cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.gmsbcc2pf
title: Data from: Ambient noise tomography of upper crustal structures and Quaternary faults in the Seoul metropolitan area and its geological implications

description: We investigate the upper-crustal seismic velocity structure in the Seoul
 metropolitan area, where about 20 million people live. The Chugaryeong
 fault zone (CFZ) is placed in this area, but the seismic hazard potential
 remains unclear. We conducted ambient noise tomography to illuminate the
 high-resolution upper-crustal structure in the Seoul metropolitan area. We
 analyzed continuous vertical seismic records for ~5 months from a dense
 seismic array with 77 broadband stations. Group velocity dispersion curves
 and tomographic maps were extracted between 0.5 and 10 s periods. We
 inverted 3-D group velocity tomography models up to a depth of ~10 km from
 the group velocity maps. The shear-wave velocity model is consistent with
 the geological features. High-velocity anomalies at shallow depths are
 correlated with the surface topography and geology. The CFZ is located at
 a low velocity below the 5 km depth and presented as the simplified model.
 The large VS contrast regions are located beneath NS-trending faults. The
 cross-sections coincide with the near-vertical strike-slip faults in this
 area. In the southern region of the Seoul metropolitan area, low-velocity
 anomalies correlate with high heat flow regions. Our results effectively
 suggest high resolution upper-crustal structures and subsurface hidden
 faults in the urban area.
description: This data set is concerned with the paper "Ambient noise
 tomography of upper crustal structures and Quaternary faults in the Seoul
 metropolitan area and its geological implications" submitted to Earth
 and Space Science by Dongwoo Kil, Tae-Kyung Hong, Dongchan Chung,
 Byeongwoo Kim, Junhyung Lee, and Seongjun Park in 2021.
 The 3-D velocity models analyzed in the article are provided. All
 data files are given in the ASCII format and composed of three
 columns.  Please see the detailed information in the
 file "README" included in the zip file.
DOI: 10.5061/dryad.j3tx95xfp
title: Constructing the hierarchy of predictive auditory sequences in the marmoset brain

description: Our brains constantly generate predictions of sensory input that are
 compared with actual inputs, propagate the prediction-errors through a
 hierarchy of brain regions, and subsequently update the internal
 predictions of the world. However, the essential feature of predictive
 coding, the notion of hierarchical depth and its neural mechanisms,
 remains largely unexplored. Here, we investigated the hierarchical depth
 of predictive auditory processing by combining functional magnetic
 resonance imaging (fMRI) and high-density whole-brain electrocorticography
 (ECoG) in marmoset monkeys during an auditory local-global paradigm in
 which the temporal regularities of the stimuli were designed at two
 hierarchical levels. The prediction-errors and prediction updates were
 examined as neural responses to auditory mismatches and omissions. Using
 fMRI, we identified a hierarchical gradient along the auditory pathway:
 midbrain and sensory regions represented local, short-time-scale
 predictive processing followed by associative auditory regions, whereas
 anterior temporal and prefrontal areas represented global, long-time-scale
 sequence processing. The complementary ECoG recordings confirmed the
 activations at cortical surface areas and further differentiated the
 signals of prediction-error and update, which were transmitted via
 putatively bottom-up g and top-down b oscillations, respectively.
 Furthermore, omission responses caused by absence of input, reflecting
 solely the two levels of prediction signals that are unique to the
 hierarchical predictive coding framework, demonstrated the hierarchical
 predictions in the auditory, temporal, and prefrontal areas. Thus, our
 findings support the hierarchical predictive coding framework, and outline
 how neural circuits and spatiotemporal dynamics are used to represent and
 arrange a hierarchical structure of auditory sequences in the marmoset
 brain.
DOI: 10.5061/dryad.n8pk0p2wp
title: Quantifications of FCHo2 interaction with in vitro and in cellulo systems

description: Clathrin-mediated endocytosis (CME) is a central trafficking pathway in
 eukaryotic cells regulated by phosphoinositides. The plasma membrane
 phosphatidylinositol-4,5-bisphosphate (PI(4,5)P2) plays an instrumental
 role in driving CME initiation. The F-BAR domain only protein 1 and 2
 complex (FCHo1/2) is among the early proteins that reach the plasma
 membrane, but the exact mechanisms triggering its recruitment remain
 elusive. Here, we show the molecular dynamics of FCHo2 self-assembly on
 membranes by combining minimal reconstituted in vitro and cellular
 systems. Our results indicate that PI(4,5)P2 domains assist FCHo2 docking
 at specific membrane regions, where it self-assembles into ring-like shape
 protein patches. We show that the binding of FCHo2 on cellular membranes
 promotes PI(4,5)P2 clustering at the boundary of cargo receptors and that
 this accumulation enhances clathrin assembly. Thus, our results provide a
 mechanistic framework that could explain the recruitment of early
 PI(4,5)P2-interacting proteins at endocytic sites.
DOI: 10.5061/dryad.9ghx3ffj8
title: Dogs’ looking times and pupil dilation response reveal expectations about contact causality

description: Contact causality is one of the fundamental principles allowing us to make
 sense of our physical environment. From an early age, humans perceive
 spatiotemporally contiguous launching events as causal. Surprisingly
 little is known about causal perception in nonhuman animals, particularly
 outside the primate order. Violation-of-expectation paradigms in
 combination with eye-tracking and pupillometry have been used to study
 physical expectations in human infants. In the current study, we establish
 this approach for dogs (Canis familiaris). We presented dogs with
 realistic 3D animations of launching events with contact (regular
 launching event) or without contact between the involved objects. In both
 conditions, the objects moved with the same timing and kinematic
 properties. The dogs tracked the object movements closely throughout the
 study but their pupils were larger in the No-contact condition and they
 looked longer at the object initiating the launch after the No-contact
 event compared to the Contact event. We conclude that dogs have implicit
 expectations about contact causality.
description: We
 used the EyeLink1000 eye-tracking system (SR Research, Canada) to record
 the dogs’ eye movements and pupil size at 1000 Hz. In each session, the
 dogs first completed a 5-point calibration with animated calibration
 targets (24–64 px) subtending visual angles of 0.77 – 2.05 degrees
 depending on the used target stimulus. Following the calibration, we
 presented a central fixation target (a white expanding circle; max
 diameter: 90 px; visual angle: 2.88 degrees). The video started once the
 dogs fixated the target for 50 msec. Each subject was presented with two
 test conditions, the Contact and No-contact conditions. Each session
 consisted of three identical familiarization trials followed by one test
 trial.
description: The data and R scripts associated with this manuscript are also
 available at: https://github.com/cvoelter/dog_causal_perception.
DOI: 10.5061/dryad.j9kd51cdk
title: Recreation and hunting differentially affect deer behaviour and sapling performance.

description: Humans are increasingly acknowledged as apex predators that shape
 landscapes of fear to which herbivores adapt their behaviour. Here, we
 investigate how humans modify deer space-use and their effects on
 vegetation at two spatial scales; zones with different types of human use
 (large-scale risk factor) and, nested within that, trails (fine-scale risk
 factor). In zones with three contrasting types of human activities: (1) no
 recreation, no hunting, (2) with recreation, no hunting, and (3) with
 recreation and hunting, we linked deer space-use (dropping counts) to
 browsing intensity, relative growth, and survival of planted saplings.
 Plots were located at two distances to trails (20 vs. 100m) to test how
 trails affect deer space-use and sapling performance. Additionally, plots
 were distributed over forest and heathland as risk effects are
 habitat-dependent. Deer space-use was highest in the zone without
 recreation or hunting, resulting in higher browsing levels and lower
 sapling growth and survival, but only in heathland. In contrast, deer
 space-use and sapling performance did not differ between zones with
 recreation only and zones with recreation and hunting. Deer dropping
 counts were lower near trails used for recreation, but this was not
 associated with browsing impact or sapling performance. Our results show
 that recreational use modifies deer space-use which is associated with
 browsing impact on woody vegetation, while seasonal hunting activities in
 zones with recreation did not have additive year-round effects. Yet,
 effects were only observed at the larger scale of recreation zones and not
 near trails. Furthermore, deer space-use was only associated with sapling
 performance in open heathland, where high visibility presumably increases
 avoidance behaviour because it increases detectability and decreases
 escape possibilities. This suggests that recreation creates behaviourally
 mediated cascading effects that influence vegetation development, yet
 these effects are context-dependent. We advocate incorporating
 human-induced fear effects in conservation, management and research.
DOI: 10.5061/dryad.sj3tx965x
title: Tree growth response to drought partially explains regional-scale growth and mortality patterns in Iberian forests

description: To quantify responses to drought from different data sources we take
 advantage of an extensive network of cross-dated tree-ring
 data with increment cores from 16 tree species sampled across the
 Spanish Iberian Peninsula (hereafter abbreviated as RWI-net), and of the
 Spanish National Forest Inventory (hereafter abbreviated as NFI) sampling
 tree and plot level data each km in forested areas. We selected the five
 most severe droughts that have affected each selected RWI-net population
 in the period 1981-2005 and calculated drought impacts on growth.
 For each site, we calculated drought-induced cumulative growth
 reductions (CDI, cumulative drought impact) as the summed impact of the
 selected droughts on growth of each population.  A total of 334
 RWI-net sites with chronologies that covered the period 1981-2005 for the
 16 species, were finally used. For 192 of these RWI-net sites, 1883 NFI
 plots were found at distances &lt; 10 km. The tables provided contain
 information on the sites and tree species in the RWI-net sites, as well as
 on drought impacts on growth, cummulative growth reductions and NFI
 growth, ingrowth and mortality.
DOI: 10.5061/dryad.612jm644k
title: Can prescribed fires restore C4 grasslands invaded by a C3 woody species and a co-dominant C3 grass species?

description: Prescribed fire is used to reduce woody plant invasion and restore
 herbaceous production and diversity in grasslands and savannas worldwide.
 Here we determined if a concentrated series of repeated-winter,
 repeated-summer, or alternate-season (winter and summer) fires in a short
 timeframe (“transition fires”) could catalyze the restoration of C4
 perennial grasses in Southern Great Plains, USA grasslands that had become
 dominated by a fire-tolerant C3 woody N2-fixer (honey mesquite, Prosopis
 glandulosa) and a C3 perennial bunchgrass (Texas wintergrass, Nassella
 leucotricha). We applied transition fires over a 5-year span, and
 maintenance fires on a portion of each plot 7 or 8 years later. We
 measured herbaceous standing biomass and cover and soil variables (soil
 organic C, N, δ13C and δ15N) in unburned, transition-burned and
 maintenance-burned treatments. Greater δ13C at 10-20 (-17 ‰) than 0-10
 (-20 ‰) cm depth increment confirmed that vegetation was historically
 mostly C4 grassland that shifted towards C3 dominance. Transition
 treatments with summer fire were most effective at top-killing mesquite,
 but no treatments root-killed &gt;3%. Regrowth of top-killed mesquite
 was similar in all treatments and reached pre-fire height by 9 to 10 years
 post-fire. Herbaceous production and cover responses showed that: (1)
 alternate-season transition fires increased C4 mid-grass, but did not
 change Texas wintergrass, (2) repeated-summer fires reduced Texas
 wintergrass, but did not change C4 mid-grass, and (3) repeated-winter
 fires did not change C4 mid-grass or Texas wintergrass compared to the
 unburned control. All maintenance fires stimulated Texas wintergrass
 biomass and cover, thus eliminating the reduction of Texas wintergrass
 caused by repeated-summer transition fires. There were no long-term
 effects of transition fires on soil C, N, δ13C or δ15N. Results advance
 our understanding of the expectations and limitations of prescribed fire
 in shifting a woodland alternate state toward what was historically a fire
 supported C4 grassland/savanna.
description: Measurements of fire, plant and soil responses in remote field
 study site
DOI: 10.5061/dryad.41ns1rnfg
title: Emergence and function of cortical offset responses in sound termination detection

description: Offset responses in auditory processing appear after a sound terminates.
 They arise in neuronal circuits within the peripheral auditory system, but
 their role in the central auditory system remains unknown. Here we ask
 what the behavioral relevance of cortical offset responses is and what
 circuit mechanisms drive them. At the perceptual level, our results reveal
 that experimentally minimizing auditory cortical offset responses
 decreases the mouse performance to detect sound termination, assigning
 a behavioral role to offset responses. By combining in vivo
 electrophysiology in the auditory cortex and thalamus of awake mice, we
 also demonstrate that cortical offset responses are not only inherited
 from the periphery but also amplified and generated de novo. Finally, we
 show that offset responses code more than silence, including relevant
 changes in sound trajectories. Together, our results reveal the importance
 of cortical offset responses in encoding sound termination and detecting
 changes within temporally discontinuous sounds crucial for speech and
 vocalization.
description: The file contains the spike time data and code to create the
 figures in the manuscript.
DOI: 10.6084/m9.figshare.28955477
title: Rehab-120.rar

description: Stroke is a severe cerebrovascular disease that causes significant motor impairment. Rehabilitation is a key period for restoring motor function, especially for home-based training. The kinematics data of post-stroke patients is crucial for evaluating rehabilitation progress and developing intelligent rehabilitation systems. However, the lack of large-scale kinematics data from stroke patients limits the development of intelligent rehabilitation systems. To address this, we introduce REHAB-120, a novel IMU kinematics dataset collected from 120 post-stroke patients who completed a three-week rehabilitation program. The dataset contains signals from 27assessment movements and 16 training movements, providing comprehensive kinematics data with corresponding labels.
DOI: 10.6084/m9.figshare.28955477.v3
title: Rehab-120.rar

description: Stroke is a severe cerebrovascular disease that causes significant motor impairment. Rehabilitation is a key period for restoring motor function, especially for home-based training. The kinematics data of post-stroke patients is crucial for evaluating rehabilitation progress and developing intelligent rehabilitation systems. However, the lack of large-scale kinematics data from stroke patients limits the development of intelligent rehabilitation systems. To address this, we introduce REHAB-120, a novel IMU kinematics dataset collected from 120 post-stroke patients who completed a three-week rehabilitation program. The dataset contains signals from 27assessment movements and 16 training movements, providing comprehensive kinematics data with corresponding labels.
DOI: 10.5061/dryad.3bk3j9kkx
title: Data for: Serotonin transporter (SERT) polymorphisms, personality and problem-solving in urban great tits

description: Understanding underlying genetic variation can elucidate how diversity in
 behavioral phenotypes evolves and is maintained.  Genes
 in the serotonergic signaling pathway, including the serotonin transporter
 gene (SERT), are candidates for affecting animal personality, cognition
 and fitness.  In a model species, the great tit (Parus
 major), we reevaluated previous findings suggesting relationships
 between SERT polymorphisms, neophobia, exploratory
 behavior and fitness parameters, and performed a first test of the
 relationship between single nucleotide polymorphisms (SNPs) in SERT and
 problem-solving in birds.  We found some evidence for
 associations between SERT SNPs and neophobia,
 exploratory behavior and laying date.  Furthermore,
 several SNPs were associated with behavioral patterns and success rates
 during obstacle removal problem-solving tests performed at nest
 boxes.  In females, minor allele homozygotes (AA) for
 nonsynonymous SNP226 in exon 1 made fewer incorrect attempts and were more
 likely to problem-solve.  In both sexes, there was some
 evidence that minor allele homozygotes (CC) for SNP84 in exon 9 were more
 likely to problem-solve.  Only one SNP-behavior
 relationship was statistically significant after correcting for multiple
 comparisons, but several were associated with substantial effect
 sizes.  Our study provides a foundation for future
 research on the genetic basis of behavioral and cognitive variation in
 wild animal populations.  
description: We genotyped SNPs in the 13 exons and promoter region of the
 great tit (<em>Parus major</em>) serotonin transporter gene
 (SERT) via directed sequencing.  We tested neophobia behavior, boldness
 and exploratory behavior using standardized behavioral tests performed on
 wild birds.  In addition, we tested novel problem-solving capacity using a
 obstacle removal test performed at nest boxes.  We also monitored nest
 boxes to determine fitness traits (lay date, fledgling numbers).  We
 related variation in behavioral (personality) traits, problem-solving
 performance and fitness traits to SERT polymorphisms.
DOI: 10.5281/zenodo.18398307
title: Concentrated Monte Carlo Sampling
DOI: 10.6084/m9.figshare.28955477.v2
title: Rehab-120.rar

description: Stroke is a severe cerebrovascular disease that causes significant motor impairment. Rehabilitation is a key period for restoring motor function, especially for home-based training. The kinematics data of post-stroke patients is crucial for evaluating rehabilitation progress and developing intelligent rehabilitation systems. However, the lack of large-scale kinematics data from stroke patients limits the development of intelligent rehabilitation systems. To address this, we introduce REHAB-120, a novel IMU kinematics dataset collected from 120 post-stroke patients who completed a three-week rehabilitation program. The dataset contains signals from 27assessment movements and 16 training movements, providing comprehensive kinematics data with corresponding labels.
DOI: 10.5281/zenodo.18398306
title: Concentrated Monte Carlo Sampling
DOI: 10.5061/dryad.crjdfn35b
title: DNA barcoding reveals generalization and host overlap in hummingbird flower mites: implications for the Mating Rendezvous Hypothesis

description: Hummingbird flower mites are assumed to monopolize single host plant
 species due to sexual selection for unique
 mating rendezvous sites. We tested the main assumption
 of the Mating rendezvous hypothesis -extreme host
 specialization- by reconstructing interactions among tropical hummingbird
 flower mites and their host plants using DNA barcoding and taxonomic
 identifications. We collected 10,654 mites from 489 flowers. We extracted
 DNA from 1928 mite specimens and amplified the cytochrome c oxidase I
 (CO1) DNA barcode. We analyzed the network structure to assess the degree
 of generalization or specialization of mites to their host plants. We
 recorded 18 species of hummingbird flower mites from three genera
 (Proctolaelaps, Rhinoseius and Tropicoseius)
 interacting with 14 species of plants. We found that generalist mites are
 common, and congeneric mite species often share host plants. Our results
 challenge the assumption of strict specialization that supports this
 system as an example of mating rendezvous evolution.
DOI: 10.5061/dryad.c59zw3r8d
title: COVID-19 contact rates between mobile devices in Connecticut

description: Close contact between people is the primary route for transmission of
 SARS-CoV-2, the virus that causes coronavirus disease 2019 (COVID-19). We
 sought to quantify interpersonal contact at the population-level by using
 mobile device geolocation data. We computed the frequency of contact
 (within six feet) between people in Connecticut during February 2020
 - January 2021 and aggregated counts of contact events by area of
 residence. When incorporated into a SEIR-type model of COVID-19
 transmission, the contact rate accurately predicted COVID-19 cases in
 Connecticut towns. Contact in Connecticut explains the large initial wave
 of infections during March–April, the drop in cases during June–August,
 local outbreaks during August–September, broad statewide resurgence during
 September–December, and decline in January 2021. The transmission model
 exhibits a better fit to COVID-19 transmission dynamics using the contact
 rate than other mobility metrics. Contact rate data can help guide social
 distancing and testing resource allocation.
description: See detailed information in the preprint and supplement
 here: https://www.medrxiv.org/content/10.1101/2021.03.10.21253282v1
description: The data consist of three columns in a CSV file: date, town, and
 contact_rate. The date is in YMD format. The town is the town name in
 Connecticut. The contact rate is a non-negative number that represents the
 expected number of close interpersonal contact events in each town per
 day.