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John Pa Ioannidis

Daniele Fanelli, John Pa Ioannidis, Steven Goodman
Policies and practices to correct and retract scientific articles suffer from numerous limitations that are increasingly discussed in the literature. We briefly summarize these issues and propose a new and unified taxonomy of amendment types. The proposed 13-category system both simplifies and expands existing classifications and may be used as a heuristic tool to retrospectively classify literature amendments, as a taxonomy for electronic tagging, and as a blueprint for new amendment formats that journal editors could experiment with...
January 25, 2018: European Journal of Clinical Investigation
Tammy C Hoffmann, Andrew D Oxman, John Pa Ioannidis, David Moher, Toby J Lasserson, David I Tovey, Ken Stein, Katy Sutcliffe, Philippe Ravaud, Douglas G Altman, Rafael Perera, Paul Glasziou
No abstract text is available yet for this article.
July 20, 2017: BMJ: British Medical Journal
Paolo Magni, Dennis M Bier, Sergio Pecorelli, Carlo Agostoni, Arne Astrup, Furio Brighenti, Robert Cook, Emanuela Folco, Luigi Fontana, Robert A Gibson, Ranieri Guerra, Gordon H Guyatt, John Pa Ioannidis, Ann S Jackson, David M Klurfeld, Maria Makrides, Basil Mathioudakis, Alessandro Monaco, Chirag J Patel, Giorgio Racagni, Holger J Schünemann, Raanan Shamir, Niv Zmora, Andrea Peracino
A large body of evidence supports the notion that incorrect or insufficient nutrition contributes to disease development. A pivotal goal is thus to understand what exactly is appropriate and what is inappropriate in food ingestion and the consequent nutritional status and health. The effective application of these concepts requires the translation of scientific information into practical approaches that have a tangible and measurable impact at both individual and population levels. The agenda for the future is expected to support available methodology in nutrition research to personalize guideline recommendations, properly grading the quality of the available evidence, promoting adherence to the well-established evidence hierarchy in nutrition, and enhancing strategies for appropriate vetting and transparent reporting that will solidify the recommendations for health promotion...
July 2017: Advances in Nutrition
John Pa Ioannidis, Arthur L Caplan, Rafael Dal-Ré
No abstract text is available yet for this article.
February 14, 2017: BMJ: British Medical Journal
Ewoud Schuit, John Pa Ioannidis
BACKGROUND: Industry commissions contracting companies to perform network meta-analysis for health technology assessment (HTA) and reimbursement submissions. Our objective was to estimate the number of network meta-analyses performed by consulting companies contracted by industry, to assess whether they were published, and to explore reasons for non-publication. METHODS: We searched MEDLINE for network meta-analyses of randomized trials. Papers were included if they had authors affiliated with any contracting company...
November 25, 2016: Systematic Reviews
Thomas Pa Debray, Ewoud Schuit, Orestis Efthimiou, Johannes B Reitsma, John Pa Ioannidis, Georgia Salanti, Karel Gm Moons
Network meta-analysis (NMA) is a common approach to summarizing relative treatment effects from randomized trials with different treatment comparisons. Most NMAs are based on published aggregate data (AD) and have limited possibilities for investigating the extent of network consistency and between-study heterogeneity. Given that individual participant data (IPD) are considered the gold standard in evidence synthesis, we explored statistical methods for IPD-NMA and investigated their potential advantages and limitations, compared with AD-NMA...
August 2, 2016: Statistical Methods in Medical Research
Benjamin A Goldstein, Ann Marie Navar, Michael J Pencina, John P A Ioannidis
OBJECTIVE: Electronic health records (EHRs) are an increasingly common data source for clinical risk prediction, presenting both unique analytic opportunities and challenges. We sought to evaluate the current state of EHR based risk prediction modeling through a systematic review of clinical prediction studies using EHR data. METHODS: We searched PubMed for articles that reported on the use of an EHR to develop a risk prediction model from 2009 to 2014. Articles were extracted by two reviewers, and we abstracted information on study design, use of EHR data, model building, and performance from each publication and supplementary documentation...
January 2017: Journal of the American Medical Informatics Association: JAMIA
John Pa Ioannidis
No abstract text is available yet for this article.
June 2016: American Journal of Clinical Nutrition
Nazmus Saquib, Juliann Saquib, John P A Ioannidis
BACKGROUND: Several popular screening tests, such as mammography and prostate-specific antigen, have met with wide controversy and/or have lost their endorsement recently. We systematically evaluated evidence from randomized controlled trials (RCTs) as to whether screening decreases mortality from diseases where death is a common outcome. METHODS: We searched three sources: United States Preventive Services Task Force (USPSTF), Cochrane Database of Systematic Reviews, and PubMed...
February 2015: International Journal of Epidemiology
Ludovic Trinquart, John P A Ioannidis, Gilles Chatellier, Philippe Ravaud
BACKGROUND: Networks of trials assessing several treatment options available for the same condition are increasingly considered. Randomized trial evidence may be missing because of reporting bias. We propose a test for reporting bias in trial networks. METHODS: We test whether there is an excess of trials with statistically significant results across a network of trials. The observed number of trials with nominally statistically significant p-values across the network is compared with the expected number...
2014: BMC Medical Research Methodology
Shanthi Kappagoda, John P A Ioannidis
OBJECTIVE: To analyse evidence from randomized controlled trials (RCTs) on the prevention and control of neglected tropical diseases (NTDs) and to identify areas where evidence is lacking. METHODS: The Cochrane Central Register of Controlled Trials and PubMed were searched for RCTs and the Cochrane Database of Systematic Reviews and PubMed were searched for meta-analyses and systematic reviews, both from inception to 31 December 2012. FINDINGS: Overall, 258 RCTs were found on American trypanosomiasis, Buruli ulcer, dengue, geohelminth infection, leishmaniasis, leprosy, lymphatic filariasis, onchocerciasis, rabies, schistosomiasis or trachoma...
May 1, 2014: Bulletin of the World Health Organization
Joanna IntHout, John P A Ioannidis, George F Borm
BACKGROUND: The DerSimonian and Laird approach (DL) is widely used for random effects meta-analysis, but this often results in inappropriate type I error rates. The method described by Hartung, Knapp, Sidik and Jonkman (HKSJ) is known to perform better when trials of similar size are combined. However evidence in realistic situations, where one trial might be much larger than the other trials, is lacking. We aimed to evaluate the relative performance of the DL and HKSJ methods when studies of different sizes are combined and to develop a simple method to convert DL results to HKSJ results...
2014: BMC Medical Research Methodology
Vinay Prasad, John Pa Ioannidis
Abandoning ineffective medical practices and mitigating the risks of untested practices are important for improving patient health and containing healthcare costs. Historically, this process has relied on the evidence base, societal values, cultural tensions, and political sway, but not necessarily in that order. We propose a conceptual framework to guide and prioritize this process, shifting emphasis toward the principles of evidence-based medicine, acknowledging that evidence may still be misinterpreted or distorted by recalcitrant proponents of entrenched practices and other biases...
2014: Implementation Science: IS
Chirag J Patel, David H Rehkopf, John T Leppert, Walter M Bortz, Mark R Cullen, Glenn M Chertow, John Pa Ioannidis
BACKGROUND: Environmental and behavioural factors are thought to contribute to all-cause mortality. Here, we develop a method to systematically screen and validate the potential independent contributions to all-cause mortality of 249 environmental and behavioural factors in the National Health and Nutrition Examination Survey (NHANES). METHODS: We used Cox proportional hazards regression to associate 249 factors with all-cause mortality while adjusting for sociodemographic factors on data in the 1999-2000 and 2001-02 surveys (median 5...
December 2013: International Journal of Epidemiology
S Kanters, E J Mills, K Thorlund, H C Bucher, J P A Ioannidis
There have been over 100 randomized clinical trials (RCTs) of diverse regimens of antiretroviral therapy for treatment-naïve human immunodeficiency virus-positive patients. A further 400 systematic reviews and meta-analyses are informed by these trials. There are, however, difficulties in using systematic reviews and meta-analyses of this clinical evidence to inform guidelines and clinical practice. Several issues can make the interpretation of comparative effectiveness challenging. In this article, we review the key challenges in interpreting multiple trials in this population...
February 2014: Clinical Microbiology and Infection
Evangelos Evangelou, Hanneke J Kerkhof, Unnur Styrkarsdottir, Evangelia E Ntzani, Steffan D Bos, Tonu Esko, Daniel S Evans, Sarah Metrustry, Kalliope Panoutsopoulou, Yolande F M Ramos, Gudmar Thorleifsson, Konstantinos K Tsilidis, Nigel Arden, Nadim Aslam, Nicholas Bellamy, Fraser Birrell, Francisco J Blanco, Andrew Carr, Kay Chapman, Aaron G Day-Williams, Panos Deloukas, Michael Doherty, Gunnar Engström, Hafdis T Helgadottir, Albert Hofman, Thorvaldur Ingvarsson, Helgi Jonsson, Aime Keis, J Christiaan Keurentjes, Margreet Kloppenburg, Penelope A Lind, Andrew McCaskie, Nicholas G Martin, Lili Milani, Grant W Montgomery, Rob G H H Nelissen, Michael C Nevitt, Peter M Nilsson, William Er Ollier, Neeta Parimi, Ashok Rai, Stuart H Ralston, Mike R Reed, Jose A Riancho, Fernando Rivadeneira, Cristina Rodriguez-Fontenla, Lorraine Southam, Unnur Thorsteinsdottir, Aspasia Tsezou, Gillian A Wallis, J Mark Wilkinson, Antonio Gonzalez, Nancy E Lane, L Stefan Lohmander, John Loughlin, Andres Metspalu, Andre G Uitterlinden, Ingileif Jonsdottir, Kari Stefansson, P Eline Slagboom, Eleftheria Zeggini, Ingrid Meulenbelt, John Pa Ioannidis, Tim D Spector, Joyce B J van Meurs, Ana M Valdes
OBJECTIVES: Osteoarthritis (OA) is the most common form of arthritis with a clear genetic component. To identify novel loci associated with hip OA we performed a meta-analysis of genome-wide association studies (GWAS) on European subjects. METHODS: We performed a two-stage meta-analysis on more than 78,000 participants. In stage 1, we synthesised data from eight GWAS whereas data from 10 centres were used for 'in silico' or 'de novo' replication. Besides the main analysis, a stratified by sex analysis was performed to detect possible sex-specific signals...
December 2014: Annals of the Rheumatic Diseases
John Pa Ioannidis, Muin J Khoury
No abstract text is available yet for this article.
2013: Genome Medicine
Joanna IntHout, John Pa Ioannidis, George F Borm
There is debate whether clinical trials with suboptimal power are justified and whether results from large studies are more reliable than the (combined) results of smaller trials. We quantified the error rates for evaluations based on single conventionally powered trials (80% or 90% power) versus evaluations based on the random-effects meta-analysis of a series of smaller trials. When a treatment was assumed to have no effect but heterogeneity was present, the error rates for a single trial were increased more than 10-fold above the nominal rate, even for low heterogeneity...
April 2016: Statistical Methods in Medical Research
Ching-Ti Liu, Karol Estrada, Laura M Yerges-Armstrong, Najaf Amin, Evangelos Evangelou, Guo Li, Ryan L Minster, Melanie A Carless, Candace M Kammerer, Ling Oei, Yanhua Zhou, Nerea Alonso, Zoe Dailiana, Joel Eriksson, Natalia García-Giralt, Sylvie Giroux, Lise Bjerre Husted, Rita I Khusainova, Theodora Koromila, Annie Waichee Kung, Joshua R Lewis, Laura Masi, Simona Mencej-Bedrac, Xavier Nogues, Millan S Patel, Janez Prezelj, J Brent Richards, Pak Chung Sham, Timothy Spector, Liesbeth Vandenput, Su-Mei Xiao, Hou-Feng Zheng, Kun Zhu, Susana Balcells, Maria Luisa Brandi, Morten Frost, David Goltzman, Jesús González-Macías, Magnus Karlsson, Elza K Khusnutdinova, Panagoula Kollia, Bente Lomholt Langdahl, Osten Ljunggren, Mattias Lorentzon, Janja Marc, Dan Mellström, Claes Ohlsson, José M Olmos, Stuart H Ralston, José A Riancho, François Rousseau, Roser Urreizti, Wim Van Hul, María T Zarrabeitia, Martha Castano-Betancourt, Serkalem Demissie, Elin Grundberg, Lizbeth Herrera, Tony Kwan, Carolina Medina-Gómez, Tomi Pastinen, Gunnar Sigurdsson, Gudmar Thorleifsson, Joyce Bj Vanmeurs, John Blangero, Albert Hofman, Yongmei Liu, Braxton D Mitchell, Jeffrey R O'Connell, Ben A Oostra, Jerome I Rotter, Kari Stefansson, Elizabeth A Streeten, Unnur Styrkarsdottir, Unnur Thorsteinsdottir, Frances A Tylavsky, Andre Uitterlinden, Jane A Cauley, Tamara B Harris, John Pa Ioannidis, Bruce M Psaty, John A Robbins, M Carola Zillikens, Cornelia M Vanduijn, Richard L Prince, David Karasik, Fernando Rivadeneira, Douglas P Kiel, L Adrienne Cupples, Yi-Hsiang Hsu
Sexual dimorphism in various bone phenotypes, including bone mineral density (BMD), is widely observed; however, the extent to which genes explain these sex differences is unclear. To identify variants with different effects by sex, we examined gene-by-sex autosomal interactions genome-wide, and performed expression quantitative trait loci (eQTL) analysis and bioinformatics network analysis. We conducted an autosomal genome-wide meta-analysis of gene-by-sex interaction on lumbar spine (LS) and femoral neck (FN) BMD in 25,353 individuals from 8 cohorts...
October 2012: Journal of Bone and Mineral Research: the Official Journal of the American Society for Bone and Mineral Research
A Cecile Jw Janssens, John Pa Ioannidis, Cornelia M van Duijn, Julian Little, Muin J Khoury
The rapid and continuing progress in gene discovery for complex diseases is fueling interest in the potential application of genetic risk models for clinical and public health practice. The number of studies assessing the predictive ability is steadily increasing, but the quality and completeness of reporting varies. A multidisciplinary workshop sponsored by the Human Genome Epidemiology Network developed a checklist of 25 items recommended for strengthening the reporting of genetic risk prediction studies (the GRIPS statement), building on the principles established by prior reporting guidelines...
2011: Genome Medicine
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