Miracle-dz/UniFAR-FTUs huggingface dataset:
Integration of Transcriptome and Methylome Highlights the Roles of Cell Cycle and Hippo Signaling Pathway in Flatfish Sexual Size Dimorphism

Sexual size dimorphism (SSD) is the difference in segments or body size between sexes prevalent in various species. Understanding the genetic architecture of SSD has remained a significant challenge owing to the complexity of growth mechanisms and the sexual influences among species. The Chinese tongue sole (Cynoglossus semilaevis), which exhibits a female-biased SSD and sex reversal from female to pseudomale, is an ideal model for exploring SSD mechanism at the molecular level. The present study aimed to integrate transcriptome and methylome analysis to unravel the genetic and epigenetic changes in female, male, and pseudomale C. semilaevis. The somatotropic and reproductive tissues (brain, liver, gonad, and muscle) transcriptomes were characterized by RNA-seq technology. Transcriptomic analysis unravelled numerous differentially expressed genes (DEGs) involved in cell growth and death-related pathways. The gonad and muscle methylomes were further employed for screening differentially methylated genes (DMGs). Relatively higher DNA methylation levels were observed in the male and pseudomale individuals. In detail, hypermethylation of the chromosome W was pronounced in the pseudomale group than in the female group. Furthermore, weighted gene co-expression network analysis showed that turquoise and brown modules positively and negatively correlated with the female-biased SSD, respectively. A combined analysis of the module genes and DMGs revealed the female-biased mRNA transcripts and hypomethylated levels in the upstream and downstream regions across the cell cycle-related genes. Moreover, the male and pseudomale-biased gene expression in the hippo signaling pathway were positively correlated with their hypermethylation levels in the gene body. These findings implied that the activation of the cell cycle and the inhibition of the hippo signaling pathway were implicated in C. semilaevis female-biased SSD. In addition, the dynamic expression pattern of the epigenetic regulatory factors, including dnmt1, dnmt3a, dnmt3b, and uhrf1, among the different sexes correspond with their distinct DNA methylation levels. Herein, we provide valuable clues for understanding female-biased SSD in C. semilaevis.
Spontaneous Fluctuations in Oscillatory Brain State Cause Differences in Transcranial Magnetic Stimulation Effects Within and Between Individuals

Transcranial magnetic stimulation (TMS) can cause measurable effects on neural activity and behavioral performance in healthy volunteers. In addition, TMS is increasingly used in clinical practice for treating various neuropsychiatric disorders. Unfortunately, TMS-induced effects show large intra- and inter-subject variability, hindering its reliability, and efficacy. One possible source of this variability may be the spontaneous fluctuations of neuronal oscillations. We present recent studies using multimodal TMS including TMS-EMG (electromyography), TMS-tACS (transcranial alternating current stimulation), and concurrent TMS-EEG-fMRI (electroencephalography, functional magnetic resonance imaging), to evaluate how individual oscillatory brain state affects TMS signal propagation within targeted networks. We demonstrate how the spontaneous oscillatory state at the time of TMS influences both immediate and longer-lasting TMS effects. These findings indicate that at least part of the variability in TMS efficacy may be attributable to the current practice of ignoring (spontaneous) oscillatory fluctuations during TMS. Ignoring this state-dependent spread of activity may cause great individual variability which so far is poorly understood and has proven impossible to control. We therefore also compare two technical solutions to directly account for oscillatory state during TMS, namely, to use (a) tACS to externally control these oscillatory states and then apply TMS at the optimal (controlled) brain state, or (b) oscillatory state-triggered TMS (closed-loop TMS). The described multimodal TMS approaches are paramount for establishing more robust TMS effects, and to allow enhanced control over the individual outcome of TMS interventions aimed at modulating information flow in the brain to achieve desirable changes in cognition, mood, and behavior.
Effect of 26 Weeks of Liraglutide Treatment on Coronary Artery Inflammation in Type 2 Diabetes Quantified by [64Cu]Cu-DOTATATE PET/CT: Results from the LIRAFLAME Trial

Background Quantification of coronary artery inflammation and atherosclerosis remains a challenge in high-risk individuals. In this study we sought to investigate if the glucagon like peptide-1 receptor agonist liraglutide has a direct anti-inflammatory effect in the coronary arteries using positron emission tomography (PET) with a radioactive tracer targeting activated macrophages in the vessel-wall. Methods Thirty randomly selected participants with type 2 diabetes from the placebo-controlled trial LIRAFLAME were enrolled in this sub-study. Participants were, prior to enrollment in this sub-study, randomized to either treatment with daily liraglutide (n=15) or placebo (n=15). Both groups underwent a combined [64Cu]Cu-DOTATATE positron emission tomography and computed tomography scan of the heart at baseline and after 26 weeks of treatment. Coronary artery uptake of [64Cu]Cu-DOTATATE were measured as maximum standardized uptake values (SUVmax); and means of the maximum values (mSUVmax), both values were calculated at the level of each participant and each individual coronary-segment. Results SUVmax and mSUVmax values decreased significantly in the liraglutide group both at the participant level (SUVmax: p=0.013; mSUVmax: p=0.004) and at the coronary-segment level (SUVmax: p=0.001; mSUVmax: p<0.0001). No change was observed in the placebo group neither at the participant level (SUVmax: p=0.69; mSUVmax: p=0.67) or at the coronary-segment level (SUVmax: p=0.49; mSUVmax: p=0.30). When comparing the mean change in uptake values between the two groups at both the participant level (SUVmax: p=0.076; mSUVmax: p=0.077) and the coronary segment level (SUVmax: p=0.13; mSUVmax: p=0.11) a borderline significant difference was observed. Baseline SUVmax [64Cu]Cu-DOTATATE uptake values showed a weak positive correlation with the inflammatory biomarker high-sensitivity c-reactive protein (τ =0.26, p=0.045). Conclusion Liraglutide treatment for 26-weeks caused a significant reduction in [64Cu]Cu-DOTATATE uptake in the coronary arteries whereas this was not seen in the placebo treated group. In addition, [64Cu]Cu-DOTATATE PET/CT as a marker of coronary inflammation correlated with the systemic inflammation marker hs-CRP.
Empirical ground motion relations for earthquakes in the Cascadia region

Empirical relations are developed to describe response spectral amplitudes as a function of earthquake magnitude, focal depth, and distance, for earthquakes in the Cascadia region of southwestern British Columbia and northwestern Washington State. The relations are based on regression of response spectra data from crustal, subcrustal, and subduction earthquakes recorded on rock and soil sites. The relations apply to earthquakes of moment magnitude, M, in the range 4 ≤ M ≤ 8.2 with focal depths from 1 to 60 km, at distances up to several hundred kilometres. Most of the data for moderate-to-large events (4 ≤ M < 7) are from the Cascadia region, while those for very large events (M ≥ 7.5) are from other subduction zones. The ground motion amplitudes for large (M = 7) shallow earthquakes in the Cascadia region are about the same as those for corresponding events in California. By contrast, moderate (M = 5) Cascadia earthquakes have smaller ground motion amplitudes than do moderate California earthquakes. The motions predicted for very large subduction earthquakes (M = 8) are similar to those obtained by Crouse.
“Scapegoat” for Offline Consumption: Online Review Response to Social Exclusion

Previous research has mostly focused on Internet use behaviors, such as usage time of the Internet or social media after individuals experienced offline social exclusion. However, the extant literature has ignored online response behaviors, such as online review responses to social exclusion. To address this gap, drawing on self-protection and self-serving bias, we proposed three hypotheses that examine the effect of offline social exclusion on online reviews, which are verified by two studies using different simulating scenarios with 464 participants. The results show that when individuals are socially excluded offline, regardless of where the exclusion comes from (businesses or peers), they will be more likely to give negative online reviews. In addition, brand awareness moderates the effect of offline social exclusion on online reviews. Specifically, if the brand is less known, compared with social inclusion, offline social exclusion will lead individuals to give more negative online reviews; conversely, for well-known brands, no significant difference exists in the online reviews between social exclusion and inclusion.
Reversible Bronchiectasis in COVID-19 Survivors With Acute Respiratory Distress Syndrome: Pseudobronchiectasis

To retrospectively analyze whether traction bronchiectasis was reversible in coronavirus disease 2019 (COVID-19) survivors with acute respiratory distress syndrome (ARDS), and whether computed tomography (CT) findings were associated with the reversibility, 41 COVID-19 survivors with ARDS were followed-up for more than 4 months. Demographics, clinical data, and all chest CT images were collected. The follow-up CT images were compared with the previous CT scans. There were 28 (68%) patients with traction bronchiectasis (Group I) and 13 (32%) patients without traction bronchiectasis (Group II) on CT images. Traction bronchiectasis disappeared completely in 21 of the 28 (75%) patients (Group IA), but did not completely disappear in seven of the 28 (25%) patients (Group IB). In the second week after onset, the evaluation score on CT images in Group I was significantly higher than that in Group II (p = 0.001). The proportion of reticulation on the last CT images in Group IB was found higher than that in Group IA (p < 0.05). COVID-19 survivors with ARDS might develop traction bronchiectasis, which can be absorbed completely in most patients. Traction bronchiectasis in a few patients did not disappear completely, but bronchiectasis was significantly relieved. The long-term follow-up is necessary to further assess whether traction bronchiectasis represents irreversible fibrosis.
Flexible, Self-Determined… and Unhealthy? An Empirical Study on Somatic Health Among Crowdworkers

Crowdwork is a new form of digitally enabled work in which organizations assign tasks to an anonymous group of workers via platform intermediaries. For crowdworkers, crowdwork offers both opportunities and risks. On the one side, crowdworkers enjoy high flexibility on when, where, and how much to work. On the other side, risks comparable to other forms of atypical employment arise: no labor regulation, unstable income, and uncertainty about whether enough tasks are available. Regulation of working hours lies within the crowdworkers’ own authority. Also, crowdwork in industrialized nations is often conducted during leisure times as a side-job to some other kind of employment. In accordance with Conservation of Resources Theory, we state that when leisure time gets used up with crowdwork, regeneration cannot occur and health declines. On a sample of N=748 German crowdworkers recruited from four different platform types, we analyzed whether participation in crowdwork is linked to increased somatic symptoms compared to regularly employed personnel. We found that crowdworkers show significantly increased somatic symptoms as compared to a German norm sample, that are stable across different kinds of tasks and platforms, gender, and age groups, and that is statistically due to the extent of participation in crowdwork. Specifically, we found that total work hours per week were not associated with an increase in somatic symptoms, but we did find associations with strain-based work–family conflict and the primary motivation to do crowdwork being to earn money. Consequences for research and labor regulations are discussed.
Induction of PI3K/Akt-Mediated Apoptosis in Osteoclasts Is a Key Approach for Buxue Tongluo Pills to Treat Osteonecrosis of the Femoral Head

The Buxue Tongluo pill (BTP) is a self-made pill with the functions of nourishing blood, promoting blood circulation, dredging collaterals, and relieving pain. It consists of Angelica sinensis (Oliv.) Diels, Pheretima aspergillum (E.Perrier), Panax notoginseng (Burk.) F. H. Chen, Astragalus membranaceus (Fisch.) Bge, and Glycyrrhiza uralensis Fisch. Various clinical practices have confirmed the therapeutic effect of BTP on osteonecrosis of the femoral head (ONFH), but little attention has been paid to the study of its bioactive ingredients and related mechanisms of action. In this study, UPLC/MS-MS combined with GEO data mining was used to construct a bioactive ingredient library of BTP and a differentially expressed gene (DEG) library for ONFH. Subsequently, Cytoscape (3.7.2) software was used to analyze the protein–protein interaction between BTP and DEGs of ONFH to screen the key targets, and functional annotation analysis and pathway enrichment analysis were carried out. Finally, 34 bioactive compounds were screened, which acted on 1,232 targets. A total of 178 DEGs were collected, and 17 key genes were obtained after two screenings. By bioinformatics annotation on these key genes, a total of 354 gene ontology (GO) functional annotation analyses and 42 Kyoto Encyclopedia of Genes and Genomes (KEGG) pathways were obtained. The present study found that GO and KEGG enrichment were mainly related to apoptosis, suggesting that BTP may exert an anti-ONFH effect by promoting osteoclast apoptosis. Experiments in vitro demonstrated that BTP could increase the mitochondrial membrane potential (MMP) and induce remarkable apoptosis in osteoclasts. Furthermore, we determined the apoptosis marker of cleaved(C)-caspase-3, bcl-2, and bax and found that BTP could upregulate the C-caspase-3 and bax expression in osteoclasts and decrease the expression of bcl-2, p-Akt, and p-PI3K in a dose-dependent manner, indicating that BTP could induce PI3K/Akt-mediated apoptosis in osteoclasts to treat ONFH. This study explored the pharmacodynamic basis and mechanism of BTP against ONFH from the perspective of systemic pharmacology, laying a foundation for further elucidating the therapeutic effects of BTP against ONFH.
Population Growth and Long-Distance Vagrancy Leads to Colonization of Europe by Elegant Terns Thalasseus elegans

Elegant terns Thalasseus elegans breed in a very limited area of the northern Gulf of California and the Pacific coast of southern California, with up to 95% (mean 78%, 1991–2014, Perez et al., 2020) of the population nesting on Isla Rasa in the northern Gulf of California. On Isla Rasa, the primary nesting colony, elegant terns suffered predation by rodents which raised the possibility of population extinction, with a substantial proportion of the world population nesting on this single island. Because of this threat, rodents were successfully removed from Isla Rasa in 1995. The removal of rodents from Isla Rasa led to a near immediate increase in the population of elegant terns. That increase was associated with a changing pattern in dispersal by the terns, including extraordinary movements to the Gulf of Mexico, the Atlantic coast of the United States north to Massachusetts, and, remarkably, to western Europe. A few elegant terns successfully bred at these European localities during 2009 to the present. In this paper we use this exceptional example of long-distance dispersal to illustrate how rapid population growth during ∼ 1995 to present can lead to successful colonization of remote sites through repeated instances of vagrancy. We tested four Hypotheses that together support the idea that the growing population of elegant terns has produced increasing numbers of young, and these young have spread, through the mechanism of vagrancy, to the Pacific Northwest, the east coast of the United States, and western Europe. Our Hypotheses are: (1) The nesting population of elegant terns within their core nesting range has increased since removal of rodents from Isla Rasa; (2) Occurrence of vagrant elegant terns in the Pacific Northwest is driven by population growth within the core breeding range. (3) Occurrence of vagrant elegant terns at the east coast of the United States is driven by population growth within the core breeding range. (4) Occurrence and colonization of western Europe by elegant terns is driven by nesting population size within the core breeding range. Corollaries of these Hypotheses are, (i) that there is a time lag in occurrence of vagrants at each of these areas, based on increasing distance from the core breeding range and (ii) the number of vagrants in any given year is also related to sea surface temperature (SST), as expressed by Oceanic Niño Index, a proxy for food resource levels. Generally we found strong statistical support for each of these Hypotheses; an exception was for the occurrence of elegant terns in the Pacific Northwest, which initially occurred following El Niño events (low food supply) and profound breeding failure, but later corresponding to cold water years with high breeding success. We use elegant terns, exceptional for the highly restricted breeding range and sustained population growth over 25 years, to illustrate how growing populations may colonize very distant habitats through repeated instances of vagrancy.
Structured Reporting of Computed Tomography in the Staging of Neuroendocrine Neoplasms: A Delphi Consensus Proposal

Background Structured reporting (SR) in radiology is becoming increasingly necessary and has been recognized recently by major scientific societies. This study aims to build structured CT-based reports in Neuroendocrine Neoplasms during the staging phase in order to improve communication between the radiologist and members of multidisciplinary teams. Materials and Methods A panel of expert radiologists, members of the Italian Society of Medical and Interventional Radiology, was established. A Modified Delphi process was used to develop the SR and to assess a level of agreement for all report sections. Cronbach’s alpha (Cα) correlation coefficient was used to assess internal consistency for each section and to measure quality analysis according to the average inter-item correlation. Results The final SR version was built by including n=16 items in the “Patient Clinical Data” section, n=13 items in the “Clinical Evaluation” section, n=8 items in the “Imaging Protocol” section, and n=17 items in the “Report” section. Overall, 54 items were included in the final version of the SR. Both in the first and second round, all sections received more than a good rating: a mean value of 4.7 and range of 4.2-5.0 in the first round and a mean value 4.9 and range of 4.9-5 in the second round. In the first round, the Cα correlation coefficient was a poor 0.57: the overall mean score of the experts and the sum of scores for the structured report were 4.7 (range 1-5) and 728 (mean value 52.00 and standard deviation 2.83), respectively. In the second round, the Cα correlation coefficient was a good 0.82: the overall mean score of the experts and the sum of scores for the structured report were 4.9 (range 4-5) and 760 (mean value 54.29 and standard deviation 1.64), respectively. Conclusions The present SR, based on a multi-round consensus-building Delphi exercise following in-depth discussion between expert radiologists in gastro-enteric and oncological imaging, derived from a multidisciplinary agreement between a radiologist, medical oncologist and surgeon in order to obtain the most appropriate communication tool for referring physicians.
Association Between Asthma and Migraine: A Systematic Review and Meta-Analysis of Observational Studies

Objectives: The purpose of this study was to determine the association between asthma and migraine and assess the risk for migraine in patients with asthma. Methods: We systematically searched the Cochrane Library, PubMed, Medical Literature Analysis and Retrieval System Online (MEDLINE), and Excerpta Medica dataBASE (EMBASE) databases from inception to September 26, 2021, for indexed observational studies that examined either the odds or risk of migraine in subjects with asthma. The qualities of the included studies were evaluated using the Newcastle–Ottawa Scale. A random-effects meta-analysis was performed to calculate the odds ratio for case-control and cross-sectional studies and the risk ratio for cohort studies. Results: Seven observational studies (four cross-sectional and three cohort studies) with a total of 549,534 study subjects were included in this systematic review and meta-analysis and selected for data extraction. Four articles were considered to be of moderate quality; other studies were considered to be of high quality. Asthma was associated with increased odds (OR, 1.85; 95%CI, 1.39–2.45) and risk of migraine (RR, 1.70; 95%CI, 1.52–1.90). Conclusions: The available evidence that supports the existence of an association between asthma and migraine is limited. Clinicians should be aware that patients with asthma show both increased prevalence and incidence of migraine. Further studies are warranted to further clarify the relationship between asthma and migraine. Systematic Review Registration: https://www.crd. york.ac. uk/PROSPERO/display_record. php? RecordID=185881, identifier: CRD42020185881.
Accurate Estimation of Heart and Respiration Rates Based on an Optical Fiber Sensor Using Adaptive Regulations and Statistical Classifications Spectrum Analysis

The aim of this work is to present a method for accurately estimating heart and respiration rates under different actual conditions based on a mattress which was integrated with an optical fiber sensor. During the estimation, a ballistocardiogram (BCG) signal, which was obtained from the optical fiber sensor, was used for extracting the heart rate and the respiration rate. However, due to the detrimental effects of the differential detector, self-interference, and variation of installation status of the sensor, the ballistocardiogram (BCG) signal was difficult to detect. In order to resolve the potential concerns of individual differences and body interferences, adaptive regulations and statistical classifications spectrum analysis were used in this paper. Experiments were carried out to quantify heart and respiration rates of healthy volunteers under different breathing and posture conditions. From the experimental results, it could be concluded that (1) the heart rates of 40–150 beats per minute (bpm) and respiration rates of 10–20 breaths per minute (bpm) were measured for individual differences; (2) for the same individuals under four different posture contacts, the mean errors of heart rates were separately 1.60 ± 0.98 bpm, 1.94 ± 0.83 bpm, 1.24 ± 0.59 bpm, and 1.06 ± 0.62 bpm, in contrast, the mean errors of the polar beat device were 1.09 ± 0.96 bpm, 1.44 ± 0.99 bpm, and 1.78 ± 0.94 bpm. Furthermore, the experimental results were validated by conventional counterparts which used skin-contacting electrodes as their measurements. It was reported that the heart rate was 0.26 ± 2.80 bpm in 95% confidence intervals (± 1.96SD) in comparison with Philips sure-signs VM6 medical monitor, and the respiration rate was 0.41 ± 1.49 bpm in 95% confidence intervals (± 1.96SD) in comparison with ECG-derived respiratory (EDR) measurements for respiration rates. It was indicated that the developed system using adaptive regulations and statistical classifications spectrum analysis performed better and could easily be used under complex environments.