition-dependent manner. Sexual
 selection theory thus predicts a direct link between directional sexual
 selection, sexual dimorphism, and sex-specific condition dependence.
 However, only a handful of studies investigate the relationship between
 sexual dimorphism and condition dependence. Using 21 genetic lines of
 Drosophila prolongata, we here compared the degree of sexual dimorphism
 and sex-specific condition dependence, measured as allometric slopes, in
 sexually selected and non-sexual traits. Our data revealed male-biased
 sexual dimorphism in all traits examined, most prominently in the sexually
 selected forelegs. However, there was no relationship between the degree
 of sex-specific condition dependence and sexual dimorphism across traits
 and genetic lines. Our results contradict theoretical predictions and
 highlight the importance of understanding the role of exaggerated traits
 in the context of both sexual and natural selection.
description: Data were collected as described in
 paper.
DOI: 10.5061/dryad.dbrv15f54
title: Distinct representations of innate and learned threats within the thalamic-amygdala pathway

description: Behavioral flexibility and timely reactions to salient stimuli are
 essential for survival. The subcortical thalamic-basolateral amygdala
 (BLA) pathway serves as a shortcut for salient stimuli ensuring rapid
 processing. Here, we show that BLA neuronal and thalamic axonal activity
 mirror the defensive behavior evoked by an innate visual threat as well as
 an auditory learned threat. Importantly, perturbing this pathway
 compromises defensive responses to both forms of threats, in that animals
 fail to switch from exploratory to defensive behavior. Despite the shared
 pathway between the two forms of threat processing, we observed noticeable
 differences. Blocking beta-adrenergic receptors impair the defensive
 response to the innate but not the learned threats. This reduced defensive
 response, surprisingly, is reflected in the suppression of the activity
 exclusively in the BLA, as the thalamic input response remains intact. Our
 side-by-side examination highlights the similarities and differences
 between innate and learned threat-processing, thus providing new
 fundamental insights.
DOI: 10.5061/dryad.2fqz612t0
title: Data for: Whole genome deconvolution unveils Alzheimer’s resilient epigenetic signature

description: Assay for Transposase Accessible Chromatin by sequencing (ATAC-seq)
 accurately depicts the chromatin regulatory state and altered mechanisms
 guiding gene expression in disease. However, bulk sequencing entangles
 information from different cell types and obscures cellular heterogeneity.
 To address this, we developed Cellformer, a deep learning method that
 deconvolutes bulk ATAC-seq into cell type-specific expression across the
 whole genome. Cellformer enables cost-effective cell type-specific open
 chromatin profiling in large cohorts. Applied to 191 bulk samples from 3
 brain regions, Cellformer identifies cell type-specific gene regulatory
 mechanisms involved in resilience to Alzheimer’s disease, an uncommon
 group of cognitively healthy individuals that harbor a high pathological
 load of Alzheimer’s disease. Cell type-resolved chromatin profiling
 unveils cell type-specific pathways and nominates potential epigenetic
 mediators underlying resilience that may illuminate therapeutic
 opportunities to limit the cognitive impact of the disease. Cellformer is
 freely available to facilitate future investigations using high-throughput
 bulk ATAC-seq data.
DOI: 10.5517/ccdc.csd.cc28clpy
title: CCDC 2096520: Experimental Crystal Structure Determination

description: Related Article: Viktória Goldschmidt Gőz, Imre Jákli, István Varga, Zsolt Dürvanger, Veronika Harmat, István Pintér, Gitta Schlosser, András Perczel|2025|Chem.Methods|5|e202500077|doi:10.1002/cmtd.202500077
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: 10.5517/ccdc.csd.cc28clqz
title: CCDC 2096521: Experimental Crystal Structure Determination

description: Related Article: Viktória Goldschmidt Gőz, Imre Jákli, István Varga, Zsolt Dürvanger, Veronika Harmat, István Pintér, Gitta Schlosser, András Perczel|2025|Chem.Methods|5|e202500077|doi:10.1002/cmtd.202500077
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: 10.5517/ccdc.csd.cc28pg9r
title: CCDC 2105994: Experimental Crystal Structure Determination

description: Related Article: Paulo A. Moraes, Genilson S. Pereira, Mário A. Marangoni, João Pedro V. Lopes, Amanda Favarin, Adriano F. Camargo, Pablo A. Nogara, Helio G. Bonacorso, Marcos A. P. Martins, Sara M. Oliveira, Nilo Zanatta|2026|ChemBioChem|27|e202500688|doi:10.1002/cbic.202500688
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: 10.5061/dryad.fttdz08xg
title: Highland islands: assessing gene flow among populations of an aquatic highland endemic

description: A variety of hierarchical gene flow models have been proposed to explain
 the distribution of genetic variation in aquatic environments. These
 models, including the Stream Hierarchy (SH), Death Valley (DV), Headwater
 (HW), and Widespread Gene flow (WG) models, provide testable hypotheses
 that focus on the degree of within-basin or within-stream network
 connectivity and an organism’s dispersal abilities. We tested these models
 using Tlaloc hildebrandi (Profundulidae, Cyprinodontiformes), a freshwater
 fish endemic to the highlands of the Grijalva and Usumacinta River basins
 in southern Mexico. Data from ultraconserved elements (UCEs) showed that
 although T. hildebrandi was recovered as monophyletic, the sub-basins were
 not. We generated single nucleotide polymorphisms from the UCEs to analyse
 the data in a population genetic framework. These results differed between
 analyses such that two (STRUCTURE analysis) or three (DAPC analysis)
 genetic groupings were recovered. Overall, the results of this study
 provide support for the SH model. Some individuals from the Jataté
 sub-basin, however, conformed to the HW model, due to historical
 connections among headwater streams and rivers of the Jataté and
 Amarillo–Chenalhó clades/clusters. The greatest degree of gene flow has
 occurred from the Grijlava to the Usumacinta basins, two geographically
 proximate basins that have been hypothesized to have had previous
 connections.
description: # Highland islands: assessing gene flow among populations of an aquatic
 highland endemic
 [https://doi.org/10.5061/dryad.fttdz08xg](https://doi.org/10.5061/dryad.fttdz08xg) **DAPC and Structure Input Files** 1. hildebrandi\_min50.str 2. hildebrandi\_min100.str           **G-PHoCS Input Files** 3\. Tlaloc\_hildebrandi\.gphocs      **IQ-Tree Input Files** 4. mafft-nexus-min95-raxml.nex            5. mafft-nexus-min75-raxml.nex 6. mafft-nexus-min50-raxml.nex 7. mafft-nexus-min25-raxml.nex
DOI: 10.5517/ccdc.csd.cc2d277z
title: CCDC 2206680: Experimental Crystal Structure Determination

description: Related Article: Vipin Kumar, Manisha Nidhar, Nitish Yadav, Muhammad Sheraj, Sooraj Sura, Ashish Kumar Tewari|2026|J.Mol.Struct.|1358||doi:10.1016/j.molstruc.2026.145299
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: 10.5517/ccdc.csd.cc2d8wh2
title: CCDC 2213074: Experimental Crystal Structure Determination

description: Related Article: Eliana Jios, Lorena E. Salvador Vallejo, Gustavo A. Echeverría, Oscar E. Piro, Jorge L. Jios, Luciana G. Naso, Sonia E. Ulic|2025|New J.Chem.|50|1809|doi:10.1039/d5nj04291g
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: 10.5517/ccdc.csd.cc2dj605
title: CCDC 2220096: Experimental Crystal Structure Determination

description: Related Article: Mohamed Akouibaa, Brahim El Bali, Morgane Poupon, Rachid Ouarsal, Mohammed Lachkar, Joris More-Chevalier, Jan Pokorny, Václav Eigner, Michal Dusek, Mark D. Symes, Zeliha Ertekin
|2024|J. Appl. Electrochem.|54|2293|doi:10.1007/s10800-024-02097-w
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: 10.5517/ccdc.csd.cc2fqwgj
title: CCDC 2256318: Experimental Crystal Structure Determination

description: Related Article: Mei-Zhen Ye, Yang Yang, Cheng Yuan, Yu-Qi Yang, Ning Ding, Qin He, Shuai Huang, Lin Chen, Xian-Li Zhou|2026|Fitoterapia|189|107089|doi:10.1016/j.fitote.2026.107089
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: 10.6084/m9.figshare.31169257
title: QSP sequence data

description: Deep sea metagenome mining using Quorum sensing related protein (QSP) database done for deep sea sediment samples collected from Arabian sea, India. Annotated QSP sequences of the deep sea metagenome deposited as dataset.