A Practical Guide to Lesion Symptom Mapping

2022 ◽  
Author(s):  
Margaret Moore

The purpose of this guide is to provide a detailed overview of everything researchers need to think about and do when conducting lesion symptom mapping (LSM) analysis. This guide includes step-by-step instructions for data collection, lesion delineation, lesion normalisation, LSM, secondary analyses, results interpretation, and write-up. All original scripts and analysis tools referenced in this guide are openly availible on the Open Science Framework.

2019 ◽  
Author(s):  
Grace Elizabeth Binion ◽  
Jack Dennis Arnal ◽  
Benjamin T. Brown ◽  
Pamela Davis-Kean ◽  
Melissa Kline

The field of psychology has increased focus on factors which influence the robustness and replicability of psychological research, illuminating practices which individual investigators might adopt to improve the credibility of their research. These practices include the pre-registration of study design and analytic plans, sharing of study materials, sharing study data, and the circulation of preprints. In service of facilitating adoption of these practices, several tools have been developed to support them. These tools, however, were largely developed by and for investigators in areas of psychology which do not share the same concerns and constraints as developmental scientists, including longitudinal data collection and data collection with sensitive populations. Given this, features of these tools which accommodate more complex study design, revision, and protections where appropriate are poorly advertised. Further, there exists little formalized instruction in the use of these tools and thus their functionality remains poorly understood outside of niche groups. As a result, many developmentalists may view these tools as unapproachable and may see them as a barrier to adopting more transparent, robust practices. This workshop will provide brief tutorials in the use of these tools in the context of developmental research. Specifically, this workshop will address use of the Open Science Framework and AsPredicted.org for pre-registration of longitudinal designs (including steps for modification and revision of pre-registrations), use of the Open Science Framework to share study materials, use of data repositories to share data with protections, and use of PsyArXiv to solicit feedback on preprints, discover unpublished literature, and share existing published works that may be otherwise protected by a paywall.


2021 ◽  
Author(s):  
Sandrine Müller ◽  
Joseph Bayer ◽  
Morgan Quinn Ross ◽  
jerry mount ◽  
Clemens Stachl ◽  
...  

The ubiquity of location data-enabled devices provides novel avenues for psychology researchers to incorporate spatial analytics into their studies. Spatial analytics use GPS data to assess and understand mobility behavior (e.g., locations visited, movement patterns). This tutorial provides a practical guide to using GPS data in R, introducing researchers to key procedures and resources for conducting spatial analytics. We show readers how to clean GPS data, compute mobility features (e.g., time spent at home, number of unique places visited), and visualize locations and movement patterns. In addition, we discuss the challenges of ensuring participant privacy and interpreting the psychological implications of mobility behaviors. The tutorial is accompanied by an R Markdown script and a simulated GPS dataset made available on the Open Science Framework.


2018 ◽  
Author(s):  
Brice Beffara Bret ◽  
Amélie Beffara Bret ◽  
Ladislas Nalborczyk

Despite many cultural, methodological and technical improvements, one of the major obstacle to results reproducibility remains the pervasive low statistical power. In response to this problem, a lot of attention has recently been drawn to sequential analyses. This type of procedure has been shown to be more efficient (to require less observations and therefore less resources) than classical fixed-N procedures. However, these procedures are submitted to both intrapersonal and interpersonal biases during data collection and data analysis. In this tutorial, we explain how automation can be used to prevent these biases. We show how to synchronise open and free experiment software programs with the Open Science Framework and how to automate sequential data analyses in R. This tutorial is intended to researchers with beginner experience with R but no previous experience with sequential analyses is required.


2021 ◽  
Vol 5 ◽  
Author(s):  
Brice Beffara Bret ◽  
Amélie Beffara Bret ◽  
Ladislas Nalborczyk

Despite many cultural, methodological, and technical improvements, one of the major obstacle to results reproducibility remains the pervasive low statistical power. In response to this problem, a lot of attention has recently been drawn to sequential analyses. This type of procedure has been shown to be more efficient (to require less observations and therefore less resources) than classical fixed-N procedures. However, these procedures are submitted to both intrapersonal and interpersonal biases during data collection and data analysis. In this tutorial, we explain how automation can be used to prevent these biases. We show how to synchronise open and free experiment software programs with the Open Science Framework and how to automate sequential data analyses in R. This tutorial is intended to researchers with beginner experience with R but no previous experience with sequential analyses is required.


2019 ◽  
Author(s):  
Adib Rifqi Setiawan

Berikut ini beberapa publikasi saya pada 2019 ini. Penting atau tidak, saya menganggap bahwa publikasi hanyalah efek samping riset. Di luar publikasi ini, saya juga masih aktif sebagai penulis media daring, seperti Qureta.com, Selasar.com, dan SantriMilenial.net serta mengunggah beberapa artikel preprint melalui layanan Open Science Framework (OSF), EdArxiv.org, dan Research Papers in Economics (RePEc).


Cells ◽  
2021 ◽  
Vol 10 (5) ◽  
pp. 1030
Author(s):  
Julie Lake ◽  
Catherine S. Storm ◽  
Mary B. Makarious ◽  
Sara Bandres-Ciga

Neurodegenerative diseases are etiologically and clinically heterogeneous conditions, often reflecting a spectrum of disease rather than well-defined disorders. The underlying molecular complexity of these diseases has made the discovery and validation of useful biomarkers challenging. The search of characteristic genetic and transcriptomic indicators for preclinical disease diagnosis, prognosis, or subtyping is an area of ongoing effort and interest. The next generation of biomarker studies holds promise by implementing meaningful longitudinal and multi-modal approaches in large scale biobank and healthcare system scale datasets. This work will only be possible in an open science framework. This review summarizes the current state of genetic and transcriptomic biomarkers in Parkinson’s disease, Alzheimer’s disease, and amyotrophic lateral sclerosis, providing a comprehensive landscape of recent literature and future directions.


BMJ Open ◽  
2021 ◽  
Vol 11 (4) ◽  
pp. e043784
Author(s):  
Naichuan Su ◽  
Michiel van der Linden ◽  
Geert JMG van der Heijden ◽  
Stefan Listl ◽  
Stefan Schandelmaier ◽  
...  

IntroductionSpin is defined as reporting practices that distort the interpretation of results and create misleading conclusions by suggesting more favourable results. Such unjustifiable and misleading misrepresentation may negatively influence the development of further studies, clinical practice and healthcare policies. Spin manifests in various patterns in different sections of publications (titles, abstracts and main texts). The primary aim of this study is to identify reported spin patterns and assess the prevalence of spin in general, and the prevalence of spin patterns reported in biomedical literature based on previously published systematic reviews and literature reviews on spin.Methods and analysisPubMed, EMBASE and SCOPUS will be searched to identify systematic or literature reviews on spin in biomedicine. To improve the comprehensiveness of the search, the snowballing method will be used to broaden the search. The data on spin-related outcomes and characteristics of the included studies will be extracted. The methodological quality of the included studies will be assessed with selective items of the A MeaSurement Tool to Assess systematic Reviews-2 checklist. A new classification scheme for spin patterns will be developed if the classifications of spin patterns identified in the included studies vary. The prevalence of spin and spin patterns will be pooled based on meta-analyses if the classification schemes for spin are comparable across included studies. Otherwise, the prevalence will be described qualitatively. The seriousness of spin patterns will be assessed based on a Delphi consensus study.Ethics and disseminationThis study has been approved by the Academic Centre for Dentistry Amsterdam Ethics Review Committee (2020250). The study will be submitted to a peer-reviewed scientific journal.RegistrationOpen Science Framework: osf.io/hzv6e


2021 ◽  
Vol 10 (16) ◽  
pp. e402101621884
Author(s):  
Lucas Manoel da Silva Cabral ◽  
Fernando Nagib Jardim ◽  
Maria José Domingues da Silva Giongo ◽  
Andréa Ramalho Reis Cardoso ◽  
Maria Raquel Fernandes da Silva ◽  
...  

This article presents the scoping review protocol on allowing the sale of tobacco products only in tobacco stores in Brazil. It is based on the hypothesis that limiting the sale of tobacco products only in tobacco shops would significantly prevent initiation and encourage cessation, thus reducing smoking prevalence and passive smoking in Brazil. The protocol aims to document the processes involved in the planning and methodological approach of an extensive scoping review, guided by Joanna Briggs Institute’s manual. The review protocol was prepared following PRISMA Extension for Scoping Reviews (PRISMA-ScR): Checklist and Explanation. It was registered in the Open Science Framework.


2021 ◽  
Vol 40 (2) ◽  
pp. 137-141 ◽  
Author(s):  
Jordan Mansell ◽  
Allison Harell ◽  
Elisabeth Gidengil ◽  
Patrick A. Stewart

AbstractWe introduce the Politics and the Life Sciences special issue on Psychophysiology, Cognition, and Political Differences. This issue represents the second special issue funded by the Association for Politics and the Life Sciences that adheres to the Open Science Framework for registered reports (RR). Here pre-analysis plans (PAPs) are peer-reviewed and given in-principle acceptance (IPA) prior to data being collected and/or analyzed, and are published contingent upon the preregistration of the study being followed as proposed. Bound by a common theme of the importance of incorporating psychophysiological perspectives into the study of politics, broadly defined, the articles in this special issue feature a unique set of research questions and methodologies. In the following, we summarize the findings, discuss the innovations produced by this research, and highlight the importance of open science for the future of political science research.


2021 ◽  
Vol 11 (11) ◽  
pp. 1155
Author(s):  
Fernanda Loureiro ◽  
Margarida Ferreira ◽  
Paula Sarreira-de-Oliveira ◽  
Vanessa Antunes

Schools are particularly suitable contexts for the implementation of interventions focused on adolescent sexual behavior. Sexual education and promotion have a multidisciplinary nature. Nurses’ role and the spectrum of the carried-out interventions is not clear. We aimed to identify interventions that promote a healthy sexuality among school adolescents. Our review followed the Preferred Reporting Items for Systematic Reviews and Meta-Analyses extension for Scoping Reviews and was registered in the Open Science Framework. Published articles on sexuality in adolescents in school contexts were considered. The research limitations included primary studies; access in full text in English, Spanish, or Portuguese; and no data publication limitation. Research was carried out on the EBSCOhost, PubMed, SciELO, and Web of Science platforms; gray literature and the bibliographies of selected articles were also searched. A total of 56 studies were included in the sample. The studies used a broad range of research methods, and 10 types of interventions were identified. Multi-interventional programs and socio-emotional interventions showed a greater impact on long-term behavioral changes, and continuity seemed to be a key factor. Long-term studies are needed to reach a consensus on the effectiveness of interventions. Nurses’ particular role on the multidisciplinary teams was found to be a gap in the research, and must be further explored.


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