cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.15dv41ntb
title: Cost-effectiveness analysis of cetuximab combined with chemotherapy as a first-line treatment for RAS wild-type metastatic colorectal cancer patients based on the TAILOR trial

description: Objectives Cetuximab plus leucovorin, fluorouracil, and oxaliplatin
 (FOLFOX-4) is superior to FOLFOX-4 alone as a first-line treatment for
 patients with RAS wild-type metastatic colorectal cancer (wt mCRC), with
 significantly improved survival benefit by TAILOR, an open-label,
 randomized, multicentre, phase III trial. Nevertheless, the
 cost-effectiveness of these two regimens remains uncertain. The following
 study aims to determine whether cetuximab combined with FOLFOX-4 is a
 cost-effective strategy for specific RAS wt mCRC patients in China. Design
 A combined decision tree and Markov model with three health states
 (stable, progressive and dead) was constructed to simulate a hypothetical
 cohort of patients with RAS wt mCRC. The health outcomes and utility
 scores were derived from the TAILOR trial and previously published
 sources, respectively. Costs were calculated with reference to the Chinese
 societal perspective. A lifetime horizon was used. Univariate and
 probabilistic sensitivity analyses were carried out to test the robustness
 of the model results. Participants The included patients were newly
 diagnosed Chinese patients with fully RAS wt mCRC. Interventions Either
 cetuximab plus FOLFOX-4 or FOLFOX-4 alone as a first-line treatment. Main
 outcome measures The primary outcomes are costs, quality-adjusted
 life-years (QALYs) and incremental cost-effectiveness ratios (ICERs).
 Results Baseline analysis showed that the addition of cetuximab increased
 the QALYs by 0.383, while an increase of $62,947 was observed in relation
 to FOLFOX-4 chemotherapy. This led to an incremental cost-effectiveness
 ratio (ICER) of $164,044/QALY. Sensitivity analysis showed that across the
 wide variation in parameters, the ICER exceeded the willingness-to-pay
 threshold of $28,106/QALY, which was three times the per capita GDP in
 China. Conclusions Despite the survival benefit, cetuximab combined with
 FOLFOX-4 is not a cost-effective treatment for the first line treatment of
 patients with RAS wt mCRC in China.
description: This is a combined decision analytic tree and Markov model
 designed to compare the cost effectiveness of cetuximab plus FOLFOX-4  and
 FOLFOX-4 alone strategies described in the article. The
 survival probability and responding time data were extracted from
 published OS and PFS curves via Engauge Digitizer Software.
 Using Weibull distributions via GA package of R to obtain the
 scale parameters (λ), and shape parameters (γ). A
 dynamic Markov model was built in TreeAge pro Suite.<br>
DOI: 10.5061/dryad.cnp5hqc1z
title: ADAM17 protects against elastase-induced emphysema by suppressing CD62L+ leukocyte infiltration in mice

description: Pulmonary emphysema is a major manifestation of chronic obstructive
 pulmonary disease and is associated with chronic pulmonary inflammation
 caused by cigarette smoking, with contributions from immune cells such as
 neutrophils, macrophages, and lymphocytes. Although matrix
 metalloproteinases are well-known to contribute to emphysema progression,
 the role of a disintegrin and metalloproteinase (ADAM) family proteins,
 other major metalloproteinases, in disease pathogenesis is largely
 unknown. ADAM17 is a major sheddase that cleaves various cell surface
 proteins, including CD62L, an adhesion molecule that plays a critical role
 in promoting the migration of immune cells to the site of inflammation. In
 the present study, we aimed to investigate the potential role of ADAM17
 and CD62L in the development of elastase-induced emphysema.
 Eight-to-ten-week-old control and Adam17flox/flox/Mx1-Cre (Adam17ΔMx1)
 mice were intratracheally injected with 5 U of porcine pancreas elastase
 and monitored for 35 days after injection. Lung alveolar destruction was
 evaluated by analyzing the mean linear intercepts of lung tissue specimens
 and by histopathological examination. Mean linear intercepts data
 indicated that the degree of elastase-induced emphysema was significantly
 more severe in Adam17ΔMx1 mice. Further, flow cytometry showed that CD62L+
 neutrophil, CD62L+ macrophage, and CD62L+ B lymphocyte numbers were
 significantly increased in Adam17ΔMx1 mice. Moreover, the pharmacological
 depletion of CD62L+ cells with a CD62L-neutralizing antibody ameliorated
 the extent of emphysema in Adam17ΔMx1 mice. Collectively, these results
 suggest that ADAM17 possibly suppresses the progression of emphysema by
 proteolytically processing CD62L in immune cells and that ADAM17 and CD62L
 could be novel therapeutic targets for treating pulmonary emphysema.
DOI: 10.5061/dryad.h9w0vt4f0
title: Assessing the genetic diversity in Argopecten nucleus (Bivalvia: Pectinidae), a functional hermaphrodite species with extremely low population density and self-fertilization: effect of null alleles

description: Argopecten nucleus is a functional hermaphroditic pectinid species that
 exhibits self-fertilization, whose natural populations have usually very
 low densities. In the present study, the genetic diversity of a wild
 population from Neguanje Bay, Santa Marta (Colombia), was estimated using
 microsatellite markers, and the effect of the presence of null alleles on
 this estimation was assessed. A total of 8 microsatellite markers were
 developed, the first described for this species, and their amplification
 conditions were standardized. They were used to determine the genotype of
 48 wild individuals from Naguanje Bay, and 1010 individuals derived from
 the offspring of 38 directed crosses. For each locus, the frequencies of
 the identified alleles, including null alleles, were estimated using the
 statistical package Micro-Checker, and the parental genotypes were
 confirmed using segregation analysis. Three to 8 alleles per locus with
 frequencies from 0.001 to 0.632 were detected. The frequencies of null
 alleles ranged from 0.10 to 0.45, with Ho from 0.0 to 0.79 and He from
 0.53 to 0.80. All loci were in H-W disequilibrium. The null alleles
 frequencies values were high, with lower estimations using segregation
 analysis than estimated using Micro-Checker. The present results show high
 levels of population genetic diversity, and indicate that null alleles
 were not the only cause of deviation from HW equilibrium in all loci,
 suggesting that the wild population under study presents signs of
 inbreeding and Wahlun effect.
DOI: 10.15139/s3/eoklcm
title: Data Management and Sharing Plan for: Continued Development of Infant Neuroimaging Analysis Tools

description: The Data Management and Sharing Plan describes the scientific data to be generated and/or used in the research and outlines a strategy for managing and sharing project data.
description: Data Management and Sharing Plan
DOI: 10.5061/dryad.zpc866t5p
title: African sunbirds predominantly pollinate plants useful to humans

description: Birds provide multiple ecological services that benefit humans including
 pollination. In Africa, sunbirds are the domi- nant vertebrate pollinator.
 Here we present a species-level assessment for African sunbirds of the
 number and relative frequency of their food plants that have useful
 properties to humans. We conducted this analysis by compiling and
 integrating known sunbird food plants with useful tropical plant and
 tropical cultivated plant databases. Across Africa, 68% of the 329 genera
 and 44% of the 468 species of sunbirds’ known food plants are used by
 humans for medicine, food, building materials, or other uses. Yet most
 genera and species of useful plants are visited by a small number of
 sunbird species. The median number of sunbird species that visit a useful
 genus and species of plant is two and one, re- spectively. Of the 409
 genera and 308 species of useful plants that are sunbird pollinated across
 one or more of the six predominant habitats for sunbirds, 67% of genera
 and 71% of species are pollinated by sunbird species that are forest or
 woodland dependent. Additionally, 58% of all genera and 83% of all species
 of useful plants pollinated by sunbirds are non-cultivated. In Africa,
 non-cultivated sunbird-pollinated useful plants are almost entirely
 collected, used, and traded locally rather than regionally or
 internationally. Our results indicate that African sunbirds provide
 important ecological services as pollinators that benefit humans, and
 these services are provided largely at a local scale. Given the decline of
 invertebrate and vertebrate pollinators both globally and in Africa,
 sunbirds are important to the long-term conservation of many useful plants
 in Africa and hence human well-being.
DOI: 10.34740/kaggle/dsv/14643401
title: Peer-to-Peer Boliviano (BOB) Exchange Data
DOI: 10.5061/dryad.8931zcrmb
title: Pronghorn population genomics show connectivity at the core of their range

description: Preserving connectivity in the core of a species’ range is crucial for
 long-term persistence. However, a combination of ecological
 characteristics, social behavior, and landscape features can reduce
 connectivity among wildlife populations and lead to genetic structure.
 Pronghorn (Antilocapra americana), for example, exhibit fluctuating herd
 dynamics and variable seasonal migration strategies, but GPS-tracking
 studies show that landscape features such as highways impede their
 movements, leading to conflicting hypotheses about expected levels of
 genetic structure. Given that pronghorn populations declined significantly
 in the early 1900s, have only partially recovered, and are experiencing
 modern threats from landscape modification, conserving connectivity among
 populations is important for their long-term persistence in North America.
 To assess the genetic structure and diversity of pronghorn in the core of
 their range, we genotyped 4,949 genome-wide single nucleotide
 polymorphisms and 11 microsatellites from 398 individuals throughout the
 state of Wyoming. We found no evidence of genetic subdivision and minimal
 evidence of isolation by distance despite a range that spans hundreds of
 kilometers, multiple mountain ranges, and three interstate highways. In
 addition, a rare variant analysis using putatively recent mutations found
 no genetic division between pronghorn on either side of a major highway
 corridor. Although we found no evidence that barriers to daily and
 seasonal movements of pronghorn impede gene flow, we suggest periodic
 monitoring of genetic structure and diversity as a part of management
 strategies to identify changes in connectivity.
description: This directory contains data, protocols, and scripts associated
 with our publication. The data include sample metadata, microsatellite
 genotypes, SNP genotypes, SNP genotype likelihoods, and the consensus
 genome used for <em>de novo</em> assembly of our raw
 sequencing reads. The protocols include our genotyping-by-sequencing
 library preparation protocol. We include Unix-based scripts for our
 step-by-step bioinformatics workflow, for parsing raw sequence data by
 sample barcode, for data reduction before CD-HIT assembly, for running bwa
 in parallel, for converting vcf genotypes into a genotype likelihood
 matrix, and for converting a genotype likelihood matrix into a text file.
 We also include R-based scripts for performing PCA on SNP data, for
 performing our rare variant analysis, and for detecting loci with excess
 levels of heterozygosity.
DOI: 10.15468/dl.35gw9w
title: Occurrence Download

description: A dataset containing 194 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Tetrameles nudiflora",
 "HasCoordinate is true",
 "BasisOfRecord is one of (Specimen)"
 ]
}

 The dataset includes 194 records from 16 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0002162-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5061/dryad.44j0zpc9g
title: Genetic diversity of a marine foundation species, Laminaria hyperborea (Phaeophyceae Laminariales), along the coast of Ireland

description: Worldwide, kelp populations are stressed by warming, increased storms and
 other man-driven disturbances. Marine population distributions
 are projected to retreat poleward with climate change if they cannot adapt
 to changing conditions, which would potentially lead to a regime shift in
 subtidal habitats. In Northern Europe, Laminaria hyperboreais a
 subtidal ecosystem engineer whose distribution has shifted over millennia,
 leaving predicted areas of high genetic diversity from the last glacial
 maximum (LGM) near its southern distribution limit in the Iberian
 Peninsula. In Ireland, L. hyperborea structures
 communities by supporting diverse faunal assemblages and producing large
 quantities of organic carbon throughout the year. We investigated the
 genetic diversity of eight populations ranging from the southern coast to
 the northwest of Ireland using nine microsatellite loci. Diversity was
 found to be highest in Lough Hyne, a Special Area of Conservation (SAC),
 near the predicted climate refugium. We found evidence of isolation by
 distance, with high connectivity between populations that were
 geographically close, likely driven by short range dispersal
 of L. hyperboreapropagules. Genetic diversity (measured as
 expected heterozygosity and allelic richness) was highest at Lough Hyne,
 and decreased northwards, as predicted from past range shifts. Expected
 heterozygosity was highest at Lough Hyne (0.706) and decreased northward,
 with the lowest value at Bridges of Ross (0.283). Based on these patterns,
 further fine-scale investigation into population diversity, dispersal and
 potential resilience in Irish kelp forests are necessary as warming and
 non-native species are observed more and more frequently.
description: DNA was extracted from kelp samples and six microsatellite loci
 previously developed for<i>L. digitata </i>(Ld148, Ld158,
 Ld167, Ld531, Ld704; Billot <i>et al.</i>2003)and six loci
 developed for <i>L. ochroleuca </i>(LoIVVIV-23, LoIVVIV-17,
 LoIVVIV-28, LoIVVIV-27, LoIVVIV-24; Coelho<i>et
 al.</i>2014)were used. We amplified locus Ld531 in a simplex PCR and
 the remaining loci in three multiplexes (M1: Ld148, Ld158, Ld167; M2:
 LoIVVIV-17, LoIVVIV-24; M3: LoIVVIV-23, LoIVVIV-28,
 LoIVVIV-27). 
description: These data have been calibrated across capillary sequencing
 platforms at UAB, CCMAR, and SBR. Please use conversion metrics from this
 article in order to compare Lh data across labs.
 However, we have updated these files and all future usage for
 combining data across platforms should use the file called
 Lh_genalex_2020.csv.
DOI: 10.5061/dryad.vq83bk3pc
title: Clinical recommendations to guide physical therapy practice for Huntington disease

description: Objective In the past decade, an increasing number of studies
 have examined the efficacy of physical therapy interventions in people
 with Huntington disease (HD). Methods We performed a
 mixed-methods systematic review using Joanna Briggs Institute (JBI)
 methodology and included experimental and observational study designs. The
 search resulted in 23 quantitative studies and 3 qualitative studies from
 which we extracted data using JBI standardized extraction tools. Results
 of this review suggested that physical therapy interventions may improve
 motor impairments and activity limitations in people with HD. Here, we
 expand on the review findings to provide specific recommendations to guide
 clinical practice. Results We recommend the following specific
 physical therapy interventions for people with HD: aerobic exercise (grade
 A evidence), alone or in combination with resistance training to improve
 fitness and motor function, and supervised gait training (grade A
 evidence) to improve spatiotemporal features of gait. In addition, there
 is weak (grade B) evidence that exercise training improves balance but
 does not show a reduction in the frequency of falls; inspiratory and
 expiratory training improves breathing function and capacity; and training
 of transfers, getting up from the floor, and providing strategies to
 caregivers for involvement in physical activity in the midstages of HD may
 improve performance. There is expert consensus for the use of positioning
 devices, seating adaptations, and caregiver training in late stages of HD.
 Conclusions There is strong evidence to support physical therapy
 interventions to improve fitness, motor function, and gait in persons with
 HD.
description: Supplemental data present specific physical therapy
 interventions.
DOI: 10.7272/q6v69gsd
title: Sex, Race, and Risk of Dementia after Traumatic Brain Injury among Older Veterans

description: Objective: To investigate whether sex and race differences exist in
 dementia risk associated with TBI among older Veterans. Materials and
 Methods:  Using Fine-Gray regression models, we investigated
 incident dementia risk with TBI exposure by sex and race. Results: After
 excluding baseline prevalent dementia, the final sample (all Veterans 55+
 diagnosed with TBI during the 2001-2015 study period and a random sample
 of all Veterans receiving Veterans Health Administration care) included
 nearly one million Veterans (4.3% female and 81.8% White, 11.5% Black and
 1.25% Hispanic), 96,178 with TBI and 903,462 without TBI.  Of
 those with TBI 11.5% developed dementia compared to 5.8% without TBI,
 p&lt;0.001.  Compared to those without TBI, Hispanic Veterans
 with TBI were almost two times more likely (17.0% vs. 10.3%; HR: 1.74, 95%
 CI: 1.51-2.01), Black Veterans with TBI were over two times more likely
 (11.2% vs. 6.4%; HR=2.15, 95% CI: 2.02-2.30), and White Veterans with TBI
 were nearly three times more likely to develop dementia (12.0% vs. 5.9%;
 HR=2.71, 95% CI: 2.64-2.77).  A significant interaction between
 TBI and race for developing dementia was observed
 (p&lt;0.001).  Both male and female Veterans with TBI were
 more than twice as likely (males: 11.8% vs 5.9%, HR: 2.60; 95% CI
 2.54-2.66; females 6.3% vs 3.1%, HR: 2.36; 95% CI 2.08, 2.69) to develop
 dementia compared to those without.  There was a significant
 interaction effect between sex and TBI (p=0.02), but the magnitude of
 differences was small.   Conclusions: In this large,
 nation-wide cohort of older Veterans, all race groups with TBI had
 increased risk of dementia, but there was an interaction effect such that
 White Veterans were at greatest risk for dementia following
 TBI.   Further research is needed to understand
 mechanisms for this discrepancy. Differences in dementia risk for males
 and females after TBI were significant but small, and male and female
 Veterans had similarly high risk of dementia after TBI.
DOI: 10.7272/q6qf8r23
title: Blood biomarkers of traumatic brain injury and cognitive impairment in older veterans

description: Objective: To determine whether blood-based biomarkers can differentiate
 older veterans with and without traumatic brain injury (TBI) and cognitive
 impairment (CI). Methods: We enrolled 155 veterans from two veterans’
 retirement homes: 90 without TBI and 65 with TBI history. Participants
 were further separated into CI groups: Controls (no TBI, no CI), n=60; no
 TBI with CI, n=30; TBI without CI, n=30; and TBI with CI, n=35. TBI was
 determined by the Ohio State University TBI Identification Method. CI was
 defined as impaired cognitive testing, dementia diagnosis, or use of
 dementia medication. Blood specimens were enriched for CNS-derived
 exosomes. Proteins [neurofilament light (NfL), total tau, glial fibrillary
 acidic protein (GFAP), alpha synuclein, β-amyloid 42 (Aβ42), and
 phosphorylated tau (pTAU)] and cytokines [tumor necrosis factor alpha
 (TNFa), interleukin 6 (IL-6) and interleukin 10] were measured using
 ultrasensitive immunoassays. Results: Veterans were, on average, 79 years
 old. In participants with TBI history, 65% had mild TBI; average time from
 most recent TBI was 37 years. In adjusted analyses, the TBI and CI groups
 differed on CNS-enriched exosome concentration of pTAU, NfL, IL-6, TNFa
 (all p&lt;0.05), and GFAP (p=0.06), but not on Aβ42 or other markers.
 Adjusted area under the curve (AUC) analyses found that all significantly
 associated biomarkers combined separated TBI with/without CI (AUC = 0.85,
 95% confidence interval 0.74-0.95) and CI with/without TBI (AUC = 0.88,
 95% confidence interval 0.77-0.99). Conclusions:  Increased
 levels of blood-based, CNS-enriched exosomal biomarkers associated with
 TBI and CI can be detected, even decades after TBI. Classification of
 Evidence: This study provides Class II evidence that in veterans with a
 history of TBI, CNS-enriched exosome concentration of pTAU, NfL, IL-6,
 TNFa are associated with cognitive impairment.
DOI: 10.5061/dryad.8gtht76k8
title: Representation of visual landmarks in retrosplenial cortex

description: The process by which visual information is incorporated into the brain’s
 spatial framework to represent landmarks is poorly understood. Studies in
 humans and rodents suggest that retrosplenial cortex (RSC) plays a key
 role in these computations. We developed an RSC-dependent behavioral task
 in which head-fixed mice learned the spatial relationship between visual
 landmark cues and hidden reward locations. Two-photon imaging revealed
 that these cues served as dominant reference points for most task-active
 neurons and anchored the spatial code in RSC. Presenting the same
 environment but decoupled from mouse behavior degraded encoding fidelity.
 Analyzing visual and motor responses showed that landmark codes were the
 result of supralinear integration. Surprisingly, V1 axons recorded in RSC
 showed similar receptive fields. However, they were less modulated by task
 engagement, indicating that landmark representations in RSC are the result
 of local computations. Our data provide cellular- and network-level
 insight into how RSC represents landmarks.
description: in vivo 2-photon imaging