bluuebunny/crossref_metadata_2025_split huggingface dataset:
Family of nonstandard integrable and superintegrable classical Hamiltonian systems in non-vanishing magnetic fields
Authors: Hoque Md Fazlul , Šnobl Libor 
Published: March 2023

Abstract
In this paper, we present the construction of all nonstandard integrable systems in magnetic fields whose integrals have leading order structure corresponding to the case (i) of theorem 1 in Marchesiello and Šnobl (2022 J. Phys. A: Math. Theor.
55 145203). We find that the resulting systems can be written as one family with several parameters. For certain limits of these parameters the system belongs to intersections with already known standard systems separating in Cartesian and / or cylindrical coordinates and the number of independent integrals of motion increases, thus the system becomes minimally superintegrable. These results generalize the particular example presented in section 3 of Marchesiello and Šnobl (2022 J. Phys. A: Math. Theor.
55 145203).
Validation of FABDEM, a global bare-earth elevation model, against UAV-lidar derived elevation in a complex forested mountain catchment
Authors: Marsh Christopher B , Harder Phillip , Pomeroy John W 
Published: March 2023

Abstract
Space-based, global-extent digital elevation models (DEMs) are key inputs to many Earth sciences applications. However, many of these applications require the use of a ‘bare-Earth’ DEM versus a digital surface model (DSM), the latter of which may include systematic positive biases due to tree canopies in forested areas. Critical topographic features may be obscured by these biases. Vegetation-free datasets have been created by using statistical relationships and machine learning to train on local-scale datasets (e.g., lidar) to de-bias the global-extent datasets. Recent advances in satellite platforms coupled with increased availability of computational resources and lidar reference products has allowed for a new generation of vegetation- and urban-canopy removals. One of these is the Forest And Buildings removed Copernicus DEM (FABDEM), based on the most recent and most accurate global DSM Copernicus-30. Among the more challenging landscapes to quantify surface elevations are densely forested mountain catchments, where even airborne lidar applications struggle to capture surface returns. The increasing affordability and availability of UAV-based lidar platforms have resulted in new capacity to fly modest spatial extents with unrivalled point densities. These data allow an unprecedented ability to validate global sub-canopy DEMs against representative UAV-based lidar data. In this work, the FABDEM is validated against up-scaled lidar data in a steep and forested mountain catchment considering elevation, slope, and Terrain Position Index (TPI) metrics. Comparisons of FABDEM with SRTM, MERIT, and the Copernicus-30 dataset are made. It was found that the FABDEM had a 24% reduction in elevation RMSE and a 135% reduction in bias compared to the Copernicus-30 dataset. Overall, the FABDEM provides a clear improvement over existing deforested DEM products in complex mountain topography such as the MERIT DEM. This study supports the use of FABDEM in forested mountain catchments as the current best-in-class data product.
COVID-19 Vaccine Safety Surveillance in Early Pregnancy in the United States: Design Factors Affecting the Association Between Vaccine and Spontaneous Abortion
Authors: Vazquez-Benitez Gabriela , Haapala Jacob L , Lipkind Heather S , DeSilva Malini B , Zhu Jingyi , Daley Matthew F , Getahun Darios , Klein Nicola P , Vesco Kimberly K , Irving Stephanie A , Nelson Jennifer C , Williams Joshua T B , Hambidge Simon J , Donahue James , Fuller Candace C , Weintraub Eric S , Olson Christine , Kharbanda Elyse O 
Published: March 2023

Abstract
In the Vaccine Safety Datalink (VSD), we previously reported no association between coronavirus disease 2019 (COVID-19) vaccination in early pregnancy and spontaneous abortion (SAB). The present study aims to understand how time since vaccine rollout or other methodological factors could affect results. Using a case-control design and generalized estimating equations, we estimated the odds ratios (ORs) of COVID-19 vaccination in the 28 days before a SAB or last date of the surveillance period (index date) in ongoing pregnancies and occurrence of SAB, across cumulative 4-week periods from December 2020 through June 2021. Using data from a single site, we evaluated alternative methodological approaches: increasing the exposure window to 42 days, modifying the index date from the last day to the midpoint of the surveillance period, and constructing a cohort design with a time-dependent exposure model. A protective effect (OR = 0.78, 95% confidence interval: 0.69, 0.89), observed with 3-cumulative periods ending March 8, 2021, was attenuated when surveillance extended to June 28, 2021 (OR = 1.02, 95% confidence interval: 0.96, 1.08). We observed a lower OR for a 42-day window compared with a 28-day window. The time-dependent model showed no association. Timing of the surveillance appears to be an important factor affecting the observed vaccine-SAB association.
Variability in Sleep Duration and Biomarkers of Cardiovascular Disease Across the Menstrual Cycle
Authors: Dunietz Galit Levi , Shedden Kerby , Michels Kara A , Chervin Ronald D , Lyu Xiru , Freeman Joshua R , Baylin Ana , O’Brien Louise M , Wactawski-Wende Jean , Schisterman Enrique F , Mumford Sunni L 
Published: March 2023

AbstractVariability in sleep duration and cardiovascular health have been infrequently investigated, particularly among reproductive-age women. We examined these associations across the menstrual cycle among a cohort of 250 healthy premenopausal women, aged 18-44 years. The BioCycle study (New York, 2005–2007) collected cardiovascular biomarkers (serum high- and low-density lipoprotein (HDL, LDL), total cholesterol, triglycerides, and C-reactive protein (CRP)) at key time points along the menstrual cycle (follicular, ovulatory, and luteal phases). Women also recorded sleep duration in daily diaries. From these data, we computed L-moments, robust versions of location, dispersion, skewness, and kurtosis. We fitted linear mixed models with random intercepts and inverse probability weighting to estimate associations between sleep variability and cardiovascular biomarkers, accounting for demographic, lifestyle, health, and reproductive factors. Sleep dispersion (any deviation from mean duration) was associated with lower mean LDL for nonshift workers and non-White women. Skewed sleep duration was associated with higher mean CRP and lower mean total cholesterol. Sleep durations with extreme short and long bouts (kurtosis) were associated with a lower mean HDL, but not mean CRP, LDL, or triglycerides. Sleep duration modified associations between sleep dispersion and LDL, HDL, and total cholesterol. Even in young and healthy women, sleep duration variability could influence cardiovascular health.
Invited Commentary: Improving Instruments to Counter the Bias in Their Construction
Authors: Caqueo-Urízar Alejandra , Irarrázaval Matías 
Published: March 2023

Abstract
In this issue of the Journal, Villalonga-Olives et al. (Am J Epidemiol. 2023;192(8):1264-1273) examined the psychometric properties of social capital indicators, comparing responses from Black and White people to identify whether there was differential item functioning (DIF) in social capital by race, and also when stratified by educational attainment, as a measure of socioeconomic status. The authors tested whether there is DIF in social capital items between Black and White people and found that DIF across these items was significant although not large, but they were still indicative of measurement error, which they suspected was related to the way these items were developed—that is, based on cultural assumptions tested in mainstream White America. However, some gaps remain to be fleshed out.
sBGC-hm: an atlas of secondary metabolite biosynthetic gene clusters from the human gut microbiome
Authors: Zou Huixi , Sun Tianli , Jin Bangqun , Wang Shengqin 
Published: March 2023

AbstractSummaryMicrobial secondary metabolites exhibit potential medicinal value. A large number of secondary metabolite biosynthetic gene clusters (BGCs) in the human gut microbiome, which exhibit essential biological activity in microbe–microbe and microbe–host interactions, have not been adequately characterized, making it difficult to prioritize these BGCs for experimental characterization. Here, we present the sBGC-hm, an atlas of secondary metabolite BGCs allows researchers to explore the potential therapeutic benefits of these natural products. One of its key features is the ability to assist in optimizing the BGC structure by utilizing the gene co-occurrence matrix obtained from Human Microbiome Project data. Results are viewable online and can be downloaded as spreadsheets.Availability and implementationThe database is openly available at https://www.wzubio.com/sbgc. The website is powered by Apache 2 server with PHP and MariaDB.
Hormonal profile prior to luteolysis modulates the uterine luminal transcriptome in the subsequent cycle in beef cross-bred cows
Authors: Silva Felipe A C C , Martins Thiago , Sponchiado Mariana , Rocha Cecilia C , Pohler Ky G , Peñagaricano Francisco , Binelli Mario 
Published: March 2023

Abstract
Sex steroid concentrations modulate endometrial function and fertility in cattle. Our objective was to compare the post-estrus luminal transcriptome of cows that were exposed to contrasting concentrations of progesterone (P4) before luteolysis that displayed estrus and ovulated spontaneously. Cross-bred beef cows received either (1) a new CIDR and GnRH (day −9; high progesterone treatment; HP4; n = 16) or (2) a previously used CIDR, PGF2α, and GnRH (low progesterone treatment; LP4; n = 24). All cows received PGF2α at CIDR removal (day −2). Ovarian ultrasonography and blood collections were performed on days −9, −2, −0.5, and 0 (day of observed estrus), and days 4, 7, and 14 for measurement of ovarian structures, P4, and estradiol (E2). Luminal epithelial cells were collected using a cytology brush on days 4, 7, and 14 for RNAseq. On day −2, CL area and concentrations of P4 were greater, while on day −0.5, concentrations of E2 were decreased in HP4. Ovarian structures and hormonal concentrations were similar on days 4, 7, or 14 (P &gt; 0.05). There were enriched pathways in HP4 related to activation and signaling of the innate immune system at day 4, downregulation in the network involved in the extracellular matrix remodeling at day 7, and exacerbated inflammatory response as well as differentiation and activation of macrophages at day 14 (Benjamini–Hochberg P-value ≤ 0.05). In conclusion, manipulation of pre-luteolysis sex steroid concentrations altered the post-estrus luminal transcriptome even though all cows showed estrus and ovulated spontaneously.
A Transdisciplinary Framework to Unlock the Potential Benefits of Green Spaces for Urban Communities Under Changing Contexts
Authors: Lin Brenda B , Andersson Erik 
Published: March 2023

AbstractNew urban models increasingly seek to create more sustainable, livable, and healthier cities by reinvigorating green space. In this article, we highlight and briefly review several main but disconnected areas of study in which the factors that frame human–environment interactions and therefore also influence the potential well-being outcomes of those interactions are studied. We then use the intersection of affordance theory and socio-institutional programming to provide a conceptual framework that ties together these spheres of research, and we discuss some critical keys for enabling different positive green space experiences. Urban communities are not homogeneous, and accounting for the intersection between individual differences and landscape programming opens up more diverse pathways for affording positive human–environment interactions and different well-being outcomes.
Characteristics and outcomes for participants with congenital ichthyosis who responded to treatment with the topical isotretinoin formulation TMB-001: results from the Phase IIb CONTROL study
Authors: Bunick Christopher G , Teng Joyce M C , Guenthner Scott , Marathe Kalyani , Kempers Steven , Eads Kimmie , Castelo-Soccio Leslie , Mendelsohn Alan M , Raiz Jessica , Murrell Dédée F 
Published: March 2023

Abstract

Background
Emollients and keratolytics are frequently used to manage symptoms of congenital ichthyosis (CI). Systemic retinoid treatment is complicated by teratogenicity and dose-limiting adverse effects.

Objectives
This analysis from the randomized Phase IIb CONTROL study investigated the characteristics of participants who responded to treatment with TMB-001, a novel topical isotretinoin ointment formulation.

Methods
Participants ≥ 9 years of age with genetically confirmed CI and ≥ 2 (out of 4) Visual Index for Ichthyosis Severity (VIIS) assessment areas with ≥ 3 scaling score were randomized 1 : 1 : 1 to TMB-001 0.05%, TMB-001 0.1% or vehicle, twice daily for 12 weeks. Efficacy endpoints included the proportion of participants with ≥ 50% reduction in VIIS-scaling (VIIS-50) compared with baseline and ≥ 2-grade reduction in Investigator's Global Assessment (IGA)-scaling score compared with baseline. Changes in body surface area (BSA) involvement, Dermatology Life Quality Index (DLQI) scores and Itch-Numeric Rating Scale (I-NRS) scores were assessed.

Results
Among the 33 participants (11 randomized to TMB-001 0.05%, 10 to TMB-001 0.1% and 12 to vehicle), median age was 29 years (range 9–80), and most were male (64%) and White (79%). Baseline demographics were generally similar among participants who did or did not achieve TMB-001 treatment success. Participants who had lower mean BSA involvement and higher DLQI and I-NRS scores at baseline were more likely to achieve VIIS-50. Similarly, higher baseline DLQI and I-NRS scores were associated with IGA response; BSA involvement was similar for IGA responders vs. nonresponders.

Conclusions
Higher DLQI and I-NRS scores at baseline were associated with participants achieving treatment success by VIIS-50 and IGA response. Lower BSA involvement was associated with VIIS-50 success.
Hierarchical brain structural–functional coupling associated with cognitive impairments in mild traumatic brain injury
Authors: Pan Yizhen , Li Xuan , Liu Yuling , Jia Xiaoyan , Wang Shan , Ji Qiuyu , Zhao Wenpu , Yin Bo , Bai Guanghui , Zhang Jie , Bai Lijun 
Published: March 2023

Abstract
Mild traumatic brain injury (mTBI) disrupts the integrity of white matter microstructure, which affects brain functional connectivity supporting cognitive function. Although the relationship between structural and functional connectivity (SC and FC), here called SC–FC coupling, has been studied on global level in brain disorders, the long-term disruption of SC–FC coupling in mTBI at regional scale was still unclear. The current study investigated the alteration pattern of regional SC–FC coupling in 104 acute mTBI patients (41 with 6–12 months of follow-up) and 56 healthy controls (HCs). SC and FC networks were constructed to measure regional, intra-network, and inter-network SC–FC coupling. Compared with HCs, acute mTBI exhibited altered SC–FC coupling of the sensorimotor network (SMN). The coupling laterality indicators of the SMN can identify mTBI from controls. The persistent SC–FC decoupling of the SMN and the additional decoupling of the default mode network (DMN) were observed in chronic mTBI. Crucially, decoupling of the SMN and DMN predicted better cognitive outcomes. The findings revealed the SC–FC coupling alternations exhibited hierarchical trend originating from the sensorimotor cortex to high-order cognitive regions with the progression of mTBI. The regional and hierarchical SC–FC coupling may be a prognostic biomarker to provide insights into the pathophysiology mechanism of mTBI.
Mapping cross-species connectome atlas of human and macaque striatum
Authors: Xia Xiaoluan , Zeng Xinglin , Gao Fei , Yuan Zhen 
Published: March 2023

Abstract
Cross-species connectome atlas (CCA) that can provide connectionally homogeneous and homologous brain nodes is essential and customized for cross-species neuroscience. However, existing CCAs were flawed in design and coarse-grained in results. In this study, a normative mapping framework of CCA was proposed and applied on human and macaque striatum. Specifically, all striatal voxels in the 2 species were mixed together and classified based on their represented and characterized feature of within-striatum resting-state functional connectivity, which was shared between the species. Six pairs of striatal parcels in these species were delineated in both hemispheres. Furthermore, this striatal parcellation was demonstrated by the best-matched whole-brain functional and structural connectivity between interspecies corresponding subregions. Besides, detailed interspecies differences in whole-brain multimodal connectivities and involved brain functions of these subregions were described to flesh out this CCA of striatum. In particular, this flexible and scalable mapping framework enables reliable construction of CCA of the whole brain, which would enable reliable findings in future cross-species research and advance our understandings into how the human brain works.
Altered structural connectome of children with auditory processing disorder: a diffusion MRI study
Authors: Alvand Ashkan , Kuruvilla-Mathew Abin , Roberts Reece P , Pedersen Mangor , Kirk Ian J , Purdy Suzanne C 
Published: March 2023

AbstractAuditory processing disorder (APD) is a listening impairment that some school-aged children may experience despite having normal peripheral hearing. Recent resting-state functional magnetic resonance imaging (MRI) has revealed an alteration in regional functional brain topology in children with APD. However, little is known about the structural organization in APD. We used diffusion MRI data to investigate the structural connectome of 58 children from 8 to 14 years old diagnosed with APD (n = 29) and children without hearing complaints (healthy controls, HC; n = 29). We investigated the rich-club organization and structural connection differences between groups. The APD group showed similar rich-club organization and edge-wise connection compared with the HC group. However, at the regional level, we observed increased average path length (APL) and betweenness centrality in the right inferior parietal lobule and inferior precentral gyrus, respectively, in the APD group. Only HCs demonstrated a positive association between APL and the listening-in-spatialized-noise-sentences task in the left orbital gyrus. In line with previous findings, the current results provide evidence for altered structural networks at the regional level in the APD group, suggesting the involvement of multimodal deficits and a role for structure-function alteration in the listening difficulties of children with APD.
Aperiodic neural activity reflects metacontrol
Authors: Zhang Chenyan , Stock Ann-Kathrin , Mückschel Moritz , Hommel Bernhard , Beste Christian 
Published: March 2023

Abstract
Higher-level cognitive functions are mediated via complex oscillatory activity patterns and its analysis is dominating cognitive neuroscience research. However, besides oscillatory (period) activity, also aperiodic activity constitutes neural dynamics, but its relevance for higher-level cognitive functions is only beginning to be understood. The present study examined whether the broadband EEG aperiodic activity reflects principles of metacontrol. Metacontrol conceptualizes whether it is more useful to engage in more flexible processing of incoming information or to shield cognitive processes from incoming information (persistence-heavy processing). We examined EEG and behavioral data from a sample of n = 191 healthy participants performing a Simon Go/NoGo task that can be assumed to induce different metacontrol states (persistence-biased vs. flexibility-biased). Aperiodic activity was estimated using the FOOOF toolbox in the EEG power spectrum. There was a higher aperiodic exponent and offset in NoGo trials compared with Go trials, in incongruent (Go) trials compared with congruent (Go) trials. Thus, aperiodic activity increases during persistence-heavy processing, but decreases during flexibility-heavy processing. These findings link aperiodic features of the EEG signal and concepts describing the dynamics of how cognitive control modes are applied. Therefore, the study substantially extends the importance of aperiodic activity in understanding cognitive functions.
Hypertension in young adults with autosomal dominant polycystic kidney disease: a case for early screening?
Authors: Cadnapaphornchai Melissa A , Ong Albert C M 
Published: March 2023

ABSTRACT
ADPKD is the most common hereditary kidney disease and a major cause of kidney failure world-wide. Significant kidney enlargement occurs decades preceding loss of kidney function. However, the earliest clinical manifestations of disease have been less well characterized in young adults, a typically healthy population who do not often seek routine medical care. In this study, Martinez and colleagues report a high prevalence of hypertension among young adults (18–30 years) enrolled in the Spanish ADPKD registry REPQRAD. Their findings confirm previous studies in children and young adults with ADPKD and make a strong case for earlier screening and intervention within this age group.
Oxygen stress on age-stage, two-sex life tables and transcriptomic response of diamondback moth (Plutella xylostella)
Authors: Liu Tian-sheng , Zhu Xiang-yu , He Di , You Min-sheng , You Shi-jun 
Published: March 2023

AbstractElucidating the genetic basis of local adaption is one of the important tasks in evolutionary biology. The Qinghai-Tibet Plateau has the highest biodiversity for an extreme environment worldwide, and provides an ideal natural laboratory to study adaptive evolution. The diamondback moth (DBM), Plutella xylostella, is one of the most devastating pests of the global Brassica industry. A highly heterozygous genome of this pest has facilitated its adaptation to a variety of complex environments, and so provides an ideal model to study fast adaptation. We conducted a pilot study combining RNA-seq with an age-stage, two-sex life table to study the effects of oxygen deprivation on DBM. The developmental periods of all instars were significantly shorter in the hypoxic environment. We compared the transcriptomes of DBM from Fuzhou, Fujian (low-altitude) and Lhasa, Tibet (high-altitude) under hypoxia treatment in a hypoxic chamber. Some DEGs are enriched in pathways associated with DNA replication, such as DNA repair, nucleotide excision repair, base excision repair, mismatch repair and homologous recombination. The pathways with significant changes were associated with metabolism process and cell development. Thus, we assumed that insects could adapt to different environments by regulating their metabolism. Our findings indicated that although adaptive mechanisms to hypoxia in different DBM strains could be similar, DBM individuals from Tibet had superior tolerance to hypoxia compared with those of Fuzhou. Local adaptation of the Tibetan colony was assumed to be responsible for this difference. Our research suggests novel mechanisms of insect responses to hypoxia stress.