688 results on '"P. Takala"'
Search Results
2. School Assistants' Experiences of Belonging
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R. Sirkko, K. Sutela, and M. Takala
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Providing quality education for all pupils requires cooperation from members of the entire school community. One group of professionals is school assistants, who, together with teachers, play an important role in supporting pupils and inclusive education. Due to pupils' diverse needs, the responsibilities of school assistants in schools have broadened; yet, their role in the school community has rarely been studied. This study focuses on school assistants' experiences and addresses the following research question: How is belonging argumented in school assistants' narratives at their work? The data comprise free writings (N = 52) and interviews (N = 9) of school assistants' work. The narratives are analysed using categorical-content analysis. The results yield three experiences of belonging: stories of belonging, stories between belonging and non-belonging and stories of non-belonging. The study data reveal how a school as an institution can be based on conventional practices, where relationships are often formed through hierarchies, old-fashioned work roles and exclusive meeting policies. The study's conclusion encourages the recognition of structural inequalities in school communities.
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- 2024
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3. Distance Education for Pupils with Intellectual Disabilities -- Teachers' Experiences
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Riikka Sirkko and Marjatta Takala
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Due to COVID-19, schools closed in Finland for eight weeks in the spring of 2020, and teaching was conducted using distance education. Teachers used their professional agency to ensure a continuation of their students' learning. This study focuses on the experiences of teachers who taught pupils with intellectual disabilities during the distance education period. The research question is: What kind of experiences did the teachers have with distance education? The data were collected via an electronic questionnaire and analysed using qualitative content analysis. The results were examined using teachers' professional agency as a theoretical lens. The results showed that teachers encountered many challenges and emotions at the beginning, but during distance education, they learnt new ways to teach and support pupils and families. Teachers' agency was spread between supporting the agency of pupils and guardians. These are discussed in the article.
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- 2024
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4. Comment on: 'A novel ‘shunt fraction’ method to derive native cardiac output during liberation from central VA ECMO' by Lim, HS
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Kaspar F. Bachmann, Matthias Haenggi, Stephan M. Jakob, Jukka Takala, Luciano Gattinoni, and David Berger
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Diseases of the circulatory (Cardiovascular) system ,RC666-701 - Published
- 2024
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5. Leveraging the histidine kinase-phosphatase duality to sculpt two-component signaling
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Meier, Stefanie S. M., Multamäki, Elina, Ranzani, Américo T., Takala, Heikki, and Möglich, Andreas
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- 2024
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6. Targeted temperature control following traumatic brain injury: ESICM/NACCS best practice consensus recommendations
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Lavinio, Andrea, Coles, Jonathan P., Robba, Chiara, Aries, Marcel, Bouzat, Pierre, Chean, Dara, Frisvold, Shirin, Galarza, Laura, Helbok, Raimund, Hermanides, Jeroen, van der Jagt, Mathieu, Menon, David K., Meyfroidt, Geert, Payen, Jean-Francois, Poole, Daniele, Rasulo, Frank, Rhodes, Jonathan, Sidlow, Emily, Steiner, Luzius A., Taccone, Fabio Silvio, and Takala, Riikka
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- 2024
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7. Positive-unlabeled learning identifies vaccine candidate antigens in the malaria parasite Plasmodium falciparum
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Chou, Renee Ti, Ouattara, Amed, Adams, Matthew, Berry, Andrea A., Takala-Harrison, Shannon, and Cummings, Michael P.
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- 2024
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8. Genotyping Plasmodium falciparum gametocytes using amplicon deep sequencing
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Vareta, Jimmy, Horstman, Natalie A., Adams, Matthew, Seydel, Karl B., McCann, Robert S., Cohee, Lauren M., Laufer, Miriam K., and Takala-Harrison, Shannon
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- 2024
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9. Strong positive selection biases identity-by-descent-based inferences of recent demography and population structure in Plasmodium falciparum
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Guo, Bing, Borda, Victor, Laboulaye, Roland, Spring, Michele D., Wojnarski, Mariusz, Vesely, Brian A., Silva, Joana C., Waters, Norman C., O’Connor, Timothy D., and Takala-Harrison, Shannon
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- 2024
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10. Documentation of comorbidities, lifestyle factors, and asthma management during primary care scheduled asthma contacts
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Takala, Jaana, Vähätalo, Iida, Tuomisto, Leena E., Niemelä, Onni, Ilmarinen, Pinja, and Kankaanranta, Hannu
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- 2024
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11. Gene expression analyses reveal differences in children’s response to malaria according to their age
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Tebben, Kieran, Yirampo, Salif, Coulibaly, Drissa, Koné, Abdoulaye K., Laurens, Matthew B., Stucke, Emily M., Dembélé, Ahmadou, Tolo, Youssouf, Traoré, Karim, Niangaly, Amadou, Berry, Andrea A., Kouriba, Bourema, Plowe, Christopher V., Doumbo, Ogobara K., Lyke, Kirsten E., Takala-Harrison, Shannon, Thera, Mahamadou A., Travassos, Mark A., and Serre, David
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- 2024
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12. Variation in Severity-Adjusted Resource use and Outcome for Neurosurgical Emergencies in the Intensive Care Unit
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Raj, Rahul, Moser, André, Starkopf, Joel, Reinikainen, Matti, Varpula, Tero, Jakob, Stephan M., and Takala, Jukka
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- 2024
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13. DUSP6 inhibition overcomes neuregulin/HER3-driven therapy tolerance in HER2+ breast cancer
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Majid Momeny, Mari Tienhaara, Mukund Sharma, Deepankar Chakroborty, Roosa Varjus, Iina Takala, Joni Merisaari, Artur Padzik, Andreas Vogt, Ilkka Paatero, Klaus Elenius, Teemu D Laajala, Kari J Kurppa, and Jukka Westermarck
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Non-genetic Drug Tolerance ,Lapatinib ,Neratinib ,BCI ,FOXM1 ,Medicine (General) ,R5-920 ,Genetics ,QH426-470 - Abstract
Abstract Despite clinical benefits of tyrosine kinase inhibitors (TKIs) in cancer, most tumors can reactivate proliferation under TKI therapy. Here we present transcriptional profiling of HER2+ breast cancer cells transitioning from dormant drug tolerant cells to re-proliferating cells under continuous HER2 inhibitor (HER2i) therapy. Focusing on phosphatases, expression of dual-specificity phosphatase DUSP6 was found inhibited in dormant cells, but strongly induced upon regrowth. DUSP6 expression also selectively associated with poor patient survival in HER2+ breast cancers. DUSP6 overexpression conferred apoptosis resistance, whereas its pharmacological blockade prevented therapy tolerance development under HER2i therapy. DUSP6 targeting also synergized with clinically used HER2i combination therapies. Mechanistically DUSP6 is a positive regulator of HER3 expression, and its impact on HER2i tolerance was mediated by neuregulin-HER3 axis. In vivo, genetic targeting of DUSP6 reduced tumor growth in brain metastasis model, whereas its pharmacological targeting induced synthetic lethal therapeutic effect in combination with HER2i. Collectively this work demonstrates that DUSP6 drives escape from HER2i-induced dormancy, and that DUSP6 is a druggable target to overcome HER3-driven TKI resistance.
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- 2024
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14. Leveraging the histidine kinase-phosphatase duality to sculpt two-component signaling
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Stefanie S. M. Meier, Elina Multamäki, Américo T. Ranzani, Heikki Takala, and Andreas Möglich
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Science - Abstract
Abstract Bacteria must constantly probe their environment for rapid adaptation, a crucial need most frequently served by two-component systems (TCS). As one component, sensor histidine kinases (SHK) control the phosphorylation of the second component, the response regulator (RR). Downstream responses hinge on RR phosphorylation and can be highly stringent, acute, and sensitive because SHKs commonly exert both kinase and phosphatase activity. With a bacteriophytochrome TCS as a paradigm, we here interrogate how this catalytic duality underlies signal responses. Derivative systems exhibit tenfold higher red-light sensitivity, owing to an altered kinase-phosphatase balance. Modifications of the linker intervening the SHK sensor and catalytic entities likewise tilt this balance and provide TCSs with inverted output that increases under red light. These TCSs expand synthetic biology and showcase how deliberate perturbations of the kinase-phosphatase duality unlock altered signal-response regimes. Arguably, these aspects equally pertain to the engineering and the natural evolution of TCSs.
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- 2024
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15. Analysis of the cell wall binding domain in bacteriocin-like lysin LysL from Lactococcus lactis LAC460
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Mokhtari, Samira, Li, Yanru, Saris, Per E. J., and Takala, Timo M.
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- 2024
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16. Creative collaboration with interactive evolutionary algorithms: a reflective exploratory design study
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Uusitalo, Severi, Kantosalo, Anna, Salovaara, Antti, Takala, Tapio, and Guckelsberger, Christian
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- 2024
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17. Immune gene expression changes more during a malaria transmission season than between consecutive seasons
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Kieran Tebben, Salif Yirampo, Drissa Coulibaly, Abdoulaye K. Koné, Matthew B. Laurens, Emily M. Stucke, Ahmadou Dembélé, Youssouf Tolo, Karim Traoré, Amadou Niangaly, Andrea A. Berry, Bourèma Kouriba, Christopher V. Plowe, Ogobara K. Doumbo, Kirsten E. Lyke, Shannon Takala-Harrison, Mahamadou A. Thera, Mark A. Travassos, and David Serre
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malaria ,transcriptomics ,RNAseq ,Plasmodium ,immunity ,adaptive immunity ,Microbiology ,QR1-502 - Abstract
ABSTRACT Plasmodium parasites, the causative organism of malaria, caused over 600,000 deaths in 2022. In Mali, Plasmodium falciparum causes the majority of malaria cases and deaths and is transmitted seasonally. Anti-malarial immunity develops slowly over repeated exposures to P. falciparum and some aspects of this immunity (e.g., antibody titers) wane during the non-transmission, dry season. Here, we sequenced RNA from 33 pediatric blood samples collected during P. falciparum infections at the beginning or end of a transmission season, and characterized the host and parasite gene expression profiles for paired, consecutive infections. We found that human gene expression changes more over the course of one transmission season than between seasons, with signatures of partial development of an adaptive immune response during one transmission season and stability in gene expression during the dry season. Additionally, we found that P. falciparum gene expression did not vary with timing during the season and remained stable both across and between seasons, despite varying human immune pressures. Our results provide insights into the dynamics of anti-malarial immune response development over short time frames that could be exploited by future vaccine and prevention efforts.IMPORTANCEOur work seeks to understand how the immune response to Plasmodium falciparum malaria changes between infections that occur during low and high malaria transmission seasons, and highlights that immune gene expression changes more during the high transmission season. This provides important insight into the dynamics of the anti-malarial immune response that are important to characterize over these short time frames to better understand how to exploit this immune response with future vaccine efforts.
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- 2024
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18. Parsimonious immune-response endotypes and global outcome in patients with traumatic brain injuryResearch in context
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Romit J. Samanta, Anne-Cécile Chiollaz, Edward Needham, John K. Yue, Adel Helmy, Elisa R. Zanier, Kevin K.W. Wang, Firas Kobeissy, Jussi P. Posti, Charlotte Summers, Geoffrey T. Manley, Andrew IR. Maas, Olli Tenovuo, Jean-Charles Sanchez, David K. Menon, Neeraj Badjatia, Ramon Diaz-Arrastia, Ann-Christine Duhaime, V Ramana Feeser, Shankar Gopinath, Ramesh Grandhi, Ruchira J. Ha, Dirk Keene, Christopher Madden, Michael McCrea, Randall Merchant, Laura B. Ngwenya, Richard B. Rodgers, David Schnyer, Sabrina R. Taylor, Ross Zafonte, Cecilia Ackerlund, Krisztina Amrein, Nada Andelic, Lasse Andreassen, Audny Anke, Gérard Audibert, Philippe Azouvi, Maria Luisa Azzolini, Ronald Bartels, Ronny Beer, Bo-Michael Bellander, Habib Benali, Maurizio Berardino, Luigi Beretta, Erta Beqiri, Morten Blaabjerg, Stine Borgen Lund, Camilla Brorsson, Andras Buki, Manuel Cabeleira, Alessio Caccioppola, Emiliana Calappi, Maria Rosa Calvi, Peter Cameron, Guillermo Carbayo Lozano, Marco Carbonara, Ana M. Castaño-León, Simona Cavallo, Giorgio Chevallard, Arturo Chieregato, Giuseppe Citerio, Hans Clusmann, Mark Steven Coburn, Jonathan Coles, Jamie D. Cooper, Marta Correia, Endre Czeiter, Marek Czosnyka, Claire Dahyot-Fizelier, Paul Dark, Véronique De Keyser, Vincent Degos, Francesco Della Corte, Hugo den Boogert, Bart Depreitere, Đula Đilvesi, Abhishek Dixit, Jens Dreier, Guy-Loup Dulière, Ari Ercole, Erzsébet Ezer, Martin Fabricius, Kelly Foks, Shirin Frisvold, Alex Furmanov, Damien Galanaud, Dashiell Gantner, Alexandre Ghuysen, Lelde Giga, Jagoš Golubović, Pedro A. Gomez, Benjamin Gravesteijn, Francesca Grossi, Deepak Gupta, Iain Haitsma, Raimund Helbok, Eirik Helseth, Jilske Huijben, Peter J. Hutchinson, Stefan Jankowski, Faye Johnson, Mladen Karan, Angelos G. Kolias, Daniel Kondziella, Evgenios Kornaropoulos, Lars-Owe Koskinen, Noémi Kovács, Ana Kowark, Alfonso Lagares, Steven Laureys, Fiona Lecky, Didier Ledoux, Roger Lightfoot, Hester Lingsma, Andrew I.R. Maas, Alex Manara, Hugues Maréchal, Costanza Martino, Julia Mattern, Catherine McMahon, David Menon, Tomas Menovsky, Benoit Misset, Visakh Muraleedharan, Lynnette Murray, Ancuta Negru, David Nelson, Virginia Newcombe, József Nyirádi, Fabrizio Ortolano, Jean-François Payen, Vincent Perlbarg, Paolo Persona, Wilco Peul, Anna Piippo-Karjalainen, Horia Ples, Inigo Pomposo, Louis Puybasset, Andreea Rădoi, Arminas Ragauskas, Rahul Raj, Jonathan Rhodes, Sophie Richter, Saulius Rocka, Cecilie Roe, Olav Roise, Jeffrey Rosenfeld, Christina Rosenlund, Guy Rosenthal, Rolf Rossaint, Sandra Rossi, Juan Sahuquillo, Oliver Sakowitz, Renan Sanchez-Porras, Oddrun Sandrød, Kari Schirmer-Mikalsen, Rico Frederik Schou, Charlie Sewalt, Peter Smielewski, Abayomi Sorinola, Emmanuel Stamatakis, Ewout W. Steyerberg, Nino Stocchetti, Nina Sundström, Riikka Takala, Viktória Tamás, Tomas Tamosuitis, Matt Thomas, Dick Tibboel, Christos Tolias, Tony Trapani, Cristina Maria Tudora, Andreas Unterberg, Peter Vajkoczy, Egils Valeinis, Shirley Vallance, Zoltán Vámos, Gregory Van der Steen, Jeroen T.J.M. van Dijck, Thomas A. van Essen, Roel van Wijk, Alessia Vargiolu, Emmanuel Vega, Anne Vik, Rimantas Vilcinis, Victor Volovici, Peter Vulekovic, Eveline Wiegers, Guy Williams, Stefan Winzeck, Stefan Wolf, Alexander Younsi, Frederick A. Zeiler, Agate Ziverte, and Tommaso Zoerle
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Traumatic brain injury ,Stratified medicine ,Inflammation ,Clustering ,Medicine ,Medicine (General) ,R5-920 - Abstract
Summary: Background: The inflammatory response in patients with traumatic brain injury (TBI) offers opportunities for stratification and intervention. Previous unselected approaches to immunomodulation in patients with TBI have not improved patient outcomes. Methods: Serum and plasma samples from two prospective, multi-centre observational studies of patients with TBI were used to discover (Collaborative European NeuroTrauma Effectiveness Research [CENTER-TBI], Europe) and validate (Transforming Research and Clinical Knowledge in Traumatic Brain Injury [TRACK-TBI] Pilot, USA) individual variations in the immune response using a multiplex panel of 30 inflammatory mediators. Mediators that were associated with unfavourable outcomes (Glasgow outcome score-extended [GOS-E] ≤ 4) were used for hierarchical clustering to identify patients with similar signatures. Findings: Two clusters were identified in both the discovery and validation cohorts, termed early-inflammatory and pauci-inflammatory. The early-inflammatory phenotype had higher concentrations of interleukin-6 (IL-6), IL-15, and monocyte chemoattractant protein 1 (MCP1). Patients with the early-inflammatory phenotype were older and more likely to have an unfavourable GOS-E at 6 months. There were no differences in the baseline injury severity scores between patients in each phenotype. A combined IL-15 and MCP1 signature identified patients with the early-inflammatory phenotype in both cohorts. Inflammatory processes mediated outcomes in older patients with moderate-severe TBI. Interpretation: Our findings offer a precision medicine approach for future clinical trials of immunomodulation in patients with TBI, by using inflammatory signatures to stratify patients. Funding: CENTER-TBI study was supported by the European Union 7th Framework Programme. TRACK-TBI is supported by the National Institute of Neurological Disorders and Stroke.
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- 2024
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19. Association of early blood-based biomarkers and six-month functional outcomes in conventional severity categories of traumatic brain injury: capturing the continuous spectrum of injuryResearch in context
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Lindsay Wilson, Virginia F.J. Newcombe, Daniel P. Whitehouse, Stefania Mondello, Andrew I.R. Maas, David K. Menon, Cecilia Ackerlund, Krisztina Amrein, Nada Andelic, Lasse Andreassen, Audny Anke, Anna Antoni, Gérard Audibert, Philippe Azouvi, Maria Luisa Azzolini, Ronald Bartels, Pál Barzó, Romuald Beauvais, Ronny Beer, Bo-Michael Bellander, Antonio Belli, Habib Benali, Maurizio Berardino, Luigi Beretta, Morten Blaabjerg, Peter Bragge, Alexandra Brazinova, Vibeke Brinck, Joanne Brooker, Camilla Brorsson, Andras Buki, Monika Bullinger, Manuel Cabeleira, Alessio Caccioppola, Emiliana Calappi, Maria Rosa Calvi, Peter Cameron, Guillermo Carbayo Lozano, Marco Carbonara, Ana M. Castaño-León, Simona Cavallo, Giorgio Chevallard, Arturo Chieregato, Giuseppe Citerio, Hans Clusmann, Mark Steven Coburn, Jonathan Coles, Jamie D. Cooper, Marta Correia, Amra Čović, Nicola Curry, Endre Czeiter, Marek Czosnyka, Claire Dahyot-Fizelier, Paul Dark, Helen Dawes, Véronique De Keyser, Vincent Degos, Francesco Della Corte, Hugo den Boogert, Bart Depreitere, Đula Đilvesi, Abhishek Dixit, Emma Donoghue, Jens Dreier, Guy-Loup Dulière, Ari Ercole, Patrick Esser, Erzsébet Ezer, Martin Fabricius, Valery L. Feigin, Kelly Foks, Shirin Frisvold, Alex Furmanov, Pablo Gagliardo, Damien Galanaud, Dashiell Gantner, Guoyi Gao, Pradeep George, Alexandre Ghuysen, Lelde Giga, Ben Glocker, Jagoš Golubović, Pedro A. Gomez, Johannes Gratz, Benjamin Gravesteijn, Francesca Grossi, Russell L. Gruen, Deepak Gupta, Juanita A. Haagsma, Iain Haitsma, Raimund Helbok, Eirik Helseth, Lindsay Horton, Jilske Huijben, Peter J. Hutchinson, Bram Jacobs, Stefan Jankowski, Mike Jarrett, Ji-yao Jiang, Faye Johnson, Kelly Jones, Mladen Karan, Angelos G. Kolias, Erwin Kompanje, Daniel Kondziella, Evgenios Kornaropoulos, Lars-Owe Koskinen, Noémi Kovács, Ana Kowark, Alfonso Lagares, Linda Lanyon, Steven Laureys, Fiona Lecky, Didier Ledoux, Rolf Lefering, Valerie Legrand, Aurelie Lejeune, Leon Levi, Roger Lightfoot, Hester Lingsma, Marc Maegele, Marek Majdan, Alex Manara, Geoffrey Manley, Hugues Maréchal, Costanza Martino, Julia Mattern, Catherine McMahon, Béla Melegh, Tomas Menovsky, Ana Mikolic, Benoit Misset, Visakh Muraleedharan, Lynnette Murray, Nandesh Nair, Ancuta Negru, David Nelson, Daan Nieboer, József Nyirádi, Matej Oresic, Fabrizio Ortolano, Olubukola Otesile, Aarno Palotie, Paul M. Parizel, Jean-François Payen, Natascha Perera, Vincent Perlbarg, Paolo Persona, Wilco Peul, Anna Piippo-Karjalainen, Matti Pirinen, Dana Pisica, Horia Ples, Suzanne Polinder, Inigo Pomposo, Jussi P. Posti, Louis Puybasset, Andreea Rădoi, Arminas Ragauskas, Rahul Raj, Malinka Rambadagalla, Isabel Retel Helmrich, Jonathan Rhodes, Sylvia Richardson, Sophie Richter, Samuli Ripatti, Saulius Rocka, Cecilie Roe, Olav Roise, Jonathan Rosand, Jeffrey Rosenfeld, Christina Rosenlund, Guy Rosenthal, Rolf Rossaint, Sandra Rossi, Daniel Rueckert, Martin Rusnák, Juan Sahuquillo, Oliver Sakowitz, Renan Sanchez-Porras, Janos Sandor, Nadine Schäfer, Silke Schmidt, Herbert Schoechl, Guus Schoonman, Rico Frederik Schou, Elisabeth Schwendenwein, Ranjit D. Singh, Charlie Sewalt, Toril Skandsen, Peter Smielewski, Abayomi Sorinola, Emmanuel Stamatakis, Simon Stanworth, Robert Stevens, William Stewart, Ewout W. Steyerberg, Nino Stocchetti, Nina Sundström, Riikka Takala, Viktória Tamás, Tomas Tamosuitis, Mark Steven Taylor, Braden Te Ao, Olli Tenovuo, Alice Theadom, Matt Thomas, Aurore Thibaut, Dick Tibboel, Marjolijn Timmers, Christos Tolias, Tony Trapani, Cristina Maria Tudora, Andreas Unterberg, Peter Vajkoczy, Egils Valeinis, Shirley Vallance, Zoltán Vámos, Mathieu van der Jagt, Joukje van der Naalt, Gregory Van der Steen, Jeroen T.J.M. van Dijck, Inge A. van Erp, Thomas A. van Essen, Wim Van Hecke, Caroline van Heugten, Dominique Van Praag, Ernest van Veen, Roel P.J. van Wijk, Thijs Vande Vyvere, Alessia Vargiolu, Emmanuel Vega, Kimberley Velt, Jan Verheyden, Paul M. Vespa, Anne Vik, Rimantas Vilcinis, Victor Volovici, Nicole von Steinbüchel, Daphne Voormolen, Peter Vulekovic, Kevin K.W. Wang, Eveline Wiegers, Guy Williams, Stefan Winzeck, Stefan Wolf, Zhihui Yang, Peter Ylén, Alexander Younsi, Frederick A. Zeiler, Veronika Zelinkova, Agate Ziverte, and Tommaso Zoerle
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Traumatic brain injury ,Blood biomarkers ,GFAP ,NFL ,UCH-L1 ,Outcomes ,Medicine ,Medicine (General) ,R5-920 - Abstract
Summary: Background: Traumatic brain injury is conventionally categorised as mild, moderate, or severe on the Glasgow Coma Scale (GCS). Recently developed biomarkers can provide more objective and nuanced measures of the extent of brain injury. Methods: Exposure–response relationships were investigated in 2479 patients aged ≥16 enrolled in the Collaborative European NeuroTrauma Effectiveness Research in Traumatic Brain Injury (CENTER-TBI) prospective observational cohort study. Neurofilament protein-light (NFL), ubiquitin carboxy-terminal hydrolase L1 (UCH-L1), and glial fibrillary acidic protein (GFAP) were assayed from serum sampled in the first 24 h; concentrations were divided into quintiles within GCS severity groups. Relationships with the Glasgow Outcome Scale-Extended were examined using modified Poisson regression including age, sex, major extracranial injury, time to sample, and log biomarker concentration as covariates. Findings: Within severity groups there were associations between biomarkers and outcomes after adjustment for covariates: GCS 13–15 and negative CT imaging (relative risks [RRs] from 1.28 to 3.72), GCS 13–15 and positive CT (1.21–2.81), GCS 9–12 (1.16–2.02), GCS 3–8 (1.09–1.94). RRs were associated with clinically important differences in expectations of prognosis. In patients with GCS 3 (RRs 1.51–1.80) percentages of unfavourable outcome were 37–51% in the lowest quintiles of biomarker levels and reached 90–94% in the highest quintiles. Similarly, for GCS 15 (RRs 1.83–3.79), the percentages were 2–4% and 19–28% in the lowest and highest biomarker quintiles, respectively. Interpretation: Conventional TBI severity classification is inadequate and underestimates heterogeneity of brain injury and associated outcomes. The adoption of circulating biomarkers can add to clinical assessment of injury severity. Funding: European Union 7th Framework program (EC grant 602150), Hannelore Kohl Stiftung, One Mind, Integra LifeSciences, Neuro-Trauma Sciences, NIHR Rosetrees Trust.
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- 2024
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20. Positive-unlabeled learning identifies vaccine candidate antigens in the malaria parasite Plasmodium falciparum
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Renee Ti Chou, Amed Ouattara, Matthew Adams, Andrea A. Berry, Shannon Takala-Harrison, and Michael P. Cummings
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Biology (General) ,QH301-705.5 - Abstract
Abstract Malaria vaccine development is hampered by extensive antigenic variation and complex life stages of Plasmodium species. Vaccine development has focused on a small number of antigens, many of which were identified without utilizing systematic genome-level approaches. In this study, we implement a machine learning-based reverse vaccinology approach to predict potential new malaria vaccine candidate antigens. We assemble and analyze P. falciparum proteomic, structural, functional, immunological, genomic, and transcriptomic data, and use positive-unlabeled learning to predict potential antigens based on the properties of known antigens and remaining proteins. We prioritize candidate antigens based on model performance on reference antigens with different genetic diversity and quantify the protein properties that contribute most to identifying top candidates. Candidate antigens are characterized by gene essentiality, gene ontology, and gene expression in different life stages to inform future vaccine development. This approach provides a framework for identifying and prioritizing candidate vaccine antigens for a broad range of pathogens.
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- 2024
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21. Genotyping Plasmodium falciparum gametocytes using amplicon deep sequencing
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Jimmy Vareta, Natalie A. Horstman, Matthew Adams, Karl B. Seydel, Robert S. McCann, Lauren M. Cohee, Miriam K. Laufer, and Shannon Takala-Harrison
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Plasmodium falciparum ,Complexity of infection ,Gametocyte genotyping ,Amplicon deep sequencing ,Malaria transmission ,Arctic medicine. Tropical medicine ,RC955-962 ,Infectious and parasitic diseases ,RC109-216 - Abstract
Abstract Background Understanding the dynamics of gametocyte production in polyclonal Plasmodium falciparum infections requires a genotyping method that detects distinct gametocyte clones and estimates their relative frequencies. Here, a marker was identified and evaluated to genotype P. falciparum mature gametocytes using amplicon deep sequencing. Methods A data set of polymorphic regions of the P. falciparum genome was mined to identify a gametocyte genotyping marker. To assess marker resolution, the number of unique haplotypes in the marker region was estimated from 95 Malawian P. falciparum whole genome sequences. Specificity of the marker for detection of mature gametocytes was evaluated using reverse transcription-polymerase chain reaction of RNA extracted from NF54 mature gametocytes and rings from a non-gametocyte-producing strain of P. falciparum. Amplicon deep sequencing was performed on experimental mixtures of mature gametocytes from two distinct parasite clones, as well as gametocyte-positive P. falciparum field isolates to evaluate the quantitative ability and determine the limit of detection of the genotyping approach. Results A 400 bp region of the pfs230 gene was identified as a gametocyte genotyping marker. A larger number of unique haplotypes was observed at the pfs230 marker (34) compared to the sera-2 (18) and ama-1 (14) markers in field isolates from Malawi. RNA and DNA genotyping accurately estimated gametocyte and total parasite clone frequencies when evaluating agreement between expected and observed haplotype frequencies in gametocyte mixtures, with concordance correlation coefficients of 0.97 [95% CI: 0.92–0.99] and 0.92 [95% CI: 0.83–0.97], respectively. The detection limit of the genotyping method for male gametocytes was 0.41 pfmget transcripts/µl [95% CI: 0.28–0.72] and for female gametocytes was 1.98 ccp4 transcripts/µl [95% CI: 1.35–3.68]. Conclusions A region of the pfs230 gene was identified as a marker to genotype P. falciparum gametocytes. Amplicon deep sequencing of this marker can be used to estimate the number and relative frequency of parasite clones among mature gametocytes within P. falciparum infections. This gametocyte genotyping marker will be an important tool for studies aimed at understanding dynamics of gametocyte production in polyclonal P. falciparum infections.
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- 2024
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22. Do you have a tree friend?—Human–tree relationships in Finland
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Kaisa Vainio, Aino Korrensalo, Tuomo Takala, Aleksi Räsänen, Karoliina Lummaa, and Eeva‐Stiina Tuittila
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biophilia ,charismatic trees ,human–nature relationship ,human–tree relationship ,nature relatedness ,natureculture ,Human ecology. Anthropogeography ,GF1-900 ,Ecology ,QH540-549.5 - Abstract
Abstract Trees are natural objects that carry practical, cultural and spiritual meanings to humans. Trees are an elemental part of human daily life, both in urban and rural environments, and even in locations where forests are distant. Conflicts related to tree removal in the close environments of humans indicate that individual trees may have special significance. Despite that, we have little knowledge of the ways these relationships are formed and the meanings they carry. To examine how the properties of trees and humans influence the type of relationships that are formed between them, we conducted a large‐scale survey (n = 1758). We used cluster analysis to identify typical groups of trees and human–tree relationships and conducted cross‐tabulation to correlate human and tree types in the relationships. In studying the human–tree relationship, we applied the framework of natureculture to address how the lives of humans and trees are bound together in interspecies relationships. Our results show that the strongest influence on tree–human relationships originates from human lifestyles and nature connections. Consequently, we identified three main types of human–tree relationships: (1) Admiring relationships towards large, old and charismatic trees, primarily grounded in sensory and emotional experiences, are common among urban nature‐loving people. (2) Nurturing relationships that occur with young trees in people's own gardens, which is most typical for rural outdoorspeople owning houses. (3) Nostalgic relationships are associated with trees with symbolic value in the memories of people who no longer have a material connection to an important environment. Our study revealed that the affection of humans for trees in their close environment strongly varied in emotional intensity and practical actions related to trees. We provide new knowledge of the correlations between human and tree characteristics in forming their interspecies relationship and how this relationship affects human emotional well‐being. Based on our findings, we suggest that understanding human–nature interdependence helps to sustain and create emotionally supportive multispecies environments through green design and management. Read the free Plain Language Summary for this article on the Journal blog.
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- 2024
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23. Distance education for pupils with intellectual disabilities – teachers’ experiences
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Riikka Sirkko and Marjatta Takala
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COVID-19 ,pupils with intellectual disabilities ,distance education ,teachers ,professional agency ,Education (General) ,L7-991 - Abstract
ABSTRACTDue to COVID-19, schools closed in Finland for eight weeks in the spring of 2020, and teaching was conducted using distance education. Teachers used their professional agency to ensure a continuation of their students’ learning. This study focuses on the experiences of teachers who taught pupils with intellectual disabilities during the distance education period. The research question is: What kind of experiences did the teachers have with distance education? The data were collected via an electronic questionnaire and analysed using qualitative content analysis. The results were examined using teachers’ professional agency as a theoretical lens. The results showed that teachers encountered many challenges and emotions at the beginning, but during distance education, they learnt new ways to teach and support pupils and families. Teachers’ agency was spread between supporting the agency of pupils and guardians. These are discussed in the article.
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- 2024
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24. Strong positive selection biases identity-by-descent-based inferences of recent demography and population structure in Plasmodium falciparum
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Bing Guo, Victor Borda, Roland Laboulaye, Michele D. Spring, Mariusz Wojnarski, Brian A. Vesely, Joana C. Silva, Norman C. Waters, Timothy D. O’Connor, and Shannon Takala-Harrison
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Science - Abstract
Abstract Malaria genomic surveillance often estimates parasite genetic relatedness using metrics such as Identity-By-Decent (IBD), yet strong positive selection stemming from antimalarial drug resistance or other interventions may bias IBD-based estimates. In this study, we use simulations, a true IBD inference algorithm, and empirical data sets from different malaria transmission settings to investigate the extent of this bias and explore potential correction strategies. We analyze whole genome sequence data generated from 640 new and 3089 publicly available Plasmodium falciparum clinical isolates. We demonstrate that positive selection distorts IBD distributions, leading to underestimated effective population size and blurred population structure. Additionally, we discover that the removal of IBD peak regions partially restores the accuracy of IBD-based inferences, with this effect contingent on the population’s background genetic relatedness and extent of inbreeding. Consequently, we advocate for selection correction for parasite populations undergoing strong, recent positive selection, particularly in high malaria transmission settings.
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- 2024
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25. Documentation of comorbidities, lifestyle factors, and asthma management during primary care scheduled asthma contacts
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Jaana Takala, Iida Vähätalo, Leena E. Tuomisto, Onni Niemelä, Pinja Ilmarinen, and Hannu Kankaanranta
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Diseases of the respiratory system ,RC705-779 - Abstract
Abstract Systematically assessing asthma during follow-up contacts is important to accomplish comprehensive treatment. No previous long-term studies exist on how comorbidities, lifestyle factors, and asthma management details are documented in scheduled asthma contacts in primary health care (PHC). We showed comorbidities and lifestyle factors were poorly documented in PHC in this real-life, 12-year, follow-up study. Documented information on rhinitis was found in 8.9% and BMI, overweight, or obesity in ≤1.5% of the 542 scheduled asthma contacts. Of the 145 patients with scheduled asthma contacts, 6.9% had undergone revision of their inhalation technique; 16.6% had documentation of their asthma action plan. Screening of respiratory symptoms was recorded in 79% but nasal symptoms in only 15.5% of contacts. Lifestyle guidance interventions were found in
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- 2024
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26. Gene expression analyses reveal differences in children’s response to malaria according to their age
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Kieran Tebben, Salif Yirampo, Drissa Coulibaly, Abdoulaye K. Koné, Matthew B. Laurens, Emily M. Stucke, Ahmadou Dembélé, Youssouf Tolo, Karim Traoré, Amadou Niangaly, Andrea A. Berry, Bourema Kouriba, Christopher V. Plowe, Ogobara K. Doumbo, Kirsten E. Lyke, Shannon Takala-Harrison, Mahamadou A. Thera, Mark A. Travassos, and David Serre
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Science - Abstract
Abstract In Bandiagara, Mali, children experience on average two clinical malaria episodes per year. However, even in the same transmission area, the number of uncomplicated symptomatic infections, and their parasitemia, can vary dramatically among children. We simultaneously characterize host and parasite gene expression profiles from 136 Malian children with symptomatic falciparum malaria and examine differences in the relative proportion of immune cells and parasite stages, as well as in gene expression, associated with infection and or patient characteristics. Parasitemia explains much of the variation in host and parasite gene expression, and infections with higher parasitemia display proportionally more neutrophils and fewer T cells, suggesting parasitemia-dependent neutrophil recruitment and/or T cell extravasation to secondary lymphoid organs. The child’s age also strongly correlates with variations in gene expression: Plasmodium falciparum genes associated with age suggest that older children carry more male gametocytes, while variations in host gene expression indicate a stronger innate response in younger children and stronger adaptive response in older children. These analyses highlight the variability in host responses and parasite regulation during P. falciparum symptomatic infections and emphasize the importance of considering the children’s age when studying and treating malaria infections.
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- 2024
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27. Global-, regional- and country-level estimates of the work-related burden of diseases and accidents in 2019
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Jukka Takala, Päivi Hämäläinen, Riitta Sauni, Clas-Håkan Nygård, Diana Gagliardi, and Subas Neupane
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cancer ,occupational injury ,disease ,death ,accident ,circulatory disease ,burden of disease ,work-related disease ,estimate ,work-related burden of disease ,hazardous substance ,global region ,global country ,economic loss ,disorder at work ,disability at work ,Public aspects of medicine ,RA1-1270 - Abstract
OBJECTIVE: This study provides the global-, regional- and country-level estimates on the work-related burden of diseases and accidents for 2019, including deaths, disability adjusted life years (DALY) and economic losses. METHODS: Data on occupational illnesses and injuries from international organizations, institutions, and public websites were used. Risk ratios (RR) and population attributable fractions (PAF) for the risk factor-outcome pairs were derived from the literature. Estimated mortality and DALY for a group of seven major diseases covering 120 risk-outcome pairs attributable to work were calculated for 181 countries. RESULTS: Globally, 2.9 million deaths were attributed to work, with 2.58 million deaths due to work-related diseases and 0.32 million related to occupational injuries. Globally, work-related diseases with a long latency period are increasing, while the number of occupational injuries has decreased. Work-related circulatory diseases were the major cause of 912 000 deaths globally, followed by 843 000 work-related malignant neoplasms. In high-income, American, Eastern European and Western Pacific World Health Organization (WHO) regions, however, work-related malignant neoplasms comprised the biggest disease group. DALY attributable to work were estimated to be 180 million in 2019, with an associated economic loss of 5.8% of global GDP. New estimates of psychosocial factors increased the global loss. CONCLUSIONS: The burden of work-related diseases and injuries increased by 26% from 2.3 million annual deaths in 2014 to 2.9 million in 2019. The DALY attributable to work have also substantially increased from 123 million in 2014 to 180 million in 2019 (47% increase). We found large regional and country variations.
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- 2024
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28. The John–Nirenberg Space: Equality of the Vanishing Subspaces VJNpCJNp and VJNpCJNp
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Korte, Riikka and Takala, Timo
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- 2024
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29. Let the Chips Fall! Public Nudging Arrangements, Coercion, and the Role of Independent Shopkeepers
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Häyry, Matti, Ahola-Launonen, Johanna, and Takala, Tuija
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- 2023
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30. A Systematized Overview of Published Reviews on Biological Hazards, Occupational Health, and Safety
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Alexis Descatha, Halim Hamzaoui, Jukka Takala, and Anne Oppliger
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Biological risk ,Biosafety ,Endotoxins ,Exposure ,Occupational setting ,Public aspects of medicine ,RA1-1270 - Abstract
Introduction: The COVID-19 pandemic turned biological hazards in the working environment into a global concern. This systematized review of published reviews aimed to provide a comprehensive overview of the specific jobs and categories of workers exposed to biological hazards with the related prevention. Methods: We extracted reviews published in English and French in PubMed, Embase, and Web of Science. Two authors, working independently, subsequently screened the potentially relevant titles and abstracts recovered (step 1) and then examined relevant full texts (step 2). Disagreements were resolved by consensus. We built tables summarizing populations of exposed workers, types of hazards, types of outcomes (types of health issues, means of prevention), and routes of transmission. Results: Of 1426 studies initially identified, 79 studies by authors from every continent were selected, mostly published after 2010 (n = 63, 79.7%). About half of the reviews dealt with infectious hazards alone (n = 38, 48.1%). The industrial sectors identified involved healthcare alone (n = 16), laboratories (n = 10), agriculture (including the animal, vegetable, and grain sectors, n = 32), waste (n = 10), in addition of 11 studies without specific sectors. The results also highlighted a range of hazards (infectious and non-infectious agents, endotoxins, bioaerosols, organic dust, and emerging agents). Conclusion: This systematized overview allowed to list the populations of workers exposed to biological hazards and underlined how prevention measures in the healthcare and laboratory sectors were usually well defined and controlled, although this was not the case in the agriculture and waste sectors. Further studies are necessary to quantify these risks and implement prevention measures that can be applied in every country.
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- 2023
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31. Global Estimates on Biological Risks at Work
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Jukka Takala, Alexis Descatha, A. Oppliger, H. Hamzaoui, Catherine Bråkenhielm, and Subas Neupane
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Biosafety ,Exposure ,Occupational diseases ,Organic chemicals ,Work environment ,Public aspects of medicine ,RA1-1270 - Abstract
Introduction: Biological risks are a major global problem in the workplace. The recent COVID-19 pandemic has highlighted the need for a more comprehensive understanding of the biological risks at work. This study presents data on both communicable infectious biological agents and noncommunicable factors leading to death and disability for the year 2021. Methods: We followed the methodology established by the International Labour Organization (ILO) in their past global estimates on occupational accidents and work-related diseases. We used relevant ILO estimates for hazardous substances and related population attributable fractions derived from literature, which were then applied to World Health Organization mortality data. The communicable diseases included in the estimates were tuberculosis, pneumococcal diseases, malaria, diarrheal diseases, other infectious diseases, neglected tropical diseases, influenza associated respiratory diseases and COVID-19. Noncommunicable diseases and injuries considered were Chronic Obstructive Diseases (COPD) due to organic dusts, asthma, allergic reactions and risks related to animal contact. We estimated death attributable to biological risk at work and disability in terms of disability adjusted life years (DALYs). Results: We estimated that in 2022, 550,819 deaths were caused by biological risk factors, with 476,000 deaths attributed to communicable infectious diseases and 74,000 deaths caused by noncommunicable factors. Among these, there were 223,650 deaths attributed to COVID-19 at work. We calculated the rate of 584 DALYs per 100,000 workers, representing an 11% increase from the previous estimate of the global burden of work-related disabilities measured by DALYs. Conclusion: This is a first update since previous 2007 ILO estimates, which has now increased by 74% and covers most biological risks factors. However, it is important to note that there may be other diseases and deaths are missing from the data, which need to be included when new information becomes available. It is also worth mentioning that while deaths caused by major communicable diseases including COVID-19 are relatively rare within the working population, absences from work due to these diseases are likely to be very common within the active workforce.
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- 2023
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32. Climate change in the upper Awash subbasin and its possible impacts on the stream flow, Oromiyaa, Ethiopia
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Bekan Chelkeba, Fekadu Fufa Feyessa, and Wakjira Takala Dibaba
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Bias correction ,climate change ,RCM ,spatial variability ,SWAT model ,Hydraulic engineering ,TC1-978 ,Environmental technology. Sanitary engineering ,TD1-1066 - Abstract
ABSTRACTModelling climate change impact is very important to reduce the crisis behind food security, drought, and loss of energy sectors. The impact on streamflow and hydrological components due to climate change was aimed to investigate by the SWAT model for this study. Two regional climate models (RCM) were selected according to their performance to calibrate and validate the streamflow. The Regional Climate Models’ performance in simulation of flow and the hydrological cycle was evaluated by statistical performance criteria. Digital elevation model (DEM), land use land cover and soil map, and streamflow data were collected and used as raw input for the model. Bias correction was made by using power transformation and variance scaling method for RCM against observed data. The result simulated with RACMO22T was best with (PBIAS = 0.23, NSE = 0.84, R2 = 0.79) for calibration, (PBIAS = 0.11, NSE = 0.88, R2 = 0.81) for validation. RCA4 model underperformed in simulating streamflow compared to RACMO22T with (PBIAS = 0.28, NSE = 0.78, R2 = 0.74) and (PBIAS = 0.18, NSE = 0.85, R2 = 0.78) for calibration and validation of the models respectively. The streamflow was projected and shows a slightly increasing trend respectively with 13.8 and 21.3 % for the 2030s and 2050s simulation years. But in the 2080s simulation periods, the simulated streamflow indicates a decreasing trend under representative concentration pathways (RCP4.5) by 12.5%. The overall result indicates both streamflow and runoff show a decreasing pattern in the end of this century under both scenarios. The spatial variability of hydrological components which contributes to streamflow was dependent on the subbasin characteristics. Furthermore, the simulated groundwater recharge (GW_Q), rainfall, water yields (WYLD), surface runoff (SUR_Q) and evapotranspiration (ET) were decreased by 4%, 17.7%, 20.8%, 27.7%, and 8.6% respectively for the baseline period.
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- 2023
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33. Teaching Practice in the Training of Special Education Teachers in Finland
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Takala, Marjatta, Sutela, Katja, Ojala, Sonja, and Saarinen, Minna
- Abstract
The aim of this study was to explore the core of teaching practice as a part of the curricula for master's degree in special teacher education. The data consisted of the curricula of teaching practice of all six universities in Finland that offer this program, along with the results of an electronic questionnaire administered to students. The curricula were obtained from the internet and the questionnaire was delivered to special education students at two of the six universities. Content analysis was used as a method. According to the results the curricula could be compressed into eight key elements, main of which were basic special education competence, advanced methods, collaboration, and interaction skills. Unfortunately, just 54 students responded to the questionnaire. However, they considered teaching practice a relevant part of their studies. They were satisfied with the supervision although, they commented, it could have been more frequent. The results are discussed using a four point frame of curriculum, pointing to the rare possibilities of students to negotiate or to feel empowered.
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- 2023
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34. 'Yes It's Good, But … ' -- Student Teachers' Inclusion Narratives
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Takala, Marjatta, Pihlaja, Päivi, and Viljamaa, Elina
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Finland is committed to inclusive education as many other countries too. In this study, we examined Finnish student teachers' attitudes towards inclusion using an electronic questionnaire. In total, 277 students participated. The open responses were studied as various teacher students', class, subject or special education students' narratives of inclusion. The results showed that student teachers' attitudes, except special education student teachers, were quite negative. The most common narratives told about lack of resources, about pupils and/or teachers suffering in inclusive settings, about good parts of segregation and about a positive attitude, followed by a but, like: "yes it's good, but." Full inclusion was not supported, but other forms, like partial inclusion, were more seconded. We conclude that future teachers need more knowledge about and a better understanding of inclusion and diversity.
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- 2023
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35. Plasma neurofilament light admission levels and development of axonal pathology in mild traumatic brain injury
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Hossain, Iftakher, Mohammadian, Mehrbod, Maanpää, Henna-Riikka, Takala, Riikka S. K., Tenovuo, Olli, van Gils, Mark, Hutchinson, Peter, Menon, David K., Newcombe, Virginia F., Tallus, Jussi, Hirvonen, Jussi, Roine, Timo, Kurki, Timo, Blennow, Kaj, Zetterberg, Henrik, and Posti, Jussi P.
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- 2023
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36. Applicability of drug-related problem (DRP) classification system for classifying severe medication errors
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Linden-Lahti, Carita, Takala, Anna, Holmström, Anna-Riia, and Airaksinen, Marja
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- 2023
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37. Reliability of bioreactance and pulse power analysis in measuring cardiac index during cytoreductive abdominal surgery with hyperthermic intraperitoneal chemotherapy (HIPEC)
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Ylikauma, Laura Anneli, Tuovila, Mari Johanna, Ohtonen, Pasi Petteri, Erkinaro, Tiina Maria, Vakkala, Merja Annika, Takala, Heikki Timo, Liisanantti, Janne Henrik, and Kaakinen, Timo Ilari
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- 2023
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38. The Sequential Organ Failure Assessment (SOFA) Score: has the time come for an update?
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Moreno, Rui, Rhodes, Andrew, Piquilloud, Lise, Hernandez, Glenn, Takala, Jukka, Gershengorn, Hayley B., Tavares, Miguel, Coopersmith, Craig M., Myatra, Sheila N., Singer, Mervyn, Rezende, Ederlon, Prescott, Hallie C., Soares, Márcio, Timsit, Jean-François, de Lange, Dylan W., Jung, Christian, De Waele, Jan J., Martin, Greg S., Summers, Charlotte, Azoulay, Elie, Fujii, Tomoko, McLean, Anthony S., and Vincent, Jean-Louis
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- 2023
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39. Understanding work-related travel and its relation to malaria occurrence in Thailand using geospatial maximum entropy modelling
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Memarsadeghi, Natalie, Stewart, Kathleen, Li, Yao, Sornsakrin, Siriporn, Uthaimongkol, Nichaphat, Kuntawunginn, Worachet, Pidtana, Kingkan, Raseebut, Chatree, Wojnarski, Mariusz, Jongsakul, Krisada, Jearakul, Danai, Waters, Norman, Spring, Michele, and Takala-Harrison, Shannon
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- 2023
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40. Patterns of malpractice claims and compensation after surgical procedures: a retrospective analysis of 8,901 claims from the Finnish patient insurance registry
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Welling, Maiju and Takala, Annika
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- 2023
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41. Beating the empty pelvis syndrome: the PelvEx Collaborative core outcome set study protocol
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G Palmer, T Smith, A Ghosh, K Brown, C Harris, B Griffiths, H Kim, A Martinez, J Park, S Kumar, D Collins, M Ito, M Davies, A Wolthuis, A Lyons, J Rintala, M Quinn, K Boyle, T Skeie-Jensen, S Domingo, A Gil-Moreno, M Wilson, V Lago, F Köse, A Saklani, KKL Chan, G Vizzielli, PJ Nilsson, B Flor, H Yano, A Antoniou, M Valente, M Angeles, B Eyjolfsdottir, P Chong, V George, A Simpson, D Proud, J Wild, A Oliver, C Taylor, E Burns, C Rao, RJ Davies, P Georgiou, M Brunner, D Taylor, K Weber, C Mann, HJ Kim, S Rasheed, A Denys, M Bedford, J Tiernan, G Turner, D Steffens, E Egger, A Burgess, P Tejedor, B Nguyen, B Yip, M Fahy, W Hohenberger, T Glover, R Thurairaja, W Ceelen, S Laurberg, L Castro, O Aziz, M Gargiulo, Y Tsukada, A Sahai, S Warrier, T Glyn, M Rochester, B Lampe, R Sayyed, M Duff, D Burling, G Poggioli, T Akiyoshi, C Deutsch, A Renehan, IR Daniels, NJ Smart, JT Jenkins, ST O’Dwyer, O Peacock, R Kiran, NS Fearnhead, PA Sutton, D Patsouras, ML George, FD Mcdermott, DC Winter, J Beynon, R Hompes, NA Stylianides, N Rajendran, AG Heriot, DA Harris, JMD Wheeler, C Selvasekar, M Kaufman, J Armitage, S Kapur, E Hyun, F Fleming, N Campain, K Uehara, M Kraft, MS Khan, M Albert, D Shida, J Yip, JJ Smith, S Baransi, C Bergzoll, G Pellino, I Shaikh, JS McGrath, C Cotsoglou, JHW de Wilt, Y Kanemitsu, M Shaban, CT West, MA West, I Drami, C Behrenbruch, G Guerra, PS Waters, N Woodward, S Applin, SJ Charles, SA Rose, E Pape, GH van Ramshorst, AH Mirnezami, AGJ Aalbers, N Abdul Aziz, N Abecasis, M Abraham-Nordling, R Alahmadi, W Alberda, M Andric, E Angenete, R Auer, KK Austin, E Aytac, N Bacalbasa, RP Baker, M Bali, G Baseckas, B Bebington, BK Bednarski, GL Beets, PL Berg, S Biondo, L Bordeianou, E Brecelj, AB Bremers, P Buchwald, A Bui, JWA Burger, S Carvalhal, A Caycedo-Marulanda, GJ Chang, MH Chew, AK Chok, HK Christensen, H Clouston, AJ Colquhoun, J Constantinides, A Corr, M Coscia, M Cosimelli, PE Coyne, RS Croner, L Damjanovic, CP Delaney, QD Denost, D Dietz, EJ Dozois, E Drozdov, T Eglinton, JM Enrique-Navascues, E Espín-Basany, MD Evans, S Fichtner-Feigl, K Flatmark, J Folkesson, K Foskett, FA Frizelle, J Funder, MA Gallego, E García-Granero, JL García-Sabrido, VG Gava, L Gentilini, L Ghouti, F Giner, N Ginther, P Goffredo, T Golda, CM Gomez, F Gwenaël, JAW Hagemans, V Hanchanale, DP Harji, C Helbren, RM Helewa, G Hellawell, D Hochman, T Holm, A Holmström, B Hornung, S Hurton, LH Iversen, K Jourand, S Kaffenberger, GV Kandaswamy, M Kazi, SR Kelley, DS Keller, ME Kelly, S Kersting, SHJ Ketelaers, J Khaw, CE Koh, Kok NFM, R Kokelaar, C Kontovounisios, M Koutra, Kristensen HØ, M Kusters, Z Lakkis, MC Langheinrich, T Larach, SG Larsen, DW Larson, WL Law, PJ Lee, M Limbert, A Loria, ML Lydrup, AC Lynch, M Mackintosh, C Mantyh, KL Mathis, CFS Margues, A Martling, Meijerink WJHJ, A Merchea, S Merkel, AM Mehta, DR McArthur, JJ McCormick, A McPhee, J Maciel, S Malde, S Manfredelli, S Mikalauskas, D Modest, JRT Monson, JR Morton, TG Mullaney, AS Navarro, H Neeff, I Negoi, JWM Neto, MB Nielsen, GAP Nieuwenhuijzen, S Nordkamp, K Paarnio, E Pappou, AC Peterson, F Pfeffer, F Piqeur, J Pinson, A Quyn, RW Radwan, PC Rasmussen, E Rausa, SE Regenbogen, HM Reims, R Rocha, J Rohila, J Rothbarth, M Rottoli, C Roxburgh, HJT Rutten, B Safar, PM Sagar, T Sammour, AMP Schizas, E Schwarzkopf, D Scripcariu, V Scripcariu, G Seifert, P Smart, AM Solbakken, MJ Solomon, MM Sørensen, M Spasojevic, SR Steele, K Stitzenberg, L Stocchi, T Swartling, H Sumrien, T Swartking, H Takala, EJ Tan, A Tekin, PP Tekkis, J Teras, MR Thanapal, HV Thaysen, E Thorgersen, EL Toh, P Tsarkov, J Tolenaar, S Tsukamoto, JJ Tuech, WH Turner, JB Tuynman, J van Rees, D van Zoggel, W Vásquez-Jiménez, C Verhoef, M Vierimaa, ELK Voogt, C Wakeman, HH Wasmuth, MR Weiser, OL Westney, RN Yoo, MA Zappa, and L Sorrentino
- Subjects
Medicine - Abstract
Introduction The empty pelvis syndrome is a significant source of morbidity following pelvic exenteration surgery. It remains poorly defined with research in this field being heterogeneous and of low quality. Furthermore, there has been minimal engagement with patient representatives following pelvic exenteration with respect to the empty pelvic syndrome. ‘PelvEx—Beating the empty pelvis syndrome’ aims to engage both patient representatives and healthcare professionals to achieve an international consensus on a core outcome set, pathophysiology and mitigation of the empty pelvis syndrome.Methods and analysis A modified-Delphi approach will be followed with a three-stage study design. First, statements will be longlisted using a recent systematic review, healthcare professional event, patient and public engagement, and Delphi piloting. Second, statements will be shortlisted using up to three rounds of online modified Delphi. Third, statements will be confirmed and instruments for measurable statements selected using a virtual patient-representative consensus meeting, and finally a face-to-face healthcare professional consensus meeting.Ethics and dissemination The University of Southampton Faculty of Medicine ethics committee has approved this protocol, which is registered as a study with the Core Outcome Measures in Effectiveness Trials Initiative. Publication of this study will increase the potential for comparative research to further understanding and prevent the empty pelvis syndrome.Trial registration number NCT05683795.
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- 2024
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42. Pre-Service Teachers' Attitudes towards Inclusion in Finland
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Takala, Marjatta and Sirkko, Riikka
- Abstract
The attitudes towards inclusion and the terms used related to special needs by pre-service teachers in three Finnish universities were studied. Inclusion is the main educational policy in Finland, and special solutions are avoided when possible. With a questionnaire and a brief survey, data from 488 pre-service teachers (PSTs) were collected and analysed qualitatively and quantitatively. Results indicated that their attitudes towards inclusion were quite negative. Most of the positive attitudes, which were below the mean of the scale, were held by PSTs with special education as their major or as part of their studies, along with early education PSTs. The terms used for special needs were partly traditional, following the medical model of disability, but many students also referred to the structure of the support. The reasons for the negative attitudes and changes in the traditional names of special needs are also discussed.
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- 2022
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43. Evaluation of historical CMIP6 model simulations and future climate change projections in the Baro River Basin
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Bekele Terefe Gebisa, Wakjira Takala Dibaba, and Alemayehu Kabeta
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baro river ,climate projection ,cmip6 ,gcms ,performance ,Environmental technology. Sanitary engineering ,TD1-1066 ,Environmental sciences ,GE1-350 - Abstract
This study evaluated the performance of five Global Climate Model (GCM) outputs from the Coupled Model Intercomparison Project phase 6 (CMIP6) in reproducing the historical precipitation and temperature. Observational data from the National Meteorological Agency are used for model evaluation and bias correction. Then, the projections from representative GCMs are used to understand the future climate (2031–2060) of the Baro River Basin under two Shared Socioeconomic Pathways (SSP2-4.5 and SSP5-8.5) with respect to the historical datasets (1985–2014). Statistical metrics (percent of bias, root mean square error, and coefficient of determination) are used to assess the model's performance in reproducing precipitation and temperature and Compromise Programming (CP) was used in ranking GCMs. GFDL-CM4, INM-CM5-0, and INM-CM4-8 models for precipitation; CMCC-ESM2, MRI-ESM2-0, and INM-CM4-8 for maximum temperature; and GFDL-CM4, INM-CM4-8, and INM-CM5-0 for minimum temperature were selected based on their better simulation. The projected annual precipitation shows increases of 6% under SSP2-4.5 and 16.46% under SSP5-8.5. The mean annual maximum and minimum temperature show increases of 1.43 and 1.96 °C under SSP2-4.5, and 1.81 and 3.11 °C under SSP5-8.5, respectively. Overall, the ensemble of three models outperforms the ensemble of all models for the Baro River Basin when utilising the representative GCMs. HIGHLIGHTS Multi-model GCM outputs help in reducing model discrepancies.; Multi-criteria evaluation enables the development of proactive approach to facilitate evaluation.; Relying solely on the ensemble of all models is not suitable for climate impact studies.; Careful model selection in climate impact studies should be emphasized.; Comprehensive understanding of climate dynamics helps to explore the future outlook of regions.;
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- 2023
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44. Plasma neurofilament light admission levels and development of axonal pathology in mild traumatic brain injury
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Iftakher Hossain, Mehrbod Mohammadian, Henna-Riikka Maanpää, Riikka S. K. Takala, Olli Tenovuo, Mark van Gils, Peter Hutchinson, David K. Menon, Virginia F. Newcombe, Jussi Tallus, Jussi Hirvonen, Timo Roine, Timo Kurki, Kaj Blennow, Henrik Zetterberg, and Jussi P. Posti
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Neurofilament light protein ,Diffusion tensor imaging ,Diffusion-weighted magnetic resonance imaging ,Neurology. Diseases of the nervous system ,RC346-429 - Abstract
Abstract Background It is known that blood levels of neurofilament light (NF-L) and diffusion-weighted magnetic resonance imaging (DW-MRI) are both associated with outcome of patients with mild traumatic brain injury (mTBI). Here, we sought to examine the association between admission levels of plasma NF-L and white matter (WM) integrity in post-acute stage DW-MRI in patients with mTBI. Methods Ninety-three patients with mTBI (GCS ≥ 13), blood sample for NF-L within 24 h of admission, and DW-MRI ≥ 90 days post-injury (median = 229) were included. Mean fractional anisotropy (FA), mean diffusivity (MD), axial diffusivity (AD), and radial diffusivity (RD) were calculated from the skeletonized WM tracts of the whole brain. Outcome was assessed using the Extended Glasgow Outcome Scale (GOSE) at the time of imaging. Patients were divided into CT-positive and -negative, and complete (GOSE = 8) and incomplete recovery (GOSE
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- 2023
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45. Introduction: controversial arguments in bioethics
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Räsänen, Joona, Häyry, Matti, and Takala, Tuija
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- 2023
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46. Applicability of drug-related problem (DRP) classification system for classifying severe medication errors
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Carita Linden-Lahti, Anna Takala, Anna-Riia Holmström, and Marja Airaksinen
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Medication safety ,Medication error ,Severe medication error ,Drug-related problem ,Taxonomy ,Classification system ,Public aspects of medicine ,RA1-1270 - Abstract
Abstract Background Several classification systems for medication errors (MEs) have been established over time, but none of them apply optimally for classifying severe MEs. In severe MEs, recognizing the causes of the error is essential for error prevention and risk management. Therefore, this study focuses on exploring the applicability of a cause-based DRP classification system for classifying severe MEs and their causes. Methods This was a retrospective document analysis study on medication-related complaints and authoritative statements investigated by the Finnish National Supervisory Authority for Welfare and Health (Valvira) in 2013–2017. The data was classified by applying a previously developed aggregated DRP classification system by Basger et al. Error setting and harm to the patient were identified using qualitative content analysis to describe the characteristics of the MEs in the data. The systems approach to human error, error prevention, and risk management was used as a theoretical framework. Results Fifty-eight of the complaints and authoritative statements concerned MEs, which had occurred in a wide range of social and healthcare settings. More than half of the ME cases (52%, n = 30) had caused the patient’s death or severe harm. In total, 100 MEs were identified from the ME case reports. In 53% (n = 31) of the cases, more than one ME was identified, and the mean number of MEs identified was 1.7 per case. It was possible to classify all MEs according to aggregated DRP system, and only a small proportion (8%, n = 8) were classified in the category “Other,” indicating that the cause of the ME could not be classified to specific cause-based category. MEs in the “Other” category included dispensing errors, documenting errors, prescribing error, and a near miss. Conclusions Our study provides promising preliminary results for using DRP classification system for classifying and analyzing especially severe MEs. With Basger et al.’s aggregated DRP classification system, we were able to categorize both the ME and its cause. More research is encouraged with other ME incident data from different reporting systems to confirm our results.
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- 2023
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47. Urbanization-induced land use/land cover change and its impact on surface temperature and heat fluxes over two major cities in Western Ethiopia
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Dibaba, Wakjira Takala
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- 2023
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48. Reticulocyte Binding Protein Homologue 5 is a target of balancing selection in the Plasmodium falciparum population of Papua New Guinea
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Myo T. Naung, Elijah Martin, Wilson Wong, Zahra Razook, Digjaya Utama, Andrew J. Guy, Shannon Takala Harrison, Alan F. Cowman, Enmoore Lin, Benson Kiniboro, Moses Laman, Ivo Mueller, and Alyssa E. Barry
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Plasmodium falciparum ,RH5 ,vaccine ,polymorphisms ,haplotypes ,immune escape ,Infectious and parasitic diseases ,RC109-216 - Abstract
Plasmodium falciparum Reticulocyte Binding Protein Homologue (RH5), a leading malaria vaccine candidate, is essential for erythrocyte invasion by the parasite, interacting with the human host receptor, basigin. RH5 has a small number of polymorphisms relative to other blood-stage antigens, and in vitro studies have shown that vaccine-induced antibodies raised against RH5 are strain-transcending, however most studies investigating RH5 diversity have been done in Africa. Understanding the genetic diversity and evolution of malaria antigens in other regions is important for their validation as vaccine candidates. In this study the rh5 gene was sequenced in 677 samples from a longitudinal cohort of Papua New Guinean (PNG) children aged 1-3 years. Of 677 samples successfully sequenced, 566 were identified as independent infections (i.e. one of each pair of identical sequences within hosts were removed). A total of 14 non-synonymous polymorphisms were identified, eight that are ‘common’ in the population (minor allele frequency > 1%), with 44 haplotypes ranging in frequency from 1% to 21%. Modeling of common SNPs to the cryo-EM structure of the RH5/CyRPA/RIPR complex mapped them to the Basigin binding site and near the contact point of CyRPA. Tajima’s D analyses of the corresponding nucleotide sequences produced positive values indicating potential hotspots of balancing selection. We attempted to confirm whether these signals were due to immune selection by measuring the rate of polymorphism between independent infections within the same host, and the association with clinical symptoms, however, no such associations were identified. Together these results suggest that while there is evidence of balancing selection driving RH5 diversity in the PNG P. falciparum population, immune escape was not observed within the cohort of young children. Limited immunity and therefore low selective pressure may explain this result, alternatively other evolutionary forces may contribute to balancing selection at the RH5-BSG binding interface in PNG.
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- 2023
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49. Responses of soil erosion and sediment yield to land use/land cover changes: In the case of Fincha'a watershed, upper Blue Nile Basin, Ethiopia
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Ambaye Takala Mamo and Gizachew Kabite Wedajo
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Fincha'a watershed ,Impacts ,Land use/land cover change ,Sediment yield ,Soil erosion ,Environmental sciences ,GE1-350 - Abstract
Background: Land use/land cover change (LULCC) exacerbates the global environmental changes through affecting ecosystem services. Soil erosion, which is the most significant global environmental problems caused mainly by LULCC, negatively affects agriculture and water resources development projects by increasing siltation of a reservoirs. As such, up-to-date and reliable information on the LULCC, trends, and its impacts on soil erosion and sedimentation is highly required. However, such an integrated study that uses high spatial earth observation data is limited in most basins of Ethiopia including the Fincha'a watershed. This study was, therefore, to quantify changes in LULC and its impacts on soil erosion by integrating RUSLE model and geospatial technologies. Methods: For this study, spatial datasets such as Landsat TM, ETM+, and OLI/TIRS satellite images, satellite rainfall, soil, and digital elevation model (DEM) datasets were employed. As such, land use/land cover maps of the 1991, 2006, and 2021 were produced using the supervised image classification techniques of maximum likelihood algorithm. In addition, the impacts of changes in LULC on soil erosion were assessed by changing the C-and P-factors and keeping the other parameters constant. Results: The result showed increasing cultivated land, settlement land, and waterbody at the expenses of forest land, shrub land, and grassland. In response to the changes in LULC, the mean annual soil loss increased from 34.5 t ha−1year−1 during the 1991 to 46.4 t ha−1year−1 during the 2006 and to 58.7 t ha−1year−1 during the 2021 year. The result further shows that about 29,180.1 ha (7.6 %), 40,095.6 ha (10.5 %), and 40,969.0 ha (10.7 %) of the watershed were severely eroded during the 1991, 2006, and 2021 years, respectively. Likewise, increasing sediment yield from 1991 (6.7t ha−1year−1), 2006 (8.5t ha−1year−1), and to 2021 (10.3 t ha−1year−1) were observed. Conclusion: The increased soil erosion and sedimentation negatively affects water resource availability and agricultural production. Therefore, proper land management systems should be employed in the watershed to minimize the off-site and on-site effects of soil erosion.
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- 2023
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50. Evaluation of CMIP6 model performance and extreme precipitation prediction in the Awash basin
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Chala Hailu Sime and Wakjira Takala Dibaba
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Awash basin ,Best fit ,CMIP6 ,Extreme precipitation ,General extreme value ,Science (General) ,Q1-390 ,Social sciences (General) ,H1-99 - Abstract
Extreme rainfall and its accompanying hydrological extremes are happening more frequently as a result of global warming's alteration of regional and local weather patterns. This poses a serious risk to ecosystem, environment and the community livelihoods. The Awash basin in Ethiopia is especially vulnerable to these events, posing significant threats to the region. There are, however, limited information's available that could be used to characterize the condition of extreme precipitation in the basin. Therefore, this study aims to evaluate the performance of CMIP6 models in simulating extreme precipitation in the Awash basin. Additionally, the study calculated extreme precipitation using best-fit probability distribution functions (PDFs) for the period from 1985 to 2014. The Climate Hazards Group Infrared Precipitation with station data (CHIRPS) were used to evaluate the global climate models. Simulated data were interpolated using bilinear techniques. Four statistical indices (percentage of bias, root mean square error, mean absolute error, and Pearson correlation) assessed GCM performance in simulating precipitation extremes. Graphical approaches, numerical methods, and empirical distribution functions were employed to evaluate the performance of various probability distribution functions (PDFs). The study identified MIROC6, CESM2-WACCM, and Ensemble as well-performing models with PBIAS and RMSE of 6.6 %, −10.2 %, −17.2 %, and 11.5, 10, 9.7 respectively, while MPI-ESM1-2-HR and EC-Earth3 struggled with extreme rainfall simulation. The generalized extreme values distribution was found to be a good fit for extreme rainfall estimation. GFDL-ESM4 and BCC-CSM2-MR models estimated the highest extreme rainfall of 90 mm/day and 80 mm/day, respectively, however these models overestimated the return period. Conversely, MRI-ESM2-0, NorESM2-MM, ACCESS ESM1-5, and CMCC-ESM2 models underestimated the return periods. Spatially, GFDL-ESM4 and ACCESS-ESM1-5 models exhibited uniform peak rainfall values over a large area. Overall, the study suggests that employing the generalized extreme value distribution could effectively inform risk assessment and management of extreme events in the Awash basin.
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- 2023
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