cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.kt5jj49
title: Data from: Efficacy and tolerability of adjunctive lacosamide in pediatric patients with focal seizures

description: Objective: To evaluate efficacy and tolerability of adjunctive lacosamide
 in children and adolescents with uncontrolled focal (partial-onset)
 seizures. Methods: Double-blind trial (SP0969; NCT01921205) of patients
 (≥4 to &lt;17 years) with uncontrolled focal seizures, randomized
 (1:1) to adjunctive lacosamide/placebo. Following 6-week Titration,
 patients who reached the target dose-range for their weight (&lt;30
 kg: 8–12 mg/kg/day oral solution; ≥30 to &lt;50 kg: 6–8 mg/kg/day oral
 solution; ≥50 kg: 300–400 mg/day tablets) entered a 10-week Maintenance
 period. Primary outcome was change in focal seizure frequency/28 days from
 Baseline to Maintenance. Results: 343 patients were randomized; 306
 (lacosamide: 152/171 [88.9%]; placebo: 154/172 [89.5%]) completed
 Treatment (Titration and Maintenance). Adverse events (AEs) were the most
 common reasons for discontinuation during Treatment (lacosamide: 4.1%;
 placebo: 5.8%). From Baseline to Maintenance, percent reduction in focal
 seizure frequency/28 days for lacosamide (N = 170) vs placebo (N = 168)
 was 31.7% (p = 0.0003). During Maintenance, median percent reduction in
 focal seizure frequency/28 days was 51.7% for lacosamide and 21.7% for
 placebo. 50% responder rates (≥50% reduction) were 52.9% and 33.3% (odds
 ratio: 2.17; p = 0.0006). During Treatment, treatment-emergent AEs were
 reported by 67.8% lacosamide-treated patients (placebo: 58.1%), most
 commonly (≥10%) somnolence (14.0%; placebo: 5.2%) and dizziness (10.5%;
 3.5%). Conclusions: Adjunctive lacosamide was efficacious in reducing
 seizure frequency and generally well tolerated in patients (≥4 to
 &lt;17 years) with focal seizures. Classification of evidence: This
 trial provides Class I evidence that for children and adolescents with
 uncontrolled focal seizures, adjunctive lacosamide reduces seizure
 frequency.
description: Supplementary
 MaterialThis file contains
 supplemental methods, tables and figures from a randomized, double-blind
 placebo-controlled trial conducted to evaluate the efficacy and
 tolerability of adjunctive lacosamide in children and adolescents (≥4 to
 &lt;17 years of age) with uncontrolled focal seizures.SP0969 suppl data
 21Feb19.docx
DOI: 10.5061/dryad.v49j1gs
title: Data from: Back-tracking during navigation shows enhanced anterior cingulate activity and suppression of alpha oscillations and ‘default-mode’ brain activity

description: Successful navigation can require realising the current path choice was a
 mistake and the best strategy is to retreat along the recent path:
 ‘back-tracking’. Despite the wealth of studies on the neural correlates of
 navigation little is known about back-tracking. To explore the neural
 underpinnings of back-tracking we tested humans during functional magnetic
 resonance imaging (fMRI) on their ability to navigate to a set of goal
 locations in a virtual desert island riven by lava which constrained path
 that could be taken. We found that on a subset of trials, participants
 spontaneously chose to back-track and that the majority of these choices
 were optimal. During back-tracking, activity increased in frontal regions
 and the dorsal anterior cingulate cortex, while activity was suppressed in
 regions associated with the core default-mode network. Using the same
 task, magnetoencephalography (MEG) and a separate group of participants we
 found that power in the alpha band was significantly decreased immediately
 prior to such back-tracking events. These results highlight the importance
 for navigation of brain networks previously identified in processing
 internally-generated errors and that such error-detection responses may
 involve shifting the brain from default-mode states to aid successful
 spatial orientation.
description: LavaWorldforDryadbehavioral and GLM results of fMRI data
DOI: 10.5061/dryad.v8n470f
title: Data from: The risk of new-onset epilepsy and refractory epilepsy in older adult stroke survivors

description: Objective Our study objectives were to identify factors associated with
 new-onset epilepsy and refractory epilepsy among older adult stroke
 survivors and to evaluate the receipt of diagnostic care and mortality for
 participants who developed epilepsy. Methods We conducted a
 population-based, retrospective cohort study using linked, administrative
 health care databases. The Ontario Stroke Registry was used to identify
 patients 67 years and older who were hospitalized for a stroke at a
 designated stroke center in Ontario, Canada, between April 1, 2003, and
 March 31, 2009, and were previously free of epilepsy. Multivariable
 Fine–Gray hazard models were used to examine risk factors of epilepsy and
 refractory epilepsy, accounting for the competing risk of death. Results
 Among 19,138 older adults hospitalized for a stroke, 210 (1.1%) developed
 epilepsy and 27 (12.9%) became refractory to antiepileptic drugs. Within 1
 year of epilepsy diagnosis, 24 (11.4%) patients were assessed with EEG and
 19 (9.0%) with MRI. In multivariable analysis, younger age and
 thrombolysis receipt significantly increased epilepsy risk. Lesser stroke
 severity and anticoagulant medication receipt also significantly increased
 epilepsy risk; however, these effects decreased over time. Younger age and
 female sex were the only risk factors of refractory epilepsy. In the 5
 years following epilepsy diagnosis, 97 (46.2%) participants died of any
 cause. Conclusions Older adult stroke survivors are less likely to develop
 epilepsy and pharmacologically refractory epilepsy. An estimated 86.6% of
 deaths among older adult stroke survivors with new-onset epilepsy are
 attributed to causes other than stroke or epilepsy.
description: Table
 e-1
DOI: 10.5061/dryad.c4877tc
title: Data from: Microbial metabolites elicit distinct olfactory and gustatory preferences in bumble bees

description: Animals such as bumble bees use chemosensory cues to both locate and
 evaluate essential resources. Increasingly, it is recognized that microbes
 can alter the quality of foraged resources and produce metabolites that
 may act as foraging cues. The distinct nature of these chemosensory cues
 however and their use in animal foraging remain poorly understood. Here,
 we test the hypothesis that species of nectar-inhabiting microbes
 differentially influence pollinator attraction and feeding via microbial
 metabolites produced in nectar. We first examined the electrophysiological
 potential for bumble bee (Bombus impatiens) antennal olfactory neurons to
 respond to microbial volatile organic compounds (mVOCs), followed by an
 olfactory preference test. We also assessed gustatory preferences for
 microbial-altered nectar through both no-choice and choice feeding assays.
 Antennal olfactory neurons responded to some mVOCs, and bees preferred
 nectar solutions inoculated with the bacterium Asaia astibles over the
 yeast Metschnikowia reukaufii based on volatiles alone. However, B.
 impatiens foragers consumed significantly more Metschnikowia-inoculated
 nectar, suggesting distinct roles for mVOCs and non-volatile metabolites
 in mediating both attraction and feeding decisions. Collectively, our
 results suggest that microbial metabolites have significant potential to
 shape interspecific, plant-pollinator signaling, with consequences for
 forager learning, economics and floral host reproduction.
description: Schaeffer_BioLetts_Table1_EAGElectroantennogram data on bumble bee (Bombus impatiens) antennal responses to volatile microbial metabolites. Metabolites tested are those detected in headspace from artificial nectar solutions conditioned by either the bacterium Asaia astibles or yeast Metschnikowia reukaufii.
DOI: 10.5061/dryad.gd4dg24
title: Data from: Effects of temperature gradient and particle size on self ignition temperature of low rank coal excavated from inner Mongolia, China

description: This study investigates the effects of temperature gradient and coal
 particle size on the critical self-ignition temperature TCSIT of a coal
 pile packed with low-rank coal using the wire-mesh basket (WMB) test to
 estimate TCSIT based on the Frank–Kamenetskii equation. The values of
 TCSIT, the temperature gradient and the apparent activation energy of
 different coal pile volumes packed with coal particles of different sizes
 are measured. The supercriticality or subcriticality of the coal is
 assessed using a non-dimensional index IHR based on the temperature
 gradient at the temperature cross-point between coal and ambient
 temperatures for coal piles with various volumes and particle sizes. The
 critical value IHRC at the boundary between supercriticality and
 subcriticality is determined as a function of pile volume. The coal status
 of supercritical or subcritical can be separated by critical value of IHR
 function of pile volume. Quantitative effects of coal particle size on
 TCSIT of coal piles are measured for constant pile volume. It can be
 concluded that a pile packed with smaller coal particles is more likely to
 undergo spontaneous combustion, while the chemical activation energy is
 not sensitive to coal particle size. Finally, the effect of coal particle
 size on TCSIT is represented by the inclusion of an extra term in the
 equation giving TCSIT for a coal pile.
description: Basic
 dataThe data in the file is
 is the basic test data of our research.
DOI: 10.5061/dryad.cv66pm4
title: Data from: The presence of a cryptic barrier in the West Pacific Ocean suggests the effect of glacial climate changes on a widespread sea-dispersed plant, Vigna marina (Fabaceae)

description: Ocean currents are an important driver of evolution for sea-dispersed
 plants, enabling them to maintain reciprocal gene flow via sea-dispersed
 diaspores and obtain wide distribution ranges. Although geographic
 barriers are known to be the primary factors shaping present genetic
 structure of sea-dispersed plants, cryptic barriers which form clear
 genetic structure within oceanic regions are poorly understood. To test
 the presence of a cryptic barrier, we conducted a phylogeographic study
 together with past demographic inference for a widespread sea-dispersed
 plant, Vigna marina, using 308 individuals collected from the entire
 Indo-West Pacific (IWP) region. Chloroplast DNA variation showed strong
 genetic structure that separated populations into three groups: North
 Pacific (NP), South Pacific (SP) and Indian Ocean (IN) (F’CT among groups
 = 0.954 – 1.000). According to the Approximate Bayesian computation
 inference, splitting time between NP and SP was approximately 20,200 years
 (95%HPD, 4,530 – 95,400) before present. Moreover, a signal of recent
 population expansion was detected in the NP group. This study clearly
 showed the presence of a cryptic barrier in the West Pacific region of the
 distributional range of V. marina. The locations of the cryptic barrier
 observed in V. marina corresponded to the genetic breaks found in other
 plants, suggesting the presence of a common cryptic barrier for
 sea-dispersed plants. Demographic inference suggested that genetic
 structure related to this cryptic barrier has been present since the last
 glacial maximum and may reflect patterns of past population expansion from
 refugia.
description: VignaCP_data1_fasta 2_worldmap 3_DNAsp 4_network 5_genalex 6_SAMOVA/AMOVA 7_NJtree 8_ABC
DOI: 10.5061/dryad.vm1192g
title: Data from: Combinations of Spok genes create multiple meiotic drivers in Podospora

description: Meiotic drive is the preferential transmission of a particular allele
 during sexual reproduction. The phenomenon is observed as spore killing in
 multiple fungi. In natural populations of Podospora anserina, seven spore
 killer types (Psks) have been identified through classical genetic
 analyses. Here we show that the Spok gene-family underlies the Psks. The
 combination of Spok genes at different chromosomal locations defines the
 spore killer types and creates a killing hierarchy within the same
 population. We identify two novel Spok homologs located within a large
 (74-167 kbp) region (the Spok block) that resides in different chromosomal
 locations in given strains. We confirm that the SPOK protein performs both
 killing and resistance functions and show that these activities are
 dependent on distinct domains, a predicted nuclease and kinase domain.
 Genomic and phylogenetic analyses across ascomycetes suggest that the Spok
 genes disperse via cross-species transfer, and evolve by duplication and
 diversification within lineages.
description: SpokPaperDryadFasta files of final genome assemblies of samples with either PacBio or Oxford Nanopore, polished with Illumina data of the same strain. Scaffolds are re-named to match the chromosomes of reference strain S. Only one mitochondrial scaffold is included (i.e. no plasmids).SpokPaperDryad_suppSupplementary files used to make several figures of the paper. They are mostly fasta or nexus files.
DOI: 10.5061/dryad.p1m7167
title: Data from: A novel technique to develop thoracic spinal laminectomy and a methodology to assess the functionality and welfare of the contusion SCI rat model

description: This study reports the advantage of a novel technique to employ motorised
 dental burr to assist laminectomy over the conventional manual technique
 at T11-T12 vertebra level in rat model. Twenty four female rats were
 randomly assigned to 4 groups: (1) conventionally-laminectomised (2)
 dental burr assisted laminectomised (3) conventionally-laminectomised with
 spinal cord contusion and (4) dental burr assisted laminectomised with
 spinal cord contusion. Postoperative bodyweights, rat grimace scale (RGS),
 open cage activity, rearing and Basso Beattie Bresnahan (BBB) score was
 studied at 1, 7, 14, 21 and 28th postoperative day and area of spinal
 tissue affected was evaluated histologically. Laminectomised and spinal
 cord injured rats from dental burr groups showed significantly more weight
 gain and less weight loss respectively in comparison with respective
 conventionally-laminectomised groups at various time points. Significantly
 higher RGS score was noticed in conventionally-laminectomised animals on
 day one in comparison to the burr assisted laminectomy and presence of
 pain was evident until 14th day in the conventionally spinal injured
 group. The BBB score did not differ between groups, whereas laminectomy
 groups showed more resting time than spinal injury groups. Dental burr
 assisted laminectomy group showed consistently more overall rearing score
 in comparison to conventional-laminectomy group at all time points. This
 study suggests that the use of dental burr assisted technique to perform
 laminectomy will bring refinement by producing less pain, aiding in better
 recovery, removing procedural artifacts without affecting the outcome of
 the model and may adopted elsewhere for better welfare.
description: Data- A novel technique
 to develop thoracic spinal laminectomy and a methodology to assess the
 functionality and welfare of the contusion SCI rat modelData on all statistics
 done in a Microsoft Excel file format where all different sets of data are
 inserted in different sheets clearly.
DOI: 10.5061/dryad.0p77qk4
title: Data from: Trans-toxin ion-sensitivity of charybdotoxin-blocked potassium-channels reveals unbinding transitional states

description: In-silico and in-vitro studies have made progress in understanding
 protein-protein complexes formation; however, the molecular mechanisms for
 their dissociation are unclear. Protein-protein complexes, lasting from
 microseconds to years, often involve induced-fit, challenging
 computational or kinetic analysis. Charybdotoxin (CTX), a peptide from the
 Leiurus scorpion venom, blocks voltage-gated K+-channels in a unique
 example of binding/unbinding simplicity. CTX plugs the external mouth of
 K+-channels pore, stopping K+-ion conduction, without inducing
 conformational changes. Conflicting with a tight binding, we show that
 external permeant ions enhance CTX-dissociation, implying a path
 connecting the pore, in the toxin-bound channel, with the external
 solution. This sensitivity is explained if CTX wobbles between several
 bound conformations, producing transient events that restore the
 electrical and ionic trans-pore gradients. Wobbling may originate from a
 network of contacts in the interaction interface that are in dynamic
 stochastic equilibria. These partially-bound intermediates could lead to
 distinct, and potentially manipulable, dissociation pathways.
description: Shaker-CTX
 MDAll
 necessary file to perform the molecular simulationsShaker-CTX MD
 (V)Files to perform the MD
 and movies in the four experimental conditions. Files includes a
 README.txt.additional no memory
 experimentsThree additional
 experiments of solution exchange in which CTX was applied in Hi Na+
 solution and wash in Hi K+ solution.No memory aditional
 experiments.pdfFig 2 selectivity
 -1CTX
 binding/unbinding from Shaker kinetics data in the presence of different
 cationic chloride solutionsFig 2
 tracesCurrent traces of the
 data shown in the figureFig 3 potassium
 sensitivityCTX association and
 dissociation rates as function of the external potassium concentration at
 constant ionic strengthFig 4 No
 memorydata for figure
 4Fig 5 F425F inhibition
 and fitsFig 6 V-dep of Tonic and
 open inhibitionInhibition at
 equilibrium as function of the voltage. For the closed channels steady
 state inhibition was calculated by extrapolating the relaxation of the
 current ratios to the beginning of the voltage pulse. For the open
 channel, the steady state inhibition was calculated by extrapolation to
 the asymptote of the exponential relaxationmovieFinalTox8movie showing wobbling and potassium competition with with Lys27 amino group rebinding
DOI: 10.5061/dryad.g35948t
title: Data from: Annotating and detecting phenotypic information for chronic obstructive pulmonary disease

description: Objectives: Chronic obstructive pulmonary disease (COPD) phenotypes cover
 a range of lung abnormalities. To allow text mining methods to identify
 pertinent and potentially complex information about these phenotypes from
 textual data, we have developed a novel annotated corpus, which we use to
 train a neural network-based named entity recognizer to detect
 fine-grained COPD phenotypic information. Materials and methods: Since
 COPD phenotype descriptions often mention other concepts within them
 (proteins, treatments, etc.), our corpus annotations include both
 outermost phenotype descriptions and concepts nested within them. Our
 neural layered bidirectional long short-term memory conditional random
 field (BiLSTM-CRF) network firstly recognizes nested mentions, which are
 fed into subsequent BiLSTM-CRF layers, to help to recognize enclosing
 phenotype mentions. Results: Our corpus of 30 full papers (available at:
 http://www.nactem.ac.uk/COPD) is annotated by experts with 27 030
 phenotype-related concept mentions, most of which are automatically linked
 to UMLS Metathesaurus concepts. When trained using the corpus, our
 BiLSTM-CRF network outperforms other popular approaches in recognizing
 detailed phenotypic information. Discussion: Information extracted by our
 method can facilitate efficient location and exploration of detailed
 information about phenotypes, for example, those specifically concerning
 reactions to treatments. Conclusion: The importance of our corpus for
 developing methods to extract fine-grained information about COPD
 phenotypes is demonstrated through its successful use to train a layered
 BiLSTM-CRF network to extract phenotypic information at various levels of
 granularity. The minimal human intervention needed for training should
 permit ready adaption to extracting phenotypic information about other
 diseases.
description: COPD
 CorpusThe COPD corpus is a
 semantically annotated corpus, focussed on phenotypic information,
 consisting of 30 full-text articles. The corpus has been manually
 annotated with named entities, using a fine-grained annotation scheme,
 which aims to capture detailed information about COPD phenotypes. In
 particular, the annotations may be "nested" within each other.
 This is to take into account the potentially complex and nested nature of
 phenotype descriptions, which may include mentions of various other types
 of concepts within them.COPD_corpus.zip
DOI: 10.5061/dryad.2p7r771
title: Data from: The molecular phylogenetics of Trachymyrmex ants and their fungal cultivars provide insights into the origin and co-evolutionary history of 'higher-attine' ant agriculture

description: The fungus‐growing ants and their fungal cultivars constitute a classic
 example of a mutualism that has led to complex coevolutionary dynamics
 spanning c. 55–65 Ma. Of the five agricultural systems practised by
 fungus‐growing ants, higher‐attine agriculture, of which leaf‐cutter
 agriculture is a derived subset, remains poorly understood despite its
 relevance to ecosystem function and human agriculture across the
 Neotropics and parts of North America. Among the ants practising
 higher‐attine agriculture, the genus Trachymyrmex Forel, as currently
 defined, shares most‐recent common ancestors with both the leaf‐cutter
 ants and the higher‐attine genera Sericomyrmex Mayr and Xerolitor
 Sosa‐Calvo et al. Although previous molecular‐phylogenetic studies have
 suggested that Trachymyrmex is a paraphyletic grade, until now
 insufficient taxon sampling has prevented a full investigation of the
 evolutionary history of this group and limited the possibility of
 resolving its taxonomy. Here we describe the results of phylogenetic
 analyses of 38 Trachymyrmex species, including 27 of the 49 described
 species and at least 11 new species, using four nuclear markers, as well
 as phylogenetic analyses of the fungi cultivated by 23 species of
 Trachymyrmex using two markers. We generated new genetic data for 112 ants
 (402 new gene sequences) and 95 fungi (153 new gene sequences). Our
 results corroborate previous findings that Trachymyrmex, as currently
 defined, is paraphyletic. We propose recognizing two new genera,
 Mycetomoellerius gen.n. and Paratrachymyrmex gen.n., and restricting the
 continued use of Trachymyrmex to the clade of nine largely North American
 species that contains the type species [Trachymyrmex septentrionalis
 (McCook)] and that is the sister group of the leaf‐cutting ants. Our
 fungal cultivar phylogeny generally corroborates previously observed broad
 patterns of ant–fungus association, but it also reveals further violations
 of those patterns. Higher‐attine fungi are divided into two groups: (i)
 the single species Leucoagaricus gongylophorus (Möller); and (ii) its
 sister clade, consisting of multiple species, recently referred to as
 Leucoagaricus Singer ‘clade B’. Our phylogeny indicates that, although
 most non‐leaf‐cutting higher‐attine ants typically cultivate species in
 clade B, some species cultivate L. gongylophorus, whereas still others
 cultivate fungi typically associated with lower‐attine agriculture. This
 indicates that the attine agricultural systems, which are currently
 defined by associations between ants and fungi, are not entirely congruent
 with ant and fungal phylogenies. They may, however, be correlated with as
 yet poorly understood biological traits of the ants and/or of their
 microbiomes.
description: Trachymyrmex_Fungus_153x1385_MB_DryadData matrix for the fungal phylogenetic data.Trachymyrmex_Ants_112x3775_MB_DryadAnt phylogenetic data set.