639 results on '"De Nicolo A"'
Search Results
602. The BRCA2 sequence variant IVS19+1G→A leads to an aberrant transcript lacking exon 19
- Author
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Agata, Simona, De Nicolo, Arcangela, Chieco-Bianchi, Luigi, D'Andrea, Emma, Menin, Chiara, and Montagna, Marco
- Published
- 2003
- Full Text
- View/download PDF
603. Finite Element Model of the Pull-Out Test for Concrete Strength Evaluation
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Meloni, D., primary, De Nicolo, B., additional, and Valdes, M., additional
- Full Text
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604. Non-Destructive Testing of Stone Masonry using Acoustic Attenuation Tomography Imaging
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Concu, G., primary, De Nicolo, B., additional, Piga, C., additional, and Popescu, V., additional
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605. Aurora-PLK1 cascades as key signaling modules in the regulation of mitosis
- Author
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Joukov, Vladimir and De Nicolo, Arcangela
- Abstract
Precise spatiotemporal control enables the mitotic kinases Aurora and PLK1 to orchestrate distinct mitotic processes.
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- 2018
- Full Text
- View/download PDF
606. When disaster strikes
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De Nicolo, David
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When Disaster Strikes (Book) -- Book reviews ,Books -- Book reviews ,Fashion and beauty - Published
- 1986
607. Edgetic perturbation of BRCT-mediated interactions caused by the BRCA1 H1686Q sequence variant.
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De Nicolo, A., Pathania, S., Parisini, E., and Joukov, V.
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BRCA genes , *BREAST cancer research , *AMINO acids , *PROTEINS , *PROTEIN-protein interactions - Abstract
Background: The ever-increasing number of variants of uncertain significance (VUS) that result from BRCA1/BRCA2 genetic testing poses a challenge to healthcare providers, thus impacting clinical decision-making. Though a quantitative posterior probability model, mostly reliant on genetic data, has been developed to estimate the clinical relevance of individual VUS, indirect evidence derived from functional tests continues to be a sought after adjunct to achieve VUS categorization. Using a multimodal approach, we previously demonstrated the deleterious effect on protein localization and function of the Italian founder sequence alteration BRCA1 V1688del, and the neutral effect of a neighboring variant, BRCA1 V1687I, identified in a patient with early onset triple negative breast cancer. Disease-causality has been suggested for the adjacent BRCA1 H1686Q variant that occurs in the evolutionarily conserved THV motif of the first BRCT repeat and was described in a breast/ovarian cancer family (Giannini et al., 2008). We aimed at substantiating the predicted pathogenicity of BRCA1 H1686Q by assessing its biological significance. Methods: To investigate the structural and functional consequences of the BRCA1 H1686Q sequence alteration, we used a strategy that combined homology modeling with analysis of protein interactions (by immunoprecipitation and GST pull down techniques) and function (by a homologous recombination assay). Results: The three-dimensional model of the BRCA1 H1686Q BRCT domain suggested that the site and nature of the amino acid change could alter the interaction and relative orientation of secondary structure elements in the core region of the protein, thus possibly affecting the overall stability of the protein and triggering a long-range allosteric effect with repercussions on residues involved in phosphopeptide binding. Indeed, in transfected 293T cells, the recombinant BRCA1 H1686Q protein was less abundant than its wild-type counterpart. Moreover, while efficiently heterodimerizing, via its N-terminus, with the binding partner BARD1, the BRCA1 H1686Q protein displayed a peculiar behavior with regards to C-terminal, BRCT-mediated interactions as it bound BRIP1/FANCJ and not CtIP. These results, repeatedly observed in different cell lines, were confirmed by reciprocal immunoprecipitations as well as by GST pull down experiments using a recombinant BRCA1 H1686Q BRCT domain. Notably, the BRCA1 H1686Q protein displayed a homologous recombination defect similar to that observed for the clinically ascertained BRCA1 M1775R mutant protein. Conclusions: Our data suggest that the BRCA1 H1686Q variant, by affecting the BRCT ligand recognition ability, causes an edgetic perturbation (i.e. selective disruption/retention) of BRCT-mediated interactions, which is yet sufficient to impair the homologous recombination function of the encoded protein. These findings provide valuable structure/function insights that could help elucidate the link between BRCA1 DNA repair and tumor suppression functions and aid development of functional tests for VUS screening and classification. [ABSTRACT FROM AUTHOR]
- Published
- 2012
- Full Text
- View/download PDF
608. MelaNostrum: a consensus questionnaire of standardized epidemiologic and clinical variables for melanoma risk assessment by the melanostrum consortium.
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Stratigos, Alexander J., Fargnoli, Maria Concetta, De Nicolo, Arcangela, Peris, Ketty, Puig, Susana, Soura, Efthymia, Menin, Chiara, Calista, Donato, Ghiorzo, Paola, Mandala, Mario, Massi, Daniela, Rodolfo, Monica, Del Regno, Laura, Stefanaki, Irene, Gogas, Helen, Bataille, Veronique, Tucker, Margaret A., Whiteman, David, Nagore, Eduardo, and Landi, Maria Teresa
- Subjects
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MELANOMA , *DERMATOLOGY , *META-analysis , *ACQUISITION of data , *ULTRAVIOLET radiation - Abstract
Background: Many melanoma observational studies have been carried out across different countries and geographic areas using heterogeneous assessments of epidemiologic risk factors and clinical variables. Aim: To develop a consensus questionnaire to standardize epidemiologic and clinical data collection for melanoma risk assessment. Methods: We used a stepwise strategy that included: compilation of variables from case–control datasets collected at various centres of the MelaNostrum Consortium; integration of variables from published case–control studies; consensus discussion of the collected items by MelaNostrum members; revision by independent experts; addition of online tools and image‐based charts; questionnaire testing across centres and generation of a final draft. Results: We developed a core consensus questionnaire (MelanoQ) that includes four separate sections: A. general and demographic data; B. phenotypic and ultraviolet radiation exposure risk factors and lifestyle habits; C. clinical examination, medical and family history; and D. diagnostic data on melanoma (cases only). Accompanying online tools, informative tables, and image‐based charts aid standardization. Different subsections of the questionnaire are designed for self‐administration, patient interviews performed by a physician or study nurse, and data collection from medical records. Conclusions: The MelanoQ questionnaire is a useful tool for the collection and standardization of epidemiologic and clinical data across different studies, centres, cultures and languages. This will expedite ongoing efforts to compile high‐quality data for pooled analyses or meta‐analyses and offer a solid base for the design of clinical, epidemiologic and translational studies on melanoma. [ABSTRACT FROM AUTHOR]
- Published
- 2018
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- View/download PDF
609. Toxicological evaluation of a highly specific rodenticide : A thesis submitted in partial fulfilment of the requirements for the Degree of Science with Honours at Lincoln University
- Author
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de Nicolo, Gina
- Subjects
- rodenticide, rat specific toxin, norbormide, Rattus norvegicus, pest control, ANZSRC::410404 Environmental management, ANZSRC::410202 Biosecurity science and invasive species ecology
- Abstract
In New Zealand rats are predators of native and introduced flora and fauna, with anticoagulants being the most commonly used rodenticides. However, with the development of anticoagulant resistance worldwide, and the increasing requirements for more humane and effective methods to control wild rat populations, there is an incentive to identify rat-specific and humane rodenticides. Landcare Research is developing a highly specific rodenticide (rat specific toxin; RST), for use in field conditions. Norbormide, which is similar to RST, has previously been shown to have high efficacy and supposedly a humane mode of killing, but it has a low acceptance by rats. This series of studies was conducted to assess the palatability of RST, gain insights into the mechanism(s) of low palatability, increase efficacy with the use of a synergist and finally to assess histological lesions in the possible target organs. Combination of RST with Bitrex, a masking agent, did not improve palatability in wild Norway rats and hence the mortality rates (15%) were low. Adenosine monophosphate was then used in an attempt to block the bitter taste of RST in laboratory Norway rats. The results from this experiment suggested that the low acceptance of RST may be due to mechanisms other than the bitter taste. If palatability could not be improved, it was thought that the use of a synergist, p-aminopropiophenone (PAPP), a methaemoblogin (MtHb) forming drug, could be used in combination with RST to improve the efficacy of RST. PAPP did not prove to be a successful synergist. No mortality was recorded, even when the MtHb concentrations reached as high as 80%. Rats were probably capable of converting MtHb back to haemoglobin via an active MtHb reductase. The exact mode of action of RST or norbormide is unknown. The final experiment involved perfusion of the rat with neutral-buffered formalin to study the changes to vital organ tissues such as the heart, brain and liver. Gross and histopathological examination of the brain and liver tissue did not show any major lesions. Gross examination of the heart of RST-treated rats revealed that RST may act by arresting the heart in systole. A microscopic examination of the heart did not reveal any significant lesions, except for a possible constriction of arterioles. The results from this experiment suggested that the toxic effects of RST are on the cardiovascular system - with cardiac arrest, the heart loses its ability to circulate oxygen to the vital organs and the rat inevitability dies from hypoxia and lack of energy. Further work is required to elucidate the exact mode of action of RST and also reasons for its low palatability
- Published
- 2002
610. Run-proof banking without suspension or deposit insurance
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De Nicoló, Gianni
- Published
- 1996
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611. Dependency of premature ventricular contractions on heart rate
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Pitzalis, Maria Vittoria, Mastropasqua, Filippo, Massari, Francesco, Passantino, Andrea, Forleo, Cinzia, Luzzi, Giovanni, Totaro, Paolo, De Nicolò, Marco, and Rizzon, Paolo
- Published
- 1997
- Full Text
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612. The Cep192-Organized Aurora A-Plk1 Cascade Is Essential for Centrosome Cycle and Bipolar Spindle Assembly.
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Joukov, Vladimir, Walter, Johannes C., and De Nicolo, Arcangela
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SPINDLE apparatus , *MICROTUBULES , *CENTROSOMES , *CELL growth , *PROTEIN kinases , *MITOSIS - Abstract
Summary As cells enter mitosis, the two centrosomes separate and grow dramatically, each forming a nascent spindle pole that nucleates a radial array of microtubules. Centrosome growth (and associated microtubule nucleation surge), termed maturation, involves the recruitment of pericentriolar material components via an as-yet unknown mechanism. Here, we show that Cep192 binds Aurora A and Plk1, targets them to centrosomes in a pericentrin-dependent manner, and promotes sequential activation of both kinases via T-loop phosphorylation. The Cep192-bound Plk1 then phosphorylates Cep192 at several residues to generate the attachment sites for the γ-tubulin ring complex and, possibly, other pericentriolar material components, thus promoting their recruitment and subsequent microtubule nucleation. We further found that the Cep192-dependent Aurora A-Plk1 activity is essential for kinesin-5-mediated centrosome separation, bipolar spindle formation, and equal centrosome/centriole segregation into daughter cells. Thus, our study identifies a Cep192-organized signaling cascade that underlies both centrosome maturation and bipolar spindle assembly. [ABSTRACT FROM AUTHOR]
- Published
- 2014
- Full Text
- View/download PDF
613. Valutazione medico-legale del danno biologico nella persona anziana. I risultati della consensus conference multidisciplinare
- Author
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Castellani, G. L., Molinelli, A., Feola, A., PAOLA FORTI, Lunardelli, M. L., Vignatelli, L., Albertini, S., Bolcato, M., Camerlingo, M., Corbi, G., Leo, D., Nicolò, A., Stefano, F., Erba, A., Di Giulio, P., Domenici, R., Fedeli, P., Ferrara, N., Frigiolini, F., Gianniti, P., Gili, E., Iannone, P., Lovato, A., Marengoni, A., Marozzi, F., Martelloni, M., Mecocci, P., Polo, L., Portas, M., Rossi, P., Scorretti, C., Trabucchi, M., Volpato, S., Zoja, R., Ingravallo, F., Castellani G.L., Molinelli A., Feola A., Forti P., Lunardelli M.L., Vignatelli L., Albertini S., Bolcato M., Camerlingo M., Corbi G., De Leo D., De Nicolo A., De Stefano F., Dell'Erba A., Di Giulio P., Domenici R., Fedeli P., Ferrara N., Frigiolini F., Gianniti P., Gili E., Iannone P., Lovato A., Marengoni A., Marozzi F., Martelloni M., Mecocci P., Polo L., Portas M., Rossi P., Scorretti C., Trabucchi M., Volpato S., Zoja R., Ingravallo F., Castellani, G. L., Molinelli, A., Feola, A., Forti, P., Lunardelli, M. L., Vignatelli, L., Albertini, S., Bolcato, M., Camerlingo, M., Corbi, G., De Leo, D., De Nicolo, A., De Stefano, F., Dell'Erba, A., Di Giulio, P., Domenici, R., Fedeli, P., Ferrara, N., Frigiolini, F., Gianniti, P., Gili, E., Iannone, P., Lovato, A., Marengoni, A., Marozzi, F., Martelloni, M., Mecocci, P., Polo, L., Portas, M., Rossi, P., Scorretti, C., Trabucchi, M., Volpato, S., Zoja, R., and Ingravallo, F.
- Subjects
Valutazione medico legale. Danno biologico. Anziano. Stato anteriore. Valutazione multidimensionale. Consensus conference - Abstract
Personal damage evaluation in older people is complex, and the scarcity of evidence is hindering the development of formal guidelines on the subject. The main objectives of the first multidisciplinary Consensus Conference on Medico-Legal Assessment of Personal Damage in Older People were to increase knowledge on the subject and establish standard procedures in this field. The conference, organized according to the guidelines issued by the Italian National Institute of Health (ISS), was held in Bologna (Italy) on June 8, 2019 with the support of national scientific societies, professional organizations, and stakeholders. The Scientific Technical Committee prepared 16 questions on 4 thematic areas: (1) differences in injury outcomes in older people compared to younger people and their relevance in personal damage assessment; (2) pre-existing status reconstruction and evaluation; (3) medico-legal examination procedures; (4) multidimensional assessment and scales. The Scientific Secretariat reviewed relevant literature and documents, rated their quality, and summarized evidence. The present report describes Conference methods and results, including a summary of evidence supporting each statement, and areas requiring further investigation. The methodological recommendations issued during the Conference may be useful in several contexts of damage assessment, or to other medico-legal evaluation fields.
- Published
- 2020
614. The effect of a semisynthetic diet on the profile of urinary conjugates in male adults
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Lugogo, R. De Nicolo, Kim, Y. T., and Webb, R. E.
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- 1994
- Full Text
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615. X chromosomal abnormalities in basal-like human breast cancer
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Richardson, Andrea L., Wang, Zhigang C., De Nicolo, Arcangela, Lu, Xin, Brown, Myles, Miron, Alexander, Liao, Xiaodong, Iglehart, J. Dirk, Livingston, David M., and Ganesan, Shridar
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BREAST cancer , *TUMORS , *X chromosome , *DNA , *CHROMOSOME abnormalities - Abstract
Summary: Sporadic basal-like cancers (BLC) are a distinct class of human breast cancers that are phenotypically similar to BRCA1-associated cancers. Like BRCA1-deficient tumors, most BLC lack markers of a normal inactive X chromosome (Xi). Duplication of the active X chromosome and loss of Xi characterized almost half of BLC cases tested. Others contained biparental but nonheterochromatinized X chromosomes or gains of X chromosomal DNA. These abnormalities did not lead to a global increase in X chromosome transcription but were associated with overexpression of a small subset of X chromosomal genes. Other, equally aneuploid, but non-BLC rarely displayed these X chromosome abnormalities. These results suggest that X chromosome abnormalities contribute to the pathogenesis of BLC, both inherited and sporadic. [Copyright &y& Elsevier]
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- 2006
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616. MC1R variants in relation to naevi in melanoma cases and controls: a pooled analysis from the M‐SKIP project.
- Author
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Stefanaki, I., Stratigos, A.J., Kypreou, K.P., Evangelou, E., Gandini, S., Maisonneuve, P., Polsky, D., Lazovich, D., Newton‐Bishop, J., Kanetsky, P.A., Puig, S., Gruis, N.A., Ghiorzo, P., Pellegrini, C., De Nicolo, A., Ribas, G., Guida, G., Garcia‐Borron, J.C., Fargnoli, M.C., and Nan, H.
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MELANOMA , *DYSPLASTIC nevus syndrome , *MELANOCORTIN receptors , *BIOLOGICAL pigments , *SKIN cancer - Abstract
MC1R variants in relation to naevi in melanoma cases and controls: a pooled analysis from the M-SKIP project There have been a limited number of studies exploring the possible influence of I MC1R i variants in naevi formation and/or their interaction with naevi in melanoma development. Our results are in agreement with the notion that I MC1R i is not implicated in naevogenesis, but also imply that it may act as a modifier of melanoma risk in individuals with atypical naevi by enhancing their risk to develop melanoma. [Extracted from the article]
- Published
- 2021
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617. The Role of the Internal Heat Gains for Artificial Lighting on the Energy Performance of Buildings
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Edoardo De Nicolò, Guglielmina Mutani, Simonetta Fumagalli, Laura Blaso, Antonella Tundo, Mutani, G., De Nicolo, E., Blaso, L., Fumagalli, S., and Tundo, A.
- Subjects
Fluid Flow and Transfer Processes ,energy performance indicator ,Artificial light ,light control systems ,Mechanical Engineering ,LENI, artificial lighting, energy performance indicator, energy certification, heat gains, light control systems, nZEB, smart buildings ,Energy performance ,heat gains ,LENI ,Condensed Matter Physics ,Automotive engineering ,nZEB ,smart buildings ,Environmental science ,artificial lighting ,energy certification ,Internal heating - Abstract
This paper aims to propose a procedure for calculating the energy performance indexes of buildings considering the seasonality of internal gains due to artificial lighting with a monthly quasi-steady-state energy balance. The proposed methodology evaluates the heat gains due to the integrated natural-artificial lighting system with the Lighting Energy Numerical Indicator (LENI). For the evaluation of buildings’ global energy performance and for some energy services, this contribution cannot be considered constant annually as depend strongly by climate conditions. The effect of daylighting, type of light sources-luminaires, building orientation and shading devices could influence lighting contribution of the internal heat gains. Then, the proposed methodology evaluates the internal heat gains with monthly energy balances. This methodology was applied to the case study of the "Brancaccio" retirement home in Matera (IT) for which the values of the energy performance indexes were compared with the standard normative approach using constant internal heat gains. The results of this work underline the importance of performing a detailed analysis that considers the availability of natural light in the different months of the year, the efficiency of the different lighting systems and their power installed per unit of area as a function of the lighting comfort requirements in the different types of environments.
- Published
- 2021
618. Complex Interactions among Sheep, Insects, Grass, and Fungi in a Simple New Zealand Grazing System.
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Bultman, Thomas L., McNeill, Mark R., Krueger, Kelly, De Nicolo, Gina, Popay, Alison J., Hume, David E., Mace, Wade J., Fletcher, Lester R., Koh, Yew Meng, and Sullivan, Terrence J.
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ASCOMYCETES , *ALKALOIDS , *ENDOPHYTIC fungi , *GRAZING , *HERBIVORES , *GRASSLANDS - Abstract
Epichloë fungi (Ascomycota) live within aboveground tissues of grasses and can have important implications for natural and managed ecosystems through production of alkaloids. Nonetheless, vertebrate herbivores may possess traits, like oral secretions, that mitigate effects of alkaloids. We tested if sheep saliva mitigates effects of Epichloë alkaloids on a beetle pest of perennial ryegrass (Lolium perenne L.) in a New Zealand pasture setting. Plants with one of several fungal isolates were clipped with scissors, grazed by sheep, or clipped with sheep saliva applied to cut ends of stems. We then assessed feeding damage by Argentine stem weevils on blade segments collected from experimental plants. We found that clipping plants induced synthesis of an alkaloid that reduces feeding by beetles and that sheep saliva mitigates this effect. Unexpectedly, the alkaloid (perloline) that explains variation in beetle feeding is one produced not by the endophyte, but rather by the plant. Yet, these effects depended upon fungal isolate. Such indirect, complex interactions may be much more common in both managed and natural grassland systems than typically thought and could have implications for managing grazing systems. [ABSTRACT FROM AUTHOR]
- Published
- 2018
- Full Text
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619. The role of ITPA and ribavirin transporter genes polymorphisms in prediction of ribavirin-induced anaemia in chronic hepatitis C Egyptian patients.
- Author
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El Desoky, Ehab S, Abdelhafez, Alaa T, Cusato, Jessica, Kamel, Sherif I, Hussein, Abeer MR, De Nicolo, Amedeo, Di Perri, Giovanni, and D'Avolio, Antonio
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RIBAVIRIN , *HEPATITIS C , *PATIENTS , *AMIDES , *VIRAL hepatitis - Abstract
Few data are available concerning the roles of polymorphisms of inosine triphosphatase ( ITPA) gene and ribavirin ( RBV) transporter genes in the prediction of RBV-induced anaemia among Egyptians with chronic hepatitis C ( CHC). Genotyping of three ITPA gene variants and two variants of RBV transporter genes has been performed in 123 patients under pegylated interferon-α/ribavirin treatment. The baseline haemoglobin and ITPA rs1127354 CA/ AA have been found as predictors of anaemia at 4, 8 and 12 weeks of RBV therapy. In addition, ITPA rs7270101 AC/ CC and age predicted anaemia after 12 weeks of therapy. In conclusion, the ITPA variant rs1127354C>A significantly predict RBV-induced anaemia during the first 3 months of treatment and it is recommended to be assessed before RBV administration. [ABSTRACT FROM AUTHOR]
- Published
- 2017
- Full Text
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620. Interventi del legislatore in materia di semplificazioni amministrative e ripartenza (durante e) dopo l'emergenza sanitaria
- Author
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Giuseppe Caia, Giuseppe Caia, Margherita Bertin, Franco Betteon, Domenico De Nicolo, Tiziano Tessaro, Tiziano Tessaro, and Giuseppe Caia
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Semplificazione amministrativa, ripartenza, emergenza sanitaria - Abstract
Tempora mutantur nos et mutamur in illis
- Published
- 2021
621. Four, for tango.
- Author
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Cuarteto Latinoamericano. Performer, Aguila, Miguel del, 1957- Presto, no. 2., Alvarez, Javier, 1956- Metro Taxqueña., D'Rivera, Paquito, 1948- Wapango., Evangelista, José, 1943- Spanish garland., Ibarra, Federico. Quartets, strings, no. 2., Márquez, Arturo. Homenaje a Gismonti., Montiel, Javier. Variaciones sobre el Capricho no. 24 de Nicolo Paganini., and Piazzolla, Astor. Four for tango.
- Published
- 1998
622. Sant'Oronzo patrono di Lecce e la scultura lignea: un rapporto contrastato
- Author
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Raffaele Casciaro, Isabella di Liddo, Mimma Pasculli Ferrara, Eelena Cattarin Léger, Rafael Ramos Sosa, Delio De Martino, Gian Giotto BVorrelli, Giuseppina Merola, Mario Panarello, Elisa Acanfora, Raffaele Casciaro, Nuccia Barbone Pugliese, Antonella Simonetti, Tommaso A. Galiani, Antonietta Latore, Stefano Milillo, Giuseppe Schinco, Carmen Morra, Gi8anluca De Pinto, Marianna saccente, Vito Fumarola, Pietro Grimaldi, Mariapina Mascolo, Angelo Disanto, Ruggiero Doronzo, Francesco De Nicolo, Rosanna Zucaro, Giusi Anotnia Leone, Domenico Di cagno, and Casciaro, Raffaele
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Sant'Oronzo, scultura lignea, cartapesta - Abstract
La scelta di Sant'Oronzo come patrono della città di Lecce, avviene in un momento storico, in pieno XVII secolo, nel quale il flusso di opere d'arte da Napoli a Lecce subisce, per varie ragioni, una battuta d'arresto. Soprattutto non sembrano più giungere dalla capitale vicerale le numerose sculture in legno, che erano giunte in gran quantità all'inizio di quel secolo e torneranno prepotentemente alla sua fine. The choice of Sant'Oronzo as patron of the city of Lecce, takes place in a historical moment, in the middle of the seventeenth century, in which the flow of works of art from Napoli to Lecce suffers, for various reasons, a setback. The wooden sculptures, which had arrived in great numbers at the beginning of that century and will return in grat quantity to its end do not seem to arrive from Naples to Lecce in the period 1630-1690.
- Published
- 2017
623. Italianismi nella terminologia marinara nella zona di Dubrovnik/Ragusa dall’antichità ad oggi
- Author
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Violić-Koprivec, Ariana, Maslek, Jasenka, Leoni, Lucijana, and De Nicolo', Maria Lucia
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terminologia ,scambi marittimi ,italianismi - Abstract
Viene indagato il grado di conoscenza degli studenti di studi marittimi dei termini italiani ancora in uso nella lingua parlata dei marinai e ufficiali marittimi nella regione di Dubrovnik in Croazia.
- Published
- 2012
624. Ponos-forma tradizionale plurisecolare di cooperazione dei contadini viticoltori nella penisola di Pelješac
- Author
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Leoni, Lucijana, Maslek, Jasenka, and De Nicolo', Maria Lucia
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produzione del vino ,traffici ,cooperazione ,terminologia - Abstract
Sul territorio della penisola croata di Pelješac per molti secoli il traffico del vino avveniva tramite una forma tradizionale di trasporto del vino in otri, adoperando le caravane di muli e cooperando per sopravvivere, essendo il vino l'unica risorsa di guadagno.
- Published
- 2012
625. Giovani e generazioni politiche nel secondo dopoguerra (1945-1962)
- Author
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RIDOLFI M, DE NICOLO M, and Ridolfi, M
- Published
- 2011
626. Analysis of more than 400,000 women provides case-control evidence for BRCA1 and BRCA2 variant classification.
- Author
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Zanti M, O'Mahony DG, Parsons MT, Dorling L, Dennis J, Boddicker NJ, Chen W, Hu C, Naven M, Yiangou K, Ahearn TU, Ambrosone CB, Andrulis IL, Antoniou AC, Auer PL, Baynes C, Bodelon C, Bogdanova NV, Bojesen SE, Bolla MK, Brantley KD, Camp NJ, Campbell A, Castelao JE, Cessna MH, Chang-Claude J, Chen F, Chenevix-Trench G, Conroy DM, Czene K, De Nicolo A, Domchek SM, Dörk T, Dunning AM, Eliassen AH, Evans DG, Fasching PA, Figueroa JD, Flyger H, Gago-Dominguez M, García-Closas M, Glendon G, González-Neira A, Grassmann F, Hadjisavvas A, Haiman CA, Hamann U, Hart SN, Hartman MBA, Ho WK, Hodge JM, Hoppe R, Howell SJ, Jakubowska A, Khusnutdinova EK, Ko YD, Kraft P, Kristensen VN, Lacey JV, Li J, Lim GH, Lindström S, Lophatananon A, Luccarini C, Mannermaa A, Martinez ME, Mavroudis D, Milne RL, Muir K, Nathanson KL, Nuñez-Torres R, Obi N, Olson JE, Palmer JR, Panayiotidis MI, Patel AV, Pharoah PDP, Polley EC, Rashid MU, Ruddy KJ, Saloustros E, Sawyer EJ, Schmidt MK, Southey MC, Tan VK, Teo SH, Teras LR, Torres D, Trentham-Dietz A, Truong T, Vachon CM, Wang Q, Weitzel JN, Yadav S, Yao S, Zirpoli GR, Cline MS, Devilee P, Tavtigian SV, Goldgar DE, Couch FJ, Easton DF, Spurdle AB, and Michailidou K
- Abstract
Clinical genetic testing identifies variants causal for hereditary cancer, information that is used for risk assessment and clinical management. Unfortunately, some variants identified are of uncertain clinical significance (VUS), complicating patient management. Case-control data is one evidence type used to classify VUS, and previous findings indicate that case-control likelihood ratios (LRs) outperform odds ratios for variant classification. As an initiative of the Evidence-based Network for the Interpretation of Germline Mutant Alleles (ENIGMA) Analytical Working Group we analyzed germline sequencing data of BRCA1 and BRCA2 from 96,691 female breast cancer cases and 303,925 unaffected controls from three studies: the BRIDGES study of the Breast Cancer Association Consortium, the Cancer Risk Estimates Related to Susceptibility consortium, and the UK Biobank. We observed 11,227 BRCA1 and BRCA2 variants, with 6,921 being coding, covering 23.4% of BRCA1 and BRCA2 VUS in ClinVar and 19.2% of ClinVar curated (likely) benign or pathogenic variants. Case-control LR evidence was highly consistent with ClinVar assertions for (likely) benign or pathogenic variants; exhibiting 99.1% sensitivity and 95.4% specificity for BRCA1 and 92.2% sensitivity and 86.6% specificity for BRCA2 . This approach provides case-control evidence for 785 unclassified variants, that can serve as a valuable element for clinical classification.
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- 2024
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627. The 1+Million Genomes Minimal Dataset for Cancer.
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Riba M, Sala C, Culhane AC, Flobak Å, Patocs A, Boye K, Plevova K, Pospíšilová Š, Gandolfi G, Morelli MJ, Bucci G, Edsjö A, Lassen U, Al-Shahrour F, Lopez-Bigas N, Hovland R, Cuppen E, Valencia A, Poirel HA, Rosenquist R, Scollen S, Arenas Marquez J, Belien J, De Nicolo A, De Maria R, Torrents D, and Tonon G
- Subjects
- Humans, Genomics methods, Databases, Genetic, Neoplasms genetics, Genome, Human
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- 2024
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628. Male with an apparently normal phenotype carrying a BRCA1 exon 20 duplication in trans to a BRCA1 frameshift variant.
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Block I, Mateu-Regué À, Do TTN, Miceikaite I, Sdogati D, Larsen MJ, Hao Q, Nielsen HR, Boonen SE, Skytte AB, Jensen UB, Høffding LK, De Nicolo A, Viel A, Tudini E, Parsons MT, Hansen TVO, Rossing M, Kruse TA, Spurdle AB, and Thomassen M
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- Humans, Male, BRCA1 Protein genetics, Exons genetics, Mitomycin, Phenotype, Breast Neoplasms, Fanconi Anemia genetics
- Abstract
Background: Reports of dual carriers of pathogenic BRCA1 variants in trans are extremely rare, and so far, most individuals have been associated with a Fanconi Anemia-like phenotype., Methods: We identified two families with a BRCA1 in-frame exon 20 duplication (Ex20dup). In one male individual, the variant was in trans with the BRCA1 frameshift variant c.2475delC p.(Asp825Glufs*21). We performed splicing analysis and used a transcription activation domain (TAD) assay to assess the functional impact of Ex20dup. We collected pedigrees and mapped the breakpoints of the duplication by long- and short-read genome sequencing. In addition, we performed a mitomycin C (MMC) assay from the dual carrier using cultured lymphoblastoid cells., Results: Genome sequencing and RNA analysis revealed the BRCA1 exon 20 duplication to be in tandem. The duplication was expressed without skipping any one of the two exon 20 copies, resulting in a lack of wild-type transcripts from this allele. TAD assay indicated that the Ex20dup variant has a functional level similar to the well-known moderate penetrant pathogenic BRCA1 variant c.5096G > A p.(Arg1699Gln). MMC assay of the dual carrier indicated a slightly impaired chromosomal repair ability., Conclusions: This is the first reported case where two BRCA1 variants with demonstrated functional impact are identified in trans in a male patient with an apparently normal clinical phenotype and no BRCA1-associated cancer. The results pinpoint a minimum necessary BRCA1 protein activity to avoid a Fanconi Anemia-like phenotype in compound heterozygous status and yet still predispose carriers to hormone-related cancers. These findings urge caution when counseling families regarding potential Fanconi Anemia risk. Furthermore, prudence should be taken when classifying individual variants as benign based on co-occurrence in trans with well-established pathogenic variants., (© 2024. The Author(s).)
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- 2024
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629. ENIGMA CHEK2gether Project: A Comprehensive Study Identifies Functionally Impaired CHEK2 Germline Missense Variants Associated with Increased Breast Cancer Risk.
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Stolarova L, Kleiblova P, Zemankova P, Stastna B, Janatova M, Soukupova J, Achatz MI, Ambrosone C, Apostolou P, Arun BK, Auer P, Barnard M, Bertelsen B, Blok MJ, Boddicker N, Brunet J, Burnside ES, Calvello M, Campbell I, Chan SH, Chen F, Chiang JB, Coppa A, Cortesi L, Crujeiras-González A, De Leeneer K, De Putter R, DePersia A, Devereux L, Domchek S, Efremidis A, Engel C, Ernst C, Evans DGR, Feliubadaló L, Fostira F, Fuentes-Ríos O, Gómez-García EB, González S, Haiman C, Hansen TVO, Hauke J, Hodge J, Hu C, Huang H, Ishak NDB, Iwasaki Y, Konstantopoulou I, Kraft P, Lacey J, Lázaro C, Li N, Lim WK, Lindstrom S, Lori A, Martinez E, Martins A, Matsuda K, Matullo G, McInerny S, Michailidou K, Montagna M, Monteiro ANA, Mori L, Nathanson K, Neuhausen SL, Nevanlinna H, Olson JE, Palmer J, Pasini B, Patel A, Piane M, Poppe B, Radice P, Renieri A, Resta N, Richardson ME, Rosseel T, Ruddy KJ, Santamariña M, Dos Santos ES, Teras L, Toland AE, Trentham-Dietz A, Vachon CM, Volk AE, Weber-Lassalle N, Weitzel JN, Wiesmuller L, Winham S, Yadav S, Yannoukakos D, Yao S, Zampiga V, Zethoven M, Zhang ZW, Zima T, Spurdle AB, Vega A, Rossing M, Del Valle J, De Nicolo A, Hahnen E, Claes KBM, Ngeow J, Momozawa Y, James PA, Couch FJ, Macurek L, and Kleibl Z
- Subjects
- Humans, Female, Genetic Predisposition to Disease, Checkpoint Kinase 2 genetics, Mutation, Missense, Germ-Line Mutation, Germ Cells, Breast Neoplasms epidemiology, Breast Neoplasms genetics
- Abstract
Purpose: Germline pathogenic variants in CHEK2 confer moderately elevated breast cancer risk (odds ratio, OR ∼ 2.5), qualifying carriers for enhanced breast cancer screening. Besides pathogenic variants, dozens of missense CHEK2 variants of uncertain significance (VUS) have been identified, hampering the clinical utility of germline genetic testing (GGT)., Experimental Design: We collected 460 CHEK2 missense VUS identified by the ENIGMA consortium in 15 countries. Their functional characterization was performed using CHEK2-complementation assays quantifying KAP1 phosphorylation and CHK2 autophosphorylation in human RPE1-CHEK2-knockout cells. Concordant results in both functional assays were used to categorize CHEK2 VUS from 12 ENIGMA case-control datasets, including 73,048 female patients with breast cancer and 88,658 ethnicity-matched controls., Results: A total of 430/460 VUS were successfully analyzed, of which 340 (79.1%) were concordant in both functional assays and categorized as functionally impaired (N = 102), functionally intermediate (N = 12), or functionally wild-type (WT)-like (N = 226). We then examined their association with breast cancer risk in the case-control analysis. The OR and 95% CI (confidence intervals) for carriers of functionally impaired, intermediate, and WT-like variants were 2.83 (95% CI, 2.35-3.41), 1.57 (95% CI, 1.41-1.75), and 1.19 (95% CI, 1.08-1.31), respectively. The meta-analysis of population-specific datasets showed similar results., Conclusions: We determined the functional consequences for the majority of CHEK2 missense VUS found in patients with breast cancer (3,660/4,436; 82.5%). Carriers of functionally impaired missense variants accounted for 0.5% of patients with breast cancer and were associated with a moderate risk similar to that of truncating CHEK2 variants. In contrast, 2.2% of all patients with breast cancer carried functionally wild-type/intermediate missense variants with no clinically relevant breast cancer risk in heterozygous carriers., (©2023 The Authors; Published by the American Association for Cancer Research.)
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- 2023
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630. A likelihood ratio approach for utilizing case-control data in the clinical classification of rare sequence variants: application to BRCA1 and BRCA2 .
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Zanti M, O'Mahony DG, Parsons MT, Li H, Dennis J, Aittomäkkiki K, Andrulis IL, Anton-Culver H, Aronson KJ, Augustinsson A, Becher H, Bojesen SE, Bolla MK, Brenner H, Brown MA, Buys SS, Canzian F, Caputo SM, Castelao JE, Chang-Claude J, Czene K, Daly MB, De Nicolo A, Devilee P, Dörk T, Dunning AM, Dwek M, Eccles DM, Engel C, Evans DG, Fasching PA, Gago-Dominguez M, García-Closas M, García-Sáenz JA, Gentry-Maharaj A, Geurts-Giele WRR, Giles GG, Glendon G, Goldberg MS, Garcia EBG, Güendert M, Guénel P, Hahnen E, Haiman CA, Hall P, Hamann U, Harkness EF, Hogervorst FBL, Hollestelle A, Hoppe R, Hopper JL, Houdayer C, Houlston RS, Howell A, Jakimovska M, Jakubowska A, Jernström H, John EM, Kaaks R, Kitahara CM, Koutros S, Kraft P, Kristensen VN, Lacey JV, Lambrechts D, Léoné M, Lindblom A, Lubiński J, Lush M, Mannermaa A, Manoochehri M, Manoukian S, Margolin S, Martinez ME, Menon U, Milne RL, Monteiro AN, Murphy RA, Neuhausen SL, Nevanlinna H, Newman WG, Offit K, Park SK, James P, Peterlongo P, Peto J, Plaseska-Karanfilska D, Punie K, Radice P, Rashid MU, Rennert G, Romero A, Rosenberg EH, Saloustros E, Sandler DP, Schmidt MK, Schmutzler RK, Shu XO, Simard J, Southey MC, Stone J, Stoppa-Lyonnet D, Tamimi RM, Tapper WJ, Taylor JA, Teo SH, Teras LR, Terry MB, Thomassen M, Troester MA, Vachon CM, Vega A, Vreeswijk MPG, Wang Q, Wappenschmidt B, Weinberg CR, Wolk A, Zheng W, Feng B, Couch FJ, Spurdle AB, Easton DF, Goldgar DE, and Michailidou K
- Subjects
- Humans, Case-Control Studies, Female, Likelihood Functions, Genetic Variation, Penetrance, Genetic Testing methods, BRCA2 Protein genetics, Genetic Predisposition to Disease, BRCA1 Protein genetics, Breast Neoplasms genetics
- Abstract
A large number of variants identified through clinical genetic testing in disease susceptibility genes, are of uncertain significance (VUS). Following the recommendations of the American College of Medical Genetics and Genomics (ACMG) and Association for Molecular Pathology (AMP), the frequency in case-control datasets (PS4 criterion), can inform their interpretation. We present a novel case-control likelihood ratio-based method that incorporates gene-specific age-related penetrance. We demonstrate the utility of this method in the analysis of simulated and real datasets. In the analyses of simulated data, the likelihood ratio method was more powerful compared to other methods. Likelihood ratios were calculated for a case-control dataset of BRCA1 and BRCA2 variants from the Breast Cancer Association Consortium (BCAC), and compared with logistic regression results. A larger number of variants reached evidence in favor of pathogenicity, and a substantial number of variants had evidence against pathogenicity - findings that would not have been reached using other case-control analysis methods. Our novel method provides greater power to classify rare variants compared to classical case-control methods. As an initiative from the ENIGMA Analytical Working Group, we provide user-friendly scripts and pre-formatted excel calculators for implementation of the method for rare variants in BRCA1 , BRCA2 and other high-risk genes with known penetrance.
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- 2023
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631. Lung Ultrasound for Detection of Pulmonary Complications in Critically Ill Obstetric Patients in a Resource-Limited Setting.
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Pisani L, De Nicolo A, Schiavone M, Adeniji AO, De Palma A, Di Gennaro F, Emuveyan EE, Grasso S, Henwood PC, Koroma AP, Leopold S, Marotta C, Marulli G, Putoto G, Pisani E, Russel J, Serpa Neto A, Dondorp AM, Hanciles E, Koroma MM, and Schultz MJ
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- Adult, Critical Illness epidemiology, Female, Humans, Pneumonia diagnostic imaging, Pregnancy, Prospective Studies, Pulmonary Edema diagnostic imaging, Respiratory Distress Syndrome diagnostic imaging, Sierra Leone, Ultrasonography economics, Ultrasonography methods, Young Adult, Lung diagnostic imaging, Lung physiopathology, Pregnancy Complications diagnostic imaging, Ultrasonography standards
- Abstract
Critically ill parturients have an increased risk of developing pulmonary complications. Lung ultrasound (LUS) could be effective in addressing the cause of respiratory distress in resource-limited settings with high maternal mortality. We aimed to determine the frequency, timing of appearance, and type of pulmonary complications in critically ill parturients in an obstetric unit in Sierra Leone. In this prospective observational study, LUS examinations were performed on admission, after 24 and 48 hours, and in case of respiratory deterioration. Primary endpoint was the proportion of parturients with one or more pulmonary complications, stratified for the presence of respiratory distress. Secondary endpoints included timing and types of complications, and their association with "poor outcome," defined as a composite of transfer for escalation of care or death. Of 166 patients enrolled, 35 patients (21% [95% CI: 15-28]) had one or more pulmonary complications, the majority diagnosed on admission. Acute respiratory distress syndrome (period prevalence 4%) and hydrostatic pulmonary edema (4%) were only observed in patients with respiratory distress. Pneumonia (2%), atelectasis (10%), and pleural effusion (7%) were present, irrespective of respiratory distress. When ultrasound excluded pulmonary complications, respiratory distress was related to anemia or metabolic acidosis. Pulmonary complications were associated with an increased risk of poor outcome (odds ratio: 5.0; 95% CI: 1.7-14.6; P = 0.003). In critically ill parturients in a resource-limited obstetric unit, LUS contributed to address the cause of respiratory distress by identifying or excluding pulmonary complications. These were associated with a poor outcome.
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- 2020
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632. Genome-wide association meta-analyses combining multiple risk phenotypes provide insights into the genetic architecture of cutaneous melanoma susceptibility.
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Landi MT, Bishop DT, MacGregor S, Machiela MJ, Stratigos AJ, Ghiorzo P, Brossard M, Calista D, Choi J, Fargnoli MC, Zhang T, Rodolfo M, Trower AJ, Menin C, Martinez J, Hadjisavvas A, Song L, Stefanaki I, Scolyer R, Yang R, Goldstein AM, Potrony M, Kypreou KP, Pastorino L, Queirolo P, Pellegrini C, Cattaneo L, Zawistowski M, Gimenez-Xavier P, Rodriguez A, Elefanti L, Manoukian S, Rivoltini L, Smith BH, Loizidou MA, Del Regno L, Massi D, Mandala M, Khosrotehrani K, Akslen LA, Amos CI, Andresen PA, Avril MF, Azizi E, Soyer HP, Bataille V, Dalmasso B, Bowdler LM, Burdon KP, Chen WV, Codd V, Craig JE, Dębniak T, Falchi M, Fang S, Friedman E, Simi S, Galan P, Garcia-Casado Z, Gillanders EM, Gordon S, Green A, Gruis NA, Hansson J, Harland M, Harris J, Helsing P, Henders A, Hočevar M, Höiom V, Hunter D, Ingvar C, Kumar R, Lang J, Lathrop GM, Lee JE, Li X, Lubiński J, Mackie RM, Malt M, Malvehy J, McAloney K, Mohamdi H, Molven A, Moses EK, Neale RE, Novaković S, Nyholt DR, Olsson H, Orr N, Fritsche LG, Puig-Butille JA, Qureshi AA, Radford-Smith GL, Randerson-Moor J, Requena C, Rowe C, Samani NJ, Sanna M, Schadendorf D, Schulze HJ, Simms LA, Smithers M, Song F, Swerdlow AJ, van der Stoep N, Kukutsch NA, Visconti A, Wallace L, Ward SV, Wheeler L, Sturm RA, Hutchinson A, Jones K, Malasky M, Vogt A, Zhou W, Pooley KA, Elder DE, Han J, Hicks B, Hayward NK, Kanetsky PA, Brummett C, Montgomery GW, Olsen CM, Hayward C, Dunning AM, Martin NG, Evangelou E, Mann GJ, Long G, Pharoah PDP, Easton DF, Barrett JH, Cust AE, Abecasis G, Duffy DL, Whiteman DC, Gogas H, De Nicolo A, Tucker MA, Newton-Bishop JA, Peris K, Chanock SJ, Demenais F, Brown KM, Puig S, Nagore E, Shi J, Iles MM, and Law MH
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- Female, Genetic Loci genetics, Genome-Wide Association Study methods, Genotype, Humans, Male, Phenotype, Pigmentation genetics, Polymorphism, Single Nucleotide genetics, Melanoma, Cutaneous Malignant, Genetic Predisposition to Disease genetics, Melanoma genetics, Skin Neoplasms genetics
- Abstract
Most genetic susceptibility to cutaneous melanoma remains to be discovered. Meta-analysis genome-wide association study (GWAS) of 36,760 cases of melanoma (67% newly genotyped) and 375,188 controls identified 54 significant (P < 5 × 10
-8 ) loci with 68 independent single nucleotide polymorphisms. Analysis of risk estimates across geographical regions and host factors suggests the acral melanoma subtype is uniquely unrelated to pigmentation. Combining this meta-analysis with GWAS of nevus count and hair color, and transcriptome association approaches, uncovered 31 potential secondary loci for a total of 85 cutaneous melanoma susceptibility loci. These findings provide insights into cutaneous melanoma genetic architecture, reinforcing the importance of nevogenesis, pigmentation and telomere maintenance, together with identifying potential new pathways for cutaneous melanoma pathogenesis.- Published
- 2020
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633. Large scale multifactorial likelihood quantitative analysis of BRCA1 and BRCA2 variants: An ENIGMA resource to support clinical variant classification.
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Parsons MT, Tudini E, Li H, Hahnen E, Wappenschmidt B, Feliubadaló L, Aalfs CM, Agata S, Aittomäki K, Alducci E, Alonso-Cerezo MC, Arnold N, Auber B, Austin R, Azzollini J, Balmaña J, Barbieri E, Bartram CR, Blanco A, Blümcke B, Bonache S, Bonanni B, Borg Å, Bortesi B, Brunet J, Bruzzone C, Bucksch K, Cagnoli G, Caldés T, Caliebe A, Caligo MA, Calvello M, Capone GL, Caputo SM, Carnevali I, Carrasco E, Caux-Moncoutier V, Cavalli P, Cini G, Clarke EM, Concolino P, Cops EJ, Cortesi L, Couch FJ, Darder E, de la Hoya M, Dean M, Debatin I, Del Valle J, Delnatte C, Derive N, Diez O, Ditsch N, Domchek SM, Dutrannoy V, Eccles DM, Ehrencrona H, Enders U, Evans DG, Farra C, Faust U, Felbor U, Feroce I, Fine M, Foulkes WD, Galvao HCR, Gambino G, Gehrig A, Gensini F, Gerdes AM, Germani A, Giesecke J, Gismondi V, Gómez C, Gómez Garcia EB, González S, Grau E, Grill S, Gross E, Guerrieri-Gonzaga A, Guillaud-Bataille M, Gutiérrez-Enríquez S, Haaf T, Hackmann K, Hansen TVO, Harris M, Hauke J, Heinrich T, Hellebrand H, Herold KN, Honisch E, Horvath J, Houdayer C, Hübbel V, Iglesias S, Izquierdo A, James PA, Janssen LAM, Jeschke U, Kaulfuß S, Keupp K, Kiechle M, Kölbl A, Krieger S, Kruse TA, Kvist A, Lalloo F, Larsen M, Lattimore VL, Lautrup C, Ledig S, Leinert E, Lewis AL, Lim J, Loeffler M, López-Fernández A, Lucci-Cordisco E, Maass N, Manoukian S, Marabelli M, Matricardi L, Meindl A, Michelli RD, Moghadasi S, Moles-Fernández A, Montagna M, Montalban G, Monteiro AN, Montes E, Mori L, Moserle L, Müller CR, Mundhenke C, Naldi N, Nathanson KL, Navarro M, Nevanlinna H, Nichols CB, Niederacher D, Nielsen HR, Ong KR, Pachter N, Palmero EI, Papi L, Pedersen IS, Peissel B, Perez-Segura P, Pfeifer K, Pineda M, Pohl-Rescigno E, Poplawski NK, Porfirio B, Quante AS, Ramser J, Reis RM, Revillion F, Rhiem K, Riboli B, Ritter J, Rivera D, Rofes P, Rump A, Salinas M, Sánchez de Abajo AM, Schmidt G, Schoenwiese U, Seggewiß J, Solanes A, Steinemann D, Stiller M, Stoppa-Lyonnet D, Sullivan KJ, Susman R, Sutter C, Tavtigian SV, Teo SH, Teulé A, Thomassen M, Tibiletti MG, Tischkowitz M, Tognazzo S, Toland AE, Tornero E, Törngren T, Torres-Esquius S, Toss A, Trainer AH, Tucker KM, van Asperen CJ, van Mackelenbergh MT, Varesco L, Vargas-Parra G, Varon R, Vega A, Velasco Á, Vesper AS, Viel A, Vreeswijk MPG, Wagner SA, Waha A, Walker LC, Walters RJ, Wang-Gohrke S, Weber BHF, Weichert W, Wieland K, Wiesmüller L, Witzel I, Wöckel A, Woodward ER, Zachariae S, Zampiga V, Zeder-Göß C, Lázaro C, De Nicolo A, Radice P, Engel C, Schmutzler RK, Goldgar DE, and Spurdle AB
- Subjects
- Alternative Splicing, Early Detection of Cancer, Female, Genetic Predisposition to Disease, Humans, Likelihood Functions, Male, Multifactorial Inheritance, Neoplasms genetics, BRCA1 Protein genetics, BRCA2 Protein genetics, Computational Biology methods, Mutation, Missense, Neoplasms diagnosis
- Abstract
The multifactorial likelihood analysis method has demonstrated utility for quantitative assessment of variant pathogenicity for multiple cancer syndrome genes. Independent data types currently incorporated in the model for assessing BRCA1 and BRCA2 variants include clinically calibrated prior probability of pathogenicity based on variant location and bioinformatic prediction of variant effect, co-segregation, family cancer history profile, co-occurrence with a pathogenic variant in the same gene, breast tumor pathology, and case-control information. Research and clinical data for multifactorial likelihood analysis were collated for 1,395 BRCA1/2 predominantly intronic and missense variants, enabling classification based on posterior probability of pathogenicity for 734 variants: 447 variants were classified as (likely) benign, and 94 as (likely) pathogenic; and 248 classifications were new or considerably altered relative to ClinVar submissions. Classifications were compared with information not yet included in the likelihood model, and evidence strengths aligned to those recommended for ACMG/AMP classification codes. Altered mRNA splicing or function relative to known nonpathogenic variant controls were moderately to strongly predictive of variant pathogenicity. Variant absence in population datasets provided supporting evidence for variant pathogenicity. These findings have direct relevance for BRCA1 and BRCA2 variant evaluation, and justify the need for gene-specific calibration of evidence types used for variant classification., (© 2019 Wiley Periodicals, Inc.)
- Published
- 2019
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634. Combining common genetic variants and non-genetic risk factors to predict risk of cutaneous melanoma.
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Gu F, Chen TH, Pfeiffer RM, Fargnoli MC, Calista D, Ghiorzo P, Peris K, Puig S, Menin C, De Nicolo A, Rodolfo M, Pellegrini C, Pastorino L, Evangelou E, Zhang T, Hua X, DellaValle CT, Timothy Bishop D, MacGregor S, Iles MI, Law MH, Cust A, Brown KM, Stratigos AJ, Nagore E, Chanock S, Shi J, Consortium MM, Consortium M, and Landi MT
- Subjects
- Adult, Aged, Female, Genome-Wide Association Study, Humans, Italy, Male, Melanoma epidemiology, Melanoma pathology, Middle Aged, Multifactorial Inheritance genetics, Nevus epidemiology, Nevus pathology, Polymorphism, Single Nucleotide, Risk Assessment, Risk Factors, Skin Neoplasms epidemiology, Skin Neoplasms pathology, Melanoma, Cutaneous Malignant, Genetic Predisposition to Disease, Melanoma genetics, Nevus genetics, Skin Neoplasms genetics
- Abstract
Melanoma heritability is among the highest for cancer and single nucleotide polymorphisms (SNPs) contribute to it. To date, only SNPs that reached statistical significance in genome-wide association studies or few candidate SNPs have been included in melanoma risk prediction models. We compared four approaches for building polygenic risk scores (PRS) using 12 874 melanoma cases and 23 203 controls from Melanoma Meta-Analysis Consortium as a training set, and newly genotyped 3102 cases and 2301 controls from the MelaNostrum consortium for validation. We estimated adjusted odds ratios (ORs) for melanoma risk using traditional melanoma risk factors and the PRS with the largest area under the receiver operator characteristics curve (AUC). We estimated absolute risks combining the PRS and other risk factors, with age- and sex-specific melanoma incidence and competing mortality rates from Italy as an example. The best PRS, including 204 SNPs (AUC = 64.4%; 95% confidence interval (CI) = 63-65.8%), developed using winner's curse estimate corrections, had a per-quintile OR = 1.35 (95% CI = 1.30-1.41), corresponding to a 3.33-fold increase comparing the 5th to the 1st PRS quintile. The AUC improvement by adding the PRS was up to 7%, depending on adjusted factors and country. The 20-year absolute risk estimates based on the PRS, nevus count and pigmentation characteristics for a 60-year-old Italian man ranged from 0.5 to 11.8% (relative risk = 26.34), indicating good separation.
- Published
- 2018
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635. BRAF Gene Copy Number and Mutant Allele Frequency Correlate with Time to Progression in Metastatic Melanoma Patients Treated with MAPK Inhibitors.
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Stagni C, Zamuner C, Elefanti L, Zanin T, Bianco PD, Sommariva A, Fabozzi A, Pigozzo J, Mocellin S, Montesco MC, Chiarion-Sileni V, De Nicolo A, and Menin C
- Subjects
- Adult, Aged, Aged, 80 and over, Alleles, Biomarkers, Tumor, DNA Copy Number Variations, Disease Progression, Female, Humans, Male, Melanoma drug therapy, Melanoma mortality, Middle Aged, Mitogen-Activated Protein Kinases antagonists & inhibitors, Neoplasm Metastasis, Neoplasm Staging, Prognosis, Protein Kinase Inhibitors pharmacology, Protein Kinase Inhibitors therapeutic use, Proto-Oncogene Proteins B-raf antagonists & inhibitors, Proto-Oncogene Proteins B-raf metabolism, Time Factors, Gene Dosage, Gene Frequency, Melanoma genetics, Melanoma pathology, Mutation, Proto-Oncogene Proteins B-raf genetics
- Abstract
Metastatic melanoma is characterized by complex genomic alterations, including a high rate of mutations in driver genes and widespread deletions and amplifications encompassing various chromosome regions. Among them, chromosome 7 is frequently gained in BRAF -mutant melanoma, inducing a mutant allele-specific imbalance. Although BRAF amplification is a known mechanism of acquired resistance to therapy with MAPK inhibitors, it is still unclear if BRAF copy-number variation and BRAF mutant allele imbalance at baseline can be associated with response to treatment. In this study, we used a multimodal approach to assess BRAF copy number and mutant allele frequency in pretreatment melanoma samples from 46 patients who received MAPK inhibitor-based therapy, and we analyzed the association with progression-free survival. We found that 65% patients displayed BRAF gains, often supported by chromosome 7 polysomy. In addition, we observed that 64% patients had a balanced BRAF -mutant/wild-type allele ratio, whereas 14% and 23% patients had low and high BRAF mutant allele frequency, respectively. Notably, a significantly higher risk of progression was observed in patients with a diploid BRAF status versus those with BRAF gains [HR, 2.86; 95% confidence interval (CI), 1.29-6.35; P = 0.01] and in patients with low percentage versus those with a balanced BRAF mutant allele percentage (HR, 4.54; 95% CI, 1.33-15.53; P = 0.016). Our data suggest that quantitative analysis of the BRAF gene could be useful to select the melanoma patients who are most likely to benefit from therapy with MAPK inhibitors. Mol Cancer Ther; 17(6); 1332-40. ©2018 AACR ., (©2018 American Association for Cancer Research.)
- Published
- 2018
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636. Genetic Testing and Clinical Management Practices for Variants in Non-BRCA1/2 Breast (and Breast/Ovarian) Cancer Susceptibility Genes: An International Survey by the Evidence-Based Network for the Interpretation of Germline Mutant Alleles (ENIGMA) Clinical Working Group.
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Nielsen SM, Eccles DM, Romero IL, Al-Mulla F, Balmaña J, Biancolella M, Bslok R, Caligo MA, Calvello M, Capone GL, Cavalli P, Chan TLC, Claes KBM, Cortesi L, Couch FJ, de la Hoya M, De Toffol S, Diez O, Domchek SM, Eeles R, Efremidis A, Fostira F, Goldgar D, Hadjisavvas A, Hansen TVO, Hirasawa A, Houdayer C, Kleiblova P, Krieger S, Lázaro C, Loizidou M, Manoukian S, Mensenkamp AR, Moghadasi S, Monteiro AN, Mori L, Morrow A, Naldi N, Nielsen HR, Olopade OI, Pachter NS, Palmero EI, Pedersen IS, Piane M, Puzzo M, Robson M, Rossing M, Sini MC, Solano A, Soukupova J, Tedaldi G, Teixeira M, Thomassen M, Tibiletti MG, Toland A, Törngren T, Vaccari E, Varesco L, Vega A, Wallis Y, Wappenschmidt B, Weitzel J, Spurdle AB, De Nicolo A, and Gómez-García EB
- Abstract
Purpose: To describe a snapshot of international genetic testing practices, specifically regarding the use of multigene panels, for hereditary breast/ovarian cancers. We conducted a survey through the Evidence-Based Network for the Interpretation of Germline Mutant Alleles (ENIGMA) consortium, covering questions about 16 non- BRCA1 / 2 genes., Methods: Data were collected via in-person and paper/electronic surveys. ENIGMA members from around the world were invited to participate. Additional information was collected via country networks in the United Kingdom and in Italy., Results: Responses from 61 cancer genetics practices across 20 countries showed that 16 genes were tested by > 50% of the centers, but only six ( PALB2 , TP53 , PTEN , CHEK2 , ATM , and BRIP1 ) were tested regularly. US centers tested the genes most often, whereas United Kingdom and Italian centers with no direct ENIGMA affiliation at the time of the survey were the least likely to regularly test them. Most centers tested the 16 genes through multigene panels; some centers tested TP53 , PTEN , and other cancer syndrome-associated genes individually. Most centers reported (likely) pathogenic variants to patients and would test family members for such variants. Gene-specific guidelines for breast and ovarian cancer risk management were limited and differed among countries, especially with regard to starting age and type of imaging and risk-reducing surgery recommendations., Conclusion: Currently, a small number of genes beyond BRCA1 / 2 are routinely analyzed worldwide, and management guidelines are limited and largely based on expert opinion. To attain clinical implementation of multigene panel testing through evidence-based management practices, it is paramount that clinicians (and patients) participate in international initiatives that share panel testing data, interpret sequence variants, and collect prospective data to underpin risk estimates and evaluate the outcome of risk intervention strategies.
- Published
- 2018
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637. Assays to Study Mitotic Centrosome and Spindle Pole Assembly and Regulation.
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Joukov V, Walter JC, and De Nicolo A
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- Animals, Cell-Free System, Chromosomal Proteins, Non-Histone metabolism, Microscopy, Fluorescence, Microtubule-Organizing Center metabolism, Oocytes metabolism, Xenopus laevis, Centrosome metabolism, Mitosis, Spindle Apparatus metabolism, Spindle Poles metabolism
- Abstract
Faithful chromosome segregation during cell division requires proper bipolar spindle assembly and critically depends on spindle pole integrity. In most animal cells, spindle poles form as the result of the concerted action of various factors operating in two independent pathways of microtubule assembly mediated by chromatin/RanGTP and by centrosomes. Mutation or deregulation of a number of spindle pole-organizing proteins has been linked to human diseases, including cancer and microcephaly. Our knowledge on how the spindle pole-organizing factors function at the molecular level and cooperate with one another is still quite limited. As the list of these factors expands, so does the need for the development of experimental approaches to study their function. Cell-free extracts from Xenopus laevis eggs have played an instrumental role in the dissection of the mechanisms of bipolar spindle assembly and have recently allowed the reconstitution of the key steps of the centrosome-driven microtubule nucleation pathway (Joukov et al., Mol Cell 55:578-591, 2014). Here we describe assays to study both centrosome-dependent and centrosome-independent spindle pole formation in Xenopus egg extracts. We also provide experimental procedures for the use of artificial centrosomes, such as microbeads coated with an anti-Aurora A antibody or a recombinant fragment of the Cep192 protein, to model and study centrosome maturation in egg extract. In addition, we detail the protocol for a microtubule regrowth assay that allows assessment of the centrosome-driven spindle microtubule assembly in mammalian cells.
- Published
- 2016
- Full Text
- View/download PDF
638. Different expressivity of BRCA1 and BRCA2: analysis of 179 Italian pedigrees with identified mutation.
- Author
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Aretini P, D'Andrea E, Pasini B, Viel A, Mariani Costantini R, Cortesi L, Ricevuto E, Agata S, Bisegna R, Boiocchi M, Caligo MA, Chieco-Bianchi L, Cipollini G, Crucianelli R, D'Amico C, Federico M, Ghimenti C, De Giacomi C, De Nicolo A, Della Puppa L, Ferrari S, Ficorella C, Iandolo D, Manoukian S, Marchetti P, Marroni F, Menin C, Montagna M, Ottini L, Pensotti V, Pierotti M, Radice P, Santarosa M, Silingardi V, Turchetti D, Bevilacqua G, and Presciuttini S
- Subjects
- Female, Gene Expression Regulation, Neoplastic, Genetic Predisposition to Disease, Genotype, Humans, Italy, Male, Phenotype, Regression Analysis, Risk Factors, Breast Neoplasms genetics, Genes, BRCA1, Genes, BRCA2, Germ-Line Mutation, Pedigree
- Abstract
Mutations in BRCA1 and BRCA2 show different expressivity with respect to cancer risk, and allelic heterogeneity may be present in both genes. We collected 179 pedigrees with identified germline mutation (104 BRCA1 and 75 BRCA2), ascertained in six collaborating centers of the Italian Consortium for Hereditary Breast and Ovarian Cancer. Significant heterogeneity was detected for several variables, and a logistic regression model including age of diagnosis in the proband, presence of ovarian cancer in the family, presence of prostate or pancreatic cancer in the family, and presence of male breast cancer in the family proved to be effective in predicting the presence of a mutation in a gene rather than the other. Excess of familial aggregation of both breast and ovarian cancer was observed in both genes. Proportion of ovarian cancer was increased in the 5' portion of BRCA1, and presence of prostate or pancreatic cancer in a family was correlated with presence of ovarian cancer in BRCA2.
- Published
- 2003
- Full Text
- View/download PDF
639. Hepatosplenic gammadelta T-cell lymphoma presenting with immune-mediated thrombocytopenia and hemolytic anemia (Evans' syndrome).
- Author
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Motta G, Vianello F, Menin C, De Nicolo A, Agata S, Altavilla G, Pietrogrande F, and Girolami A
- Subjects
- Anemia, Hemolytic complications, Antineoplastic Combined Chemotherapy Protocols therapeutic use, Autoantibodies blood, Biopsy, Bleomycin therapeutic use, Blood Platelets immunology, Bone Marrow pathology, Cyclophosphamide therapeutic use, Doxorubicin therapeutic use, Gene Rearrangement, gamma-Chain T-Cell Antigen Receptor, Hepatomegaly, Humans, Hydrocortisone therapeutic use, Leucovorin therapeutic use, Liver Neoplasms complications, Liver Neoplasms drug therapy, Lymphoma, T-Cell complications, Lymphoma, T-Cell drug therapy, Male, Methotrexate therapeutic use, Middle Aged, Prednisone therapeutic use, Receptors, Antigen, T-Cell, gamma-delta analysis, Remission Induction, Splenic Neoplasms complications, Splenic Neoplasms drug therapy, Splenomegaly, Syndrome, Thrombocytopenia complications, Vincristine therapeutic use, Anemia, Hemolytic immunology, Autoimmune Diseases complications, Liver Neoplasms diagnosis, Lymphoma, T-Cell diagnosis, Splenic Neoplasms diagnosis, Thrombocytopenia immunology
- Abstract
We describe an unusual case of hepatosplenic T-cell lymphoma in a 61-year-old man who presented with fever, hepatosplenomegaly, anemia, and thrombocytopenia. A spleen biopsy was consistent with T-cell lymphoma. Cytogenetic studies did not reveal chromosome abnormalities. Using the polymerase chain reaction approach, clonality of the T-cell receptor gamma-chain gene rearrangement could be demonstrated, while Southern blot analysis disclosed only a germline configuration of the T-cell receptor beta chain genes. Of interest, an immune-mediated mechanism was demonstrated and was most likely responsible for erythrocyte and platelet destruction; this is, therefore, the first report of gamma T-cell lymphoma in association with Evans' syndrome. Initial steroid treatment was efficacious in limiting autoimmunity but constitutional symptoms did not subside. Chemotherapy (MACOP-B) was successful in obtaining complete clinical remission. Finally, thrombocytopenia in gammadelta T-cell lymphoma patients should be routinely evaluated for platelet autoantibodies., (Copyright 2002 Wiley-Liss, Inc.)
- Published
- 2002
- Full Text
- View/download PDF
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