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https://www.readbyqxmd.com/read/28087402/accuracy-is-in-the-eyes-of-the-pathologist-the-visual-interpretive-process-and-diagnostic-accuracy-with-digital-whole-slide-images
#1
Tad T Brunyé, Ezgi Mercan, Donald L Weaver, Joann G Elmore
Digital whole slide imaging is an increasingly common medium in pathology, with application to education, telemedicine, and rendering second opinions. It has also made it possible to use eye tracking devices to explore the dynamic visual inspection and interpretation of histopathological features of tissue while pathologists review cases. Using whole slide images, the present study examined how a pathologist's diagnosis is influenced by fixed case-level factors, their prior clinical experience, and their patterns of visual inspection...
January 10, 2017: Journal of Biomedical Informatics
https://www.readbyqxmd.com/read/28060861/predicting-the-multisensory-consequences-of-one-s-own-action-bold-suppression-in-auditory-and-visual-cortices
#2
Benjamin Straube, Bianca M van Kemenade, B Ezgi Arikan, Katja Fiehler, Dirk T Leube, Laurence R Harris, Tilo Kircher
Predictive mechanisms are essential to successfully interact with the environment and to compensate for delays in the transmission of neural signals. However, whether and how we predict multisensory action outcomes remains largely unknown. Here we investigated the existence of multisensory predictive mechanisms in a context where actions have outcomes in different modalities. During fMRI data acquisition auditory, visual and auditory-visual stimuli were presented in active and passive conditions. In the active condition, a self-initiated button press elicited the stimuli with variable short delays (0-417ms) between action and outcome, and participants had to detect the presence of a delay for auditory or visual outcome (task modality)...
2017: PloS One
https://www.readbyqxmd.com/read/28054653/the-long-non-coding-rna-neat1-is-responsive-to-neuronal-activity-and-is-associated-with-hyperexcitability-states
#3
Guy Barry, James A Briggs, Do Won Hwang, Sam P Nayler, Patrick R J Fortuna, Nicky Jonkhout, Fabien Dachet, Jesper L V Maag, Pieter Mestdagh, Erin M Singh, Lotta Avesson, Dominik C Kaczorowski, Ezgi Ozturk, Nigel C Jones, Irina Vetter, Luis Arriola-Martinez, Jianfei Hu, Gloria R Franco, Victoria M Warn, Andrew Gong, Marcel E Dinger, Frank Rigo, Leonard Lipovich, Margaret J Morris, Terence J O'Brien, Dong Soo Lee, Jeffrey A Loeb, Seth Blackshaw, John S Mattick, Ernst J Wolvetang
Despite their abundance, the molecular functions of long non-coding RNAs in mammalian nervous systems remain poorly understood. Here we show that the long non-coding RNA, NEAT1, directly modulates neuronal excitability and is associated with pathological seizure states. Specifically, NEAT1 is dynamically regulated by neuronal activity in vitro and in vivo, binds epilepsy-associated potassium channel-interacting proteins including KCNAB2 and KCNIP1, and induces a neuronal hyper-potentiation phenotype in iPSC-derived human cortical neurons following antisense oligonucleotide knockdown...
January 5, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28044298/fish-in-chips-a-microfluidic-platform-for-molecular-typing-of-cancer-cells
#4
Karla Perez-Toralla, Guillaume Mottet, Ezgi Tulukcuoglu-Guneri, Jérôme Champ, François-Clément Bidard, Jean-Yves Pierga, Jerzy Klijanienko, Irena Draskovic, Laurent Malaquin, Jean-Louis Viovy, Stéphanie Descroix
Microfluidics offer powerful tools for the control, manipulation, and analysis of cells, in particular for the assessment of cell malignancy or the study of cell subpopulations. However, implementing complex biological protocols on chip remains a challenge. Sample preparation is often performed off chip using multiple manually performed steps, and protocols usually include different dehydration and drying steps that are not always compatible with a microfluidic format.Here, we report the implementation of a Fluorescence in situ Hybridization (FISH) protocol for the molecular typing of cancer cells in a simple and low-cost device...
2017: Methods in Molecular Biology
https://www.readbyqxmd.com/read/28009253/structural-snapshots-of-xer-recombination-reveal-activation-by-synaptic-complex-remodeling-and-dna-bending
#5
Aleksandra Bebel, Ezgi Karaca, Banushree Kumar, W Marshall Stark, Orsolya Barabas
Bacterial Xer site-specific recombinases play an essential genome maintenance role by unlinking chromosome multimers, but their mechanism of action has remained structurally uncharacterized. Here, we present two high-resolution structures of Helicobacter pylori XerH with its recombination site DNA difH, representing pre-cleavage and post-cleavage synaptic intermediates in the recombination pathway. The structures reveal that activation of DNA strand cleavage and rejoining involves large conformational changes and DNA bending, suggesting how interaction with the cell division protein FtsK may license recombination at the septum...
December 23, 2016: ELife
https://www.readbyqxmd.com/read/28008963/characterization-of-dorsal-root-ganglion-neurons-cultured-on-silicon-micro-pillar-substrates
#6
Tihana Repić, Katarina Madirazza, Ezgi Bektur, Damir Sapunar
Our study focuses on characterization of dorsal root ganglion (DRG) neurons cultured on silicon micro-pillar substrates (MPS) with the ultimate goal of designing micro-electrode arrays (MEAs) for successful electrophysiological recordings of DRG neurons. Adult and neonatal DRG neurons were cultured on MPS and glass coverslips for 7 days in vitro. DRG neuronal distribution and morphometric analysis, including neurite alignment and length, was performed on MPS areas with different pillar width and spacing. We showed that MPS provide an environment for growth of adult and neonatal DRG neurons as permissive as control glass surfaces...
December 23, 2016: Scientific Reports
https://www.readbyqxmd.com/read/28008851/functional-dichotomy-and-distinct-nanoscale-assemblies-of-a-cell-cycle-controlled-bipolar-zinc-finger-regulator
#7
Johann Mignolet, Seamus Holden, Matthieu Bergé, Gaël Panis, Ezgi Eroglu, Laurence Théraulaz, Suliana Manley, Patrick H Viollier
Protein polarization underlies differentiation in metazoans and in bacteria. How symmetric polarization can instate functional asymmetry remains elusive. Here, we show by super-resolution photo-activated localization microscopy and edgetic mutations that the bitopic zinc-finger protein ZitP implements specialized developmental functions - pilus biogenesis and multifactorial swarming motility - while shaping distinct nanoscale (bi)polar architectures in the asymmetric model bacterium Caulobacter crescentus. Polar assemblage and accumulation of ZitP and its effector protein CpaM are orchestrated in time and space by conserved components of the cell cycle circuitry that coordinate polar morphogenesis with cell cycle progression, and also act on the master cell cycle regulator CtrA...
December 23, 2016: ELife
https://www.readbyqxmd.com/read/27925646/real-time-sonoelastography-of-parotid-gland-tumors
#8
Namık Kemal Altinbas, Ezgi Gundogdu Anamurluoglu, Ibrahim Ilker Oz, Cemal Yuce, Cemil Yagci, Evren Ustuner, Serdar Akyar
OBJECTIVES: We sought to determine the performance of real-time sonoelastography in the differential diagnosis of parotid gland tumors. METHODS: Between April, 2014, and June, 2015, 54 parotid gland masses were examined by ultrasound and strain sonoelastography in 46 patients. Real-time sonoelastography using the elasticity score (E-index), which gives an absolute value between 0 (softest) and 6 (hardest), was performed. Demographic characteristics, histopathologic examination, and difference in elasticity scores between benign and malignant masses were evaluated...
January 2017: Journal of Ultrasound in Medicine: Official Journal of the American Institute of Ultrasound in Medicine
https://www.readbyqxmd.com/read/27918876/awareness-of-identity-alteration-and-diagnostic-preference-between-borderline-personality-disorder-and-dissociative-disorders
#9
Vedat Sar, Firdevs Alioğlu, Gamze Akyuz, Emre Tayakısı, Ezgi F Öğülmüş, Doğuş Sönmez
AIM: This study inquires into identity alteration among college students and its relationship to borderline personality disorder (BPD) and/or dissociative disorders (DDs). METHODS: Steinberg Identity Alteration Questionnaire (SIAQ), Childhood Trauma Questionnaire (CTQ), and self-report screening tool of the BPD section of the Structured Clinical Interview for DSM-IV (SCID-BPD) were administered to 1301 college students. Participants who fit the diagnostic criteria of BPD (n = 80) according to the clinician-administered SCID-BPD and 111 non-BPD controls were evaluated using the Structured Clinical Interview for DSM-IV DDs (SCID-D) by two psychiatrists blind to the group membership and scale scores...
December 5, 2016: Journal of Trauma & Dissociation
https://www.readbyqxmd.com/read/27909593/our-anaesthetic-experiences-in-patients-undergoing-percutaneous-mitraclip-implantation
#10
Ezgi Erkılıç, Elvin Kesimci, Cihan Döğer, Tülin Gümüş, Süleyman Ellik, Orhan Kanbak
OBJECTIVE: Percutaneous mitraclip implantation system, is a new technique developed for patients with high surgical risks. It is generally performed in a catheterisation laboratory with the guidance of fluoroscopy and transesophageal echocardiography. In this study, we aimed to share our experiences on anaesthetic in patients undergoing mitraclip implantation under general anaesthesia. METHODS: Eighty four patients with severe, symptomatic mitral insufficiency, who had undergone MitraClip implantation under general anaesthesia between July 2012 and March 2015 (54 male, 30 female; mean age: 68...
August 2016: Turkish Journal of Anaesthesiology and Reanimation
https://www.readbyqxmd.com/read/27893783/role-of-pten-in-oxidative-stress-and-dna-damage-in-the-liver-of-whole-body-pten-haplodeficient-mice
#11
Ezgi Eyluel Bankoglu, Oliver Tschopp, Johannes Schmitt, Philipp Burkard, Daniel Jahn, Andreas Geier, Helga Stopper
Type 2 diabetes (T2DM) and obesity are frequently associated with non-alcoholic fatty liver disease (NAFLD) and with an elevated cancer incidence. The molecular mechanisms of carcinogenesis in this context are only partially understood. High blood insulin levels are typical in early T2DM and excessive insulin can cause elevated reactive oxygen species (ROS) production and genomic instability. ROS are important for various cellular functions in signaling and host defense. However, elevated ROS formation is thought to be involved in cancer induction...
2016: PloS One
https://www.readbyqxmd.com/read/27893467/bullous-pyoderma-gangrenosum-with-subungual-involvement-associated-with-ulcerative-colitis
#12
Ezgi Aktaş Karabay, Asl Aksu Cerman, İlknur Kvanc Altunay, Özben Yalçn
Pyoderma gangrenosum (PG) is a rare inflammatory and ulcerative skin disease of unknown etiology characterized by neutrophilic infiltration of the dermis, mainly affecting the lower extremities. Bullous PG is a rare variant of this disease, usually associated with hematologic disorders. Here, we report a case of pathergy-positive bullous PG with subungual involvement associated with ulcerative colitis.
November 22, 2016: American Journal of Dermatopathology
https://www.readbyqxmd.com/read/27892478/continuous-single-cell-imaging-reveals-sequential-steps-of-plasmacytoid-dendritic-cell-development-from-common-dendritic-cell-progenitors
#13
Ezgi Dursun, Max Endele, Andrea Musumeci, Henrik Failmezger, Shu-Hung Wang, Achim Tresch, Timm Schroeder, Anne B Krug
Functionally distinct plasmacytoid and conventional dendritic cells (pDC and cDC) shape innate and adaptive immunity. They are derived from common dendritic cell progenitors (CDPs) in the murine bone marrow, which give rise to CD11c(+) MHCII(-) precursors with early commitment to DC subpopulations. In this study, we dissect pDC development from CDP into an ordered sequence of differentiation events by monitoring the expression of CD11c, MHC class II, Siglec H and CCR9 in CDP cultures by continuous single cell imaging and tracking...
November 28, 2016: Scientific Reports
https://www.readbyqxmd.com/read/27882414/systemic-endothelial-function-measured-by-flow-mediated-dilation-is-impaired-in-patients-with-urolithiasis
#14
Esin Yencilek, Hakan Sarı, Faruk Yencilek, Ezgi Yeşil, Hasan Aydın
Some in vitro and animal studies have shown endothelial dysfunction in hyperoxaluria models indicating its role in pathogenesis of urolithiasis and relation to CVD. The aim of this study was to investigate endothelial function in patients with urolithiasis in relation to urinary stone risk factors and metabolic parameters. A total of 120 subjects without any known CVD (60 with urolithiasis and 60 healthy subjects) were included into study. Fasting blood and 24-h urine samples were collected to study metabolic parameters (glucose and lipids) and urine stone risk factors (oxalate, citrate, uric acid, and calcium, pH)...
November 23, 2016: Urolithiasis
https://www.readbyqxmd.com/read/27870932/investigation-of-the-toxicity-of-bismuth-oxide-nanoparticles-in-various-cell-lines
#15
Mahmoud Abudayyak, Ezgi Öztaş, Merve Arici, Gül Özhan
Nanoparticles have been drawn attention in various fields ranging from medicine to industry because of their physicochemical properties and functions, which lead to extensive human exposure to nanoparticles. Bismuth (Bi)-based compounds have been commonly used in the industrial, cosmetic and medical applications. Although the toxicity of Bi-based compounds was studied for years, there is a serious lack of information concerning their toxicity and effects in the nanoscale on human health and environment. Therefore, we aimed to investigate the toxic effects of Bi (III) oxide (Bi2O3) nanoparticles in liver (HepG2 hepatocarcinoma cell), kidney (NRK-52E kidney epithelial cell), intestine (Caco-2 colorectal adenocarcinoma cell), and lung (A549 lung carcinoma cell) cell cultures...
February 2017: Chemosphere
https://www.readbyqxmd.com/read/27865268/epitope-mapping-of-campylobacter-jejuni-flagellar-capping-protein-flid-by-chicken-gallus-gallus-domesticus-sera
#16
Hung-Yueh Yeh, Arife Ezgi Telli, Jarra F Jagne, Christopher L Benson, Kelli L Hiett, John E Line
Campylobacter jejuni, a Gram-negative rod, is a zoonotic pathogen associated with human acute bacterial gastroenteritis worldwide. The flagellum, composed of more than 35 proteins, is responsible for colonization of C. jejuni in the host gastrointestinal tract as well as inducing protective antibodies against the homologous serotype. In our previous study, we demonstrated that the flagellar capping protein (FliD) is an immunodominant protein that reacted strongly to sera from field chickens. In this communication, we mapped linear immunoreactive epitopes on FliD using a set of 158 synthetic peptides of 15-mer overlapping with 11 amino acid residues on peptide microarrays with sera from field chickens...
December 2016: Comparative Immunology, Microbiology and Infectious Diseases
https://www.readbyqxmd.com/read/27848065/impact-of-valvular-heart-disease-on-oral-anticoagulant-therapy-in-non-valvular-atrial-fibrillation-results-from-the-ramses-study
#17
Özcan Başaran, Volkan Dogan, Osman Beton, Mehmet Tekinalp, Ahmet Çağrı Aykan, Ezgi Kalaycıoğlu, Ismail Bolat, Onur Taşar, Özgen Şafak, Macit Kalçık, Mehmet Yaman, Sinan İnci, Bernas Altıntaş, Sedat Kalkan, Cevat Kırma, Murat Biteker
The definition of non-valvular atrial fibrillation (NVAF) is controversial. We aimed to assess the impact of valvular heart disease on stroke prevention strategies in NVAF patients. The RAMSES study was a multicenter and cross-sectional study conducted on NVAF patients (ClinicalTrials.gov identifier NCT02344901). The study population was divided into patients with significant valvular disease (SVD) and non-significant valvular disease (NSVD), whether they had at least one moderate valvular disease or not. Patients with a mechanical prosthetic valve and mitral stenosis were excluded...
November 15, 2016: Journal of Thrombosis and Thrombolysis
https://www.readbyqxmd.com/read/27812621/the-effect-of-various-kinematics-on-postoperative-pain-after-instrumentation-a-prospective-randomized-clinical-study
#18
RANDOMIZED CONTROLLED TRIAL
Hakan Arslan, Ruslan Khalilov, Ezgi Doğanay, Ertugrul Karatas
Objective: To evaluate various kinematic movements on postoperative pain using a Reciproc system. Material and Methods: Fifty-six molar teeth were divided into four groups according to kinematics as follows: continuous rotation, 360° CCW - 30° CW, 270° CCW - 30° CW, and 150° CCW - 30° CW. Preoperative and postoperative pain levels using visual analogue scale (VAS), percussion pain, and analgesic intake were recorded for each subject. Postoperative pain levels at 1, 3, 5, and 7 d were evaluated...
September 2016: Journal of Applied Oral Science: Revista FOB
https://www.readbyqxmd.com/read/27806838/intralymphatic-nevus-cells-in-benign-nevi
#19
Cem Leblebici, Canan Kelten, Mehmet Salih Gurel, Ezgi Hacıhasasanoglu
The histogenesis of nevus cell aggregates in lymph nodes lesion is controversial, and various hypotheses have been used to explain their origin. One of them is the transport of cells from cutaneous nevi or lesions to lymph nodes, called mechanical transport theory. We investigated in our cases of benign nevi to obtain evidence to substantiate this theory. A total of 369 benign cutaneous nevi were prospectively evaluated in excisional biopsy samples. Immunohistochemical stainings for CD31 and podoplanin (D2-40) were performed in the cases with intralymphatic nevus cell aggregate (ILNA), suspected for ILNA, and/or intralymphatic nevus cell protrusion...
December 2016: Annals of Diagnostic Pathology
https://www.readbyqxmd.com/read/27800239/comparison-of-pattern-electroretinography-and-optical-coherence-tomography-parameters-in-patients-with-primary-open-angle-glaucoma-and-ocular-hypertension
#20
Semra Tiryaki Demir, Mehmet Ersin Oba, Ezgi Tuna Erdoğan, Mahmut Odabaşı, Ayşe Burcu Dirim, Mehmet Demir, Efe Can, Orhan Kara, Selam Yekta Şendül
OBJECTIVES: To investigate the correlation of visual field (VF), pattern electroretinography (PERG) and Fourier domain optical coherence tomography (FD-OCT) results in patients with ocular hypertension (OHT) and early primary open-angle glaucoma (POAG). MATERIALS AND METHODS: The study included 72 eyes of 37 patients with early POAG, 76 eyes of 38 patients with OHT, and 60 eyes of 30 controls. All subjects underwent full ophthalmologic examination, VF assessment with 24-2 Humphrey standard automated perimetry (Swedish Interactive Thresholding Algorithm (SITA)-Standard), retinal nerve fiber layer (RNFL) and ganglion cell complex (GCC) thickness measurement with FD-OCT, and PERG P50 and N95 wave latency and amplitude measurements with electroretinography (Nihon Kohden)...
December 2015: Turkish Journal of Ophthalmology
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