Miracle-dz/UniFAR-FTUs huggingface dataset:
Angioimmunoblastic T-cell Lymphoma: An Unusual Case in an Octogenarian

Angioimmunoblastic T-cell lymphoma (AITL) is an unusual subtype of mature peripheral T-cell lymphoma originating from the follicular T-helper cells and is often associated with autoimmune disorders. AITL is an aggressive lymphoma, presenting with constitutional symptoms, generalized lymphadenopathy, and hepatosplenomegaly. Immunohistochemistry and biopsy are diagnostic methods. The treatment modalities range from steroids, immunomodulators, and cytotoxic chemotherapy. An 87-year-old female presented to the emergency department with cough, dyspnea, dizziness, night sweats, and unintentional weight loss with multiple discrete swellings over her body for a duration of three days. Her physical exam was significant for tachycardia with dry mucous membranes and generalized lymphadenopathy. However, no hepatosplenomegaly was noted. Laboratory investigations revealed neutrophilic leukocytosis (12.8 K/uL), with elevated inflammatory markers (C-reactive protein of 1.39 mg/dL, sedimentation rate of 86 mm/hour). The biopsy of the cervical lymph node revealed atypical lymphoid infiltrates. Flow cytometry showed CD10+ and CD4+/CD8+ T-cells with a minority of CD23+ B-cells, and fluorescence in situ hybridization (FISH) reported gains of the BCL2 gene region on chromosome 18, all of which were suggestive of AITL. She was transferred to an advanced hematology center for staging and targeted therapy. A careful review of the patient with the prompt clinical and histological examination is essential for the correct diagnosis as the differentials are vast due to its non-specific clinical presentation and accurate treatment is a must for complete remission.
Effect of a Synthetic Immunomodulator on the Regulation of Gamma Interferon and Interleukin-10 Production during Salmonella Sepsis in Itys Mice

The present study examined the in vivo capacity of diHDA-glycerol, a new chemically defined compound that we synthesized, to enhance nonspecific resistance of Itys mice to a virulent Salmonella typhimurium challenge (>LD50). This compound derives from (E)-10 hydroxy-2 decenoic acid (10-HDA), a fatty acid isolated from Royal Jelly. Bacterial growth rate within the spleen, interferon-gamma (IFN-γ), interleukin-10 (IL-10), and nitric oxide (NO) levels were measured in splenocyte cultures from diHDA-glycerol-pretreated mice or saline infected controls, at various time intervals after infectious challenge. Repeated administration of diHDA-glycerol before bacterial inoculation resulted in increased bacterial clearance from the spleen, starting in the second week of infection, whereas in control mice, bacterial proliferation led to death beyond day 13 after challenge. In addition, spleen cells from infected mice produced elevated levels of IFN-γ but failed to produce IL-10. In contrast, on the second week post challenge, the time course of cytokine responses was modified by the pretreatment. Spleen cells from diHDA-glycerol pretreated mice exhibited significantly lower levels of IFN-γ and significantlty higher levels of the anti-inflammatory cytokine IL-10, when compared with those in infected controls. Furthermore, on the second week post challenge, the restored functional capacity of splenocytes to produce nitric oxide (NO) was apparently linked with diHDA-glycerol pretreatment. These results suggest that diHDA-glycerol accelerates some macrophage functions resulting in a more adequate modulation of the balance of inflammatory mediators and consequently, in an enhanced host defense against Salmonella infection.
Türkiye Ulusal Yazılım Mühendisliği Sempozyumu Bildirilerinin Konu Analizi

Context: The papers presented in Turkish National Software Engineering Symposium (NSES) between 2007 and 2018. Objective: To conduct a thematic analysis of software engineering (SE) research literature over the years focusing on those papers published in NSES. Method: We identified 11 critical topics in SE research using a corpus of 32,701 papers published in leading SE journals and conference proceedings worldwide. We used this topic model to analyze 564 NSES papers. Results: Software process has been the top topic in all NSES events. Applications attract SE researchers’ attention in last years. Soft-Copyright
Optimality-Based Non-Redfield Plankton-Ecosystem Model (OPEMv1.0) in the UVic-ESCM 2.9. Part I: Implementation and ModelBehaviour

Abstract. Uncertainties in projections from Earth system models (ESMs) are associated to a large degree with the imperfect representation of the marine plankton ecosystem, in particular the physiology of primary and secondary producers. Here we describe the implementation of an optimality-based plankton-ecosystem model (OPEM) with variable C:N:P stoichiometry in the University of Victoria ESM (UVic) and the behaviour of two calibrated reference configurations, which differ in the assumed temperature dependence of diazotrophs. Predicted tracer distributions of oxygen and dissolved inorganic nutrients are similar to those of an earlier fixed-stoichiometry model (Keller et al., 2012). Compared to the classic fixed-stoichiometry model, OPEM is closer to recent satellite-based estimates of net community production (NCP), despite overestimating net primary production (NPP), can better reproduce deep-ocean gradients in the NO3:PO43− ratio, and partially explains observed patterns of particulate C:N:P in the surface ocean. Allowing diazotrophs to grow (but not necessarily fix N2) at similar temperatures as other phytoplankton results in a better representation of surface Chl and NPP in the Arctic and Antarctic Oceans. Deficiencies of our calibrated OPEM configurations may serve as a magnifying glass for shortcomings in global biogeochemical models and hence guide future model development. The overestimation of NPP at low latitudes indicates the need for improved representations of temperature effects on biotic processes, as well as phytoplankton community composition, which may be represented by locally-varying parameters based on suitable trade-offs. Discrepancies between observed and predicted vertical gradients in particulate C:N:P ratios suggest the need to include preferential P remineralisation, which could also benefit the representation of N2 fixation. While OPEM yields a much improved distribution of surface N* (NO3− 16·PO43− + 2.9 mmol m−3), it still fails to reproduce observed N* in the Arctic, possibly related to a mis-representation of the phytoplankton community there and the lack of benthic denitrification in the model. Coexisting ordinary and diazotrophic phytoplankton can exert strong control on N* in our simulations, which questions the interpretation of N* as reflecting the balance of N2 fixation and denitrification.
Synergistic Antifungal Activity of Green Synthesized Silver Nanoparticles and Epoxiconazole against Setosphaeria turcica

It is urgent to develop highly efficient and eco-friendly antimicrobial agents for integrated control of phytopathogens. Silver nanoparticles (AgNPs) were synthesized by Ligustrum lucidum leaf extract. UV-vis spectrum showed that there was a strong absorbance at 438 nm. Transmission electron microscopy (TEM) images displayed that synthesized nanoparticles were near spherical with an average size of 13 nm. The antimicrobial effect of AgNPs was evaluated through methods of paper disk diffusion, colony growth, conidia germination, and in vitro inoculation. The 50% inhibition concentration (IC50) of AgNPs against Setosphaeria turcica was 170.20 μg/mL calculated by SPSS 13.0. In addition, it displayed a significant synergistic antifungal effect when AgNPs were combined with epoxiconazole at the ratios of 8 : 2 and 9 : 1. The results of this study provide a novel fungistat not only for comprehensive control of plant fungi but also for reducing chemical pesticides use and avoiding drug-resistant phytopathogen generation.
DIOPERAD GEOMETRY AND GRAPH HOMOLOGY

In this paper, we introduce dioperads and present their basic theory. Roughly, dioperads generalize operads in the same way that dialgebras generalize algebras. We explain the notion of a dioperad algebra and show that the space of derivations of a dioperad algebra forms a Leibniz algebra. As a primary motivation, we propose a connection between Leibniz homology of the space of derivations of the free Leibniz algebra and a certain graph complex associated to a dioperad. This provides a generalized setting for work of Loday-Cuvier [3] and Frabetti [6]. We also propose a similar setting in symplectic and orthogonal dioperad geometry for the homology of the appropriate Leibniz algebras. This is a conjectured dioperad analogue of the main result in Mahajan [15], which builds on work of Loday-Quillen [11, 12], Tsygan [18, 5], Loday-Procesi [10], Kontsevich [8, 7], Conant-Vogtmann [2] and Mahajan [14].
Patterns of utilization, expectations, and satisfaction of the community to urban health extension services

Background: The Urban Health Extension Program (UHEP) – an innovative Ethiopian government plan to ensure health service equity by creating demand for essential health services through the provision of appropriate health information at the household level – is one of the three approaches of the national Health Extension Program (HEP). There are very few studies on the quality of health care provided by the UHEP in Ethiopia. This study is part of a comprehensive survey designed to assess the quality of health service delivered by the UHEP, and looks at the pattern of utilization, expectations, and satisfaction of the community in relation to services provided within the UHEP. Methodology: The study covered sampled households for a community-based cross-sectional survey using structured questionnaires among 589 households within five major regions (Amhara; Harari; Oromia; Southern Nations, Nationalities, and Peoples’ (SNNP); and Tigray), as well as the two city administrations of Addis Ababa and Dire Dawa. Results: According to the findings, about 88% of the respondents have heard about urban health extension services in general, and the majority (51.6%) of them have heard about the services from the urban health extension workers (UHEWs), while 28.4%, 10.6%, and 9.3% heard about it from mass media, health centers and neighbors, respectively. Service packages reported to have been used most include environmental health (75.7%), health education (56.5%), and immunization of children (39.2%). On the other hand, services such as first aid (2.2%), referral (3.1%), HIV/AIDS care and support (3.7%), postnatal care (7.8%) and nutritional screening of children (9.7%) seem to have very low rates of utilization. With regard to the overall satisfaction of respondents on their visits to UHE facilities, more than 40% of the survey households responded as being satisfied or very satisfied with most of the items, except for the availability of UHEPs for home visits, availability of medical supplies, and referrals for consultations. Conclusions: Beneficiary communities seem to have an overall positive impression of the services provided by the UHEP, even though knowledge about and utilization of some of the services seem to be minimal. There are tendencies among many community members of associating the program with kebele political activities. There are also instances where communities expect too much from the urban health extension professionals (UHE-ps), while some others tend to undermine the knowledge and skills of UHE-ps and do not consider them as health professionals. [Ethiop. J. Health Dev. 2020; 34(Special issue 2):83-90] Keywords: Utilization of urban health extension; Urban Health Extension Program; Urban Health Extension Professionals.
Text-Independent Speaker Verification Based on Information Theoretic Learning

In this paper VQ (Vector Quantization) based on information theoretic learning is investigated for the task of text-independent speaker verification. A novel VQ method based on the IT (Information Theoretic) principles is used for the task of speaker verification and compared with two classical VQ approaches: the K-means algorithm and the LBG (Linde Buzo Gray) algorithm. The paper provides a theoretical background of the vector quantization techniques, which is followed by experimental results illustrating their performance. The results demonstrated that the ITVQ (Information Theoretic Vector Quantization) provided the best performance in terms of classification rates, EER (Equal Error Rates) and the MSE (Mean Squared Error) compare to K-means and the LBG algorithms. The outstanding performance of the ITVQ algorithm can be attributed to the fact that the IT criteria used by this algorithm provide superior matching between distribution of the original data vectors and the codewords.
Body Composition and Metabolic Risk Variables for Obesity in Korean Healthy Women

Objective: To investigate which indices to relate with metabolic risk among body composition. Design and methods: As a cross sectional study, a total of 47 healthy Korean women aged 40.36 years, BMI 25.59 kg/m2, were assessed their BMI, percent of body fat (BIA), fat mass by DXA, adipose tissue (CT), fasting insulin, free fatty acid, cholesterol, triglyceride, HDL cholesterol, fasting plasma glucose, and HOMA IR index. Results: Neither dyslipidemia nor hyperglycaemia has any relation with central fatness indicators & BMI. Fasting insulin is related with %BF* after correction for age. Dyslipidemia and hyperglycaemia tend to be greater in low insulin group. Among body composition, BMI, ** fat mass (DXA) **, %BF** except VAT, SAT, and V/S ratio of high insulin group are significantly higher than those of low insulin group. Although not significant, V/S ratio is likely to be higher in low insulin group. (*: p<0.05, **:p<0.01) Conclusions: V/S ratio maybe a determinant to metabolic risks variables in healthy Korean women. Controlled lager cohort study would be considered in the future, to prove the association between SAT and metabolic derangement. In conclusion, %BF through BIA is considered as the major determinant to fasting insulin in Korean women.
Original Research Article: Clinical Profile and Pattern of Hemoglobinopathies and Thalassemias Among Children Admitted in a Tertiary Care Hospital, Assam, India

Introduction: Inherited hemoglobin disorders ( hemoglobinpathies and Thalassemias) constitute an important cause of mobidity and mortality in children. They impose a heavy burden on the affected families and the health sector. This is a public health problem in Assam and North Eastern states. Data pertaining to the pattern of the thalassemias and hemoglobinopathies are lacking in our state . Hence, this study was undertaken to know the clinical profile and pattern of hemoglobinpathies and thalassemias cases admitted in pediatrics department. Methods: The present study was conducted in the department of Pediatrics , Tezpur Medical College and hospital,Tezpur,Assam over a period of one year from January 2017 to December 2017 . Total 75 children of inherited hemoglobin disorders (chronic hemolytic anemia) were included in this study. This was a retrospective study. We collected the bed head tickets (medical record files) of all children from medical record department of the hospital. Relevant data of the cases were collected , analyzed and interpreted accordingly. Results: The present study included total 75 children of thalassemia and hemoglobinopathies admitted during the study period. Total number of patients admitted in the pediatric ward, during the study period were 1883. Out of 75 studied cases , 58.6% patients were male and 41.3% were female. In the present study, most common hemoglobin disorder was HbE trait (HbAS) 26.6% followed by Beta thalassemia trait 21.3% , Sickle cell trait (18.7%) , E beta thalassemia (9.3%) , HbE disease 8% and sickle cell disease (Hb SS ) 8% respectively. The present study also showed that all cases of beta thalassemia major , E beta thal and Sickle cell diseases had presented with pallor , generalised weakness and hepatosplenomegaly. , It was also seen that all the beta thalassemia major, E beta thalassemia and Sickle cell diseases patients required blood transfusions. It was observed that 46.6% of cases were malnourished/stunted and 29.3% children had skeletal changes. Conclusion: The present study showed the pattern of thalassemias and hemoglobinopathies prevalent in Assam. We found that HbE trait/ HbE disease,Beta thalssemia major/trait,sickle cell anemia/trait , compound HbE beta thalassemia were prevalent in Assam and impose a big burden to the affected families as well as society. Further , many children remain undiagnosed at the community level due to lack of knowledge , poverty and lack of laboratory facility at tea garden and rural hospital. We know that this inherited hemoglobin disorder is a major cause of morbidity and mortality in children. Hence, mass education , genetic counselling, premarital counseling, neonatal screening and antenatal diagnosis are the mainstay for prevention and control of the disease. Further, Early diagnosis by HPLC , adequate management of the cases with blood transfusion, chelation therapy, nutritional supplementation and splenectomy will decrease the associated complications and improve the quality of life.
CLOSURE OF THE CYSTIC DUCT DURING LAPAROSCOPIC CHOLECYSTECTOMY BY THE LIGASURE VESSEL SEALING SYSTEM

Laparoscopic cholecystectomy is the “gold standard” in the treatment of symptomatic gallbladder lithiasis. Nevertheless, some pitfalls are associated with the use of the monopolar hook, such as the risk of thermal injuries and biliary complications. The present study assessed the efficacy of the Liga-Sure Vessel Sealing System (LVSS) when used for cystic duct closure during laparoscopic cholecystectomy. The laparoscopic cholecystectomy was done beginning with visualization of Calot’s triangle, and dissection of Calot’s triangle was achieved using a monopolar cautery device. Once the cystic duct was exposed, sealing was performed and divided using the LVSS. The records were compared withthose of patients undergoing laparoscopic cholecystectomy with closure of the cystic duct with clips during the same period. The results showed that during the study period, 218 laparoscopic cholecystectomies were performed; 82 of these were performed with the Liga-Sure. The work was experienced a single case of bile leakage from the cystic duct due to missed stone in the common bile duct that was managed using ERCP.
Joint Modeling of Mixed Outcomes in Clinical Research

Author(s): Chen, Yuqi | Advisor(s): Wang, Yuedong | Abstract: Mixed types of multivariate outcomes are common in clinical investigations. Survival time is one of the primary goals in practice. In addition, hospitalization attracts increasing attention as it is a main contributor to the total cost of care, and the identification of related risk factors is of interest in many health economics studies. Meanwhile, we are also interested in the longitudinal path of important clinical measurements along the progress of disease. Joint modeling is often required as both hospitalization frequencies or longitudinal measurements can be informatively censored due to death. In this dissertation, we will propose three research projects which jointly model multiple aspects of the outcomes. The first research project models survival time and hospitalization together through a latent subject-specific random frailty. B-spline bases are introduced for flexible forms of baseline hazard and the offset function. Computational methods to solve for the MLE and to select knots are developed. The proposed methods are applied to study the risk factors of hospitalization and survival time among end-stage-renal-disease (ESRD) patients. The second part proposes a joint model of hospitalization and readmission. Number of hospitalizations is modeled as a Poisson random variable and number of readmissions is treated as a Binomial random variable with number of hospitalizations being the total number of trials. The proposed joint modeling framework is applied to evaluate the performance of an intervention program from Fresenius Medical Care in reducing number of hospitalizations and readmissions.The third research project jointly models survival time and multiple longitudinal observations. A penalized likelihood approach is described for variable selection. We design a Coordinate Descent Algorithm to solve for the penalized MLE and a two-stage estimation method to reduce the bias resulting from penalization. Simulation results demonstrate good selection and estimation property. We illustrate the practical usage of proposed method through an application to ESRD patients.
Structural model for differential cap maturation at growing microtubule ends

Microtubules (MTs) are hollow cylinders made of tubulin, a GTPase responsible for essential functions during cell growth and division, and thus, key target for anti-tumor drugs. In MTs, GTP hydrolysis triggers structural changes in the lattice, which are responsible for interaction with regulatory factors. The stabilizing GTP-cap is a hallmark of MTs and the mechanism of the chemical-structural link between the GTP hydrolysis site and the MT lattice is a matter of debate. We have analyzed the structure of tubulin and MTs assembled in the presence of fluoride salts that mimic the GTP-bound and GDP•Pi transition states. Our results challenge current models because tubulin does not change axial length upon GTP hydrolysis. Moreover, analysis of the structure of MTs assembled in the presence of several nucleotide analogues and of taxol allows us to propose that previously described lattice expansion could be a post-hydrolysis stage involved in Pi release.
First-trimester screening of pregnancy-related complications using plasma exosomal C19MC microRNAs Prvotrimestrální skrínink těhotenských komplikací s využitím plazmatických exozomálních C19MC microRNA

Pregnancy-related complications such as gestational hypertension, preeclampsia, fetal growth restriction, gestational diabetes mellitus, spontaneous preterm birth, and preterm premature rupture of membranes may have severe consequences for both the mother and the child. The development of reliable early screening methods for pregnancy-related complications has therefore been a long-term goal of obstetrics. New possibilities for prenatal diagnostics have opened with the discovery of circulating microRNAs in maternal plasma. MicroRNAs are short, noncoding, 21 to 23 nucleotides long, single-strand RNAs whose main function is to regulate gene expression. During pregnancy, both common and unique miRNAs are expressed by the placenta, amongst them the miRNAs of the C19MC cluster. Several C19MC miRNAs have been shown to display a different expression profile associated with certain pregnancy-related complications. This thesis identifies the plasma exosomal profiles of six C19MC miRNAs (miR-516-5p, miR-517-5p, miR-518b, miR-520a-5p, miR-520h, and miR-525-5p) in patients in their first trimester of gestation who later developed pregnancy-related complications, and compares them with profiles in patients with normal pregnancies.