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Iota models

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https://www.readbyqxmd.com/read/28574444/validation-of-the-performance-of-international-ovarian-tumor-analysis-iota-methods-in-the-diagnosis-of-early-stage-ovarian-cancer-in-a-non-screening-population
#1
Wouter Froyman, Laure Wynants, Chiara Landolfo, Tom Bourne, Lil Valentin, Antonia Testa, Povilas Sladkevicius, Dorella Franchi, Daniela Fischerova, Luca Savelli, Ben Van Calster, Dirk Timmerman
BACKGROUND: The aim of this study was to assess and compare the performance of different ultrasound-based International Ovarian Tumor Analysis (IOTA) strategies and subjective assessment for the diagnosis of early stage ovarian malignancy. METHODS: This is a secondary analysis of a prospective multicenter cross-sectional diagnostic accuracy study that included 1653 patients recruited at 18 centers from 2009 to 2012. All patients underwent standardized transvaginal ultrasonography by experienced ultrasound investigators...
June 2, 2017: Diagnostics
https://www.readbyqxmd.com/read/28512173/clinical-utility-of-risk-models-to-refer-patients-with-adnexal-masses-to-specialized-oncology-care-multicenter-external-validation-using-decision-curve-analysis
#2
Laure Wynants, Dirk Timmerman, Jan Verbakel, Antonia Testa, Luca Savelli, Daniela Fischerová, Dorella Franchi, Caroline D Van Holsbeke, Elisabeth Epstein, Wouter Froyman, Stefano Guerriero, Alberto Rossi, Robert Fruscio, Francesco Leone, Tom Bourne, Lil Valentin, Ben Van Calster
To evaluate the utility of pre-operative diagnostic models for ovarian cancer based on ultrasound and/or biomarkers for referring patients to specialized oncology care. The investigated models were RMI, ROMA, and three models from the International Ovarian Tumor Analysis (IOTA) group (LR2, ADNEX, and the Simple Rules risk score, SRRisks). <p>DESIGN: A secondary analysis of prospectively collected data from two cross-sectional cohort studies performed to externally validate diagnostic models.</p> <p>PARTICIPANTS: A total of 2763 patients (2403 in dataset 1 and 360 in dataset 2) from 18 centers (11 oncology centers and 7 non-oncology hospitals) in 6 countries...
May 16, 2017: Clinical Cancer Research: An Official Journal of the American Association for Cancer Research
https://www.readbyqxmd.com/read/28288666/reliability-of-preoperative-evaluation-of-postmenopausal-ovarian-tumors
#3
Riikka Johanna Niemi, Sami Kristian Saarelainen, Tiina Hannele Luukkaala, Johanna Unelma Mäenpää
BACKGROUND: Preoperative evaluation of ovarian tumors is challenging. This study was undertaken to evaluate the performance of conventional two-dimensional (2D) ultrasound and CA125 in predicting malignant or benign nature of pelvic masses, and to investigate if three-dimensional power Doppler (3DPD) ultrasound provides any added value. Ninety-six postmenopausal and four perimenopausal women with supposed ovarian tumors were examined by standardized 2D and 3DPD ultrasounds preoperatively...
March 14, 2017: Journal of Ovarian Research
https://www.readbyqxmd.com/read/28271890/comparison-of-implicit-and-explicit-solvation-models-for-iota-cyclodextrin-conformation-analysis-from-replica-exchange-molecular-dynamics
#4
Wasinee Khuntawee, Manaschai Kunaseth, Chompoonut Rungnim, Suradej Intagorn, Peter Wolschann, Nawee Kungwan, Thanyada Rungrotmongkol, Supot Hannongbua
Large ring cyclodextrins have become increasingly important for drug delivery applications. In this work, we have performed replica-exchange molecular dynamics simulations using both implicit and explicit water solvation models to study the conformational diversity of iota-cyclodextrin containing 14 α-1,4 glycosidic linked d-glucopyranose units (CD14). The new quantifiable calculation methods are proposed to analyze the openness, bending, and twisted conformation of CD14 in terms of circularity, biplanar angle, and one-directional conformation (ODC)...
April 24, 2017: Journal of Chemical Information and Modeling
https://www.readbyqxmd.com/read/28095404/entropy-transfer-between-residue-pairs-and-allostery-in-proteins-quantifying-allosteric-communication-in-ubiquitin
#5
Aysima Hacisuleyman, Burak Erman
It has recently been proposed by Gunasakaran et al. that allostery may be an intrinsic property of all proteins. Here, we develop a computational method that can determine and quantify allosteric activity in any given protein. Based on Schreiber's transfer entropy formulation, our approach leads to an information transfer landscape for the protein that shows the presence of entropy sinks and sources and explains how pairs of residues communicate with each other using entropy transfer. The model can identify the residues that drive the fluctuations of others...
January 2017: PLoS Computational Biology
https://www.readbyqxmd.com/read/28077248/alternative-splicing-at-exon-2-results-in-the-loss-of-the-catalytic-activity-of-mouse-dna-polymerase-iota-in-vitro
#6
Konstantin Y Kazachenko, Nataliya A Miropolskaya, Leonid V Gening, Vyacheslav Z Tarantul, Alena V Makarova
Y-family DNA polymerase iota (Pol ι) possesses both DNA polymerase and dRP lyase activities and was suggested to be involved in DNA translesion synthesis and base excision repair in mammals. The 129 strain of mice and its derivatives have a natural nonsense codon mutation in the second exon of the Pol ι gene resulting in truncation of the Pol ι protein. These mice were widely used as a Pol ι-null model for in vivo studies of the Pol ι function. However whether 129-derived strains of mice are fully deficient in the Pol ι functions was a subject of discussion since Pol ι mRNA undergoes alternative splicing at exon 2...
February 2017: DNA Repair
https://www.readbyqxmd.com/read/27995173/response-to-letter-to-the-editor-concerning-validation-of-iota-adnex-model
#7
Sebastian Szubert, Andrzej Wojtowicz, Patryk Zywica
No abstract text is available yet for this article.
November 2016: Gynecologic Oncology Reports
https://www.readbyqxmd.com/read/27647726/ep26-03-use-of-iota-terms-definitions-and-models-to-describe-ovarian-mass-with-elevated-%C3%AE-hcg-in-35-years-old-patient-case-report
#8
N Abdalla, R Piorkowski, M Pazura, K Cendrowski, W Sawicki
No abstract text is available yet for this article.
September 2016: Ultrasound in Obstetrics & Gynecology
https://www.readbyqxmd.com/read/27516258/sulfated-polysaccharide-fraction-from-marine-algae-solieria-filiformis-structural-characterization-gastroprotective-and-antioxidant-effects
#9
Willer M Sousa, Renan O Silva, Francisco F Bezerra, Rudy D Bingana, Francisco Clark N Barros, Luís E C Costa, Venicios G Sombra, Pedro M G Soares, Judith P A Feitosa, Regina C M de Paula, Marcellus H L P Souza, André Luiz R Barbosa, Ana Lúcia P Freitas
A sulfated polysaccharide (SFP) fraction from the marine alga Solieria filiformis was extracted and submitted to microanalysis, molar mass estimation and spectroscopic analysis. We evaluated its gastroprotective potential in vivo in an ethanol-induced gastric damage model and its in vitro antioxidant properties (DPPH, chelating ferrous ability and total antioxidant capacity). Its chemical composition revealed to be essentially an iota-carrageenan with a molar mass of 210.9kDa and high degree of substitution for sulfate groups (1...
November 5, 2016: Carbohydrate Polymers
https://www.readbyqxmd.com/read/27507231/refining-ovarian-cancer-test-accuracy-scores-rockets-protocol-for-a-prospective-longitudinal-test-accuracy-study-to-validate-new-risk-scores-in-women-with-symptoms-of-suspected-ovarian-cancer
#10
Sudha Sundar, Caroline Rick, Francis Dowling, Pui Au, Kym Snell, Nirmala Rai, Rita Champaneria, Hilary Stobart, Richard Neal, Clare Davenport, Susan Mallett, Andrew Sutton, Sean Kehoe, Dirk Timmerman, Tom Bourne, Ben Van Calster, Aleksandra Gentry-Maharaj, Usha Menon, Jon Deeks
INTRODUCTION: Ovarian cancer (OC) is associated with non-specific symptoms such as bloating, making accurate diagnosis challenging: only 1 in 3 women with OC presents through primary care referral. National Institute for Health and Care Excellence guidelines recommends sequential testing with CA125 and routine ultrasound in primary care. However, these diagnostic tests have limited sensitivity or specificity. Improving accurate triage in women with vague symptoms is likely to improve mortality by streamlining referral and care pathways...
2016: BMJ Open
https://www.readbyqxmd.com/read/27489270/inhibition-of-human-metapneumovirus-binding-to-heparan-sulfate-blocks-infection-in-human-lung-cells-and-airway-tissues
#11
Edita M Klimyte, Stacy E Smith, Pasqua Oreste, David Lembo, Rebecca Ellis Dutch
UNLABELLED: Human metapneumovirus (HMPV), a recently discovered paramyxovirus, infects nearly 100% of the world population and causes severe respiratory disease in infants, the elderly, and immunocompromised patients. We previously showed that HMPV binds heparan sulfate proteoglycans (HSPGs) and that HMPV binding requires only the viral fusion (F) protein. To characterize the features of this interaction critical for HMPV binding and the role of this interaction in infection in relevant models, we utilized sulfated polysaccharides, heparan sulfate mimetics, and occluding compounds...
October 15, 2016: Journal of Virology
https://www.readbyqxmd.com/read/27391068/loss-of-lsr-affects-epithelial-barrier-integrity-and-tumor-xenograft-growth-of-caco-2-cells
#12
Bernd A Czulkies, Justin Mastroianni, Lisa Lutz, Sarah Lang, Carsten Schwan, Gudula Schmidt, Silke Lassmann, Robert Zeiser, Klaus Aktories, Panagiotis Papatheodorou
The lipolysis-stimulated lipoprotein receptor (LSR) is a lipoprotein receptor, serves as host receptor for clostridial iota-like toxins and is involved in the formation of tricellular contacts. Of particular interest is the role of LSR in progression of various cancers. Here we aimed to study the tumor growth of LSR-deficient colon carcinoma-derived cell lines HCT116 and CaCo-2 in a mouse xenograft model. Whereas knockout of LSR had no effect on tumor growth of HCT116 cells, we observed that CaCo-2 LSR knockout tumors grew to a smaller size than their wild-type counterparts...
June 6, 2017: Oncotarget
https://www.readbyqxmd.com/read/27374142/external-validation-of-the-iota-adnex-model-performed-by-two-independent-gynecologic-centers
#13
MULTICENTER STUDY
Sebastian Szubert, Andrzej Wojtowicz, Rafal Moszynski, Patryk Zywica, Krzysztof Dyczkowski, Anna Stachowiak, Stefan Sajdak, Dariusz Szpurek, Juan Luis Alcazar
OBJECTIVES: The external, two-center validation of the IOTA ADNEX model for differential diagnosis of adnexal tumors. METHODS: A total of 204 patients with adnexal masses (134 benign and 70 malignant) treated at the Division of Gynecologic Surgery, Poznan University of Medical Sciences, Poland (Center I), and 123 patients (89 benign and 34 malignant) from the Department of Obstetrics and Gynecology, Clinica Universidad de Navarra, University of Navarra School of Medicine, Pamplona, Spain (Center II), were enrolled into the study...
September 2016: Gynecologic Oncology
https://www.readbyqxmd.com/read/27299852/targeting-atypical-protein-kinase-c-iota-reduces-viability-in-glioblastoma-stem-like-cells-via-a-notch-signaling-mechanism
#14
Emma Phillips, Verena Lang, Jonathan Bohlen, Frederic Bethke, Laura Puccio, Diana Tichy, Christel Herold-Mende, Thomas Hielscher, Peter Lichter, Violaine Goidts
In a previous study, Protein Kinase C iota (PRKCI) emerged as an important candidate gene for glioblastoma (GBM) stem-like cell (GSC) survival. Here, we show that PKCι is overexpressed and activated in patient derived GSCs compared with normal neural stem cells and normal brain lysate, and that silencing of PRKCI in GSCs causes apoptosis, along with loss of clonogenicity and reduced proliferation. Notably, PRKCI silencing reduces tumor growth in vivo in a xenograft mouse model. PKCι has been intensively studied as a therapeutic target in non-small cell lung cancer, resulting in the identification of an inhibitor, aurothiomalate (ATM), which disrupts the PKCι/ERK signaling axis...
October 15, 2016: International Journal of Cancer. Journal International du Cancer
https://www.readbyqxmd.com/read/27194129/performance-of-the-iota-adnex-model-in-preoperative-discrimination-of-adnexal-masses-in-a-gynecological-oncology-center
#15
K G Araujo, R M Jales, P N Pereira, A Yoshida, L de Angelo Andrade, L O Sarian, S Derchain
OBJECTIVE: To evaluate the performance of the International Ovarian Tumor Analysis (IOTA) ADNEX model in the preoperative discrimination between benign ovarian (including tubal and para-ovarian) tumors, borderline ovarian tumors (BOT), Stage I ovarian cancer (OC), Stage II-IV OC and ovarian metastasis in a gynecological oncology center in Brazil. METHODS: This was a diagnostic accuracy study including 131 women with an adnexal mass invited to participate between February 2014 and November 2015...
June 2017: Ultrasound in Obstetrics & Gynecology
https://www.readbyqxmd.com/read/27057634/dna-polymerase-iota-pol-%C3%AE-promotes-invasion-and-metastasis-of-esophageal-squamous-cell-carcinoma
#16
Shitao Zou, Zeng-Fu Shang, Biao Liu, Shuyu Zhang, Jinchang Wu, Min Huang, Wei-Qun Ding, Jundong Zhou
DNA polymerase iota (Pol ι) is an error-prone DNA polymerase involved in translesion DNA synthesis (TLS) that contributes to the accumulation of DNA mutations. We recently showed that Pol ι is overexpressed in human esophageal squamous cell cancer (ESCC) tissues which promotes ESCC' progression. The present study was aimed at investigating the molecular mechanisms by which Pol ι enhances the invasiveness and metastasis of ESCC cells. We found that the expression of Pol ι is significantly higher in ESCCs with lymph node metastasis compared to those without lymph node metastasis...
May 31, 2016: Oncotarget
https://www.readbyqxmd.com/read/26922169/subjective-assessment-versus-ultrasound-models-to-diagnose-ovarian-cancer-a-systematic-review-and-meta-analysis
#17
REVIEW
E M J Meys, J Kaijser, R F P M Kruitwagen, B F M Slangen, B Van Calster, B Aertgeerts, J Y Verbakel, D Timmerman, T Van Gorp
INTRODUCTION: Many national guidelines concerning the management of ovarian cancer currently advocate the risk of malignancy index (RMI) to characterise ovarian pathology. However, other methods, such as subjective assessment, International Ovarian Tumour Analysis (IOTA) simple ultrasound-based rules (simple rules) and IOTA logistic regression model 2 (LR2) seem to be superior to the RMI. Our objective was to compare the diagnostic accuracy of subjective assessment, simple rules, LR2 and RMI for differentiating benign from malignant adnexal masses prior to surgery...
May 2016: European Journal of Cancer
https://www.readbyqxmd.com/read/26800772/predicting-the-risk-of-malignancy-in-adnexal-masses-based-on-the-simple-rules-from-the-international-ovarian-tumor-analysis-group
#18
MULTICENTER STUDY
Dirk Timmerman, Ben Van Calster, Antonia Testa, Luca Savelli, Daniela Fischerova, Wouter Froyman, Laure Wynants, Caroline Van Holsbeke, Elisabeth Epstein, Dorella Franchi, Jeroen Kaijser, Artur Czekierdowski, Stefano Guerriero, Robert Fruscio, Francesco P G Leone, Alberto Rossi, Chiara Landolfo, Ignace Vergote, Tom Bourne, Lil Valentin
BACKGROUND: Accurate methods to preoperatively characterize adnexal tumors are pivotal for optimal patient management. A recent metaanalysis concluded that the International Ovarian Tumor Analysis algorithms such as the Simple Rules are the best approaches to preoperatively classify adnexal masses as benign or malignant. OBJECTIVE: We sought to develop and validate a model to predict the risk of malignancy in adnexal masses using the ultrasound features in the Simple Rules...
April 2016: American Journal of Obstetrics and Gynecology
https://www.readbyqxmd.com/read/26547069/repair-of-clustered-damage-and-dna-polymerase-iota
#19
E A Belousova, O I Lavrik
Multiple DNA lesions occurring within one or two turns of the DNA helix known as clustered damage are a source of double-stranded DNA breaks, which represent a serious threat to the cells. Repair of clustered lesions is accomplished in several steps. If a clustered lesion contains oxidized bases, an individual DNA lesion is repaired by the base excision repair (BER) mechanism involving a specialized DNA polymerase after excising DNA damage. Here, we investigated DNA synthesis catalyzed by DNA polymerase iota using damaged DNA templates...
August 2015: Biochemistry. Biokhimii︠a︡
https://www.readbyqxmd.com/read/26475383/association-of-polymorphisms-in-prkci-gene-and-risk-of-prostate-cancer-in-a-sample-of-iranian-population
#20
M Hashemi, G Shahkar, N Simforoosh, A Basiri, S A M Ziaee, B Narouie, M Taheri
The atypical protein kinase C iota (aPKCι) is an oncoprotein encoded by the PRKCI gene. It has been reported to play multifunctional roles in cellular maintenance, cell proliferation, survival, differentiation and apoptosis. In the present study we aimed to assess the impact of PRKCI rs546950 C>T and rs4955720 C>A polymorphisms on prostate cancer (PCa) risk in a sample of Iranian population. This case-control study was done on 169 patients with pathologically confirmed PCa and 182 benign prostatic hyperplasia (BPH)...
2015: Cellular and Molecular Biology
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