Miracle-dz/UniFAR-FTUs huggingface dataset:
Adenocarcinoma (ACB), urothelial carcinoma (UCB) and squamous cell carcinoma (SCCB) of the bladder: A Comprehensive Genomic Profiling (CGP) Study.

4533 Background: We performed a CGP to compare the genomic alterations (GA) in ABC, UBC and SCCB. Methods: 143 cases of ACB, 2,142 cases of UCB and 83 cases of SCCB were subjected to CGP using a hybrid-capture based assay. Tumor mutational burden (TMB) was determined on 1.1 Mbp of sequenced DNA and microsatellite instability (MSI) was determined on 114 loci. PD-L1 expression was determined by IHC. Results: ABC patients were younger and more often female than UBC and SCCB (P < 0.0001). UBC and SCCB had a higher GA/tumor than ABC (P = 0.01). Un-targetable GA were similar in all 3 groups involving TP53 and KRAS. APC GA were more frequent in ABC whereas TERT, CDKN2A/B and DNA-repair genes ( ARID1A and KDM6A) more frequently altered in UBC and SCCB. Targetable MTOR pathway GA ( PIK3CA, TSC1, PTEN) were more frequent in UBC and SCCB as were targetable kinase alterations ( FGFR3 and ERBB2). The UBC and SCCB had a significantly higher TMB than ABC (P < 0.0001) including mean TMB and TMB > 20 mut/Mb (P < 0.0001). CD274 (PD-L1) was amplified more frequently in SCCB than ACB or UBC (P < 0.0001). MSI high status was very uncommon in all tumor types. Conclusions: Deep sequencing reveals that ABC features a widely different genomic profile from UBC and SCCB. UBC has the highest frequencies of targetable kinase GA and high TMB. SCCB has the highest frequencies of IO efficacy predicting biomarkers including mean TMB and PD-L1 amp. Nonetheless, ABC does feature potential kinase targets such as FGFR3 and ERBB2. [Table: see text]
Knowledge and practices on breast cancer detection and associated challenges among women aged 35 years and above in Tanzania: a case in Morogoro Rural District

Background: Breast cancer is the leading cause of cancer-related deaths among women globally including Tanzania. However, timely access to diagnosis remains a challenge due to lack of specialized facilities. Most patients presents with advanced stages of the disease making management impossible. This leads to an increase in breast cancer-related mortality. Little is known about knowledge and practices on breast cancer screening in Tanzania. This study described knowledge and practices on breast-cancer detection and associated challenges among women aged 35 years and above in Morogoro rural District in Tanzania. Methods: This descriptive cross-sectional study was conducted in Lubungo, Newland and Fulwe villages at Mikese ward in Morogoro rural District from June and July 2017. A standardized questionnaire was used to obtain information from 130 study participants regarding breast cancer knowledge and practices. Data were analyzed using (SPSS) software version 23 and descriptive statistics were summarized in frequencies and percentages. Results: One hundred and thirty women were studied, all participants have heard of breast cancer; 71.5% knew the effects of breast cancer; 37.7% knew about the signs and symptoms. The most frequently reported cause and risk factor of breast cancer were putting money under brassiere (30.8%) and fat diet (17.7%) respectively. The participants (73.8%) have never heard of breast self-examination (BSE) as an early detection method of breast cancer hence do not practice it. Lack of knowledge on early signs and symptoms of breast cancer was reported as the main challenge for breast cancer screening (73.8%). The frequently reported source of information about this disease was television/radio programs (83.1%). Conclusion: Most of the women have heard of breast cancer but they lack adequate knowledge on its risk factors, causes, symptoms and effects. The majority of the women do not practice BSE due to lack of knowledge. Efforts to improve women’s knowledge on breast cancer is warranted.
Treating chronic fatigue syndrome with complementary therapies

This article reports on the use of complementary therapies in managing symptoms of myalgic encephalomyelitis/chronic fatigue syndrome patients. A study was undertaken of 40 patients, most of whom had failed to get diagnosis, treatment and support from conventional practitioners. This article reports their use of complementary therapies, of which homeopathy was the most widely used and which gave symptom relief in 24 patients.
Six Months Follow Up Results of “Granulocytes-Colony Stimulating Factor” Based Stem Cell Therapy in Patients with Myocardial Infarction - MAGIC Cell Randomized Controlled Trial -

Background and Objectives：Granulocytes-colony stimulating factor (G-CSF) has a stem cell mobilizing capacity and favorable effects on ventricular remodeling following a myocardial infarction. G-CSF based stem cell therapy has shown favorable results in animal studies. However, the long term outcome of G-CSF based stem cell therapy in clinical trial remains unknown. Herein, we report the six month follow up results of two different G-CSF based stem cell therapy strategies. Subjects and Methods：We compared the intra-coronary infusion of mobilized peripheral blood stem cells (PBSCs) with G-CSF (n=10), mobilization with G-CSF alone (n=16) and control percutaneous coronary intervention (PCI) alone (n=15) in patients following a myocardial infarction. Results：At the six month follow up evaluations, the intra-coronary cell infusion was found to have improved the left ventricular (LV) systolic function and remodeling compared to the baseline, whereas G-CSF alone showed no improvement. Therefore, an intra-coronary cell infusion showed better improvements in the LV systolic function (p
The Frequency of Incidental Thyroid Carcinoma in Patients with Graves Disease

Background: The presence of hypoactive nodules in patients with Graves’ disease (GD) is an important factor in deciding on surgical treatment. Literatures are inconclusive about the increase in the risk of malignancy in cases of hypoactive nodules accompanying GD. The incidence of incidental malignancy in patients that underwent surgical treatment for GD were evaluated. Materials and Methods: This study included 108 patients that underwent thyroidectomy due to GD. Hypoactive nodules and diffuse hyperplasia were observed in 59 (54.6%) and 49 (45,4%) of the patients, respectively, during preoperative evaluation. In all 108 patients total thyroidectomy (TT) was the preferred surgical method. Results: Malignant histopathology was noted in 11 (10.2%) of the 108 patients. The thyroid nodules preoperatively observed in 59 patients were determined to be benign according to fine needle aspiration biopsy (FNAB), which also showed that 7 (11.9%) patients had incidental malignancy. Among the 49 patients with diffuse thyroid hyperplasia, but no nodule, 4 (8.2%) were incidentally malignant. Follicular and papillary carcin-omas were observed in 1 (9.1%) patient and 10 (90.9%) patients, respectively. Tumor size was ≤1 cm in 7 (70%) of the patients with papillary carcinoma. Hyperthy-roidism and recurrence were not observed in any of the patients with thyroid carcinoma during a mean follow-up of 27.3 months. Conclusions: The frequency of incidental thyroid cancer in patients with GD is unignorably high as the present study. The absence of nodules does not rule out the possibility of cancer. TT should be the preferred surgical treatment of GD.
Prevalence of RTI/STI among reproductive age women (15-49) years in urban slums of Tirupati Town Andhra Pradesh.

Prevalence of RTI/STI in the present study was 35.6 per cent based on the symptoms and 26.9 per cent based on per-speculum examination. Prevalence of RTI was maximum in 15-29 years age group. The most commonly observed symptoms were vaginal discharge (21.3 per cent) and lower abdominal pain (4.9 per cent). Prevalence of vaginal discharge decreased with an increase in age education and per capita monthly income. Prevalence was observed higher in scheduled castes and tribes married women unskilled worker IUCD acceptors and those with unhygienic menstrual practices history of abortions and non-institutional deliveries. Based on laboratory findings highest positive results were seen in candidiasis (88.9 per cent) followed by trichomoniasis (50.0 per cent). 80.0 per cent of women completed the course of treatment and 57.2 per cent of women got complete relief.
Nucleic Acid and Protein Changes Induced by Auxin-Like Herbicides

Cucumber (Cucumus sativus L. ‘Chicago pickling’) and wheat (Triticum aestivum L. ‘Manitou’) seeds were germinated in various concentrations of (2,4-dichlorophenoxy) acetic acid (2,4-D), (2,4,5-trichlorophenoxy)acetic acid (2,4,5-T), 3,6-dichloro-o-anisic acid (dicamba), and 4-amino-3,5,6-trichloropicolinic acid (picloram). The nucleic acid and protein levels in the roots of the two species were determined 4 days after germination and compared on a per root basis. All four herbicides increased the DNA and protein of both cucumber and wheat roots with the increase in cucumber being higher than in wheat. The greatest difference between the tolerant wheat and susceptible cucumber was the effect on the RNA levels. As the concentration of all four herbicides increased, a progressive decrease of RNA levels occurred in wheat. In contrast, in cucumber the herbicides at high concentrations (10 and 100 ppmw) increased the RNA levels by more than 200% over the water controls. When the protein levels in both species were compared on a per unit RNA basis, there was an inverse relationship. In wheat the protein/RNA ratio was higher than the control whereas in cucumber the ratio was lower. A differential alteration of RNA species and interference with protein synthesis is suggested as the basis for selectivity.
Impact of the comprehensive outpatient rehabilitation on reducing intensification of depressive symptoms in people over 60 years of age

Abstract Introduction. As a result of involution processes and diseases, changes occur in the human body, as a result of which, psychophysical fitness declines with age. Comprehensive rehabilitation is the way of improving and maintaining health condition, including, among others, the appropriate level of physical activity and the quality of affective functioning. This type of program was carried out as part of the Outpatient Healthcare Home (DDOM) at the Witold Chodźko Institute of Rural Health in Lublin. Aim. The objective of the present study was to assess the impact of comprehensive ambulatory rehabilitation, including tailored endurance training preceded by an ergospirometry test, on indicators demonstrating the level of involvement in daily physical activities and the severity of depressive symptoms of patients over 60 years of age receiving health services at DDOM. Material and methods. The study involved 60 seniors participating in the rehabilitation cycle implemented as part of the services provided to patients at DDOM of the Witold Chodźko Institute of Rural Health in Lublin. The tests were carried out in the test-retest model on the first and last day of the kinesiotherapy cycle. The tests were performed with use of International Physical Activity Questionnaire IPAQ and Geriatric Depression Scale GDS. The patient rehabilitation program included adapted systemic kinesiotherapy (endurance training with a load determined according to individual exercise capacity, as determined on the basis of the ergospirometry test) and local kinesiotherapy and physical therapy adapted to the needs resulting from the condition of the musculoskeletal system. Results. After the completion of the rehabilitation cycle we compared the tests carried out before it, and the patients received higher scores in the scales of IPAQ questionnaire for measuring weekly, intensive and mode-rate physical activity and time required for walking and were less likely to spend their time sitting or lying down. There were also lower scores of the respondents in GDS scale used to assess the severity of depressive symptoms. Conclusions. As a result of the rehabilitation program applied, DDOM patients simultaneously obtained the desired changes in the level of involvement in physical activity and minimization of the intensity of depressive symptoms.
Neonatal macrosomia and associated morbidities in Sagamu, Nigeria

Background: The incidence of neonatal macrosomia is on the increase in many parts of the world. The impact of the condition on baby and child health has not received adequate research attention. Objective: To determine the prevalence, baby and maternal characteristics, the pattern of neonatal morbidity and perinatal outcome of macrosomia. Methods: A retrospective study of all singleton deliveries with birth weight ≥ 4.0 kg was conducted at a tertiary facility in the south-western part of Nigeria between January 2013 and December 2014. Results: Eighty-eight newborn babies were macrosomic out of 1854 deliveries, resulting in a prevalence rate of 4.7%. The male-to-female ratio was 1: 0.54, while the mean (±SD) birth weight was 4.23 ± 0.29 kg. There was no significant difference in the mean birth weights of the male and female babies (t = 1.24, p = 0.218). The mean maternal age was 31.7 ± 5.1 years. Multiparous mothers had the highest proportion of macrosomic babies, while a majority of mothers (77.3%) were either overweight or obese. One-minute Apgar score <7 was observed among 28 (31.8%) babies. Twenty-three (26.1%) babies were hospitalized for further management. Birth asphyxia, hypoglycaemia and hyperbilirubinaemia were the leading morbidities. The perinatal mortality rate for macrosomic babies was 102.2 per 1000 total births. Conclusion: The incidence of neonatal macrosomia is relatively low in our study population but falls within the range of prevalence rates reported from other parts of the country. Birth asphyxia, hypoglycaemia and hyperbilirubinemia are common morbidities among affected babies.
Effects of Life-Long Wheel Running Behavior on Plantar Flexor Contractile Properties

iii ACKNOWLEDGEMENTS . v LIST OF FIGURES . vii CHAPTER ONE Introduction . 1 Aging of Muscle Tissue . 1 Force-Velocity Relationship, Aging, and Endurance Training . 2 Effects of Endurance Training on Age and Musculoskeletal Performance. 4 Parsing Disuse Atrophy and Aging . 5 Hypotheses . 7 CHAPTER TWO Materials and Methods . 9 Mouse History and Care . 9 Experimental Design . 10 Surgical Setup and Procedure . 11 Force-Velocity Acquisition and Data Analysis . 12 CHAPTER THREE Results . 16 Peak Isometric Force . 16 Muscle Quality . 16 Shortening Velocity . 17 Peak Power . 17 MTU Stiffness . 18 Body Mass . 18 Muscle Mass . 18
A Palaeographic Study of Early Writing in Egypt

In trying to reconstruct the early phases of our culture we rely mostly on sources from the ancient Near East. This is perhaps more true of the history of writing than of any other great cultural accomplishment. It would be unthinkable even to try to sketch the history of writing without taking into consideration the written sources of ancient Egypt. The present study would like to contribute to the research of writing evolution in Egypt as an attempt to collect, describe, and evaluate the earliest attestations of writing from a palaeographic point of view. The book aims to present a thorough investigation of the development of sign forms, from its first appearance around 3250 BC until the reign of Djoser (ca. 2700 BC) at the beginning of Dynasty III. It features the first-ever palaeographic collection of all available signs and inscriptions. The survey permitted reconstruction of the complex process of codification and reform of the Egyptian script that finally resulted in the hieroglyphic writing of the Old Kingdom.
Evaluation of simultaneous blood and cerebrospinal fluid culture findings in neonatal meningitis

Amac: Bu calismanin amaci, yenidogan yogun bakim unitesinde hem kan hem de beyin omurilik sivisi kulturlerinin eszamanli bulgularini arastirmak ve yeni dogan sepsis ve menenjitten sorumlu olan etiyolojik patojenleri saptamatir. Gerec ve Yontem: Bu calisma Kasim 2013 - Ekim 2015 tarihleri arasinda yenidogan bolumumuzde yapildi. Bu donemde neonatal sepsis belirtileri ve semptomlari olan 732 yenidogan calismaya dahil edildi. Calismaya uygun olan hastalardan es zamanli kan ve beyin omurilik sivisi kulturleri alinarak sepsis ve menenjit calismasi yapildi. Bulgular: Yuz vakada (%13,7) beyin omurilik sivisi kulturu pozitifti. Menenjit tanili 59 yanidogan hastasinda kan kulturu pozitif olarak bulundu. Stafilokok bakterisi (%48) menejitten sorumlu en sik gorulen organizmaydi ve bunu klebsilla (%19) ve psodomonas (%10) izledi. Kan kulturunden es zamanli olarak izole edilen bakteriler ise stafilokok (%24) , kelbsiella (%13) ve psodomonasti (%8). Sonuc: Calismamizda, unitemizde neonatal sepsis ve menenjitten sorumlu olan ana etiyolojik ajanlar stafilokok, klebsiella ve psodomonas idi.
Highly sensitive quantification of Alzheimer's disease biomarkers by aptamer-assisted amplification

Alzheimer's disease (AD), a chronic neurodegenerative disease associated with the loss of neurons in the brain, is the most pervasive type of dementia; 47 million people are affected, and the number is expected to increase to more than 131 million by 2050, according to Alzheimer's Disease International. Both early diagnosis and continuous monitoring are crucial for early intervention, symptomatic treatment, monitoring of the efficacy of intervention and improved patient function. Beta-amyloid peptide, tau, and phosphorylated tau are useful for screening and diagnosis; meanwhile, simultaneous assessment of multiple biomarkers is of paramount importance for accurate disease diagnosis. Methods: Herein, we report a direct, inexpensive and ultrasensitive aptamer-based multiplex assay for the quantification of trace amounts of AD biomarkers in both human serum and cerebrospinal fluid (CSF) samples. In this newly developed assay, molecular recognition of an antibody-aptamer pair provides high specificity in target detection, and the use of a DNA amplification strategy affords high sensitivity, allowing quantification of AD biomarkers in both biological fluids in 1.5 h with only a diminutive amount of the sample consumed. A tailor-made turn-on fluorophore, namely, SPOH, was employed to label the antibody-aptamer hybrids and provide a strong fluorescence signal, which was then detected with a total internal reflection fluorescence microscopy electron-multiplying charge-coupled device (TIRFM-EMCCD) imaging system. The simultaneous detection of biomarkers was achieved by a direct shape-coded method in which the nanoplatforms can be distinguished from one another by their morphologies. Results: This assay demonstrated a lower detection limit (in the femtomolar range) for AD biomarkers than the previously reported antibody-antibody method. Conclusion: The developed assay holds tremendous clinical potential for early diagnosis of AD and monitoring of its progression.
Iron Regulation in Clostridioides difficile

The response to iron limitation of several bacteria is regulated by the ferric uptake regulator (Fur). The Fur-regulated transcriptional, translational and metabolic networks of the Gram-positive, pathogen Clostridioides difficile were investigated by a combined RNA sequencing, proteomic, metabolomic and electron microscopy approach. At high iron conditions (15 μM) the C. difficile fur mutant displayed a growth deficiency compared to wild type C. difficile cells. Several iron and siderophore transporter genes were induced by Fur during low iron (0.2 μM) conditions. The major adaptation to low iron conditions was observed for the central energy metabolism. Most ferredoxin-dependent amino acid fermentations were significantly down regulated (had, etf, acd, grd, trx, bdc, hbd). The substrates of these pathways phenylalanine, leucine, glycine and some intermediates (phenylpyruvate, 2-oxo-isocaproate, 3-hydroxy-butyryl-CoA, crotonyl-CoA) accumulated, while end products like isocaproate and butyrate were found reduced. Flavodoxin (fldX) formation and riboflavin biosynthesis (rib) were enhanced, most likely to replace the missing ferredoxins. Proline reductase (prd), the corresponding ion pumping RNF complex (rnf) and the reaction product 5-aminovalerate were significantly enhanced. An ATP forming ATPase (atpCDGAHFEB) of the F0F1-type was induced while the formation of a ATP-consuming, proton-pumping V-type ATPase (atpDBAFCEKI) was decreased. The [Fe-S] enzyme-dependent pyruvate formate lyase (pfl), formate dehydrogenase (fdh) and hydrogenase (hyd) branch of glucose utilization and glycogen biosynthesis (glg) were significantly reduced, leading to an accumulation of glucose and pyruvate. The formation of [Fe-S] enzyme carbon monoxide dehydrogenase (coo) was inhibited. The fur mutant showed an increased sensitivity to vancomycin and polymyxin B. An intensive remodeling of the cell wall was observed, Polyamine biosynthesis (spe) was induced leading to an accumulation of spermine, spermidine, and putrescine. The fur mutant lost most of its flagella and motility. Finally, the CRISPR/Cas and a prophage encoding operon were downregulated. Fur binding sites were found upstream of around 20 of the regulated genes. Overall, adaptation to low iron conditions in C. difficile focused on an increase of iron import, a significant replacement of iron requiring metabolic pathways and the restructuring of the cell surface for protection during the complex adaptation phase and was only partly directly regulated by Fur.
Altered Synaptic Vesicle Release and Ca2+ Influx at Single Presynaptic Terminals of Cortical Neurons in a Knock-in Mouse Model of Huntington’s Disease

Huntington’s disease (HD) is an inherited neurodegenerative disorder caused by the abnormal expansion of CAG repeats in the huntingtin (HTT) gene, which leads to progressive loss of neurons starting in the striatum and cortex. One possible mechanism for this selective loss of neurons in the early stage of HD is altered neurotransmission at synapses. Despite the recent finding that presynaptic terminals play an important role in HD, neurotransmitter release at synapses in HD remains poorly understood. Here, we measured synaptic vesicle release in real time at single presynaptic terminals during electrical field stimulation. We found the increase in synaptic vesicle release at presynaptic terminals in primary cortical neurons in a knock-in mouse model of HD (zQ175). We also found the increase in Ca2+ influx at presynaptic terminals in HD neurons during the electrical stimulation. Consistent with increased Ca2+-dependent neurotransmission in HD neurons, the increase in vesicle release and Ca2+ influx was rescued with Ca2+ chelators or by blocking N-type voltage-gated Ca2+ channels, suggesting N-type voltage-gated Ca2+ channels play an important role in HD. Taken together, our results suggest that the increased synaptic vesicles release due to increased Ca2+ influx at presynaptic terminals in cortical neurons contributes to the selective neurodegeneration of these neurons in early HD and provide a possible therapeutic target.
Hepatic Failure Due to Hepatitis E Virus Infection in a Patient with Necrotic Hepatocellular Carcinoma

This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/3.0/) which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited. J Liver Cancer 2019;19(1):55-58 pISSN 2288-8128 • eISSN 2383-5001 https://doi.org/10.17998/jlc.19. 1.55 Case Report