Miracle-dz/UniFAR-FTUs huggingface dataset:
A 1‐Gbps reference‐less burst‐mode CDR with embedded TDC in a 65‐nm CMOS process

A reference‐less all‐digital burst‐mode clock and data recovery circuit (CDR) is proposed in the paper. The burst‐mode CDR includes a coarse and a fine time‐to‐digital converter (TDC) with embedded phase generator. A low‐power current‐starved inverter is employed as the delay unit of the fine TDC to acquire the high measurement resolution. A calibration method to diminish the inherent delay is used to reduce the quantization error of the recovery clock. The proposed CDR is fabricated in a 65‐nm CMOS process. Experiment results show that the CDR operates from 0.9 to 1.1 Gbps and have a 13‐bit consecutive identical digits (CIDs) tolerance.
Fractal Dimension for Lung Sound Classification in Multiscale Scheme

Lung sound is a biological signal with the information of respiratory system health. Health lung sound can be differentiated from other pathological sounds by auscultation. This difference can be objectively analyzed by a number of digital signal processing techniques. One method in analyzing the lung sound is signal complexity analysis using fractal dimension. To improve the accuracy of lung sound classification, Fractal Dimension (FD) is calculated in the multiscale signal using the coarse-grained procedure. The combination of FD and multiscale process generates the more comprehensive information of lung sound. This study used seven types of FD and three types of the classifier. The result showed that Petrosian C in signal with the scale of 1-5 and SVM with fine Gaussian kernel had the highest accuracy of 99% for five classes of lung sound data. The proposed method can be used as an alternative method for computerized lung sound analysis to assist the doctors in the early diagnosis of lung disease.
A framework for estimating the effects of sequential reproductive barriers: implementation using Bayesian models with field data from cryptic species

Determining how reproductive barriers modulate gene flow between populations represents a major step towards understanding the factors shaping the course of speciation. Although many indices quantifying reproductive isolation (RI) have been proposed, they do not permit the quantification of cross direction-specific RI under varying species frequencies and over arbitrary sequences of barriers. Furthermore, techniques quantifying associated uncertainties are lacking, and statistical methods unrelated to biological process are still preferred for obtaining confidence intervals and p-values. To address these shortcomings, we provide new RI indices that model changes in gene flow for both directions of hybridization, and we implement them in a Bayesian model. We use this model to quantify RI between two species of the psyllid Cacopsylla pruni based on field genotypic data for mating individuals, inseminated spermatophores and progeny. The results showed that pre-insemination isolation was strong, mildly asymmetric and undistinguishably different between study sites despite large differences in species frequencies; that post-insemination isolation strongly affected the more common hybrid type; and that cumulative isolation was close to complete. In the light of these results, we discuss how these developments can strengthen comparative RI studies. Author contributions JP and NS initiated the study and obtained biological data. JP and DRJP developed the porosity-based approach. DRJP conceived the Bayesian implementation and code. JP, DRJP and NS wrote the manuscript. Data availability Mitochondrial sequence data will be available at Genbank, source code is available at xxx.
Bridging the Theoretical Gap: Using Sexual Script Theory to Explain the Relationship Between Pornography Use and Sexual Coercion

Research has consistently shown a relationship between pornography use and sexually coercive behaviors, but this inquiry has yet to fully examine the theoretical mechanisms through which this relationship works. The current study will use a theory that has gained support and attention as a way to understand the relationship pornography use has with general sexual behaviors, but has not been widely used to explain its relationship with sexually coercive behaviors: the sexual script theory. In this theory, scripts are attitudes and ideas about what behavior is acceptable, desirable, and pleasurable, which exist at the societal, personal, and interpersonal levels. Using items that assess all three levels of sexual scripts, a path analysis was used to examine whether sexual scripts mediate the relationship between pornography use and sexual coercion likelihood in a sample of 463 college males. Results of the study provide further support for the theory as a way to explain the relationship between pornography use and sexual behavior, and, in particular, sexually coercive behavior. Findings from the analysis also indicate that the various levels of scripts interact with each other and work together to influence likelihood of sexual coercion, providing further insight into how sexual scripts are manifested in behavior. Finally, the results suggest that pornography use is a multidimensional construct comprised of variables extending beyond frequency of use, such as number of modalities used to view pornography. Future research should continue this line of inquiry, expanding on the operationalization of sexual scripts and pornography use, to strengthen these findings and better illuminate the theoretical understanding of the relationship between pornography use and sexual coercion.
900MHz 1H-/13C-NMR analysis of 2-hydroxyglutarate and other brain metabolites in human brain tumor tissue extracts

Purpose To perform in vitro high-resolution 900 MHz magnetic resonance spectroscopy (NMR) analysis of human brain tumor tissue extracts and analyze for the oncometabolite 2-hydroxyglutarate (2HG) and other brain metabolites, not only for 1H but also for 13C with indirect detection by heteronuclear single quantum correlation (HSQC). Material and methods Four surgically removed human brain tumor tissue samples were used for extraction and preparation of NMR samples. These tissue samples were extracted with 4% perchloric acid and chloroform, freeze-dried, then dissolved into 0.28 mL of deuterium oxide (D2O, 99.9 atom % deuterium) containing 0.025 wt % sodium 3-(trimethylsilyl)propionate-2,2,3,3-d4 (TSP). All samples were adjusted to pH range of 6.9–7.1 before finally transferred to 5 mm Shigemi™ NMR microtube. NMR experiments were performed on Bruker DRX 900 MHz spectrometer with 1H/13C/15N Cryo-probe™ with Z-gradient, without further temperature control for the samples. All chemical shift values were presented relative to TSP at 0.00 ppm for both 1H and 13C. 1H 1D, 1H-13C HSQC, 1H-1H correlation spectroscopy (COSY) and 1H-13C heteronuclear multiple bond correlation (HMBC) spectra were acquired and analyzed. Results 2-hydroxyglutarate, an oncometabolite associated with gliomas with IDH mutations, was successfully detected and assigned by both 1H-13C HSQC and 1H-1H COSY experiments as well as 1H 1D experiments in two of the tissue samples. In particular, to our knowledge this work shows the first example of detecting 900 MHz 13C-NMR spectral lines of 2-hydroxyglutarate in human brain tumor tissue samples. In addition to the oncometabolite 2-hydroxyglutarate, at least 42 more metabolites were identified from our series of NMR experiment. Conclusion The detection of 2-hydroxyglutarate and other metabolites can be facilitated by homonuclear and heteronuclear two-dimensional 900 MHz NMR spectroscopy even in case of real tumor tissue sample extracts without physical separation of metabolites.
Quantification of the Posterior Cornea Using Swept Source Optical Coherence Tomography

Purpose We define optical coherence tomography (OCT) measurement parameters of the corneal endothelium/Descemet's membrane (DM) complex and peripheral transition zone (TZ) and describe these measurements in an ethnically Chinese population. Methods OCT images of the anterior segment and iridocorneal angle were obtained from 129 healthy Chinese subjects (129 eyes), aged 40 to 81 years. The scleral spur (SS) and Schwalbe's line (SL) were identified in each image. Endothelium/DM diameter, referred to as endothelial arc length (EAL), is the SL-to-SL distance. The SS-to-SL distance encompasses the TZ and trabecular meshwork (TM). Since the TZ cannot be visualized by OCT, a ratio of TZ-to-TZ+TM width was calculated from scanning electron microscopy (SEM) images obtained from 5 cadaveric corneas. The SS-to-SL distance was multiplied by this ratio to approximate in vivo TZ width. Results From SEM measurements, the relationship TZ = 0.20*(TZ+TM) was determined. From OCT measurements, mean EAL was 12.15 ± 0.58 mm and mean TZ width was 156 ± 20 μm. For eyes with horizontal and vertical images, vertical EAL was significantly greater than horizontal EAL (P = 0.03). Conclusions Corneal endothelium/DM diameter and TZ width can be obtained from OCT images. Although only combined TZ+TM is visualized on OCT, TZ width can be reasonably approximated. Translational Relevance Emerging procedures, like endothelial cell injection and DM transplantation (DMT), require accurate measurements of endothelium/DM size for preoperative planning. Size of the TZ, which may contain progenitor cells, also could contribute to endothelial regeneration in these procedures.
Epicardial adipose tissue volume is associated with non-alcoholic fatty liver disease and cardiovascular risk factors in the general population

Background Epicardial adipose tissue (EAT) is considered an important source of bioactive molecules that can influence coronary arteries directly and is related to the concurrent presence of both obstructive coronary stenosis and myocardial ischemia independently. Non-alcoholic fatty liver disease (NAFLD) has become an emergent health problem worldwide. Aim This cross-sectional study aimed to address the relationship between the volume of EAT and NAFLD and other cardiovascular risk factors in the general population. Materials and methods In this study, we selected a total of 2,238 participants aged at least 40 years from the Jidong community in Tangshan, China. The 64-slice CT was used to survey the volume of EAT and liver ultrasonography was used for the diagnosis of NAFLD. The study cohorts were compared according to EAT volume. Results Cardiovascular risk factors, such as coronary artery calcium score, carotid intima-media thickness, NAFLD, and ideal cardiovascular health metrics were also found to be related to EAT. In multivariate logistic regression analysis, NAFLD groups showed significant association with higher EAT volume, after correcting for main cardiovascular disease risk factors (OR [95% CI], 1.407 [1.117, 1.773]). Conclusion Our findings in a general community population provide evidence that EAT is strongly associated with NAFLD and other cardiovascular risk factors.
Uncoiling CNLs: Structure/Function Approaches to Understanding CC Domain Function in Plant NLRs

Abstract Plant nucleotide-binding leucine-rich repeat receptors (NLRs) are intracellular pathogen receptors whose N-terminal domains are integral to signal transduction after perception of a pathogen-derived effector protein. The two major plant NLR classes are defined by the presence of either a Toll/interleukin-1 receptor (TIR) or a coiled-coil (CC) domain at their N-terminus (TNLs and CNLs). Our knowledge of how CC domains function in plant CNLs lags behind that of how TIR domains function in plant TNLs. CNLs are the most abundant class of NLRs in monocotyledonous plants, and further research is required to understand the molecular mechanisms of how these domains contribute to disease resistance in cereal crops. Previous studies of CC domains have revealed functional diversity, making categorization difficult, which in turn makes experimental design for assaying function challenging. In this review, we summarize the current understanding of CC domain function in plant CNLs, highlighting the differences in modes of action and structure. To aid experimental design in exploring CC domain function, we present a ‘best-practice’ guide to designing constructs through use of sequence and secondary structure comparisons and discuss the relevant assays for investigating CC domain function. Finally, we discuss whether using homology modeling is useful to describe putative CC domain function in CNLs through parallels with the functions of previously characterized helical adaptor proteins.
Comparison of Health, Development, Maternal Bonding, and Poverty Among Children Born After Denial of Abortion vs After Pregnancies Subsequent to an Abortion

Importance Evidence indicates that there are potential health, development, and maternal bonding consequences for children born from unwanted pregnancies. Objective To examine the association of women receiving or being denied a wanted abortion with their children’s health and well-being. Design, Setting, and Participants A 5-year longitudinal observational study with a quasi-experimental design conducted between January 18, 2008, and January 25, 2016, examined women who received abortions just under the gestational age limit of 30 abortion facilities across the United States and women who were denied abortion just beyond the gestational age limit in these facilities. Analyses compared the children of 146 women who were denied an abortion (index children) with children born to 182 women who received an abortion and had a subsequent child within 5 years (subsequent children). Interview-to-interview retention averaged 94.5% (6895 of 7293) across the 11 semi-annual interviews. Exposures Being born after denial of abortion vs after a new pregnancy subsequent to an abortion. Main Outcomes and Measures Perinatal outcomes and child health, child development, maternal bonding, socioeconomics, and household structure. Results This study included 328 women who had children during the study period (mean [SD] age at study recruitment, 23.7 [4.9] years). There were no differences by study group in consent to participate in the study, completion of first interview, or continuation in the study. Among the 328 children in the study (146 index children and 182 subsequent children), there were 163 girls and 165 boys. Perinatal and child health outcomes were not different between subsequent and index children, and there was no clear pattern of delayed child development. However, mixed-effects models adjusting for clustered recruitment and multiple observations per child revealed that poor maternal bonding was more common for index children compared with subsequent children (9% vs 3%; adjusted odds ratio, 5.14; 95% CI, 1.48-17.85). Index children lived in households with lower incomes relative to the federal poverty level than did subsequent children (101% vs 132% of federal poverty level; adjusted regression coefficient, –0.31; 95% CI, –0.52 to –0.10), and were more likely to live in households without enough money to pay for basic living expenses (72% vs 55%; adjusted odds ratio, 5.16; 95% CI, 2.34-11.40). Conclusions and Relevance These findings suggest that access to abortion enables women to choose to have children at a time when they have more financial and emotional resources to devote to their children.
Metabolomic alterations and chromosomal instability status in gastric cancer

AIM To explore the correlation of metabolomics profiles of gastric cancer (GC) with its chromosomal instability (CIN) status. METHODS Nineteen GC patients were classified as CIN and non-CIN type by The Cancer Genome Atlas Research Group system, based on 409 oncogenes and tumor suppressor genes sequenced. The aqueous metabolites of the GC tumor and its surrounding adjacent healthy tissues were identified through liquid chromatography-mass spectrometry. Groups were compared by defining variable importance in projection score of > 1.2, a fold change value or its reciprocal of > 1.2, and a P value of < 0.05 as a significant difference. RESULTS In total, twelve men and seven women were enrolled, with a median age of 66 years (range, 47-87 years). The numbers of gene alterations in the CIN GC group were significantly higher than those in the non-CIN GC (32-218 vs 2-17; P < 0.0005). Compared with the adjacent healthy tissues, GC tumors demonstrated significantly higher aspartic acid, citicoline, glutamic acid, oxidized glutathione, succinyladenosine, and uridine diphosphate-N-acetylglucosamine levels, but significantly lower butyrylcarnitine, glutathione hydroxyhexanoycarnitine, inosinic acid, isovalerylcarnitine, and threonine levels (all P < 0.05). CIN tumors contained significantly higher phosphocholine and uridine 5’-monophosphate levels but significantly lower beta-citryl-L-glutamic acid levels than did non-CIN tumors (all P < 0.05). CIN GC tumors demonstrated additional altered pathways involving alanine, aspartate, and glutamate metabolism, glyoxylate and dicarboxylate metabolism, histidine metabolism, and phenylalanine, tyrosine, and tryptophan biosynthesis. CONCLUSION Metabolomic profiles of GC tumors and the adjacent healthy tissue are distinct, and the CIN status is associated with downstream metabolic alterations in GC.
The relative importance of dissatisfaction, overvaluation and preoccupation with weight and shape for predicting onset of disordered eating behaviors and depressive symptoms over 15 years

OBJECTIVE The aim of this study was to examine the relative importance of dissatisfaction, overvaluation, and preoccupation with body weight and shape in predicting increases in disordered eating behaviors and depressive symptoms from adolescence through to early adulthood. METHOD The study involved 1,830 participants (60% female) who completed the Project EAT survey during adolescence (mean age = 14.90 years, SD = 1.65 years) and again, 15 years later, in early adulthood. Participants provided assessments of dissatisfaction, overvaluation and preoccupation with weight and shape, as well as disordered eating and depressive symptoms at both time points. RESULTS The three aspects of body image had distinct patterns of association with the outcomes both concurrently and longitudinally. Dissatisfaction predicted depressive symptoms as well as a wide range of disordered eating outcomes, including dieting, unhealthy weight control behaviors (UWCBs), and binge eating, particularly in female participants. Preoccupation was associated with all of these disordered eating behaviors (but not with depressive symptoms) and was notably the strongest predictor of dieting and UWCBs in female participants. Overvaluation was associated with both disordered eating and depressive symptoms, although typically was a less potent predictor of difficulties than the other aspects of body image. DISCUSSION Dissatisfaction, overvaluation, and preoccupation are related but make distinct contributions to clinically significant outcomes. Models of eating disorders should move beyond focusing exclusively on dissatisfaction or overvaluation toward a broader conceptualisation of body image. Findings from this study particularly suggest the importance of considering preoccupation with weight and shape.
Caenorhabditis elegans ced-3 Caspase Is Required for Asymmetric Divisions That Generate Cells Programmed To Die

Caspases have functions other than in apoptosis. Here, we report that Caenorhabditis elegans CED-3 caspase regulates asymmetric cell division. Many of the 131 cells that are “programmed” to die during C. elegans development are the smaller daughter of a neuroblast that divides asymmetrically by size and fate. We have previously shown that CED-3 caspase is activated in such neuroblasts, and that before neuroblast division, a gradient of CED-3 caspase activity is formed in a ced-1 MEGF10 (multiple EGF-like domains 10)-dependent manner. This results in the nonrandom segregation of active CED-3 caspase or “apoptotic potential” into the smaller daughter. We now show that CED-3 caspase is necessary for the ability of neuroblasts to divide asymmetrically by size. In addition, we provide evidence that a pig-1 MELK (maternal embryonic leucine zipper kinase)-dependent reciprocal gradient of “mitotic potential” is formed in the QL.p neuroblast, and that CED-3 caspase antagonizes this mitotic potential. Based on these findings, we propose that CED-3 caspase plays a critical role in the asymmetric division by size and fate of neuroblasts, and that this contributes to the reproducibility and robustness with which the smaller daughter cell is produced and adopts the apoptotic fate. Finally, the function of CED-3 caspase in this context is dependent on its activation through the conserved egl-1 BH3-only, ced-9 Bcl-2, and ced-4 Apaf-1 pathway. In mammals, caspases affect various aspects of stem cell lineages. We speculate that the new nonapoptotic function of C. elegans CED-3 caspase in asymmetric neuroblast division is relevant to the function(s) of mammalian caspases in stem cells.
Automated Speech Act Categorization of Chat Utterances in Virtual Internships

This work is a step towards full automation of auto-mentoring processes in multi-player online environments such as virtual internships. We focus on automatically identifying speaker’s intentions, i.e. the speech acts of chat utterances, in such virtual internships. Particularly, we explore several machine learning methods to categorize speech acts, with promising results. A novel approach based on pre-training a neural network on a large set of (and noisy) labeled data and then on expert-labeled data led to best results. The proposed meth-ods can help understand patterns of conversations among players in virtual internships which in turn could inform re-ﬁnements of the design of such learning environments and ultimately the development of virtual mentors that would be able to monitor and scaﬀold students’ learning, i.e., the acquisition of speciﬁc professional skills in this case.
Differences in motor cortical control of the soleus and tibialis anterior

ABSTRACT The tibialis anterior (TA) and the soleus (SOL) are ankle joint muscles with functionally very different tasks. Thus, differences in motor cortical control between the TA and the SOL have been debated. This study compared the activity of the primary motor cortex during dynamic plantarflexions and dorsiflexions and compared this with measures obtained during rest. Single- and paired-pulse transcranial magnetic stimulations known as short-interval intracortical inhibition (SICI) were applied to the cortical representation of either the SOL or the TA muscle. The results show that the range of SICI from rest to activity is significantly greater in the TA than in the SOL. Furthermore, when the TA acts as the agonist during dorsiflexions of the ankle, SICI is almost absent (2.9%). When acting as the antagonist during plantarflexions, intracortical inhibition is significantly increased (28.7%). This task-specific modulation is far less pronounced in the SOL, which displayed higher levels of SICI when acting as the agonist (10.9%) during plantarflexion, but there was no significant inhibition (6.5%) as the antagonist during dorsiflexion. Furthermore, the cortical silent period (CSP) during plantarflexions was significantly longer in the SOL than in the TA during dorsiflexions, accompanied by a greater corticospinal excitability in the TA. Thus, cortical control considerably differs between the SOL and the TA in a way that inhibitory cortical control (SICI and CSP) of the TA is task-specifically adapted in a broader range of movements, whereas inhibition in the SOL muscle is less specific and more limited in its magnitude of modulation. Summary: Investigation of differences in the cortical control of the soleus and tibialis anterior muscles highlights profound differences during rest as well as during activity.