bluuebunny/crossref_metadata_2025_split huggingface dataset:
ER-associated CTRP1 regulates mitochondrial fission via interaction with DRP1
Authors: Sonn Seong Keun , Seo Seungwoon , Yang Jaemoon , Oh Ki Sook , Chen Hsiuchen , Chan David C. , Rhee Kunsoo , Lee Kyung S. , Yang Young , Oh Goo Taeg 
Published: November 2021

AbstractC1q/TNF-related protein 1 (CTRP1) is a CTRP family member that has collagenous and globular C1q-like domains. The secreted form of CTRP1 is known to be associated with cardiovascular and metabolic diseases, but its cellular roles have not yet been elucidated. Here, we showed that cytosolic CTRP1 localizes to the endoplasmic reticulum (ER) membrane and that knockout or depletion of CTRP1 leads to mitochondrial fission defects, as demonstrated by mitochondrial elongation. Mitochondrial fission events are known to occur through an interaction between mitochondria and the ER, but we do not know whether the ER and/or its associated proteins participate directly in the entire mitochondrial fission event. Interestingly, we herein showed that ablation of CTRP1 suppresses the recruitment of DRP1 to mitochondria and provided evidence suggesting that the ER–mitochondrion interaction is required for the proper regulation of mitochondrial morphology. We further report that CTRP1 inactivation-induced mitochondrial fission defects induce apoptotic resistance and neuronal degeneration, which are also associated with ablation of DRP1. These results demonstrate for the first time that cytosolic CTRP1 is an ER transmembrane protein that acts as a key regulator of mitochondrial fission, providing new insight into the etiology of metabolic and neurodegenerative disorders.
O-GlcNAcylation in health and neurodegenerative diseases
Authors: Lee Byeong Eun , Suh Pann-Ghill , Kim Jae-Ick 
Published: November 2021

AbstractO-GlcNAcylation is a posttranslational modification that adds O-linked β-N-acetylglucosamine (O-GlcNAc) to serine or threonine residues of many proteins. This protein modification interacts with key cellular pathways involved in transcription, translation, and proteostasis. Although ubiquitous throughout the body, O-GlcNAc is particularly abundant in the brain, and various proteins commonly found at synapses are O-GlcNAcylated. Recent studies have demonstrated that the modulation of O-GlcNAc in the brain alters synaptic and neuronal functions. Furthermore, altered brain O-GlcNAcylation is associated with either the etiology or pathology of numerous neurodegenerative diseases, while the manipulation of O-GlcNAc exerts neuroprotective effects against these diseases. Although the detailed molecular mechanisms underlying the functional roles of O-GlcNAcylation in the brain remain unclear, O-GlcNAcylation is critical for regulating diverse neural functions, and its levels change during normal and pathological aging. In this review, we will highlight the functional importance of O-GlcNAcylation in the brain and neurodegenerative diseases.
Subcellular localization of nucleocapsid protein of SFTSV and its assembly into the ribonucleoprotein complex with L protein and viral RNA
Authors: Lokupathirage Sithumini M. W. , Tsuda Yoshimi , Ikegame Kodai , Noda Kisho , Muthusinghe Devinda S. , Kozawa Fumiya , Manzoor Rashid , Shimizu Kenta , Yoshimatsu Kumiko 
Published: November 2021

AbstractSevere fever with thrombocytopenia syndrome virus (SFTSV) is an emerging bunyavirus that causes novel zoonotic diseases in Asian countries including China, Japan, South Korea, and Vietnam. In phleboviruses, viral proteins play a critical role in viral particle formation inside the host cells. Viral glycoproteins (GPs) and RNA-dependent RNA polymerase (RdRp) are colocalized in the Golgi apparatus and endoplasmic reticulum-Golgi intermediate compartment (ERGIC). The nucleocapsid (N) protein was widely expressed in the cytoplasm, even in cells coexpressing GP. However, the role of SFTSV N protein remains unclear. The subcellular localization of SFTSV structural proteins was investigated using a confocal microscope. Subsequently, minigenome and immunoprecipitation assays were carried out. The N protein interacts with viral RNA (vRNA) and further shows translational activity with RdRp which is L protein and localized in the ERGIC and Golgi apparatus when co-expressed with GP. On the other hand, mutant N protein did not interact with vRNA either localized in the ERGIC or Golgi apparatus. The interaction between the N protein of SFTSV and vRNA is important for the localization of viral proteins and viral assembly. This study provides useful insights into the life cycle of SFTSV, which will lead to the detection of antiviral targets.
Investigations concerning the impact of consumption of hot beverages on acute cytotoxic and genotoxic effects in oral mucosa cells
Authors: Ernst Benjamin , Setayesh Tahereh , Nersesyan Armen , Kundi Michael , Fenech Michael , Bolognesi Claudia , Mišík Miroslav , Ghane Masood , Mousavi Seyed Fazlollah , Knasmüller Siegfried 
Published: November 2021

AbstractConsumption of very hot beverages and foods increases the incidence of oral and esophageal cancer but the mechanisms are not known and the critical temperature is not well defined. We realized a study with exfoliated cells from the oral cavity of individuals (n = 73) that live in an area in Iran which has the highest incidence of EC worldwide. Consumption of beverages at very high temperatures is a characteristic feature of this population. We analyzed biomarkers which are (i) indicative for genetic instability (micronuclei that are formed as a consequence of chromosomal damage, nuclear buds which are a consequence of gene amplifications and binucleated cells which reflect mitotic disturbances), (ii) markers that reflect cytotoxic effects (condensed chromatin, karyorrhectic, karyolitic and pyknotic cells), (iii) furthermore, we determined the number of basal cells which is indicative for the regenerative capacity of the buccal mucosa. The impact of the drinking temperature on the frequencies of these parameters was monitored with thermometers. We found no evidence for induction of genetic damage but an increase of the cytotoxic effects with the temperature was evident. This effect was paralleled by an increase of the cell division rate of the mucosa which was observed when the temperature exceeded 60 °C. Our findings indicate that cancer in the upper digestive tract in drinkers of very hot beverages is not caused by damage of the genetic material but by an increase of the cell division rate as a consequence of cytotoxic effects which take place at temperatures over 60 °C. It is known from earlier experiments with rodents that increased cell divisions lead to tumor promotion in the esophagus. Our findings provide a mechanistic explanation and indicate that increased cancer risks can be expected when the drinking temperature of beverages exceeds 60 °C.
Depletion of essential fatty acids in muscle is associated with shorter survival of cancer patients undergoing surgery-preliminary report
Authors: Bhullar Amritpal S. , Rivas-Serna Irma Magaly , Anoveros-Barrera Ana , Dunichand-Hoedl Abha , Bigam David , Khadaroo Rachel G. , McMullen Todd , Bathe Oliver , Putman Charles T. , Baracos Vickie , Clandinin Michael T. , Mazurak Vera C. 
Published: November 2021

AbstractEmerging studies are reporting associations between skeletal muscle abnormalities and survival in cancer patients. Cancer prognosis is associated with depletion of essential fatty acids in erythrocytes and plasma in humans. However the relationship between skeletal muscle membrane fatty acid composition and survival is unknown. This study investigates the relationship between fatty acid content of phospholipids in skeletal muscle and survival in cancer patients. Rectus abdominis biopsies were collected during cancer surgery from 35 patients diagnosed with cancer. Thin-layer and gas chromatography were used for quantification of phospholipid fatty acids. Cutpoints for survival were defined using optimal stratification. Median survival was between 450 and 500 days when patients had arachidonic acid (AA) eicosapentaenoic acid (EPA) and docosahexaenoic acid (DHA) in muscle phospholipid below the cut-point compared to 720–800 days for patients above. Cox regression analysis revealed that low amounts of AA, EPA and DHA are risk factors for death. The risk of death remained significant for AA [HR 3.5 (1.11–10.87), p = 0.03], EPA [HR 3.92 (1.1–14.0), p = 0.04] and DHA [HR 4.08 (1.1–14.6), p = 0.03] when adjusted for sex. Lower amounts of essential fatty acids in skeletal muscle membrane is a predictor of survival in cancer patients. These results warrant investigation to restore bioactive fatty acids in people with cancer.
Direct pixel to pixel principal strain mapping from tagging MRI using end to end deep convolutional neural network (DeepStrain)
Authors: Abd-Elmoniem Khaled Z. , Yassine Inas A. , Metwalli Nader S. , Hamimi Ahmed , Ouwerkerk Ronald , Matta Jatin R. , Wessel Mia , Solomon Michael A. , Elinoff Jason M. , Ghanem Ahmed M. , Gharib Ahmed M. 
Published: November 2021

AbstractRegional soft tissue mechanical strain offers crucial insights into tissue's mechanical function and vital indicators for different related disorders. Tagging magnetic resonance imaging (tMRI) has been the standard method for assessing the mechanical characteristics of organs such as the heart, the liver, and the brain. However, constructing accurate artifact-free pixelwise strain maps at the native resolution of the tagged images has for decades been a challenging unsolved task. In this work, we developed an end-to-end deep-learning framework for pixel-to-pixel mapping of the two-dimensional Eulerian principal strains $$\varvec{{\varepsilon }}_{\boldsymbol{p1}}$$

ε

p
1

and $$\varvec{{\varepsilon }}_{\boldsymbol{p2}}$$

ε

p
2

directly from 1-1 spatial modulation of magnetization (SPAMM) tMRI at native image resolution using convolutional neural network (CNN). Four different deep learning conditional generative adversarial network (cGAN) approaches were examined. Validations were performed using Monte Carlo computational model simulations, and in-vivo datasets, and compared to the harmonic phase (HARP) method, a conventional and validated method for tMRI analysis, with six different filter settings. Principal strain maps of Monte Carlo tMRI simulations with various anatomical, functional, and imaging parameters demonstrate artifact-free solid agreements with the corresponding ground-truth maps. Correlations with the ground-truth strain maps were R = 0.90 and 0.92 for the best-proposed cGAN approach compared to R = 0.12 and 0.73 for the best HARP method for $$\varvec{{\varepsilon }}_{\boldsymbol{p1}}$$

ε

p
1

and $$\varvec{{\varepsilon }}_{\boldsymbol{p2}}$$

ε

p
2

, respectively. The proposed cGAN approach's error was substantially lower than the error in the best HARP method at all strain ranges. In-vivo results are presented for both healthy subjects and patients with cardiac conditions (Pulmonary Hypertension). Strain maps, obtained directly from their corresponding tagged MR images, depict for the first time anatomical, functional, and temporal details at pixelwise native high resolution with unprecedented clarity. This work demonstrates the feasibility of using the deep learning cGAN for direct myocardial and liver Eulerian strain mapping from tMRI at native image resolution with minimal artifacts.
The effects of cow dominance on the use of a mechanical brush
Authors: Foris Borbala , Lecorps Benjamin , Krahn Joseph , Weary Daniel M. , von Keyserlingk Marina A. G. 
Published: November 2021

AbstractAn animal’s social position within a group can influence its ability to perform important behaviours like eating and resting, but little is known about how social position affects the ability to express what are arguably less important but still rewarding behaviors, such as grooming. We set out to assess if dominance measured at the feeder is associated with increased use of a mechanical brush. Over a 2-year period, 161 dry cows were enrolled in a dynamically changing group of 20 individuals with access to a mechanical brush. We determined dominance using agonistic behaviors at the feeder and retrospectively analyzed brush use for the 12 most, and 12 least dominant individuals during the week before calving. Cows that were more dominant at the feeder used the brush more, especially during peak feeding times. Agonistic interactions at the brush did not differ between dominants and subordinates and were not related to brushing duration. These findings indicate that social position, calculated using competition for feed, affects mechanical brush access such that subordinates use the brush less than dominant cows independent of competition or time of day.
A comparative study of auto-contouring softwares in delineation of organs at risk in lung cancer and rectal cancer
Authors: Chen Weijun , Wang Cheng , Zhan Wenming , Jia Yongshi , Ruan Fangfang , Qiu Lingyun , Yang Shuangyan , Li Yucheng 
Published: November 2021

AbstractRadiotherapy requires the target area and the organs at risk to be contoured on the CT image of the patient. During the process of organs-at-Risk (OAR) of the chest and abdomen, the doctor needs to contour at each CT image. The delineations of large and varied shapes are time-consuming and laborious. This study aims to evaluate the results of two automatic contouring softwares on OARs definition of CT images of lung cancer and rectal cancer patients. The CT images of 15 patients with rectal cancer and 15 patients with lung cancer were selected separately, and the organs at risk were manually contoured by experienced physicians as reference structures. And then the same datasets were automatically contoured based on AiContour (version 3.1.8.0, Manufactured by Linking MED, Beijing, China) and Raystation (version 4.7.5.4, Manufactured by Raysearch, Stockholm, Sweden) respectively. Deep learning auto-segmentations and Atlas were respectively performed with AiContour and Raystation. Overlap index (OI), Dice similarity index (DSC) and Volume difference (Dv) were evaluated based on the auto-contours, and independent-sample t-test analysis is applied to the results. The results of deep learning auto-segmentations on OI and DSC were better than that of Atlas with statistical difference. There was no significant difference in Dv between the results of two software. With deep learning auto-segmentations, auto-contouring results of most organs in the chest and abdomen are good, and with slight modification, it can meet the clinical requirements for planning. With Atlas, auto-contouring results in most OAR is not as good as deep learning auto-segmentations, and only the auto-contouring results of some organs can be used clinically after modification.
Entanglement witnesses from mutually unbiased measurements
Authors: Siudzińska Katarzyna , Chruściński Dariusz 
Published: November 2021

AbstractA new family of positive, trace-preserving maps is introduced. It is defined using the mutually unbiased measurements, which generalize the notion of mutual unbiasedness of orthonormal bases. This family allows one to define entanglement witnesses whose indecomposability depends on the characteristics of the associated measurement operators. We provide examples of indecomposable witnesses and compare their entanglement detection properties with the realignment criterion.
The effect of smiling on the perceived age of male and female faces across the lifespan
Authors: Ganel Tzvi , Goodale Melvyn A. 
Published: November 2021

AbstractPrevious research has shown an unintuitive effect of facial expression on perceived age: smiling faces are perceived as older compared to neutral faces of the same people. The aging effect of smiling (AES), which is thought to result from the presence of smile-related wrinkles around the eyes, contradicts the common belief that smiling faces should be perceived as younger, not older. Previous research, however, has focused on faces of young adults, where the absence of inherent, age-related wrinkles and other age signs is offset by the weight of the smile-related wrinkles. In a series of experiments, we tested whether the AES extends to male and female faces in older age groups. We replicated the AES in young adults (20–39) and showed that it disappeared in older adults (60–79) of both genders. For photos of middle-aged adults (40–59), however, AES was found only for male, but not for female faces, who showed fewer and less prominent smile-related wrinkles. The results suggest that a person’s apparent age is perceived in a holistic manner in which age-related cues in the region of the eyes are weighted against age cues in other regions of the face.
Incidence and risk factors of gonococcal urethritis reinfection among Thai male patients in a multicenter, retrospective cohort study
Authors: Meesaeng Monai , Sakboonyarat Boonsub , Thaiwat Supitchaya 
Published: November 2021

AbstractGonococcal urethritis (GU) is the second most common sexually transmitted infection (STI). Epidemiologic studies of the situation of GU reinfection and its related risk factors among patients with a history of GU in Thailand remain somewhat limited. A hospital-based retrospective cohort study was conducted between January 1, 2010 and December 31, 2020 to determine the incidence and risk factors of GU reinfection among male patients visiting in Royal Thai Army (RTA) Hospitals. A total of 2,465 male patients presenting a history of GU was included in this study. In all, 147 (6.0%; 95% CI 5.1–6.9) male patients presented GU reinfection, representing an incidence rate of 1.3 (95% CI 1.1–1.5) per 100 person-years. The independent risk factors for GU reinfection were age < 30 years (AHR 1.7; 95% CI 1.0–2.8), number of sexual partners equal to 2 (AHR 3.4; 95% CI 1.0–11.2), $$\ge$$
≥
3 (AHR 5.6; 95% CI 2.7–11.6), and participants residing in the north (AHR 4.1; 95% CI 2.3–7.5) and northeast regions (AHR 2.1; 95% CI 1.1–3.9). Incidence of GU reinfection among male patients visiting RTA Hospitals was significantly high among younger aged patients, especially in the north and northeast regions. Multiple sex partners played a major role in GU reinfection. Effective STI prevention programs should be provided to alleviate reinfection and its complications.
Plasmodium falciparum pfhrp2 and pfhrp3 gene deletions among patients in the DRC enrolled from 2017 to 2018
Authors: McCaffery Jessica N. , Nace Douglas , Herman Camelia , Singh Balwan , Sompwe Eric Mukomena , Nkoli Papy Mandoko , Ngoyi Dieudonné Mumba , Kahunu Gauthier Mesia , Halsey Eric S. , Rogier Eric 
Published: November 2021

AbstractRapid diagnostic tests (RDTs) detecting histidine-rich protein 2 (HRP2) and HRP3 are widely used throughout sub-Saharan Africa (SSA) to diagnose Plasmodium falciparum malaria. However, multiple SSA countries have reported pfhrp2 and pfhrp3 (pfhrp2/3) gene deletions. Blood samples (n = 1109) collected from patients with P. falciparum infection from six health facilities throughout the Democratic Republic of the Congo (DRC) from March 2017 to January 2018 were evaluated for pfhrp2/3 deletions. Samples were assayed for HRP2, pan-Plasmodium LDH (pLDH) and aldolase (pAldolase) antigens by bead-based multiplex antigen assay. Samples with low HRP2 concentration compared to pLDH and pAldolase antigens were selected for further pfhrp2/3 genotyping PCRs. The majority of blood samples (93.3%, 1035/1109) had high concentrations of the HRP2 antigen. Single deletions of pfhrp2 were identified in 0.27% (3/1109) of screened samples, with one sample from each of the Kapolowe, Mikalayi, and Rutshuru study sites. A pfhrp3 single deletion (0.09%, 1/1109) was found in the Kapolowe site. Dual pfhrp2 and pfhrp3 deletions were not observed. Due to, the low numbers of pfhrp2 deletions and the sporadic locations of these deletions, the use of HRP2-based RDTs appears to still be appropriate for these locations in DRC.
Latency-associated DNA methylation patterns among HIV-1 infected individuals with distinct disease progression courses or antiretroviral virologic response
Authors: Mantovani Nathalia , Defelicibus Alexandre , da Silva Israel Tojal , Cicero Maira Ferreira , Santana Luiz Claudio , Arnold Rafael , de Castro Daniela Funayama , Duro Rodrigo Lopes Sanz , Nishiyama-Jr Milton Yutaka , Junqueira-de-Azevedo Inácio Loiola Meirelles , da Silva Bosco Christiano Maciel , da Silva Duarte Alberto José , Casseb Jorge , de Barros Tenore Simone , Hunter James , Diaz Ricardo Sobhie , Komninakis Shirley Cavalcante Vasconcelos 
Published: November 2021

AbstractDNA methylation is one of the epigenetic modifications that configures gene transcription programs. This study describes the DNA methylation profile of HIV-infected individuals with distinct characteristics related to natural and artificial viremia control. Sheared DNA from circulating mononuclear cells was subjected to target enrichment bisulfite sequencing designed to cover CpG-rich genomic regions. Gene expression was assessed through RNA-seq. Hypermethylation in virologic responders was highly distributed closer to Transcription Start Sites (p-value = 0.03). Hyper and hypomethylation levels within TSS adjacencies varied according to disease progression status (Kruskal–Wallis, p < 0.001), and specific differentially methylated regions associated genes were identified for each group. The lower the promoter methylation, the higher the gene expression in subjects undergoing virologic failure (R = − 0.82, p = 0.00068). Among the inversely correlated genes, those supporting glycolysis and its related pathways were hypomethylated and up-regulated in virologic failures. Disease progression heterogeneity was associated with distinct DNA methylation patterns in terms of rates and distribution. Methylation was associated with the expression of genes sustaining intracellular glucose metabolism in subjects undergoing antiretroviral virologic failure. Our findings highlight that DNA methylation is associated with latency, disease progression, and fundamental cellular processes.
Combining machine learning and conventional statistical approaches for risk factor discovery in a large cohort study
Authors: Madakkatel Iqbal , Zhou Ang , McDonnell Mark D. , Hyppönen Elina 
Published: November 2021

AbstractWe present a simple and efficient hypothesis-free machine learning pipeline for risk factor discovery that accounts for non-linearity and interaction in large biomedical databases with minimal variable pre-processing. In this study, mortality models were built using gradient boosting decision trees (GBDT) and important predictors were identified using a Shapley values-based feature attribution method, SHAP values. Cox models controlled for false discovery rate were used for confounder adjustment, interpretability, and further validation. The pipeline was tested using information from 502,506 UK Biobank participants, aged 37–73 years at recruitment and followed over seven years for mortality registrations. From the 11,639 predictors included in GBDT, 193 potential risk factors had SHAP values ≥ 0.05, passed the correlation test, and were selected for further modelling. Of the total variable importance summed up, 60% was directly health related, and baseline characteristics, sociodemographics, and lifestyle factors each contributed about 10%. Cox models adjusted for baseline characteristics, showed evidence for an association with mortality for 166 out of the 193 predictors. These included mostly well-known risk factors (e.g., age, sex, ethnicity, education, material deprivation, smoking, physical activity, self-rated health, BMI, and many disease outcomes). For 19 predictors we saw evidence for an association in the unadjusted but not adjusted analyses, suggesting bias by confounding. Our GBDT-SHAP pipeline was able to identify relevant predictors ‘hidden’ within thousands of variables, providing an efficient and pragmatic solution for the first stage of hypothesis free risk factor identification.