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Ian Ganly, Vladimir Makarov, Shyamprasad Deraje, YiYu Dong, Ed Reznik, Venkatraman Seshan, Gouri Nanjangud, Stephanie Eng, Promita Bose, Fengshen Kuo, Luc G T Morris, Inigo Landa, Pedro Blecua Carrillo Albornoz, Nadeem Riaz, Yuri E Nikiforov, Kepal Patel, Christopher Umbricht, Martha Zeiger, Electron Kebebew, Eric Sherman, Ronald Ghossein, James A Fagin, Timothy A Chan
The molecular foundations of Hürthle cell carcinoma (HCC) are poorly understood. Here we describe a comprehensive genomic characterization of 56 primary HCC tumors that span the spectrum of tumor behavior. We elucidate the mutational profile and driver mutations and show that these tumors exhibit a wide range of recurrent mutations. Notably, we report a high number of disruptive mutations to both protein-coding and tRNA-encoding regions of the mitochondrial genome. We reveal unique chromosomal landscapes that involve whole-chromosomal duplications of chromosomes 5 and 7 and widespread loss of heterozygosity arising from haploidization and copy-number-neutral uniparental disomy...
August 13, 2018: Cancer Cell
Sarah Pearlstein, Arash H Lahouti, Elana Opher, Yuri E Nikiforov, Daniel B Kuriloff
Hürthle cell predominant thyroid nodules often confound the diagnostic utility of fine needle aspiration biopsy (FNAB) with cytology often interpreted as a Hürthle cell lesion with an indeterminate risk of malignancy, Bethesda category (BC) III or IV. Molecular diagnostics for Hürthle cell predominant nodules has also been disappointing in further defining the risk of malignancy. We present a case of a slowly enlarging nodule within a goiter initially reported as benign on FNAB, BC II but on subsequent FNAB suspicious for a Hürthle cell neoplasm, BC IV...
2018: Case Reports in Endocrinology
Cristiane J Gomes-Lima, Yuri E Nikiforov, Wen Lee, Kenneth D Burman
Struma ovarii is a rare ovarian teratoma predominantly composed of thyroid tissue. The simultaneous presence of thyroid carcinoma in the struma ovarii and the thyroid gland is extremely rare. It remains unclear if these carcinomas represent independent primary tumors and whether the molecular mechanisms of the tumors developing in the thyroid and ovarian tissues are similar. We present the case of a patient with two independent papillary thyroid carcinomas (PTCs) in struma ovarii and the thyroid gland that are driven by different RAS mutations...
August 1, 2018: Journal of the Endocrine Society
Dmitry Nikiforov, Valentina Russo, Delia Nardinocchi, Nicola Bernabò, Mauro Mattioli, Barbara Barboni
BACKGROUND: In recent years, autotransplantation of cryopreserved ovarian tissue became a promising approach to preserve female fertility. The slow freezing is the most effective technique which resulted in greater live birth incidence so far. Despite that, interest to vitrification of the ovarian tissue is swiftly growing, thereby undermining the necessity for further improvements in the technique. In present study, we evaluated possibilities to increase follicle survival rates adopting innovative multi-protectoral vitrification protocols, applied to the slivers of ovarian cortex or isolated early-antral follicles, frozen individually...
August 7, 2018: Journal of Ovarian Research
Patrick Vanraes, Anton Nikiforov, Annemie Bogaerts, Christophe Leys
In the last decades, AC powered atmospheric dielectric barrier discharges (DBDs) in air with a liquid electrode have been proposed as a promising plasma technology with versatile applicability in medicine, agriculture and water treatment. The fundamental features of the micro-discharge filaments that make up this type of plasma have, however, not been studied yet in sufficient detail. In order to address this need, we investigated a single DBD micro-discharge filament over a water film in a sphere-to-sphere electrode configuration, by means of ICCD imaging and optical emission spectroscopy...
July 19, 2018: Scientific Reports
Jens Bitzer, Thomas Henkel, Andrey I Nikiforov, Marisa O Rihner, Mark T Herberth
The developmental and reproduction toxicity potential of jelly mushroom glycolipids from Dacryopinax spathularia was studied in Crl:CD (SD) rats by daily oral gavage administration at doses of 150, 500 or 1000 mg/kg/day. Pregnant female rats in the developmental study received the test article from Gestation Days 6-19. F0 and F1 parental animals in the 2-generation reproduction toxicity study were dosed for a minimum of 70 days prior to mating and throughout mating, gestation, and lactation, until the day prior to euthanasia (following weaning of litters on postnatal day 21)...
July 27, 2018: Food and Chemical Toxicology
Robert L Ferris, Yuri Nikiforov, Davis Terris, Raja R Seethala, J Andrew Ridge, Peter Angelos, Quan-Yang Duh, Richard Wong, Mona M Sabra, James A Fagin, Bryan McIver, Victor J Bernet, R Mack Harrell, Naifa Busaidy, Edmund S Cibas, William C Faquin, Peter Sadow, Zubair Baloch, Maisie Shindo, Lisa Orloff, Louise Davies, Gregory W Randolph
The newly introduced pathologic diagnosis of noninvasive follicular thyroid neoplasm with papillary-like nuclear features (NIFTP) will result in less bilateral thyroid surgery as well as deescalation in T4 suppressive and radioactive iodine treatment. Although, NIFTP is a nonmalignant lesion that has nuclear features of some papillary malignancies, the challenge for the surgeon is to identify a lesion as possibly NIFTP before the pathologic diagnosis. NIFTP, due to its reduction of overall rates of malignancy, will result in the initial surgical pendulum swinging toward lobectomy instead of initial total thyroidectomy...
June 26, 2018: Head & Neck
Keith M Callenberg, Lucas Santana-Santos, Liang Chen, Wayne L Ernst, Michelle B De Moura, Yuri E Nikiforov, Marina N Nikiforova, Somak Roy
Human Genome Variation Society (HGVS) nomenclature is a de facto clinical standard for reporting DNA sequence variants. With increasing use of high-throughput sequencing, manual generation of HGVS nomenclatures for all variants is impractical and error-prone. It is therefore beneficial to include one or more HGVS generator tools in next-generation sequencing (NGS) bioinformatics pipelines to enable automated, consistent, and accurate generation of HGVS nomenclature after appropriate validation. The authors implemented an HGVS nomenclature tool, the hgvs package, by integrating it into their custom-developed NGS variant management and reporting software...
June 21, 2018: Journal of Molecular Diagnostics: JMD
Yuri E Nikiforov, Zubair W Baloch, Steven P Hodak, Thomas J Giordano, Ricardo V Lloyd, Raja R Seethala, Bruce M Wenig
No abstract text is available yet for this article.
June 14, 2018: JAMA Oncology
Vladimir V Kutyrev, Galina A Eroshenko, Vladimir L Motin, Nikita Y Nosov, Jaroslav M Krasnov, Lyubov M Kukleva, Konstantin A Nikiforov, Zhanna V Al'khova, Eugene G Oglodin, Natalia P Guseva
The established phylogeny of the etiological agent of plague, Yersinia pestis , is not perfect, as it does not take into account the strains from numerous natural foci of Commonwealth of Independent States (CIS). We have carried out PCR and SNP typing of 359 strains and whole genome sequencing of 51 strains from these plague foci and determined the phylogenetic diversity of the strains circulating here. They belong to 0.ANT3, 0.ANT5, 2.ANT3, 4.ANT branches of antique biovar, 2.MED0, 2.MED1 branches of medieval biovar and to 0...
2018: Frontiers in Microbiology
Larisa Metelkova, Zoya Zhakovskaya, Galina Kukhareva, Alexander Rybalko, Vladimir Nikiforov
A total of 26 samples of surface sediments collected in the Neva River (including the St. Petersburg city area) and in the Russian part of the Gulf of Finland were analyzed for 17 polychlorinated dibenzo-p-dioxins, polychlorinated dibenzofurans (PCDD/Fs), 12 dioxin-like polychlorinated biphenyls (dl-PCBs), and 10 polybrominated diphenyl ethers (PBDEs). The concentrations of total PCDD/Fs and dl-PCBs in sediments ranged from < 0.05 to 219 pg g-1  d.w. and from 44 to 246,600 pg g-1  d.w. respectively...
May 28, 2018: Environmental Science and Pollution Research International
O V Varlamova, A V Babkin, I S Berdinskikh, G V Nazarov, A S Nikiforov, V N Bykov, M B Ivanov
We studied association of Oprm1 gene polymorphisms with signs of N-(1-phenethyl-4-piperidyl)propionanilide intoxication in rats. It was found that the rate of intoxication in laboratory animals depends on genetic features. A polymorphic variant rs105312806 of Oprm1 gene can be a possible marker of animal sensitivity to opioid receptor agonists. This hypothesis was supported by differences in the rats of intoxication signs such as time to lateral posture and sleep duration in homozygous rats carrying different alleles...
May 2018: Bulletin of Experimental Biology and Medicine
Venancio A F Alves, Kennichi Kakudo, Virginia LiVolsi, Ricardo V Lloyd, Yuri E Nikiforov, Vania Nosé, Mauro Papotti, Lester D R Thompson
No abstract text is available yet for this article.
May 21, 2018: Clinics
Patrick Vanraes, Niels Wardenier, Pieter Surmont, Frederic Lynen, Anton Nikiforov, Stijn W H Van Hulle, Christophe Leys, Annemie Bogaerts
A falling film dielectric barrier discharge (DBD) plasma reactor combined with adsorption on activated carbon textile material was optimized to minimize the formation of hazardous oxidation by-products from the treatment of persistent pesticides (alachlor, diuron and isoproturon) in water. The formation of by-products and the reaction mechanism was investigated by HPLC-TOF-MS. The maximum concentration of each by-product was at least two orders of magnitude below the initial pesticide concentration, during the first 10 min of treatment...
July 15, 2018: Journal of Hazardous Materials
M A Yudin, V N Bykov, A S Nikiforov, R I Al-Shekhadat, I M Ivanov, T M Ustinova
We compared the efficiency of delivery of plasmid DNA (active ingredient concentration 1 mg/kg) that provides production of nerve growth factor (NGF) after intravenous administration to rats and after administration by hydroporation. The method of hydroporation ensured plasmid penetration into the liver tissue and lengthened the time of its detection in the organ. DNA concentration in 1 h after its introduction by hydroporation or intravenous route was 0.7 and 0.05 ng/mg tissue, respectively. The use of this transfection method ensured preservation of NGF DNA in the liver tissue at a level of 0...
April 2018: Bulletin of Experimental Biology and Medicine
A D Kaprin, A A Kostin, P V Nikiforov, V I Egorov, N A Grishin, M V Lozhkin, L O Petrov, S A Bykasov, D V Sidorov
AIM: To analyze learning curve by using of immediate results of pancreatoduodenectomy at multi-field oncology institute. MATERIAL AND METHODS: For the period 2010-2016 at Abdominal Oncology Department of Herzen Moscow Oncology Research Institute 120 pancreatoduodenal resections were consistently performed. All patients were divided into two groups: the first 60 procedures (group A) and subsequent 60 operations (group B). Herewith, first 60 operations were performed within the first 4...
2018: Khirurgiia
Kennichi Kakudo, Adel K El-Naggar, Steven P Hodak, Elham Khanafshar, Yuri E Nikiforov, Vania Nosé, Lester D R Thompson
No abstract text is available yet for this article.
June 2018: Pathology International
A M Kolesnikov, M A Yuidin, A S Nikiforov, I M Ivanov, N G Vengerovich, A S Makacheev
The efficiency of different reactivators of cholinesterase (toxogonin, dipiroxime, pralidoxime, carboxim, HI-6, and methoxime) at inhibition of butyrylcholinesterase and human acetylcholinesterase by organophosphate insecticide malathion was evaluated in in vitro experiments. Most reactivators increased inhibition of butyrylcholinesterase in comparison with the control, but HI-6 in a concentration of 10-3 mol/liter partially (10%) restored activity of the enzyme. Oxime-induced reactivation of acetylcholinesterase was most pronounced in dipyroxime and toxogonin: parameters of the kinetics of reduction of the phosphorylated enzyme differed by more than 2 times from the values received with the use of other reactivators...
March 2018: Bulletin of Experimental Biology and Medicine
Viktoria N Evdokimova, Manoj Gandhi, Alyaksandr V Nikitski, Christopher J Bakkenist, Yuri E Nikiforov
We provide evidence for a mechanism of DNA repair that requires nuclear myosin/actin-dependent contact between homologous chromosomes to prevent formation of chromosomal rearrangement in human cells. We recently showed that DNA double strand breaks (DSBs) induced by γ-rays or endonucleases cause ATM-dependent contact formation between homologous chromosomes at damaged sites of transcriptionally active chromatin in G0 /G1 -phase cells. Here, we report that the mechanism of contact generation between homologous chromosomes also requires homology-directed repair proteins, including BRCA1, RAD51 and RAD52, and nuclear myosin/actin-motors...
March 2, 2018: Oncotarget
Sann Y Mon, Gregory Riedlinger, Collette E Abbott, Raja Seethala, N Paul Ohori, Marina N Nikiforova, Yuri E Nikiforov, Steven P Hodak
BACKGROUND: Thyroid-stimulating hormone receptor (TSHR) gene mutations play a critical role in thyroid cell proliferation and function. They are found in 20%-82% of hyperfunctioning nodules, hyperfunctioning follicular thyroid cancers (FTC), and papillary thyroid cancers (PTC). The diagnostic importance of TSHR mutation testing in fine needle aspiration (FNA) specimens remains unstudied. METHODS: To examine the association of TSHR mutations with the functional status and surgical outcomes of thyroid nodules, we evaluated 703 consecutive thyroid FNA samples with indeterminate cytology for TSHR mutations using next-generation sequencing...
May 2018: Diagnostic Cytopathology
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