46 results on '"Fisic A"'
Search Results
2. Explorative study of stimulated saliva proteome in head and neck cancer patients pre- and post-treatment
- Author
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Ulrica Almhöjd, Amela Fisic, Hülya Cevik-Aras, Lisa Tuomi, Caterina Finizia, and Annica Almståhl
- Subjects
Head and neck cancer ,Saliva proteome ,Stimulated saliva ,Cystatins ,Science (General) ,Q1-390 ,Social sciences (General) ,H1-99 - Abstract
Objectives: to compare saliva proteome of patients before treatment of head and neck cancer and six months post-treatment with controls. Design: Five dentate patients and five age and gender-matched controls were included. The stimulated salivary secretion rate was determined, and saliva was stored at −80 °C. After thawing, 30 mg of each sample and a reference (aliqouts of all samples) was trypsin digested. The digested peptides were analyzed by mass spectrometry. The relative abundances were transformed to log2 and significant differences determined. Relative abundances of mucins were compared with patient's problems with dry mouth, sticky saliva and swallowing. Data are available via ProteomeXchange with identifier PXD047500. Results: 966 proteins with ≥2 unique peptides were found. Compared with controls, 30 proteins were found in significantly lower relative abundances and 65 in higher at pre-treatment and 38 proteins in significantly lower relative abundances and 34 proteins in higher post-treatment. Regarding proteins from the salivary glands, a significantly lower relative abundance of Cystatins was detected pre-treatment and significantly lower relative abundances of Cystatin, Cysteine-rich secretory protein 3, Lactoperoxidase, Prolactin-inducible protein and Proline-rich protein 4 post-treatment. No clear relation between relative abundance of mucins and dry mouth, sticky saliva and problems with swallowing was detected. Conclusion: Decreases in several salivary gland proteins post cancer treatment might lead to a reduced defense against oral disorders. Knowledge about changes in saliva proteins in connection with oral cancer treatment is important for planning dental care for these patients.
- Published
- 2024
- Full Text
- View/download PDF
3. Whole-genome and transcriptome analysis enhances precision cancer treatment options
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Pleasance, E., Bohm, A., Williamson, L.M., Nelson, J.M.T., Shen, Y., Bonakdar, M., Titmuss, E., Csizmok, V., Wee, K., Hosseinzadeh, S., Grisdale, C.J., Reisle, C., Taylor, G.A., Lewis, E., Jones, M.R., Bleile, D., Sadeghi, S., Zhang, W., Davies, A., Pellegrini, B., Wong, T., Bowlby, R., Chan, S.K., Mungall, K.L., Chuah, E., Mungall, A.J., Moore, R.A., Zhao, Y., Deol, B., Fisic, A., Fok, A., Regier, D.A., Weymann, D., Schaeffer, D.F., Young, S., Yip, S., Schrader, K., Levasseur, N., Taylor, S.K., Feng, X., Tinker, A., Savage, K.J., Chia, S., Gelmon, K., Sun, S., Lim, H., Renouf, D.J., Jones, S.J.M., Marra, M.A., and Laskin, J.
- Published
- 2022
- Full Text
- View/download PDF
4. The complex shear time response of saliva in healthy individuals.
- Author
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Mishra, Ases Akas, Almhöjd, Ulrica, Çevik-Aras, Hülya, Fisic, Amela, Olofsson, Richard, Almståhl, Annica, and Kádár, Roland
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RHEOLOGY ,SALIVA analysis ,VISCOELASTIC materials ,THIXOTROPY ,MUCINS ,SALIVA ,PSEUDOPLASTIC fluids - Abstract
Saliva plays a critical role in oral health, offering protection, aiding in digestion, and facilitating speech and swallowing. This study explores the biochemical composition of human saliva from healthy subjects, including total protein, glycoprotein, and calcium concentrations, in relation to its shear and time-dependent rheological properties. Eleven healthy, nonsmoking subjects were recruited, and salivary secretion rates were measured. Assays were used to determine concentrations of total protein, glycoproteins, and calcium, in addition to rheometry for evaluating the rheological properties of saliva. The results showed that unstimulated saliva, dominated by the mucins MUC5B and MUC7, displayed significantly higher viscosity and pronounced viscoelastic properties compared to stimulated saliva. Rheological analysis revealed saliva to be a viscoelastic material, exhibiting both elastic (solid-like) and viscous (liquid-like) responses. Shear thinning behavior was observed, where viscosity decreased with increasing shear rates, contributing to the fluid's ability to adapt to varying oral conditions. Furthermore, saliva exhibited thixotropy, a time-dependent material behavior characterized by structural breakdown under shear and recovery at rest. Calcium and glycoprotein levels were positively correlated with increased viscoelasticity, particularly with the storage modulus (G′), which reflects the ability of saliva to store elastic energy. These findings highlight the intricate relationship between the biochemical composition of saliva and its rheological properties, specifically its capacity for shear thinning, viscoelastic behavior, and time-dependent recovery, which are vital for its lubrication and protective functions in the oral cavity. [ABSTRACT FROM AUTHOR]
- Published
- 2025
- Full Text
- View/download PDF
5. A platform for oncogenomic reporting and interpretation
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Reisle, Caralyn, Williamson, Laura M., Pleasance, Erin, Davies, Anna, Pellegrini, Brayden, Bleile, Dustin W., Mungall, Karen L., Chuah, Eric, Jones, Martin R., Ma, Yussanne, Lewis, Eleanor, Beckie, Isaac, Pham, David, Matiello Pletz, Raphael, Muhammadzadeh, Amir, Pierce, Brandon M., Li, Jacky, Stevenson, Ross, Wong, Hansen, Bailey, Lance, Reisle, Abbey, Douglas, Matthew, Bonakdar, Melika, Nelson, Jessica M. T., Grisdale, Cameron J., Krzywinski, Martin, Fisic, Ana, Mitchell, Teresa, Renouf, Daniel J., Yip, Stephen, Laskin, Janessa, Marra, Marco A., and Jones, Steven J. M.
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- 2022
- Full Text
- View/download PDF
6. Prenatal mercury exposure, neurodevelopment and apolipoprotein E genetic polymorphism
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Snoj Tratnik, Janja, Falnoga, Ingrid, Trdin, Ajda, Mazej, Darja, Fajon, Vesna, Miklavčič, Ana, Kobal, Alfred B., Osredkar, Joško, Sešek Briški, Alenka, Krsnik, Mladen, Neubauer, David, Kodrič, Jana, Stropnik, Staša, Gosar, David, Lešnik Musek, Petra, Marc, Janja, Jurkovič Mlakar, Simona, Petrović, Oleg, Vlašić-Cicvarić, Inge, Prpić, Igor, Milardović, Ana, Radić Nišević, Jelena, Vuković, Danijela, Fišić, Elizabeta, Špirić, Zdravko, and Horvat, Milena
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- 2017
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7. Pan-cancer analysis of advanced patient tumors reveals interactions between therapy and genomic landscapes
- Author
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Cameron J. Grisdale, Scott D. Brown, Kevin Y. Fan, Wei Zhang, Caralyn Reisle, Zoltan Bozoky, Robert A. Holt, Tariq Vira, Richard Corbett, Melika Bonakdar, My Linh Thibodeau, Kathleen Wee, Dean Cheng, Luka Culibrk, Marcus Carreira, David F. Schaeffer, Deirdre Weymann, Anna V. Tinker, Eric Y. Zhao, Michael K.C. Lee, Karen A. Gelmon, Karen Mungall, Richard A. Moore, Dean A. Regier, Daniel J. Renouf, Zusheng Zong, Reva Shenwai, Stephen Chia, Jahanshah Ashkani, Ana Fisic, Stephen Yip, Darryl D’Souza, Yussanne Ma, Daniel MacMillan, Erin Pleasance, Steve Bilobram, Alexandra Fok, Amir Muhammadzadeh, Jean-Michel Lavoie, Martin R. Jones, Hillary Pearson, Simon K. Chan, Balvir Deol, Steven J.M. Jones, Andrew J. Mungall, Mya Warren, Gregory A. Taylor, Elisa Majounie, Harwood H. Kwan, Eric Chuah, Howard John Lim, Sara Sadeghi, Dustin Bleile, Emma Titmuss, Reanne Bowlby, Anna Davies, Laura Williamson, Jessica Nelson, Caleb Choo, Jasleen K. Grewal, Katherine Dixon, Yongjun Zhao, Shehara Mendis, Yaoqing Shen, Janessa Laskin, Joanna M. Karasinska, Veronika Csizmok, Tina Wong, Sophie Sun, Kasmintan A. Schrader, and Marco A. Marra
- Subjects
Cancer Research ,Mutation ,DNA repair ,medicine.medical_treatment ,Cancer ,Context (language use) ,Computational biology ,Immunotherapy ,Biology ,medicine.disease ,medicine.disease_cause ,Transcriptome ,Oncology ,medicine ,DPYD ,Gene - Abstract
Advanced and metastatic tumors with complex treatment histories drive cancer mortality. Here we describe the POG570 cohort, a comprehensive whole-genome, transcriptome and clinical dataset, amenable for exploration of the impacts of therapies on genomic landscapes. Previous exposure to DNA-damaging chemotherapies and mutations affecting DNA repair genes, including POLQ and genes encoding Polζ, were associated with genome-wide, therapy-induced mutagenesis. Exposure to platinum therapies coincided with signatures SBS31 and DSB5 and, when combined with DNA synthesis inhibitors, signature SBS17b. Alterations in ESR1, EGFR, CTNNB1, FGFR1, VEGFA and DPYD were consistent with drug resistance and sensitivity. Recurrent noncoding events were found in regulatory region hotspots of genes including TERT, PLEKHS1, AP2A1 and ADGRG6. Mutation burden and immune signatures corresponded with overall survival and response to immunotherapy. Our data offer a rich resource for investigation of advanced cancers and interpretation of whole-genome and transcriptome sequencing in the context of a cancer clinic. Marra and colleagues describe POG570, a pan-cancer, whole-genome, transcriptome and clinical dataset stressing the molecular interactions in advanced and post-therapy cancer patients.
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- 2020
- Full Text
- View/download PDF
8. Whole-genome and transcriptome analysis enhances precision cancer treatment options
- Author
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E. Pleasance, A. Bohm, L.M. Williamson, J.M.T. Nelson, Y. Shen, M. Bonakdar, E. Titmuss, V. Csizmok, K. Wee, S. Hosseinzadeh, C.J. Grisdale, C. Reisle, G.A. Taylor, E. Lewis, M.R. Jones, D. Bleile, S. Sadeghi, W. Zhang, A. Davies, B. Pellegrini, T. Wong, R. Bowlby, S.K. Chan, K.L. Mungall, E. Chuah, A.J. Mungall, R.A. Moore, Y. Zhao, B. Deol, A. Fisic, A. Fok, D.A. Regier, D. Weymann, D.F. Schaeffer, S. Young, S. Yip, K. Schrader, N. Levasseur, S.K. Taylor, X. Feng, A. Tinker, K.J. Savage, S. Chia, K. Gelmon, S. Sun, H. Lim, D.J. Renouf, S.J.M. Jones, M.A. Marra, and J. Laskin
- Subjects
Oncology ,Gene Expression Profiling ,Neoplasms ,Mutation ,Humans ,RNA ,Hematology ,Genomics ,Precision Medicine ,Transcriptome - Abstract
Recent advances are enabling delivery of precision genomic medicine to cancer clinics. While the majority of approaches profile panels of selected genes or hotspot regions, comprehensive data provided by whole-genome and transcriptome sequencing and analysis (WGTA) present an opportunity to align a much larger proportion of patients to therapies.Samples from 570 patients with advanced or metastatic cancer of diverse types enrolled in the Personalized OncoGenomics (POG) program underwent WGTA. DNA-based data, including mutations, copy number and mutation signatures, were combined with RNA-based data, including gene expression and fusions, to generate comprehensive WGTA profiles. A multidisciplinary molecular tumour board used WGTA profiles to identify and prioritize clinically actionable alterations and inform therapy. Patient responses to WGTA-informed therapies were collected.Clinically actionable targets were identified for 83% of patients, of which 37% of patients received WGTA-informed treatments. RNA expression data were particularly informative, contributing to 67% of WGTA-informed treatments; 25% of treatments were informed by RNA expression alone. Of a total 248 WGTA-informed treatments, 46% resulted in clinical benefit. RNA expression data were comparable to DNA-based mutation and copy number data in aligning to clinically beneficial treatments. Genome signatures also guided therapeutics including platinum, poly-ADP ribose polymerase inhibitors and immunotherapies. Patients accessed WGTA-informed treatments through clinical trials (19%), off-label use (35%) and as standard therapies (46%) including those which would not otherwise have been the next choice of therapy, demonstrating the utility of genomic information to direct use of chemotherapies as well as targeted therapies.Integrating RNA expression and genome data illuminated treatment options that resulted in 46% of treated patients experiencing positive clinical benefit, supporting the use of comprehensive WGTA profiling in clinical cancer care.
- Published
- 2021
9. A Platform for Oncogenomic Reporting and Interpretation
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B. M. Pierce, I. Beckie, R. Stevenson, B. Pellegrini, Melika Bonakdar, L. Bailey, Laura Williamson, A. Muhammadzadeh, E. Chuah, M. Douglas, Stephen Yip, Martin Jones, Martin Krzywinski, D. W. Bleile, A. Fisic, Yussanne Ma, R. Matiello Pletz, T. Mitchell, Erin Pleasance, Janessa Laskin, Cameron J. Grisdale, D. Pham, Jessica Nelson, A. Davies, H. Wong, Karen Mungall, Marco A. Marra, C. Reisle, Daniel J. Renouf, A. Reisle, Sjm Jones, and Jun Li
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Manual interpretation ,Matching (statistics) ,Carcinogenesis ,Computer science ,Science ,Knowledge Bases ,Genomic data ,General Physics and Astronomy ,General Biochemistry, Genetics and Molecular Biology ,Unmet needs ,Neoplasms ,Databases, Genetic ,Biomarkers, Tumor ,Humans ,Precision Medicine ,Multidisciplinary ,Interpretation (logic) ,business.industry ,Genetic Variation ,General Chemistry ,Genomics ,Data science ,Knowledge base ,Precision oncology ,Graph (abstract data type) ,InformationSystems_MISCELLANEOUS ,business - Abstract
Manual interpretation of variants remains rate limiting in precision oncology. The increasing scale and complexity of molecular data generated from comprehensive sequencing of cancer samples requires advanced interpretative platforms as precision oncology expands beyond individual patients to entire populations. To address this unmet need, we created the Platform for Oncogenomic Reporting and Interpretation (PORI), comprising an analytic framework created to facilitate the interpretation and reporting of somatic variants in cancer. PORI is unique in its integration of reporting and graph knowledge base tools combined with support for manual curation at the reporting stage. PORI represents one of the first open-source platform alternatives to commercial reporting solutions suitable for comprehensive genomic data sets in precision oncology. We demonstrate the utility of PORI by matching 9,961 TCGA tumours to the graph knowledge base, revealing that 88.2% have at least one potentially targetable alteration, and making available reports describing select individual samples.
- Published
- 2021
- Full Text
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10. The Role of IL-6, 8, and 10, sTNFr, CRP, and Pancreatic Elastase in the Prediction of Systemic Complications in Patients with Acute Pancreatitis
- Author
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E. Fisic, G. Poropat, L. Bilic-Zulle, V. Licul, S. Milic, and D. Stimac
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Diseases of the digestive system. Gastroenterology ,RC799-869 - Abstract
Background and Aim. Early assessment of severity in acute pancreatitis (AP) is a key measure to provide rational and effective management. The aim of our study is to determine the prognostic value of interleukins (IL) 6, 8, and 10, soluble receptor for tumor necrosis factor (sTNFr), pancreatic elastase (E1), and C-reactive protein (CRP) as predictors of systemic complications in AP. Patients and Methods. A hundred and fifty patients with confirmed AP were enrolled in the study. The severity of AP was defined according to Atlanta criteria. Measurements of interleukins and sTNFr were performed on the first day of admission. CRP and E1 levels were assessed on admission and after 48 hours. ROC analysis was performed for all parameters. Results. Interleukins and sTNFr significantly differentiated patients with systemic complications from those without. Elevation of IL-6 showed the highest significance as a predictor (). CRP and elastase levels did not differ between mild and severe cases on admission, but reached statistical significance when measured on the third day ( and , resp.). Conclusion. Our study confirmed that IL-6, IL-8, IL-10, and sTNFr measured on admission, and CRP and pancreatic elastase measured on third day of admission represent valuable prognostic factors of severity and systemic complications of AP.
- Published
- 2013
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- View/download PDF
11. Establishing a Framework for the Clinical Translation of Germline Findings in Precision Oncology
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Steven J.M. Jones, Dean A. Regier, Yaoqing Shen, Rebecca J. Deyell, Ana Fisic, Janessa Laskin, Sean D. Young, Alexandra Fok, Dan Renouf, S. Rod Rassekh, Stephen Yip, Alice Virani, Eric Y. Zhao, Aly Karsan, Karen A. Gelmon, Emma Titmuss, Shirin Abadi, Erin Pleasance, Ian Bosdet, Martin L. Jones, My Linh Thibodeau, Linlea Armstrong, Stephen Chia, Sophie Sun, Geraldine Aubert, Katherine Dixon, Marco A. Marra, Howard John Lim, and Kasmintan A. Schrader
- Subjects
0303 health sciences ,Cancer Research ,business.industry ,MEDLINE ,Cancer ,Genomics ,Oncogenomics ,Bioinformatics ,medicine.disease ,Germline ,03 medical and health sciences ,0302 clinical medicine ,Oncology ,Precision oncology ,030220 oncology & carcinogenesis ,Cancer screening ,Commentary ,Medicine ,Clinical significance ,AcademicSubjects/MED00010 ,business ,030304 developmental biology - Abstract
Inherited genetic variation has important implications for cancer screening, early diagnosis, and disease prognosis. A role for germline variation has also been described in shaping the molecular landscape, immune response, microenvironment, and treatment response of individual tumors. However, there is a lack of consensus on the handling and analysis of germline information that extends beyond known or suspected cancer susceptibility in large-scale cancer genomics initiatives. As part of the Personalized OncoGenomics program in British Columbia, we performed whole-genome and transcriptome sequencing in paired tumor and normal tissues from advanced cancer patients to characterize the molecular tumor landscape and identify putative targets for therapy. Overall, our experience supports a multidisciplinary and integrative approach to germline data management. This includes a need for broader definitions and standardized recommendations regarding primary and secondary germline findings in precision oncology. Here, we propose a framework for identifying, evaluating, and returning germline variants of potential clinical significance that may have indications for health management beyond cancer risk reduction or prevention in patients and their families.
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- 2020
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- View/download PDF
12. A Platform for Oncogenomic Reporting and Interpretation
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Reisle, Caralyn, primary, Williamson, Laura, additional, Pleasance, Erin, additional, Davies, Anna, additional, Pellegrini, Brayden, additional, Bleile, Dustin W, additional, Mungall, Karen L, additional, Chuah, Eric, additional, Jones, Martin R, additional, Ma, Yussanne, additional, Beckie, Isaac, additional, Pham, David, additional, Pletz, Raphael Matiello, additional, Muhammadzadeh, Amir, additional, Pierce, Brandon M, additional, Li, Jacky, additional, Stevenson, Ross, additional, Wong, Hansen, additional, Bailey, Lance, additional, Reisle, Abbey, additional, Douglas, Matthew, additional, Bonakdar, Melika, additional, Nelson, Jessica M T, additional, Grisdale, Cameron J, additional, Krzywinski, Martin, additional, Fisic, Ana, additional, Mitchell, Teresa, additional, Renouf, Daniel J, additional, Yip, Stephen, additional, Laskin, Janessa, additional, Marra, Marco A, additional, and Jones, Steven J M, additional
- Published
- 2021
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13. Establishing a Framework for the Clinical Translation of Germline Findings in Precision Oncology
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Dixon, Katherine, primary, Young, Sean, additional, Shen, Yaoqing, additional, Thibodeau, My Linh, additional, Fok, Alexandra, additional, Pleasance, Erin, additional, Zhao, Eric, additional, Jones, Martin, additional, Aubert, Geraldine, additional, Armstrong, Linlea, additional, Virani, Alice, additional, Regier, Dean, additional, Gelmon, Karen, additional, Renouf, Dan, additional, Chia, Stephen, additional, Bosdet, Ian, additional, Rassekh, S Rod, additional, Deyell, Rebecca J, additional, Yip, Stephen, additional, Fisic, Ana, additional, Titmuss, Emma, additional, Abadi, Shirin, additional, Jones, Steven J M, additional, Sun, Sophie, additional, Karsan, Aly, additional, Marra, Marco, additional, Laskin, Janessa, additional, Lim, Howard, additional, and Schrader, Kasmintan A, additional
- Published
- 2020
- Full Text
- View/download PDF
14. Pan-cancer analysis of advanced patient tumors reveals interactions between therapy and genomic landscapes
- Author
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Pleasance, Erin, primary, Titmuss, Emma, additional, Williamson, Laura, additional, Kwan, Harwood, additional, Culibrk, Luka, additional, Zhao, Eric Y., additional, Dixon, Katherine, additional, Fan, Kevin, additional, Bowlby, Reanne, additional, Jones, Martin R., additional, Shen, Yaoqing, additional, Grewal, Jasleen K., additional, Ashkani, Jahanshah, additional, Wee, Kathleen, additional, Grisdale, Cameron J., additional, Thibodeau, My Linh, additional, Bozoky, Zoltan, additional, Pearson, Hillary, additional, Majounie, Elisa, additional, Vira, Tariq, additional, Shenwai, Reva, additional, Mungall, Karen L., additional, Chuah, Eric, additional, Davies, Anna, additional, Warren, Mya, additional, Reisle, Caralyn, additional, Bonakdar, Melika, additional, Taylor, Gregory A., additional, Csizmok, Veronika, additional, Chan, Simon K., additional, Zong, Zusheng, additional, Bilobram, Steve, additional, Muhammadzadeh, Amir, additional, D’Souza, Darryl, additional, Corbett, Richard D., additional, MacMillan, Daniel, additional, Carreira, Marcus, additional, Choo, Caleb, additional, Bleile, Dustin, additional, Sadeghi, Sara, additional, Zhang, Wei, additional, Wong, Tina, additional, Cheng, Dean, additional, Brown, Scott D., additional, Holt, Robert A., additional, Moore, Richard A., additional, Mungall, Andrew J., additional, Zhao, Yongjun, additional, Nelson, Jessica, additional, Fok, Alexandra, additional, Ma, Yussanne, additional, Lee, Michael K. C., additional, Lavoie, Jean-Michel, additional, Mendis, Shehara, additional, Karasinska, Joanna M., additional, Deol, Balvir, additional, Fisic, Ana, additional, Schaeffer, David F., additional, Yip, Stephen, additional, Schrader, Kasmintan, additional, Regier, Dean A., additional, Weymann, Deirdre, additional, Chia, Stephen, additional, Gelmon, Karen, additional, Tinker, Anna, additional, Sun, Sophie, additional, Lim, Howard, additional, Renouf, Daniel J., additional, Laskin, Janessa, additional, Jones, Steven J. M., additional, and Marra, Marco A., additional
- Published
- 2020
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15. A Comparative Study of Bosnian and Herzegovinian Adult Foreign Language Students’ Attitudes to Teaching Four Skills in Classroom and Distance Language Learning Systems
- Author
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MEMİC FİSİC, İris and DELİBEGOVİC DZANİC, Nihada
- Subjects
ComputingMilieux_COMPUTERSANDEDUCATION ,Dil ve Dil Bilim ,Distance education and online learning,Adult learning,Teaching/learning strategies ,Language and Linguistics - Abstract
Widespread use of information and communication technology is a cornerstone of today's society. This results in significant changes in communication, information flow, business operations, gaining knowledge and other aspects of life. Needs and requirements in the field of education are, thus, also changing. Skills for autonomous research and lifelong learning are gaining importance. Educational institutions and teachers as individuals are faced with the challenge of changing the concept of knowledge delivery which has to imply almost inevitable integration of modern technology. Considering the need to change educational systems in accordance with the changes in the society, marked by constant increase of information and knowledge base as well as by dynamic and fast paced development of information and communication technology, distance education is becoming an increasingly significant concept. A need to learn foreign languages is always present, regardless of teaching methods. This paper considers possibilities and specific elements throughout the process of teaching a foreign language in the distance education system compared to the traditional, in-class teaching system. The goal of the research is to analyze whether the methods of foreign language teaching used in the distance education system can be as equally efficient as the traditional teaching methods and whether the lack of face-to-face contact in the distance education system can be compensated by the use of information and communication technology.
- Published
- 2020
16. Pan-cancer analysis of advanced patient tumors reveals interactions between therapy and genomic landscapes
- Author
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Erin, Pleasance, Emma, Titmuss, Laura, Williamson, Harwood, Kwan, Luka, Culibrk, Eric Y, Zhao, Katherine, Dixon, Kevin, Fan, Reanne, Bowlby, Martin R, Jones, Yaoqing, Shen, Jasleen K, Grewal, Jahanshah, Ashkani, Kathleen, Wee, Cameron J, Grisdale, My Linh, Thibodeau, Zoltan, Bozoky, Hillary, Pearson, Elisa, Majounie, Tariq, Vira, Reva, Shenwai, Karen L, Mungall, Eric, Chuah, Anna, Davies, Mya, Warren, Caralyn, Reisle, Melika, Bonakdar, Gregory A, Taylor, Veronika, Csizmok, Simon K, Chan, Zusheng, Zong, Steve, Bilobram, Amir, Muhammadzadeh, Darryl, D'Souza, Richard D, Corbett, Daniel, MacMillan, Marcus, Carreira, Caleb, Choo, Dustin, Bleile, Sara, Sadeghi, Wei, Zhang, Tina, Wong, Dean, Cheng, Scott D, Brown, Robert A, Holt, Richard A, Moore, Andrew J, Mungall, Yongjun, Zhao, Jessica, Nelson, Alexandra, Fok, Yussanne, Ma, Michael K C, Lee, Jean-Michel, Lavoie, Shehara, Mendis, Joanna M, Karasinska, Balvir, Deol, Ana, Fisic, David F, Schaeffer, Stephen, Yip, Kasmintan, Schrader, Dean A, Regier, Deirdre, Weymann, Stephen, Chia, Karen, Gelmon, Anna, Tinker, Sophie, Sun, Howard, Lim, Daniel J, Renouf, Janessa, Laskin, Steven J M, Jones, and Marco A, Marra
- Subjects
Neoplasms ,Humans - Abstract
Advanced and metastatic tumors with complex treatment histories drive cancer mortality. Here we describe the POG570 cohort, a comprehensive whole-genome, transcriptome and clinical dataset, amenable for exploration of the impacts of therapies on genomic landscapes. Previous exposure to DNA-damaging chemotherapies and mutations affecting DNA repair genes, including POLQ and genes encoding Polζ, were associated with genome-wide, therapy-induced mutagenesis. Exposure to platinum therapies coincided with signatures SBS31 and DSB5 and, when combined with DNA synthesis inhibitors, signature SBS17b. Alterations in ESR1, EGFR, CTNNB1, FGFR1, VEGFA and DPYD were consistent with drug resistance and sensitivity. Recurrent noncoding events were found in regulatory region hotspots of genes including TERT, PLEKHS1, AP2A1 and ADGRG6. Mutation burden and immune signatures corresponded with overall survival and response to immunotherapy. Our data offer a rich resource for investigation of advanced cancers and interpretation of whole-genome and transcriptome sequencing in the context of a cancer clinic.
- Published
- 2019
17. Navigating the chaos: Maintaining cybersecurity in a remote, online environment
- Author
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Anthony Fisic and Anthony Fisic
- Abstract
A 30-minute thought-leader webinar about practical ways you can protect your users and staff from cybersecurity risks in an online environment.
- Published
- 2020
18. Betydelsen av bitewingundersökning i kombination med klinisk undersökning bland 15 åriga barn i Da Nang, Vietnam
- Author
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Fisic, Amela
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proximal ,approximal ,stomatognathic system ,adolescens ,dental röntgen ,dental radiology ,oral health ,oral hälsa ,epidemiology ,epidemiologi ,ungdomar - Abstract
Syfte: Att enbart jämföra klinisk undersökning med klinisk undersökning i kombination med bitewingundersökning avseende initial och manifest approximalkaries på premolarer och molarer hos 15-åriga barn i Da Nang, Vietnam. Metod och material: En tvärsnittsstudie. Röntgenbilder har använts som material i denna studie. Studien bygger delvis på kliniskt insamlat material från en randomiserad epidemiologisk studie. Studien bestod av sammanlagt 200 slumpmässigt utvalda 15-åriga deltagare. Undersökningen bestod av fyra röntgenbilder med bitewingteknik. Studien fokuserar på mesiala och distala ytor på premolarer och molarer. Resultat: Vid jämförelse av klinisk undersökning med bitewingundersökning hittades ytterligare 152 approximala initiala kariesangrepp respektive 71 approximala manifesta kariesangrepp vid bitewingundersökningen. Total kariesprevalens på molarer och premolarers alla ytor visar ett medelvärde för initialkaries på 2,1 ytor per barn och vid manifest karies ett medelvärde på 4,6 ytor per barn vid klinisk undersökning i kombination med bitewing. Karies förekom oftast på bettets första molarer vid klinisk undersökning och bitewingundersökning. En statistisk signifikant skillnad, p-värde
- Published
- 2015
19. Expression of IL-18 in the peripheral blood of patients with acute myocardial infarction
- Author
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Laskarin, Gordana, Travica-Samsa, Dijana, Rakic, Marijana, Fisic, E, and Persic, Viktor.
- Subjects
acute myocardial infarction ,interleukin 18 - Abstract
Interleukin 18 je bitan predskazivač tijeka ishemijska bolesti srca u bolesnika s infarktom miokarda. Stoga smo tijekom rane stacionarne kardiološke rehabilitacije pratili koncentraciju Interlukina 18 u krvi bolesnika. Dokazali smo da koncentracija interleukina 18 ostaje visoka tijekom prvog mjeseca nakon akutnog koronarnog zbivanja NSTEMI u bolesnika bez primarne perkutane koronarne intervencije, dok se u bolesnika s transmuralnim infarktom (STEMI)i primarnom perkutanom intervencijom smanjila na razinu zdrave kontrole.
- Published
- 2012
20. Pretreatment Serum Level of Osteopontin and Vascular Endothelial Growth Factor Might Have a Prognostic Value in Patients with Diffuse Large B- Cell Lymphoma
- Author
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Duletic Nacinovic, Antica, Juranovic, Tajana, Valkovic, Toni, Petranovic, Duska, Host, Ivan, Fisic, Elizabeta, prolic, Andjela, Lucin, Ksenija, Stifter, Sanja, and Jonjic, Nives, Labar, Boris
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VEGF ,Osteopontin ,lymphoma ,angiogenesis - Abstract
BACKGROUND: Angiogenesis is gaining importance in hematological malignancies ; it is regulated by a balance of various enhancing and inhibiting angiogenic factors. However, studies related to the prognostic value of angiogenic factors and aggressive Non-Hodgkin lymphomas are limited compared to solid tumors. The aim of this study was to determine pretreatment serum level of vascular endothelial growth factor (VEGF) and osteopontin (OPN) in patients with diffuse large B cell lymphoma (DLBCL) and to investigate whether these factors provide prognostic information. METHODS: We measured pretreatment serum levels of VEGF and OPN by Enzyme-Linked Immunosorbent Assay (ELISA) in 67 patients newly diagnosed as diffuse large B-cell lymphoma and in 30 healthy controls. All patients were treated with rituximab-CHOP chemotherapy. RESULTS: The serum OPN levels were found elevated in untreated DLBCL patients compared to controls: in newly diagnosed patients it ranged from 25 to 238 pg/ml ; median 94.2 pg/ml while in the healthy controls it ranged from 13 to 46.5 pg/ml ; median 30.0 pg/ml (P=0.00008). There were significant differences in the serum VEGF levels between DLBCL patients and controls (median 480.96 pg/ml vs. 163.8 pg/ml, P=0.001). Serum OPN levels higher than the median level were related to advanced Ann Arbor stage (P=0.026), International Prognostic Index of 2 or higher (P=0.005), ECOG III-V (P=0.004). The complete remission rate after treatment was higher in patients with low OPN serum levels than in those with high OPN serum levels (67.5% versus 32.4%, P=0.002). Elevated serum levels of OPN were strongly associated with shorter overall survival (P=0.007) and event-free survival (P=0.04). In multivariate analysis with International Prognostic Index criteria, OPN remained a significant predictor for overall survival (P=0.033). VEGF level was significantly correlated with age (P=0.01) and serum lactate dehydrogenase level (P=0.02), but not strongly correlated with other potential prognostic factors, and it failed to show prognostic significance. CONCLUSION: Our results showed that pretreatment serum level of OPN is significantly related to outcome in DLBCL patients. Ongoing extension study and additional follow-up will provide more information moving forward.
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- 2012
21. Die chirurgische Entfernung der CNV (chorioretinale Neovaskularisationsmembranen) als Therapie der feuchten Makuladegeneration
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Fisic, Merfid and Schmidt, J. (Prof. Dr.)
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ARMD ,Medical sciences, Medicine -- Medizin, Gesundheit ,genetic structures ,AMD ,CNV ,2010 ,Medical sciences, Medicine ,ddc:610 ,sense organs ,eye diseases ,Medizin, Gesundheit - Abstract
We describe the results after subretinal surgery by patients with wet macular degeneration., Es werden die Ergebnisse nach subretinaler Chirurgie bei Patienten mit feuchter altersbedingter Makuladegeneration beschrieben.
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- 2010
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22. Prognostic value of cytokines in acute panvcreatitis
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Stimac, Davor, Fisic, Elizabeta, Peric, Relja, and Classen, M.
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acute pancreatitis ,prognostic value ,cytokines ,macromolecular substances - Abstract
Several studies tried to define the proinflamatory and anti-inflamatory cytokine response in acute pancreatitis. In our prospective studywe focused on the role of IL-6, IL-8, and IL-10 in the prognosis of acute pancreatitis. One hundred and seventeen consecutive patients(65 males and 52 females) with diagnosis of acute pancreatitis were eligible for participation in the study. Conclusions: Pts with severe acute pancreatitis had elevated values of IL-6, IL-8 and IL-10. Because of its sensitivity, elevated IL-6 should be considered in the prediction of acute pancreatitis complications.
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- 2002
23. Diagnostic accuracy of heart fatty acid binding protein (H-FABP) and glycogen phosphorylase isoenzyme BB (GPBB) in diagnosis of acute myocardial infarction in patients with acute coronary syndrome
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Zlatko Cubranic, Zeljko Madzar, Sanja Matijevic, Stefica Dvornik, Elizabeta Fisic, Vjekoslav Tomulic, Juraj Kunisek, Gordana Laskarin, Igor Kardum, Luka Zaputovic, Zlatko Cubranic, Zeljko Madzar, Sanja Matijevic, Stefica Dvornik, Elizabeta Fisic, Vjekoslav Tomulic, Juraj Kunisek, Gordana Laskarin, Igor Kardum, and Luka Zaputovic
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Introduction: This study aimed to assess whether heart fatty acid-binding protein (H-FABP) and glycogen phosphorylase isoenzyme BB (GPBB) could be used for the accurate diagnosis of acute myocardial infarction (AMI) in acute coronary syndrome (ACS) patients. Materials and methods: The study included 108 ACS patients admitted to a coronary unit within 3 h after chest pain onset. AMI was distinguished from unstable angina (UA) using a classical cardiac troponin I (cTnI) assay. H-FABP and GPBB were measured by ELISA on admission (0 h) and at 3, 6, 12, and 24 h after admission; their accuracy to diagnose AMI was assessed using statistical methods. Results: From 92 patients with ACS; 71 had AMI. H-FABP and GPBB had higher peak value after 3 h from admission than cTnI (P = 0.001). Both markers normalized at 24 h. The area under the receiver operating characteristic curves was significantly greater for both markers in AMI patients than in UA patients at all time points tested, including admission (P < 0.001). At admission, the H-FABP (37%) and GPBB (40%) sensitivities were relatively low. They increased at 3 and 6 h after admission for both markers and decreased again after 24 h. It was 40% for H-FABP and approximately 2-times lower for GPBB (P < 0.01). In AMI patients, both biomarkers had similar specificities, positive- and negative-predictive values, positive and negative likelihood ratios, and risk ratios for AIM. Conclusion: H-FABP and GPBB can contribute to early AMI diagnosis and can distinguish AMI from UA.
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- 2012
24. The Role of IL-6, 8, and 10, sTNFr, CRP, and Pancreatic Elastase in the Prediction of Systemic Complications in Patients with Acute Pancreatitis
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Fisic, E., primary, Poropat, G., additional, Bilic-Zulle, L., additional, Licul, V., additional, Milic, S., additional, and Stimac, D., additional
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- 2013
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25. Pretreatment Serum Level of Osteopontin and Vascular Endothelial Growth Factor Might Have a Prognostic Value in Patients with Diffuse Large B-Cell Lymphoma
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Nacinovic, Antica Duletic, primary, Juranovic, Tajana, additional, Valkovic, Toni, additional, Petranovic, Duska, additional, Host, Ivan, additional, Fisic, Elizabeta, additional, Prolic, Andjela, additional, Lucin, Ksenija, additional, Stifter, Sanja, additional, Jonjic, Nives, additional, and Labar, Boris, additional
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- 2012
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26. Diagnostic accuracy of heart fatty acid binding protein (H-FABP) and glycogen phosphorylase isoenzyme BB (GPBB) in diagnosis of acute myocardial infarction in patients with acute coronary syndrome
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Cubranic, Zlatko, primary, Madzar, Zeljko, additional, Matijevic, Sanja, additional, Dvornik, Stefica, additional, Fisic, Elizabeta, additional, Tomulic, Vjekoslav, additional, Kunisek, Juraj, additional, Laskarin, Gordana, additional, Kardum, Igor, additional, and Zaputovic, Luka, additional
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- 2012
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27. CELL-DYN Sapphire and microscopic method comparison for nucleated red blood cells in neonatal blood
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Mittel, K., primary, Fisic, E., additional, and Dvornik, S., additional
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- 2011
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28. Validation of methods performance for routine biochemistry analytes at Cobas 6000 analyzer series module c501
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Supak Smolcic, Vesna, primary, Bilic-Zulle, Lidija, additional, and Fisic, Elizabeta, additional
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- 2011
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29. CELL-DYN Sapphire and microscopic method comparison for nucleated red blood cells in neonatal blood
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Štefica Dvornik, E. Fisic, and K. Mittel
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medicine.anatomical_structure ,Chemistry ,Clinical Biochemistry ,Cell ,medicine ,Biophysics ,Sapphire ,Nucleated Red Blood Cell ,Microscopic method ,General Medicine - Published
- 2011
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30. Case report of hereditary hemorrhagic telangiectasia with severe anemia
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Supak, Vesna, primary, Bilic-Zulle, Lidija, additional, Duletic-Nacinovic, Antica, additional, and Fisic, Elizabeta, additional
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- 2008
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31. Phase 1 study of CPX-1, a fixed ratio formulation of irinotecan (IRI) and floxuridine (FLOX), in patients with advanced solid tumors
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Batist, G., primary, Chi, K., additional, Miller, W., additional, Chia, S., additional, Hasanbasic, F., additional, Fisic, A., additional, Mayer, L., additional, Swenson, C., additional, Janoff, A., additional, and Gelmon, K., additional
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- 2006
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32. The Role of IL-6, IL-8, IL-10, sTNFr, CRP and pancreatic elastase in the predicition of systemic complications in patients with acute pancreatitis
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Štimac, D., Fišić, E., Poropat, G., Bilić Zulle, L., Licul, V., and Milić, S.
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- 2013
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33. Drugs of abuse screening in urine: A five-year experience
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Dvornik, S., Lidija Bilic-Zulle, and Fisic, E.
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fluorescence polarisation immunoassay ,screening ,BIOMEDICINA I ZDRAVSTVO. Kliničke medicinske znanosti. Klinička biokemija ,BIOMEDICINE AND HEALTHCARE. Clinical Medical Sciences. Clinical Biochemistry ,urine ,drugs of abuse
34. Diagnostic accuracy of heart fatty acid binding protein (H-FABP) and glycogen phosphorylase isoenzyme BB (GPBB) in diagnosis of acute myocardial infarction in patients with acute coronary syndrome,Dijagnostička točnost srčanog proteina koji veže masne kiseline (H-FABP) i BB izoenzima glikogen-fosforilaze (GPBB) u u postavljanju dijagnoze akutnog infarkta miokarda kod bolesnika s akutnim koronarnim sindromom
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Cubranic, Z., Madzar, Z., Matijevic, S., Dvornik, S., Fisic, E., Tomulic, V., Kunisek, J., Laskarin, G., Igor Kardum, and Zaputovic, L.
35. Validation of methods performance for routine biochemistry analytes at Cobas 6000 analyzer series module c501.
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Smolcic, Vesna Supak, Bilic-Zulle, Lidija, and Fisic, Elizabeta
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- *
BIOCHEMISTRY , *METABOLITES , *TRACE elements , *CHOLESTEROL , *TRIGLYCERIDES , *ALBUMINS , *CHLORIDES - Abstract
Introduction: Cobas 6000 (Roche, Germany) is biochemistry analyzer for spectrophotometric, immunoturbidimetric and ion-selective determination of biochemical analytes. Hereby we present analytical validation with emphasis on method performance judgment for routine operation. Materials and methods: Validation was made for 30 analytes (metabolites, enzymes, trace elements, specific proteins and electrolytes). Research included determination of within-run (N = 20) and between-run imprecision (N = 30), inaccuracy (N = 30) and method comparison with routine analyzer (Beckman Coulter AU640) (N = 50). For validation of complete analytical process we calculated total error (TE). Results were judged according to quality specification criteria given by European Working Group. Results: Within-run imprecision CVs were all below 5% except for cholesterol, triglycerides, IgA and IgM. Between-run CVs for all analytes were below 10%. Analytes that did not meet the required specifications for imprecision were: total protein, albumin, calcium, sodium, chloride, immunoglobulins and HDL cholesterol. Analytes that did not fulfill requirements for inaccuracy were: total protein, calcium, sodium and chloride. Analytes that deviated from quality specifications for total error were: total protein, albumin, calcium, sodium, chloride and IgM. Passing-Bablok regression analysis provided linear equation and 95% confidence interval for intercept and slope. Complete accordance with routine analyzer Beckman Coulter AU640 showed small number of analytes. Other analytes showed small proportional and/or small constant difference and therefore need to be adjusted for routine operation. Conclusions: Regarding low CV values, tested analyzer has satisfactory accuracy and precision and is extremely stable. Except for analytes that are coherent on both analyzers, some analytes require adjustments of slope and intercept for complete accordance. [ABSTRACT FROM AUTHOR]
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- 2011
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36. Gaussian states of continuous-variable quantum systems provide universal and versatile reservoir computing
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Miguel C. Soriano, Gian Luca Giorgi, Valentina Parigi, Rodrigo Martínez-Peña, Roberta Zambrini, Johannes Nokkala, Ministerio de Ciencia, Innovación y Universidades (España), Agencia Estatal de Investigación (España), Govern de les Illes Balears, European Commission, Universidad de Las Islas Baleares, European Research Council, Ministerio de Economía y Competitividad (España), Instituto de fisic Interdisciplinar y Sistemas Complejos ( IFISC (CSIC-UIB)), Universitat de les Illes Balears (UIB), Laboratoire Kastler Brossel (LKB [Collège de France]), École normale supérieure - Paris (ENS Paris), Université Paris sciences et lettres (PSL)-Université Paris sciences et lettres (PSL)-Centre National de la Recherche Scientifique (CNRS)-Fédération de recherche du Département de physique de l'Ecole Normale Supérieure - ENS Paris (FRDPENS), and Université Paris sciences et lettres (PSL)-Université Paris sciences et lettres (PSL)-Centre National de la Recherche Scientifique (CNRS)-Centre National de la Recherche Scientifique (CNRS)-Sorbonne Université (SU)-Collège de France (CdF (institution))
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Computer science ,Gaussian ,QC1-999 ,MathematicsofComputing_NUMERICALANALYSIS ,FOS: Physical sciences ,General Physics and Astronomy ,02 engineering and technology ,Astrophysics ,01 natural sciences ,Linear dynamical system ,symbols.namesake ,Quantum state ,0103 physical sciences ,Quantum system ,Statistical physics ,010306 general physics ,Quantum ,Quantum fluctuation ,Quantum computer ,[PHYS]Physics [physics] ,Quantum Physics ,Physics ,Reservoir computing ,021001 nanoscience & nanotechnology ,QB460-466 ,symbols ,Quantum Physics (quant-ph) ,0210 nano-technology - Abstract
We establish the potential of continuous-variable Gaussian states of linear dynamical systems for machine learning tasks. Specifically, we consider reservoir computing, an efficient framework for online time series processing. As a reservoir we consider a quantum harmonic network modeling e.g. linear quantum optical systems. We prove that unlike universal quantum computing, universal reservoir computing can be achieved without non-Gaussian resources. We find that encoding the input time series into Gaussian states is both a source and a means to tune the nonlinearity of the overall input-output map. We further show that the full potential of the proposed model can be reached by encoding to quantum fluctuations, such as squeezed vacuum, instead of classical intense fields or thermal fluctuations. Our results introduce a new research paradigm for reservoir computing harnessing the dynamics of a quantum system and the engineering of Gaussian quantum states, pushing both fields into a new direction., We acknowledge the Spanish State Research Agency, through the Severo Ochoa and María de Maeztu Program for Centers and Units of Excellence in R&D (MDM-2017-0711) and through the QUARESCproject (PID2019-109094GB-C21 and C-22 / AEI/ 10.13039/501100011033).We also acknowledgefunding by CAIB through the QUAREC project (PRD2018/47). The work of MCS has been supportedby MICINN/AEI/FEDER and the University of the Balearic Islands through a “Ramon y Cajal” Fellowship (RYC-2015-18140). VP acknowledges financial supportfrom the European Research Council under the Consol-idator Grant COQCOoN (Grant No. 820079).
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- 2021
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37. Interplay between mobility, multi-seeding and lockdowns shapes COVID-19 local impact
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David Mateo, Alberto Hernando, Mattia Mazzoli, Michele Tizzoni, Paolo Bajardi, Ciro Cattuto, Emanuele Pepe, Laetitia Gauvin, José J. Ramasco, Sandro Meloni, Institut Pierre Louis d'Epidémiologie et de Santé Publique (iPLESP), Institut National de la Santé et de la Recherche Médicale (INSERM)-Sorbonne Université (SU), Instituto de fisic Interdisciplinar y Sistemas Complejos ( IFISC (CSIC-UIB)), Institute for Scientific Interchange Foundation [Turin, Italy] (ISI Foundation ), Govern de les Illes Balears, European Commission, Consejo Superior de Investigaciones Científicas (España), AENA, Ministerio de Ciencia, Innovación y Universidades (España), Agencia Estatal de Investigación (España), Sorbonne Université, Institute for Scientific Interchange Foundation, Fondazione Cassa di Risparmio di Torino, Banca Intesa Sanpaolo, Mazzoli, Mattia, Pepe, Emanuele, Mateo, David, Gauvin, Laetitia, Tizzoni, Michele, Hernando de Castro, Alberto, Meloni, Sandro, Ramasco, José J., Mazzoli, Mattia [0000-0002-8756-5535], Pepe, Emanuele [0000-0003-2901-0459], Mateo, David [0000-0002-1590-4163], Gauvin, Laetitia [0000-0003-3085-8641], Tizzoni, Michele [0000-0001-7246-2341], Hernando de Castro, Alberto [0000-0003-1180-1068], Meloni, Sandro [0000-0001-6202-3302], and Ramasco, José J. [0000-0003-2499-6095]
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Viral Diseases ,Epidemiology ,[SDV]Life Sciences [q-bio] ,Geographical locations ,Disease Outbreaks ,Medical Conditions ,0302 clinical medicine ,Medicine and Health Sciences ,Econometrics ,030212 general & internal medicine ,Biology (General) ,Epidemic control ,0303 health sciences ,Travel ,Geography ,Ecology ,Incidence ,3. Good health ,Europe ,Infectious Diseases ,Computational Theory and Mathematics ,Italy ,Homogeneous ,Susceptible individual ,Modeling and Simulation ,Seeding ,France ,COVID-19 ,Humans ,Communicable Disease Control ,Computer Simulation ,COVID 19 ,Research Article ,Infectious disease epidemiology ,2019-20 coronavirus outbreak ,Coronavirus disease 2019 (COVID-19) ,QH301-705.5 ,Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) ,03 medical and health sciences ,Cellular and Molecular Neuroscience ,Mixing patterns ,Genetics ,European Union ,Molecular Biology ,Pandemics ,Ecology, Evolution, Behavior and Systematics ,030304 developmental biology ,Spain ,Earth Sciences ,People and places - Abstract
Assessing the impact of mobility on epidemic spreading is of crucial importance for understanding the effect of policies like mass quarantines and selective re-openings. While many factors affect disease incidence at a local level, making it more or less homogeneous with respect to other areas, the importance of multi-seeding has often been overlooked. Multi-seeding occurs when several independent (non-clustered) infected individuals arrive at a susceptible population. This can lead to independent outbreaks that spark from distinct areas of the local contact (social) network. Such mechanism has the potential to boost incidence, making control efforts and contact tracing less effective. Here, through a modeling approach we show that the effect produced by the number of initial infections is non-linear on the incidence peak and peak time. When case importations are carried by mobility from an already infected area, this effect is further enhanced by the local demography and underlying mixing patterns: the impact of every seed is larger in smaller populations. Finally, both in the model simulations and the analysis, we show that a multi-seeding effect combined with mobility restrictions can explain the observed spatial heterogeneities in the first wave of COVID-19 incidence and mortality in five European countries. Our results allow us for identifying what we have called epidemic epicenter: an area that shapes incidence and mortality peaks in the entire country. The present work further clarifies the nonlinear effects that mobility can have on the evolution of an epidemic and highlight their relevance for epidemic control., M.M.’s salary was funded by the Conselleria d’Innovacio´, Recerca i Turisme of the Government of the Balearic Islands and the European Social Fund with grant code FPI/2090/ 2018. M.M., S.M. and J.J.R. also acknowledge funding from the project Distancia-COVID (CSICCOVID- 19-039) of CSIC integrated in the platform PTI Salud Global and funded by a contribution of AENA, also from the Spanish Ministry of Science, Innovation and Universities, the AEI and FEDER (EU) under the grant PACSS (RTI2018-093732-BC22) and the Maria de Maeztu program for Units of Excellence in R&D (MDM-2017-0711). M.M. acknowledges financial support of the Sorbonne Universite´ Emergence project RISKFLOW. E.P., L. G., C.C. and M.T. gratefully acknowledge the support of the Lagrange Project of the ISI Foundation funded by CRT Foundation. P.B. acknowledges support from Intesa Sanpaolo Innovation Center. The funders had no role in study design, data collection and analysis, decision to publish, or preparation of the manuscript.
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- 2021
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38. Fast and robust quantum state transfer in a topological Su-Schrieffer-Heeger chain with next-to-nearest-neighbor interactions
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Felipe A. Pinheiro, Stefano Longhi, François Impens, F. M. D'Angelis, David Guéry-Odelin, Instituto Nacional de Ciência e Tecnologia de Informação Quântica (Brasil), Conselho Nacional de Desenvolvimento Científico e Tecnológico (Brasil), Coordenação de Aperfeiçoamento de Pessoal de Nível Superior (Brasil), Fundação Carlos Chagas Filho de Amparo à Pesquisa do Estado do Rio de Janeiro, Agence Nationale de la Recherche (France), Ministerio de Ciencia, Innovación y Universidades (España), Agencia Estatal de Investigación (España), Instituto de Física da Universidade Federal do Rio de Janeiro (IF / UFRJ), Universidade Federal do Rio de Janeiro (UFRJ), Atomes Froids (LCAR), Laboratoire Collisions Agrégats Réactivité (LCAR), Institut de Recherche sur les Systèmes Atomiques et Moléculaires Complexes (IRSAMC), Université Toulouse III - Paul Sabatier (UT3), Université Fédérale Toulouse Midi-Pyrénées-Université Fédérale Toulouse Midi-Pyrénées-Centre National de la Recherche Scientifique (CNRS)-Université Toulouse III - Paul Sabatier (UT3), Université Fédérale Toulouse Midi-Pyrénées-Université Fédérale Toulouse Midi-Pyrénées-Centre National de la Recherche Scientifique (CNRS)-Institut de Recherche sur les Systèmes Atomiques et Moléculaires Complexes (IRSAMC), Université Fédérale Toulouse Midi-Pyrénées-Université Fédérale Toulouse Midi-Pyrénées-Centre National de la Recherche Scientifique (CNRS), Instituto de fisic Interdisciplinar y Sistemas Complejos ( IFISC (CSIC-UIB)), Dipartimento di Fisica [Politecnico Milano], Politecnico di Milano [Milan] (POLIMI), Institut National des Sciences Appliquées - Toulouse (INSA Toulouse), Institut National des Sciences Appliquées (INSA)-Institut National des Sciences Appliquées (INSA)-Université Toulouse III - Paul Sabatier (UT3), and Université Fédérale Toulouse Midi-Pyrénées-Université Fédérale Toulouse Midi-Pyrénées-Centre National de la Recherche Scientifique (CNRS)-Institut National des Sciences Appliquées - Toulouse (INSA Toulouse)
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Discrete mathematics ,Quantum Physics ,Computer science ,FOS: Physical sciences ,State (functional analysis) ,01 natural sciences ,010305 fluids & plasmas ,k-nearest neighbors algorithm ,Chain (algebraic topology) ,[PHYS.QPHY]Physics [physics]/Quantum Physics [quant-ph] ,0103 physical sciences ,Quantum state transfer ,Quantum Physics (quant-ph) ,010306 general physics ,ComputingMilieux_MISCELLANEOUS - Abstract
We suggest a method for fast and robust quantum-state transfer in a Su-Schrieffer-Heeger (SSH) chain, which exploits the use of next-to-nearest-neighbor (NNN) interactions. The proposed quantum protocol combines a rapid change in the topological edge state, induced by a modulation of nearest-neighbor interactions, with a fine-tuning of NNN interactions operating a counterdiabatic driving which cancels nonadiabatic excitations. We use this shortcut technique on the edge states in order to obtain a quantum state transfer on a single dimerized chain and also through an interface that connects two dimerized Su-Schrieffer-Heeger chains with different topological order. We investigate the robustness of this protocol against both uncorrelated and correlated disorder and demonstrate its strong resilience to the former. We show that introducing spatial correlations in the disorder increases the robustness of the protocol, widening the range of its applicability. In comparison to traditional adiabatic methods, the short transfer time enabled by the NNN protocol in the SSH chains drastically improves the fidelity of the quantum state transfer., This work is part of the INCT-IQ from CNPq. F.M.D.A., F.A.P., and F.I. acknowledge support from the agencies CNPq (Grants Universal Faixa B No. 403366/20160 and No. 409994/2018-9), CAPES, and FAPERJ. This work is also funded by the Agence Nationale de la Recherche through Grant No. ANR-18-CE30-0013 (D.G.-O.). S.L. acknowledges the Spanish State Research Agency through the Severo Ochoa and María de Maeztu Program for Centers and Units of Excellence in R&D (Grant No. MDM-2017-0711).
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- 2020
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39. Impact of urban structure on infectious disease spreading
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Javier Aguilar, Aleix Bassolas, Gourab Ghoshal, Surendra Hazarie, Alec Kirkley, Mattia Mazzoli, Sandro Meloni, Sayat Mimar, Vincenzo Nicosia, José J. Ramasco, Adam Sadilek, European Commission, Consejo Superior de Investigaciones Científicas (España), AENA, Ministerio de Ciencia, Innovación y Universidades (España), Agencia Estatal de Investigación (España), Sorbonne Université, Engineering and Physical Sciences Research Council (UK), National Science Foundation (US), US Army Research Office, Department of Defense (US), Govern de les Illes Balears, Institute for Cross-Disciplinary Physics and Complex Systems [Mallorca] (IFISC), Consejo Superior de Investigaciones Científicas [Madrid] (CSIC)-Universitat de les Illes Balears (UIB), School of Mathematical Sciences [London], Queen Mary University of London (QMUL), University of Rochester [USA], Institut Pierre Louis d'Epidémiologie et de Santé Publique (iPLESP), Institut National de la Santé et de la Recherche Médicale (INSERM)-Sorbonne Université (SU), Instituto de fisic Interdisciplinar y Sistemas Complejos ( IFISC (CSIC-UIB)), Institute for Cross-Disciplinary Physics and Complex Systems (IFISC), Spanish National Research Council (CSIC)-University of the Balearic Islands (UIB), Google Inc [Mountain View], Research at Google, and HAL-SU, Gestionnaire
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Physics - Physics and Society ,Multidisciplinary ,SARS-CoV-2 ,[SDV]Life Sciences [q-bio] ,Populations and Evolution (q-bio.PE) ,COVID-19 ,FOS: Physical sciences ,Physics and Society (physics.soc-ph) ,Models, Theoretical ,Communicable Diseases ,United States ,[SDV] Life Sciences [q-bio] ,FOS: Biological sciences ,Humans ,Cities ,Quantitative Biology - Populations and Evolution - Abstract
The ongoing SARS-CoV-2 pandemic has been holding the world hostage for more than a year now. Mobility is key to viral spreading and its restriction is the main non-pharmaceutical interventions to fight the virus expansion. Previous works have shown a connection between the structural organization of cities and the movement patterns of their residents. This puts urban centers in the focus of epidemic surveillance and interventions. Here we show that the organization of urban flows has a tremendous impact on disease spreading and on the amenability of different mitigation strategies. By studying anonymous and aggregated intra-urban flows in a variety of cities in the United States and other countries, and a combination of empirical analysis and analytical methods, we demonstrate that the response of cities to epidemic spreading can be roughly classified in two major types according to the overall organization of those flows. Hierarchical cities, where flows are concentrated primarily between mobility hotspots, are particularly vulnerable to the rapid spread of epidemics. Nevertheless, mobility restrictions in such types of cities are very effective in mitigating the spread of a virus. Conversely, in sprawled cities which present many centers of activity, the spread of an epidemic is much slower, but the response to mobility restrictions is much weaker and less effective. Investing resources on early monitoring and prompt ad-hoc interventions in more vulnerable cities may prove helpful in containing and reducing the impact of future pandemics., M.M. is funded by the Conselleria d’Innovació, Recerca i Turisme of the Government of the Balearic Islands and the European Social Fund with grant code FPI/2090/2018. J.A., M.M., S.Meloni and J.J.R. also acknowledge funding from the project Distancia-COVID (CSIC-COVID-19) of the CSIC funded by a contribution of AENA, from the project PACSS RTI2018-093732-B-C22 of the MCIN/AEI/10.13039/501100011033/ and by EU through FEDER funds (A way to make Europe), and also from the Maria de Maeztu program MDM-2017-0711 of the MCIN/AEI/10.13039/501100011033/. M.M. acknowledges the financial support of the Sorbonne Université Emergence project RISKFLOW. A.B. and V.N. acknowledge support from the UK EPSRC New Investigator Award Grant No. EP/S027920/1. G.G., S.H. and S. Mimar acknowledge support from from NSF Grant IIS-2029095 and the US Army Research Office under Agreement Number W911NF-18-1-0421. A.K. is supported by the National Defense Science and Engineering Graduate Fellowship through the Department of Defense.
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- 2020
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40. Global gradients in intraspecific variation in vegetative and floral traits are partially associated with climate and species richness
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José M. Gómez, Diane R. Campbell, Martina Stang, Jens Kattge, Justin P. Wright, Dirk Nikolaus Karger, Gregory M. Ames, Francisco Perfectti, Marcin Zych, Carlos Fonseca, Michael Kleyer, Helena Streit, Nina Sletvold, Jonas Kuppler, Ülo Niinemets, Deirdre Loughnan, Pedro Higuchi, Vanessa Minden, Antoine Guisan, Gerhard Boenisch, Amparo Lázaro, Valério D. Pillar, Liedson Tavares Carneiro, Isabel Alves-dos-Santos, Eduardo Chacón-Madrigal, Martin Lechleitner, Nathan J. B. Kraft, Gerhard E. Overbeck, Amy L. Parachnowitsch, Brian J. Enquist, David Schellenberger Costa, Robert R. Junker, W. S. Armbruster, Florian C. Boucher, Cécile H. Albert, Anne Amélie C. Larue-Kontić, Biology, Ulm University, Universität Ulm - Ulm University [Ulm, Allemagne], Institut méditerranéen de biodiversité et d'écologie marine et continentale (IMBE), Avignon Université (AU)-Aix Marseille Université (AMU)-Institut de recherche pour le développement [IRD] : UMR237-Centre National de la Recherche Scientifique (CNRS), North Carolina State University [Raleigh] (NC State), University of North Carolina System (UNC), University of Alaska [Fairbanks] (UAF), Max Planck Institute for Biogeochemistry (MPI-BGC), Max-Planck-Gesellschaft, Laboratoire d'Ecologie Alpine (LECA ), Université Savoie Mont Blanc (USMB [Université de Savoie] [Université de Chambéry])-Centre National de la Recherche Scientifique (CNRS)-Université Grenoble Alpes (UGA), University of California [Irvine] (UC Irvine), University of California (UC), Universidade Federal de Pernambuco [Recife] (UFPE), Universidad de Costa Rica (UCR), Santa Fe Institute, Departamento de Engenharia Electrotécnica e de Computadores [Porto] (DEEC), Universidade do Porto = University of Porto, Laboratoire de Mathématiques Nicolas Oresme (LMNO), Université de Caen Normandie (UNICAEN), Normandie Université (NU)-Normandie Université (NU)-Centre National de la Recherche Scientifique (CNRS), Université de Lausanne = University of Lausanne (UNIL), Santa Catarina State University (UDESC), Swiss Federal Research Institute, University of Oldenburg, University of California [Los Angeles] (UCLA), University of Salzburg, Universität Salzburg, Instituto de fisic Interdisciplinar y Sistemas Complejos ( IFISC (CSIC-UIB)), University of British Columbia [Vancouver], Estonian University of Life Sciences (EMU), Universidade Federal do Rio Grande do Sul [Porto Alegre] (UFRGS), Uppsala University, University of New Brunswick (UNB), Universidad de Granada = University of Granada (UGR), Universidade Federal do Rio Grande do Norte [Natal] (UFRN), Friedrich-Schiller-Universität = Friedrich Schiller University Jena [Jena, Germany], Department of Ecology and Genetics [Uppsala] (EBC), Universiteit Leiden, Universidade Federal de São Paulo, North Carolina Central University [Durham], University of Warsaw (UW), Philipps Universität Marburg = Philipps University of Marburg, Centre National de la Recherche Scientifique (CNRS)-Institut de recherche pour le développement [IRD] : UMR237-Aix Marseille Université (AMU)-Avignon Université (AU), Escuela de Biología, Universidad de Costa Rica, San José, Costa Rica, Universidade do Porto, Centre National de la Recherche Scientifique (CNRS)-Université de Caen Normandie (UNICAEN), Normandie Université (NU)-Normandie Université (NU), Institute of Earth Surface Dynamics, Université de Lausanne (UNIL), Landscape Ecology Group, University of California, Institute of Agricultural and Environmental Sciences, and Philipps University of Marburg
- Subjects
0106 biological sciences ,Skogsvetenskap ,[SDV]Life Sciences [q-bio] ,media_common.quotation_subject ,Biology ,Functional diversity ,010603 evolutionary biology ,01 natural sciences ,Intraspecific competition ,Competition (biology) ,Precipitation gradient ,Within‐species variation ,Community ecology ,Within-species variation ,Macroecology ,Ecology, Evolution, Behavior and Systematics ,media_common ,Ekologi ,Abiotic component ,Global and Planetary Change ,Ecology ,Community ,Forest Science ,010604 marine biology & hydrobiology ,fungi ,food and beverages ,Plant community ,Flower trait ,Temperature gradient ,15. Life on land ,Functional trait ,13. Climate action ,trait-based ecology ,Species richness ,[SDE.BE]Environmental Sciences/Biodiversity and Ecology ,Leaf trait ,Woody plant - Abstract
[Aim] Intraspecific trait variation (ITV) within natural plant communities can be large, influencing local ecological processes and dynamics. Here, we shed light on how ITV in vegetative and floral traits responds to large‐scale abiotic and biotic gradients (i.e., climate and species richness). Specifically, we tested whether associations of ITV with temperature, precipitation and species richness were consistent with any of four hypotheses relating to stress tolerance and competition. Furthermore, we estimated the degree of correlation between ITV in vegetative and floral traits and how they vary along the gradients., [Location] Global., [Time period] 1975–2016., [Major taxa studied] Herbaceous and woody plants., [Methods] We compiled a dataset of 18,401 measurements of the absolute extent of ITV (measured as the coefficient of variation) in nine vegetative and seven floral traits from 2,822 herbaceous and woody species at 2,372 locations., [Results] Large‐scale associations between ITV and climate were trait specific and more prominent for vegetative traits, especially leaf morphology, than for floral traits. The ITV showed pronounced associations with climate, with lower ITV values in colder areas and higher values in drier areas. The associations of ITV with species richness were inconsistent across traits. Species‐specific associations across gradients were often idiosyncratic, and covariation in ITV was weaker between vegetative and floral traits than within the two trait groups. [Main conclusions] Our results show that, depending on the traits considered, ITV either increased or decreased with climate stress and species richness, suggesting that both factors can constrain or enhance ITV, which might foster plant‐population persistence in stressful conditions. Given the species‐specific responses and covariation in ITV, associations can be hard to predict for traits and species not yet studied. We conclude that consideration of ITV can improve our understanding of how plants cope with stressful conditions and environmental change across spatial and biological scales., Open Access funding was provided by Ulm University under the DEAL‐agreement.
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- 2020
- Full Text
- View/download PDF
41. Unsupervised extraction of epidemic syndromes from participatory influenza surveillance self-reported symptoms
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Ricardo Mexia, Sandro Meloni, Carl Koppeschaar, Chinelo Obi, Ana O. Franco, Kyriaki Kalimeri, Jim Duggan, Matteo Delfino, Daniela Paolotti, John Edmunds, C Kjelsø, Clément Turbelin, Daniela Perrotta, Vittoria Colizza, Ciro Cattuto, Yamir Moreno, Caroline Guerrisi, Richard Pebody, Data Science Laboratory (ISI), ISI Foundation Institute for Scientific Interchange, Institut Pierre Louis d'Epidémiologie et de Santé Publique (iPLESP), Sorbonne Université (SU)-Institut National de la Santé et de la Recherche Médicale (INSERM), Sorbonne Université (SU), National University of Ireland [Galway] (NUI Galway), London School of Hygiene and Tropical Medicine (LSHTM), Public Health England [London], Instituto Gulbenkian de Ciência [Oeiras] (IGC), Fundação Calouste Gulbenkian, University of Zaragoza - Universidad de Zaragoza [Zaragoza], Instituto de fisic Interdisciplinar y Sistemas Complejos ( IFISC (CSIC-UIB)), Statens Serum Institut [Copenhagen], Instituto Nacional de Saùde Dr Ricardo Jorge [Portugal] (INSA), Agencia Estatal de Investigación (España), European Commission, Institute for Scientific Interchange Foundation, Fondazione Cassa di Risparmio di Torino, Gobierno de Aragón, FENOL, Ministerio de Economía y Competitividad (España), and Ministerio de Ciencia, Innovación y Universidades (España)
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0301 basic medicine ,[SDV]Life Sciences [q-bio] ,Influenza-like illness (ILI) ,Disease ,Seasonal influenza ,0302 clinical medicine ,Epidemiology ,030212 general & internal medicine ,Epidemiological Surveillance ,lcsh:QH301-705.5 ,0303 health sciences ,Disease surveillance ,education.field_of_study ,Surveillance ,Ecology ,Incidence ,Incidence (epidemiology) ,Syndrome ,Observação em Saúde e Vigilância ,3. Good health ,Europe ,Geography ,Computational Theory and Mathematics ,Modeling and Simulation ,Data Interpretation, Statistical ,symbols ,The Internet ,Seasons ,Medical emergency ,influenza ,Algorithms ,medicine.medical_specialty ,Population ,MEDLINE ,Cellular and Molecular Neuroscience ,symbols.namesake ,03 medical and health sciences ,Environmental health ,Influenza, Human ,Genetics ,medicine ,Humans ,Epidemics ,Probabilistic framework ,education ,Molecular Biology ,Ecology, Evolution, Behavior and Systematics ,Internet ,Models, Statistical ,030306 microbiology ,business.industry ,Cuidados de Saúde ,Computational Biology ,Citizen journalism ,medicine.disease ,Estados de Saúde e de Doença ,Pearson product-moment correlation coefficient ,030104 developmental biology ,lcsh:Biology (General) ,[SDV.SPEE]Life Sciences [q-bio]/Santé publique et épidémiologie ,Self Report ,business ,Sentinel Surveillance ,030217 neurology & neurosurgery ,Unsupervised Machine Learning - Abstract
Seasonal influenza surveillance is usually carried out by sentinel general practitioners (GPs) who compile weekly reports based on the number of influenza-like illness (ILI) clinical cases observed among visited patients. This traditional practice for surveillance generally presents several issues, such as a delay of one week or more in releasing reports, population biases in the health-seeking behaviour, and the lack of a common definition of ILI case. On the other hand, the availability of novel data streams has recently led to the emergence of non-traditional approaches for disease surveillance that can alleviate these issues. In Europe, a participatory web-based surveillance system called Influenzanet represents a powerful tool for monitoring seasonal influenza epidemics thanks to aid of self-selected volunteers from the general population who monitor and report their health status through Internet-based surveys, thus allowing a real-time estimate of the level of influenza circulating in the population. In this work, we propose an unsupervised probabilistic framework that combines time series analysis of self-reported symptoms collected by the Influenzanet platforms and performs an algorithmic detection of groups of symptoms, called syndromes. The aim of this study is to show that participatory web-based surveillance systems are capable of detecting the temporal trends of influenza-like illness even without relying on a specific case definition. The methodology was applied to data collected by Influenzanet platforms over the course of six influenza seasons, from 2011-2012 to 2016-2017, with an average of 34,000 participants per season. Results show that our framework is capable of selecting temporal trends of syndromes that closely follow the ILI incidence rates reported by the traditional surveillance systems in the various countries (Pearson correlations ranging from 0.69 for Italy to 0.88 for the Netherlands, with the sole exception of Ireland with a correlation of 0.38). The proposed framework was able to forecast quite accurately the ILI trend of the forthcoming influenza season (2016-2017) based only on the available information of the previous years (2011-2016). Furthermore, to broaden the scope of our approach, we applied it both in a forecasting fashion to predict the ILI trend of the 2016-2017 influenza season (Pearson correlations ranging from 0.60 for Ireland and UK, and 0.85 for the Netherlands) and also to detect gastrointestinal syndrome in France (Pearson correlation of 0.66). The final result is a near-real-time flexible surveillance framework not constrained by any specific case definition and capable of capturing the heterogeneity in symptoms circulation during influenza epidemics in the various European countries., The authors declare no competing financial interests. D.Pa. and D.Pe. acknowledge support from H2020 FETPROACT-GSS CIMPLEX Grant No. 641191. KK, CC, D.Pa., D.Pe., Y.M. and M.D. acknowledge support from the Lagrange Project of the Institute for Scientific Interchange Foundation (ISI Foundation) funded by Fondazione Cassa di Risparmio di Torino (Fondazione CRT). Y.M. acknowledges support from the Government of Aragon, Spain through a grant to the group FENOL and by Ministry of Economy and Competitiveness (MINECO) and European Regional Development Fund (FEDER) (Grant No. FIS2017-87519-P). S.M. acknowledges support from the Spanish State Research Agency, through the María de Maeztu Program for Units of Excellence in R&D (MDM-2017-0711 to the IFISC Institute).
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- 2019
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42. Anticipation via canards in excitable systems
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Elif Köksal Ersöz, Serafim Rodrigues, Claudio R. Mirasso, Mathieu Desroches, European Research Council, Eusko Jaurlaritza, Mathématiques pour les Neurosciences (MATHNEURO), Inria Sophia Antipolis - Méditerranée (CRISAM), Institut National de Recherche en Informatique et en Automatique (Inria)-Institut National de Recherche en Informatique et en Automatique (Inria), Instituto de fisic Interdisciplinar y Sistemas Complejos ( IFISC (CSIC-UIB)), Ikerbasque - Basque Foundation for Science, Basque Center for Applied Mathematics (BCAM), and Basque Center for Applied Mathematics
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Computer science ,[MATH.MATH-DS]Mathematics [math]/Dynamical Systems [math.DS] ,Models, Neurological ,General Physics and Astronomy ,Action Potentials ,Context (language use) ,Biological neuron model ,01 natural sciences ,neuron model ,coupled oscillators ,010305 fluids & plasmas ,0103 physical sciences ,Humans ,Computer Simulation ,Nervous System Physiological Phenomena ,Communication source ,010306 general physics ,Mathematical Physics ,Neurons ,Van der Pol oscillator ,business.industry ,Mechanism (biology) ,Applied Mathematics ,Statistical and Nonlinear Physics ,Complex network ,Electrophysiology ,Anticipation (artificial intelligence) ,Artificial intelligence ,canards ,Mathematical object ,business ,cellular membrane - Abstract
Neurons can anticipate incoming signals by exploiting a physiological mechanism that is not well understood. This article offers a novel explanation on how a receiver neuron can predict the sender's dynamics in a unidirectionally-coupled configuration, in which both sender and receiver follow the evolution of a multi-scale excitable system. We present a novel theoretical viewpoint based on a mathematical object, called canard, to explain anticipation in excitable systems. We provide a numerical approach, which allows to determine the transient effects of canards. To demonstrate the general validity of canard-mediated anticipation in the context of excitable systems, we illustrate our framework in two examples, a multi-scale radio-wave circuit (the van der Pol model) that inspired a caricature neuronal model (the FitzHugh-Nagumo model) and a biophysical neuronal model (a 2-dimensional reduction of the Hodgkin-Huxley model), where canards act as messengers to the senders' prediction. We also propose an experimental paradigm that would enable experimental neuroscientists to validate our predictions. We conclude with an outlook to possible fascinating research avenues to further unfold the mechanisms underpinning anticipation. We envisage that our approach can be employed by a wider class of excitable systems with appropriate theoretical extensions., E.K.E. was supported by the ERC Advanced Grant NerVi No. 227747. S.R. was supported by Ikerbasque (The Basque Foundation for Science) and from the Basque Excellence Research Centers (BERC).
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- 2019
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43. ESPON Big Data for Territorial - Analysis and Housing Dynamics. Wellbeing of European citizens regarding the affordability of housing
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Renaud Le Goix, Ronan Ysebaert, Timothée Giraud, Marc Lieury, Guilhem Boulay, Thomas Louail, Ramasco, Jose J., Mattia Mazzoli, Pere Colet, Thierry Teurillat, Alain Segessemann, Szymon Marcińczak, Bartosz Bartosiewicz, Elisabete Silva, Sølve Baerug, Terje Holsen, Réseau interdisciplinaire pour l’aménagement et la cohésion des territoires de l’Europe et de ses voisinages (RIATE), Centre National de la Recherche Scientifique (CNRS)-Commissariat Général à l'égalité des territoires (CGET)-Université de Paris (UP), Géographie-cités (GC (UMR_8504)), Université Paris 1 Panthéon-Sorbonne (UP1)-École des hautes études en sciences sociales (EHESS)-Centre National de la Recherche Scientifique (CNRS)-Université de Paris (UP), Université de Paris (UP), Centre National de la Recherche Scientifique (CNRS), Études des Structures, des Processus d’Adaptation et des Changements de l’Espace (ESPACE), Université Nice Sophia Antipolis (... - 2019) (UNS), COMUE Université Côte d'Azur (2015-2019) (COMUE UCA)-COMUE Université Côte d'Azur (2015-2019) (COMUE UCA)-Avignon Université (AU)-Aix Marseille Université (AMU)-Centre National de la Recherche Scientifique (CNRS)-Université Côte d'Azur (UCA), Avignon Université (AU), Instituto de fisic Interdisciplinar y Sistemas Complejos ( IFISC (CSIC-UIB)), Haute Ecole Arc (HE-Arc), University of Lódź, University of Cambridge [UK] (CAM), Norwegian University of Life Sciences (NMBU), ESPON | Inspire Policy Making with Territorial Evidence, Ysebaert, Ronan, Centre National de la Recherche Scientifique (CNRS)-Commissariat Général à l'égalité des territoires (CGET)-Université Paris Cité (UPCité), Université Paris 1 Panthéon-Sorbonne (UP1)-École des hautes études en sciences sociales (EHESS)-Centre National de la Recherche Scientifique (CNRS)-Université Paris Cité (UPCité), Université Paris Cité (UPCité), and Université Nice Sophia Antipolis (1965 - 2019) (UNS)
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RAPPORT ,[SHS.STAT]Humanities and Social Sciences/Methods and statistics ,[INFO.INFO-RO] Computer Science [cs]/Operations Research [cs.RO] ,[SHS.GEO] Humanities and Social Sciences/Geography ,[SHS.STAT] Humanities and Social Sciences/Methods and statistics ,PARIS team ,[INFO.INFO-RO]Computer Science [cs]/Operations Research [cs.RO] ,[SHS.GEO]Humanities and Social Sciences/Geography - Abstract
The gathering and harmonisation of international statistical data in a multidisciplinary environment are key to international comparative analysis and policy work. The availability of timely, accurate statistical information enables policy-makers, practitioners, researchers and other stakeholders to address a wide range of issues in today’s rapidly-evolving global economic and social landscape.The use of traditional data such as official administrative statistics however has some shortcomings. Traditional data in general takes long to be published and used because they are subject to a long technical and sometimes political process of harmonization and validation. Also, traditional data does not cover all topics of interest for territorial cohesion.Increasingly, data and information from analysing internet activities or social media can be used for observing territorial development trends. New developments for the availability and use of big data may help to overcome the shortcomings and bring new and interesting opportunities to support policy with up-to-date information relevant for territorial analysis.Currently, the interest from policy makers is growing as the sources for Big Data (Facebook, Google, Twitter, Instagram or blogs for example) contain valuable information, which can normally be hard to gather, and these data can be collected with very short notice. This means that Big Data could provide a more regular, cost-effective and harmonised data collection and provide an opportunity to more easily address new issues of interest.The aim of this ESPON activity is to further develop ways and methodologies for using existing big data sources and platforms to develop and measure indicators for territorial monitoring and analysis. In addition, these methodologies should be applied for indicators measuring the housing dynamics in European cities and the wellbeing of European citizens, in particular related to their housing and living situation. Finally, these methodologies should be made available and applicable to others for measuring these and other aspects in cities.
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- 2019
44. ESPON Big Data for Territorial - Analysis and Housing Dynamics. Wellbeing of European citizens regarding the affordability of housing. Technical guidance document
- Author
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Renaud Le Goix, Ronan Ysebaert, Timothée Giraud, Marc Lieury, Guilhem Boulay, Thomas Louail, Ramasco, Jose J., Mattia Mazzoli, Pere Colet, Thierry Teurillat, Alain Segessemann, Szymon Marcińczak, Bartosz Bartosiewicz, Elisabete Silva, Sølve Baerug, Terje Holsen, Réseau interdisciplinaire pour l’aménagement et la cohésion des territoires de l’Europe et de ses voisinages (RIATE), Centre National de la Recherche Scientifique (CNRS)-Commissariat Général à l'égalité des territoires (CGET)-Université Paris Cité (UPCité), Géographie-cités (GC (UMR_8504)), Université Paris 1 Panthéon-Sorbonne (UP1)-École des hautes études en sciences sociales (EHESS)-Centre National de la Recherche Scientifique (CNRS)-Université Paris Cité (UPCité), Université Paris Cité (UPCité), Centre National de la Recherche Scientifique (CNRS), Études des Structures, des Processus d’Adaptation et des Changements de l’Espace (ESPACE), Université Nice Sophia Antipolis (1965 - 2019) (UNS), COMUE Université Côte d'Azur (2015-2019) (COMUE UCA)-COMUE Université Côte d'Azur (2015-2019) (COMUE UCA)-Avignon Université (AU)-Aix Marseille Université (AMU)-Centre National de la Recherche Scientifique (CNRS)-Université Côte d'Azur (UCA), Avignon Université (AU), Instituto de fisic Interdisciplinar y Sistemas Complejos ( IFISC (CSIC-UIB)), Haute Ecole Arc (HE-Arc), University of Lódź, University of Cambridge [UK] (CAM), Norwegian University of Life Sciences (NMBU), ESPON | Inspire Policy Making with Territorial Evidence, Centre National de la Recherche Scientifique (CNRS)-Commissariat Général à l'égalité des territoires (CGET)-Université de Paris (UP), Université Paris 1 Panthéon-Sorbonne (UP1)-École des hautes études en sciences sociales (EHESS)-Centre National de la Recherche Scientifique (CNRS)-Université de Paris (UP), Université de Paris (UP), and Université Nice Sophia Antipolis (... - 2019) (UNS)
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RAPPORT ,[SHS.STAT]Humanities and Social Sciences/Methods and statistics ,PARIS team ,[INFO.INFO-RO]Computer Science [cs]/Operations Research [cs.RO] ,[SHS.GEO]Humanities and Social Sciences/Geography - Abstract
Information on ESPON and its projects can be found on www.espon.eu. The web site provides the possibility to download and examine the most recent documents produced by finalised and ongoing ESPON projects.
- Published
- 2019
45. Propagation de l'incertitude spatiale dans l'analyse des données des TIC
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Lenormand, Maxime, Louail, Thomas, Barthélemy, Marc, Ramasco, J.J., Territoires, Environnement, Télédétection et Information Spatiale (UMR TETIS), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-AgroParisTech-Institut national de recherche en sciences et technologies pour l'environnement et l'agriculture (IRSTEA)-Centre National de la Recherche Scientifique (CNRS), Instituto de fisic Interdisciplinar y Sistemas Complejos ( IFISC (CSIC-UIB)), and Commissariat à l'énergie atomique et aux énergies alternatives (CEA)
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TIC ,Spacial analysis ,[SDE]Environmental Sciences ,Data analysis ,ComputingMilieux_MISCELLANEOUS - Abstract
[Departement_IRSTEA]Territoires [TR1_IRSTEA]SYNERGIE [Axe_IRSTEA]TETIS-AMOS; International audience
- Published
- 2016
46. The use of Depletion Methods to assess Mediterranean cephalopod stocks under the current EU Data Collection Framework
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Stefanie Keller, Maria Valls, Michaël Gras, Antoni Quetglas, Jean-Paul Robin, Miguel Cabanellas-Reboredo, Centre Oceanogràfic de les Balears [Palma, Spain] (COB), Instituto Espagňol de Oceanografia (IEO), Biologie des Organismes et Ecosystèmes Aquatiques (BOREA), Université de Caen Normandie (UNICAEN), Normandie Université (NU)-Normandie Université (NU)-Muséum national d'Histoire naturelle (MNHN)-Institut de Recherche pour le Développement (IRD)-Sorbonne Université (SU)-Centre National de la Recherche Scientifique (CNRS)-Université des Antilles (UA), Directorate of Natural Resources - Fisheries of the Falkland Islands Government, Instituto de fisic Interdisciplinar y Sistemas Complejos ( IFISC (CSIC-UIB)), Consejo Superior de Investigaciones Científicas [Madrid] (CSIC)-Consejo Superior de Investigaciones Científicas [Madrid] (CSIC), European Commission, Ministerio de Ciencia e Innovación (España), and CSIC - Instituto Español de Oceanografía (IEO)
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Mediterranean climate ,Environmental Engineering ,Aquatic Science ,Assessment ,Mediterranean ,Oceanography ,lcsh:Aquaculture. Fisheries. Angling ,Cephalopod ,Centro Oceanográfico de Baleares ,Order (exchange) ,Data Collection Framework ,Pesquerías ,14. Life underwater ,cephalopod ,Ecology, Evolution, Behavior and Systematics ,[SDU.STU.OC]Sciences of the Universe [physics]/Earth Sciences/Oceanography ,lcsh:SH1-691 ,Sampling scheme ,Data collection ,biology ,Ecology ,Depletion methods ,[SDE.IE]Environmental Sciences/Environmental Engineering ,Sampling (statistics) ,Redistribution (cultural anthropology) ,biology.organism_classification ,Management ,Current (stream) ,Fishery ,Environmental science ,depletion methods ,[SDE.BE]Environmental Sciences/Biodiversity and Ecology ,management - Abstract
Fuelled by the increasing importance of cephalopod fisheries in Europe, scientists and stakeholders have demanded their assessment and management. However, little has been done to improve the data collection under the EU Data Collection Framework (DCF) in order to analyse cephalopod populations. While the DCF allows member states to design flexible national sampling programmes, it establishes the minimum data requirements (MDR) each state is obliged to fulfil. This study was performed to investigate whether such MDR currently set by the DCF allow the application of depletion models (DMs) to assess European cephalopod stocks. Squid and cuttlefish fisheries from the western Mediterranean were used as a case study. This study sheds doubt on the suitability of the MDR to properly assess and manage cephalopod stocks by means of DMs. Owing to the high plasticity of life-history traits in cephalopod populations, biological parameters should be estimated during the actual depletion period of the fished stocks, rather than performing triennial sampling as established by the DCF. In order to accurately track the depletion event, the rapid growth rates of cephalopods implies that their populations should be monitored at shorter time scales (ideally weekly or biweekly) instead of quarterly as specified by the DCF. These measures would not require additional resources of the ongoing DCF but a redistribution of sampling efforts during the depletion period. Such changes in the sampling scheme could be designed and undertaken by the member states or directly integrated as requirements., This study was performed under the Data Collection Framework (cofunded by the EU and the Spanish Institute of Oceanography, IEO) and the CONFLICT project (CGL2008-958; funded by the Spanish Ministry of Science and Innovation). SK was financed by an IEO-FPI grant (2011/11)
- Published
- 2015
- Full Text
- View/download PDF
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