Miracle-dz/UniFAR-FTUs huggingface dataset:
Myocarditis after BNT162b2 mRNA SARS-CoV-2 vaccine: low incidence and mild severity

• Two papers reported retrospective data on cases of presumed myocarditis that were detected after receipt of the BNT162b2 messenger RNA (mRNA) vaccine (Pfizer–BioNTech) in Israel.Witberg et al. searched the database of Clalit Health Services, the largest Healthcare Organization (HCO) in Israel, for diagnoses of myocarditis in patients who had received at least one dose of the BNT162b2 mRNA vaccine, from December 2020 to May 2021. Mevorach et al. reviewed data from medical records obtained from the Israeli Ministry of Health regarding hospitalized patients with suspected myocarditis among vaccinated persons, when compared with unvaccinated controls, from December 2020 to May 2021. • Witberg et al. identified 54 cases that fulfilled the definition of myocarditis used by the Centers for Disease Control and Prevention (CDC) among . 2.5 million vaccinated persons listed in the database of HCO. Among the patients with myocarditis, 37 (69%) were diagnosed 3–5 days after the second vaccine dose. The overall estimated incidence of myocarditis up to 42 days after at least one dose of vaccine was 2.13 cases per 100 000 persons [95% confidence interval (CI): 1.6–2.7]. The highest incidence was among male patients aged between 16 and 29 years (10.7 cases per 100 000 persons; 95% CI: 6.9–14.5). Most cases of myocarditis were mild (76%) or moderate (22%) in severity; one case was fulminant. Patients who showed left ventricular dysfunction on admission (29%) had normalized left ventricular function at follow-up (median 83 days). • According to Mevorach et al., there were 136 definite or probable cases of myocarditis, based on the Brighton Collaboration definition, reported during the surveillance of 5.1 million persons receiving two doses of the BNT162b2 mRNA vaccine. Of these, 117 (86%) presented after the second dose and 81% of them were hospitalized within 7 days from vaccination. These findings were mostly referred to the first week after the second vaccine dose as the main risk window. In males, myocarditis had an incidence of 0.6 cases per 100 000 people within 21 days after the first dose and 3.8 cases per 100 000 people within 21 days after the second dose. The incidence increased to 1.3 and 15.1 per 100 000 people after the first and second doses, respectively, in teenager/boys aged 16–19 years. When compared with the incidence expected on historical data (2017–19), the standardized incidence ratio was 5.3 (95% CI: 4.5–6.4) and was the highest after the second dose in male recipients aged between 16 and 19 years (13.6; 95% CI: 9.3–19.2). The rate ratio for myocarditis 30 days after the second vaccine dose when compared with unvaccinated persons was 2.4 (95% CI: 1.1–5.0), and the highest rate was again among male recipients between 16 and 19 years (8.9; 95% CI: 4.5–17.83), with a ratio of 1 in 6637. Among these presumed cases, 95% of the patients had a benign, self-resolving course, but one patient died.
Molecular Detection of Genetic Susceptibility to Bladder Cancer in Egyptian Patients

Objective: Genome-wide association studies (GWAS) have identified a number of genetic variants associated with the susceptibility of bladder cancer (BC) in European and Chinese populations. Here, we assessed the association of two of these variants, rs9642880 and rs710521 in an Egyptian patients and also examined the expression of c-Myc.The basis was due to the absence of studies on Egyptian patients to determine the association between rs9642880& rs710521 and bladder cancer risk, particularly due to the known role of the variant (rs9642880) in the Progression and development of bladder cancer. Methods: Urine samples were collected from onehundred and fiftybladder cancer patients under particular standards and fifty healthy controls. Genomic DNA was extracted, rs9642880 G>T and rs710521 A>G polymorphisms were amplified, assessed via restriction fragment length polymorphism(RFLP) and sequenced. Urine retrieved results were compared to the histopathological diagnosis of tissue biopsies and to the results of C-Myc immunohistochemistry. Data were statistically analyzed using Microsoft Excel 2016, association between significant genotypes of the two studied variables and bladder cancer risk was performed. Results: We found that the TT genotype of rs9642880 G>T was strongly associated with the risk of bladder cancer, andfor rs710521 A>G, AG genotype was also identified to has an association with bladder cancer risk.All 150 tumor sections showed positive immunoreactivity for c-Myc in the nucleus and the cytoplasm. Conclusion: Identifying the association to risk of bladder cancer using genetic analysis will help in the early detection of the disease.
ϵ-Approximation of Adaptive Leaning Rate Optimization Algorithms for Constrained Nonconvex Stochastic Optimization

This brief considers constrained nonconvex stochastic finite-sum and online optimization in deep neural networks. Adaptive-learning-rate optimization algorithms (ALROAs), such as Adam, AMSGrad, and their variants, have widely been used for these optimizations because they are powerful and useful in theory and practice. Here, it is shown that the ALROAs are <inline-formula> <tex-math notation="LaTeX">$\epsilon $ </tex-math></inline-formula>-approximations for these optimizations. We provide the learning rates, mini-batch sizes, number of iterations, and stochastic gradient complexity with which to achieve <inline-formula> <tex-math notation="LaTeX">$\epsilon $ </tex-math></inline-formula>-approximations of the algorithms.
Continuous Saline Bladder Irrigation in Reducing Recurrence and Progression When Compared to Immediate Mitomycin- C Instillation Post- Resection of Bladder Tumor: A Short Communication

Introduction: Intravesical chemotherapy instillation by mitomycin - C (MMC) immediately after transurethral resection of bladder tumor (TURBT), although effective in reducing the incidence of non- muscle invasive bladder cancer (NMIBC) recurrence, can result in non desirable effects like bladder irritation and hematuria . Continuous bladder irrigation with saline post resection has been studied as an alternative. In our study we compare the rates of NMIBC recurrence and progression in patients who were treated with either MMC or CSBI immediately after tumor resection. Methods: We retrospectively reviewed the medical records of patients with NMIBC at our institution in Jordan university hospital in the period between 2015-2019. Postoperative instillation of MMC or CSBI for four hours was recorded. Follow up of the patients for recurrence or progression in the first 2 years after diagnosis was recorded and compared for both groups. Results: One hundred nineteen patients met inclusion criteria. Fifty four patients received MMC and 65 patients received CSBI immediately post TURBT. Kaplan–Meieranalysis for recurrence- free survival and progression- free survival didn’t show a significant difference between both groups with P- value 0.88 and 0.14 respectively. Conclusion: Postoperative CSBI for four hours following tumor resection is equivalent to immediate postoperative MMC instillation for NMIBC in terms of recurrence or progression rates with fewer side effects . However further research is needed in this field .
Fabry disease – a multisystemic disease with gastrointestinal manifestations

ABSTRACT Nonspecific gastrointestinal (GI) symptoms, such as postprandial cramping pain, diarrhea, nausea and vomiting are typical symptoms for irritable bowel syndrome or inflammatory bowel disease, but may also be the first symptoms of Fabry disease (FD). This review focus on GI manifestations in FD, by providing an overview of symptoms, a proper diagnosis, an appropriate management by FD-specific and concomitant medications and lifestyle interventions. We provide comprehensive literature-based data combined with personal experience in the management of FD patients. Since FD is rare and the clinical phenotype is heterogeneous, affected patients are often misdiagnosed. Consequently, physicians should consider FD as a possible differential diagnosis when assessing unspecific GI symptoms. Improved diagnostic tools, such as a modified GI symptom assessment scale can facilitate the diagnosis of FD in patients with GI symptoms of unknown cause and thus enable the timely initiation of a disease-specific therapy. Expansive intravenous enzyme replacement therapy with α-galactosidase A or oral chaperone therapy for patients with amenable mutations improve the disease burden including GI symptoms, but a timely start of therapy is crucial for the prognosis. A special diet low in fermentable oligosaccharides, disaccharides, monosaccharides and polyols (FODMAP) or pro- and prebiotics might improve FD-typical GI symptoms. Furthermore, preliminary success was reported with the oral administration of α-galactosidase A. In addition to a timely initiation of FD-specific therapy, affected patients with GI symptoms might benefit from a FODMAP-low diet, pro- and prebiotics and/or low-cost oral substitution with AGAL to support digestion and reduce dysbiosis.
Valence opponency in peripheral olfactory processing

Significance Are olfactory receptor neurons (ORNs) arranged in a functionally meaningful manner to facilitate information processing? Here, we address this long-standing question by uncovering a valence map in the olfactory periphery of Drosophila. Within sensory hairs, we find that neighboring ORNs antagonistically regulate behaviors: stereotypically compartmentalized large- and small-spike ORNs, recognized by their characteristic spike amplitudes, either promote or inhibit the same type of behavior, respectively. Systematic optogenetic and thermogenetic assays—covering the majority of antennal sensilla—highlight a valence-opponent organization. Critically, odor-mixture behavioral experiments show that lateral inhibition between antagonistic ORNs mediates robust behavioral decisions in response to countervailing cues. Computational modeling predicts that the robustness of behavioral output depends on odor mixture ratios. A hallmark of complex sensory systems is the organization of neurons into functionally meaningful maps, which allow for comparison and contrast of parallel inputs via lateral inhibition. However, it is unclear whether such a map exists in olfaction. Here, we address this question by determining the organizing principle underlying the stereotyped pairing of olfactory receptor neurons (ORNs) in Drosophila sensory hairs, wherein compartmentalized neurons inhibit each other via ephaptic coupling. Systematic behavioral assays reveal that most paired ORNs antagonistically regulate the same type of behavior. Such valence opponency is relevant in critical behavioral contexts including place preference, egg laying, and courtship. Odor-mixture experiments show that ephaptic inhibition provides a peripheral means for evaluating and shaping countervailing cues relayed to higher brain centers. Furthermore, computational modeling suggests that this organization likely contributes to processing ratio information in odor mixtures. This olfactory valence map may have evolved to swiftly process ethologically meaningful odor blends without involving costly synaptic computation.
Biochemistry shapes growth kinetics of nitrifiers and defines their activity under specific environmental conditions

Is it possible to find trends between the parameters that define microbial growth to help us explain the vast microbial diversity? Through an extensive database of kinetic parameters of nitrifiers, we analyzed if the dominance of specific populations of nitrifiers could be predicted and explained. We concluded that, in general, higher growth yield (YXS) and ammonia affinity (a0NH3) and lower growth rate (µmax) are observed for ammonia‐oxidizing archaea (AOA) than bacteria (AOB), which would explain their considered dominance in oligotrophic environments. However, comammox (CMX), with the maximum energy harvest per mole of ammonia, and some AOB, have higher a0NH3 and lower µmax than some AOA. Although we were able to correlate the presence of specific terminal oxidases with observed oxygen affinities (a0O2) for nitrite‐oxidizing bacteria (NOB), that correlation was not observed for AOB. Moreover, the presumed dominance of AOB over NOB in O2‐limiting environments is discussed. Additionally, lower statistical variance of a0O2 values than for ammonia and nitrite affinities was observed, suggesting nitrogen limitation as a stronger selective pressure. Overall, specific growth strategies within nitrifying groups were not identified through the reported kinetic parameters, which might suggest that mostly, fundamental differences in biochemistry are responsible for underlying kinetic parameters.
Cortical and Subcortical Dysmetabolism Are Dynamic Markers of Clinical Disability and Course in Anti-LGI1 Encephalitis

Background and Objectives This [18F]fluorodeoxyglucose (FDG) PET study evaluates the accuracy of semiquantitative measurement of putaminal hypermetabolism in identifying anti–leucine-rich, glioma–inactivated-1 (LGI1) protein autoimmune encephalitis (AE). In addition, the extent of brain dysmetabolism, their association with clinical outcomes, and longitudinal metabolic changes after immunotherapy in LGI1-AE are examined. Methods FDG-PET scans from 49 age-matched and sex-matched subjects (13 in LGI1-AE group, 15 in non–LGI1-AE group, 11 with Alzheimer disease [AD], and 10 negative controls [NCs]) and follow-up scans from 8 patients with LGI1 AE on a median 6 months after immunotherapy were analyzed. Putaminal standardized uptake value ratios (SUVRs) normalized to global brain (P-SUVRg), thalamus (P/Th), and midbrain (P/Mi) were evaluated for diagnostic accuracy. SUVRg was applied for all other analyses. Results P-SUVRg, P/Th, and P/Mi were higher in LGI1-AE group than in non–LGI1-AE group, AD group, and NCs (all p < 0.05). P/Mi and P-SUVRg differentiated LGI1-AE group robustly from other groups (areas under the curve 0.84–0.99). Mediotemporal lobe (MTL) SUVRg was increased in both LGI1-AE and non–LGI1-AE groups when compared with NCs (both p < 0.05). SUVRg was decreased in several frontoparietal regions and increased in pallidum, caudate, pons, olfactory, and inferior occipital gyrus in LGI1-AE group when compared with that in NCs (all p < 0.05). In LGI1-AE group, both MTL and putaminal hypermetabolism were reduced after immunotherapy. Normalization of regional cortical dysmetabolism associated with clinical improvement at the 6- and 20-month follow-up. Discussion Semiquantitative measurement of putaminal hypermetabolism with FDG-PET may be used to distinguish LGI1-AE from other pathologies. Metabolic abnormalities in LGI1-AE extend beyond putamen and MTL into other subcortical and cortical regions. FDG-PET may be used in evaluating disease evolution in LGI1-AE. Classification of Evidence This study provides Class II evidence that semiquantitative measures of putaminal metabolism on PET can differentiate patients with LGI1-AE from patients without LGI1-AE, patients with AD, or NCs.
Association of Estrogen-Related Polygenetic Risk Scores with Breast Cancer and Interactions with Alcohol Intake, Early Menarche, and Nulligravida

Backgrounds: Early menstruation, late menopause, no pregnancy, and genetic factors are known risk factors of the disease, but their effects may differ in Asian and Caucasian women. The purpose of this study was to identify genetic variants of genes related to estrogen signaling in a large city hospital-based cohort and to determine their interactions with lifestyles. Methods: This is a case-control study. Three hundred ninety participants diagnosed with breast cancer were compared with 36,290 controls(no cancer)to explore the genetic variants to influence breast cancer risk. Based on GWAS results, the selected genetic variants were subjected to their interactions by generalized multifactor dimensionality reduction (GMDR) analysis. Results: Early menstruation(OR=1.55), early menopause (OR=1.70), and no experience of pregnancy(OR=2.86) had a positive association with breast cancer risk(P<0.05). The selected polygenetic risk score(PRS) models included four SNPs and seven SNPs: The four-SNP PRS model included CDH13_rs12600325, SMYD3_rs3753686, FGF12_rs2134635, and ESRRB_rs10873289, and in the seven-SNP PRS model, ESR1_ rs2046210, estrogen-related receptor gamma(ESRRG)_rs17043393, and EGFR_ rs6958497 were added into the four-SNP PRS model. Early menstruation, early menopause, and no pregnancy experience interacted with four-SNP PRS. For the participants who had early menstruation and early menopause, high-PRS had an association with a much higher breast cancer risk than the low-PRS in the four-SNP model. However, metabolic parameters, nutrient intakes, and different dietary patterns did not interact with PRS for breast cancer risk. However, alcohol intake interacted with PRS for breast cancer risk (OR=2.33 and 8.07 for mild and moderate alcohol consumption, respectively; P=0.0004). Conclusion: Consideration of age at menarche and menopause, pregnancy experience, and alcohol intake may be required to reduce breast cancer risk in women with a high-PRS of genes related to the estrogen signaling pathway.
HSCT with mismatched unrelated donors: Bone marrow versus peripheral blood stem cells sources in pediatric patients

Allogeneic hematopoietic stem cell transplantation (HSCT) from an unrelated HLA‐mismatched donor (MMUD) is one of the alternatives where an HLA‐matched donor is not found. The aim of this study was to compare bone marrow (BM) versus peripheral blood stem cells (PBSC) as hematopoietic rescue following allogeneic unrelated mismatched stem cell transplantation (MMUD).
Antinociceptive, anxiolytic, and depression‐like effects of hydrogen sulfide, nitric oxide, and carbon monoxide in rats and the role of opioidergic and serotonergic systems in antinociceptive activity

l‐Arginine, a nitric oxide (NO) donor; sodium hydrosulfide (NaHS), a hydrogen sulfide (H2S) donor; and tricarbonyldichlororuthenium(II) dimer (CORM‐2), carbon monoxide (CO) donor, are characterized as bioactive gas mediators that have been researched for their roles in human physiology. This study aimed to compare the effects of these mediators on pain, anxiety, and depression. Ninety‐one adult male Sprague–Dawley rats were used for the experiments. Locomotor activity, elevated plus maze, forced swimming, tail clip, hot plate, and writhing tests were used for the assessments after the administration of l‐arginine (30–100 mg/kg), a NO donor; NaHS (5–10 mg/kg), a H2S donor; and CORM‐2 (5–10 mg/kg), CO donor. Intraperitoneal H2S, NO, malondialdehyde (MDA), glutathione (GSH), and tumor necrosis factor‐α (TNF‐α) levels were determined by enzyme‐linked immunosorbent assay (ELISA). No statistical significance was found in the locomotor activity. NO and CO significantly extended latency at high doses in tail clip test. No significant activity was observed at any dose of all three substances on a hot plate. Both doses of CO and high doses of NO and H2S showed an antinociceptive effect in the writhing test. While the opioidergic system plays a role in the spinal antinociceptive effect of l‐arginine, both serotonergic and opioidergic systems play a role in its peripheral antinociceptive effect. The serotonergic system plays a role in the peripheral antinociceptive effect of CORM‐2. The time spent in open arm increased significantly in all groups an elevated plus maze. High doses of all three substances significantly increased the duration of immobility in the forced swimming test. No statistical significance was observed in MDA, GSH, and TNF‐α levels. High doses of NO and CO showed a spinal antinociceptive effect. Both doses of CO and high doses of NO and H2S showed a peripheral antinociceptive effect. All three agents showed anxiolytic and depression‐like effects.
Design of a Novel Recombinant Multi-Epitope Vaccine against Triple-Negative Breast Cancer

Background: TNBC is determined by the absence of ERBB2, estrogen and progesterone receptors’ expression. Cancer vaccines, as the novel immunotherapy strategies, have emerged as promising tools for treating the advanced stage of TNBC. The aim of this study was to evaluate CEA, MTDH, and MUC-1 proteins as vaccine candidates against TNBC. Methods: In this research, a novel vaccine was designed against TNBC by using different immunoinformatics and bioinformatics approaches. Effective immunodominant epitopes were chosen from three antigenic proteins, namely CEA, MTDH, and MUC-1. Recombinant TLR4 agonists were utilized as an adjuvant to stimulate immune responses. Following the selection of antigens and adjuvants, appropriate linkers were chosen to generate the final recombinant protein. To achieve an excellent 3D model, the best predicted 3D model was required to be refined and validated. To demonstrate whether the vaccine/TLR4 complex is stable or not, we performed docking analysis and dynamic molecular simulation. Result: Immunoinformatics and bioinformatics evaluations of the designed construct demonstrated that this vaccine candidate could effectively be used as a therapeutic armament against TNBC. Conclusion: Bioinformatics studies revealed that the designed vaccine has an acceptable quality. Investigating the effectiveness of this vaccine can be confirmed by supplementary in vitro and in vivo studies.
Path Signature Neural Network of Cortical Features for Prediction of Infant Cognitive Scores

Studies have shown that there is a tight connection between cognition skills and brain morphology during infancy. Nonetheless, it is still a great challenge to predict individual cognitive scores using their brain morphological features, considering issues like the excessive feature dimension, small sample size and missing data. Due to the limited data, a compact but expressive feature set is desirable as it can reduce the dimension and avoid the potential overfitting issue. Therefore, we pioneer the path signature method to further explore the essential hidden dynamic patterns of longitudinal cortical features. To form a hierarchical and more informative temporal representation, in this work, a novel cortical feature based path signature neural network (CF-PSNet) is proposed with stacked differentiable temporal path signature layers for prediction of individual cognitive scores. By introducing the existence embedding in path generation, we can improve the robustness against the missing data. Benefiting from the global temporal receptive field of CF-PSNet, characteristics consisted in the existing data can be fully leveraged. Further, as there is no need for the whole brain to work for a certain cognitive ability, a top ${K}$ selection module is used to select the most influential brain regions, decreasing the model size and the risk of overfitting. Extensive experiments are conducted on an in-house longitudinal infant dataset within 9 time points. By comparing with several recent algorithms, we illustrate the state-of-the-art performance of our CF-PSNet (i.e., root mean square error of 0.027 with the time latency of 518 milliseconds for each sample).