EDUCATIONAL CORNER

New Publications
Additional reads in June 2022
June 16, 2022

European Journal of Behavior Analysis: women, men, and authorship Are there any good experiments that should not be done?  ‘Robot scientist’…

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Considerations for implementing electronic laboratory notebooks in an academic research environment
June 16, 2022

Stuart Higgins and colleagues describe in this review article the use of electronic laboratory notebooks (ELN) from different perspectives. First, they…

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Many researchers were not compliant with their published data sharing statement: mixed-methods stud
June 16, 2022

In this article, the authors analysed researchers’ compliance with their Data Availability Statement (DAS) from manuscripts published in open access journals…

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Blind spots on western blots: a meta-research study highlighting opportunities to improve figures and methods reporting
June 16, 2022

Western blotting is a standard laboratory method used to detect proteins and assess their expression levels. Unfortunately, poor western blot image…

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Do multiple experimenters improve the reproducibility of animal studies?
June 16, 2022

In light of the reproducibility crisis, there is a growing awareness that the rigorous standardization of experimental conditions may contribute to…

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Testing the reproducibility and robustness of the cancer biology literature by robot
June 16, 2022

Scientific results should be reproducible and robust. However, when reproducibility is tested, it is often not found (often termed ’reproducibility crisis’),…

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What has preclinical systematic review ever done for us?
June 16, 2022

Systematic reviews and meta-analyses deliver a crystallized understanding of the existing research data in any given space. However, grappling with the…

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Reanalysis: the forgotten sibling of reproducibility and replicability
June 16, 2022

Ensuring reproducibility and replicability has been an issue in many scientific disciplines in the past decade. In this commentary, Matthew Faria…

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Preregistration of animal research protocols: development and 3-year overview of preclinicaltrials.eu
June 16, 2022

Although commonly acknowledged and applied in clinical research since 2000, preregistration of animal studies is not yet the norm. In 2018…

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Bringing microscopy images to the next level
June 16, 2022

In this Nature Methods issue, the global microscopy community presented comprehensive efforts to improve reporting and reproducibility of microscopy images. Articles…

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Additional reads in March 2022
March 14, 2022

The new normal? Redaction bias in biomedical science Why Discovering ‘Nothing’ in Science Can Be So Incredibly Important New Frontiers research…

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The impact of methodology on the reproducibility and rigor of DNA methylation data
March 14, 2022

Research focusing on epigenetic modifications is a growing field in the neuroscience area. However, issues related to data reproducibility across laboratories…

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The past, present and future of Registered Reports
March 14, 2022

Registered Reports are a form of publication in which study proposals are peer reviewed and pre-accepted before research is undertaken. By deciding which…

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External validity in translational biomedicine: understanding the conditions enabling the cause to have an effect
March 14, 2022

A spectre is haunting biomedical research: It appears that a substantial fraction of published research results cannot be reproduced, while spectacularly…

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Additional Reads in December 2021
December 20, 2021

Want research integrity? Stop the blame game Einstein Foundation Award 2021 Understand the real reasons reproducibility reform fails Five keys to…

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Nonreplicable publications are cited more than replicable ones
December 20, 2021

In this article, Marta Serra-Garcia and Uri Gneezy used publicly available data to show that published papers in top psychology, economics,…

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Investigating the replicability of preclinical cancer biology
December 20, 2021

Replicability is an important feature of scientific research. Thus, the Reproducibility Project: Cancer Biology was set up to provide evidence about…

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Misidentified biomedical resources: Journal guidelines are not a quick fix
December 20, 2021

Some journals have implemented guidelines regarding the use and reporting of cell lines, antibodies, and laboratory animals to improve the value…

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Pre-Clinical Common Data Elements for Traumatic Brain Injury Research: Progress and Use Cases
December 20, 2021

Traumatic brain injury (TBI) is an extremely complex condition due to heterogeneity in injury mechanism, underlying conditions, and secondary injury. Pre-clinical…

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The past, present and future of Registered Reports
December 20, 2021

Registered Reports are a form of empirical publication in which study proposals are peer reviewed and pre-accepted before research is undertaken….

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Additional Reads in November 2021
November 3, 2021

Science Forum: A community-led initiative for training in reproducible research Reproducibility: expect less of the scientific paper Share methods through visual…

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Methodology over metrics: current scientific standards are a disservice to patients and society
November 3, 2021

Although the issues related to poor quality of medical research are well known, the research community fails to properly address them….

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Toward Standardized Guidelines for Investigating Neural Circuit Control of Behavior in Animal Research
November 3, 2021

With the advent of tools for recording and manipulating activity with high spatiotemporal resolution in defined neural circuits in behaving animals,…

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Initial evidence of research quality of registered reports compared with the standard publishing model
November 3, 2021

In registered reports (RRs), initial peer review and in-principle acceptance occur before knowing the research outcomes. This combats publication bias and…

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Technological advances in preclinical meta-research
November 3, 2021

Preclinical systematic reviews are vital; they serve many purposes by assessing the range and quality of the evidence. Through these reviews…

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eLabFTW as an Open Science tool to improve the quality and translation of preclinical research
November 3, 2021

Together with the group of Ulf Kahlert from the University of Düsseldorf, PAASP’s Björn Gerlach published an article in F1000Research on…

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Additional reads in June 2021
June 16, 2021

Nonreplicable publications are cited more than replicable ones Good research begins long before papers get written Why indirect contributions matter for…

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Putting the Self in Self-Correction: Findings from the Loss-of-Confidence Project
June 16, 2021

Science is often perceived to be a self-correcting enterprise. In principle, the assessment of scientific claims is supposed to proceed in…

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Creating clear and informative image-based figures for scientific publications
June 16, 2021

Scientists routinely use images to display data and images are a critical part of a scientific report or publication.However, many resources…

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What is the optimum design for my animal experiment?
June 16, 2021

Within preclinical research, attention has focused on experimental design and how current practices can lead to poor reproducibility. There are numerous…

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Meta-analysis of variation suggests that embracing variability improves both replicability and generalizability in preclinical research
June 16, 2021

The long-held belief that experimental standardization begets replicability has recently been challenged – based on the observation that the reduction of…

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The MDAR Framework – a new tool for life sciences reporting
June 16, 2021

Incomplete or imprecise reporting of life sciences research contributes to challenges with reproducibility, replicability, and biomedical applications. For the last three…

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EQIPD Quality System published
June 16, 2021

The manuscript “Introduction to the EQIPD quality system” was recently accepted by and published in eLife. This publication marks an important milestone…

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Additional reads in March 2021
March 30, 2021

Science Forum: Improving preclinical studies through replications Assessment of transparency indicators across the biomedical literature: How open is open? Von Botswana…

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Reactivation-dependent amnesia for contextual fear memories: Evidence for publication bias
March 30, 2021

Research on memory reconsolidation has been booming in the last two decades, with numerous high-impact publications reporting promising amnestic interventions in…

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Taking a fresh look at FAIR for research software
March 30, 2021

Software is increasingly essential in most research, and much of this software is developed specifically for and during research. To make this…

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Advancing science or advancing careers? Researchers’ opinions on success indicators
March 30, 2021

The way in which we assess researchers has been under the radar in the past few years. Critics argue that current…

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Reproducible image handling and analysis
March 30, 2021

Image data are universal in life sciences research. Their proper handling is not. A significant proportion of image data in research…

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An excess of positive results: Comparing the standard Psychology literature with Registered Reports
March 30, 2021

Selectively publishing ‘positive’ results distorts the available evidence for scientific claims. For the past decade, scientists from different fields have been…

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ADDITIONAL READS IN DECEMBER 2020
December 18, 2020

Collaboration on the road to better preclinical research Research integrity: nine ways to move from talk to walk Compliance Services for…

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How often do leading biomedical journals use statistical experts to evaluate statistical methods? The results of a survey
December 18, 2020

Scientific claims in biomedical research are typically derived from statistical analyses. However, misuse or misunderstanding of statistical procedures and results permeate…

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Publication rate in preclinical research: a plea for preregistration
December 18, 2020

In biomedical research, limitations in the design and reporting of experiments are known to cause avoidable waste of time and resources….

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Use of causal claims in observational studies: a research on research study
December 18, 2020

Many researchers remain tempted to draw causal conclusions from observational data despite acknowledging that mere association is not causation because causal…

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Credibility of preprints: an interdisciplinary survey of researchers
December 18, 2020

Preprints increase accessibility and can speed scholarly communication if researchers view them as credible enough to read and use. Preprint services…

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The “replication crisis” in the public eye: Germans’ awareness and perceptions of the (ir)reproducibility of scientific research
December 18, 2020

While 90% of scientists surveyed by Nature feel that there is a “reproducibility crisis” in science (Baker, 2016), and major media…

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New publication co-authored by PAASP: Survey of Core Facilities shows the importance of communication and management for optimal research quality
December 18, 2020

PAASP and the Interdisciplinary Neurobehavioral Core (INBC) at the University of Heidelberg aim to establish a quality framework for Core Facilities…

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PAASP publication in Nature Reviews Drug Discovery: Improving target assessment in biomedical research – the GOT-IT recommendations
December 18, 2020

The PAASP team has published an article in Nature Reviews Drug Discovery, together with research groups from the Fraunhofer IME-TMP and the…

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Additional reads in October 2020
October 8, 2020

When antibodies mislead: the quest for validation Von Maus zu Mensch durch das Tal des Todes (in German) Researchers’ Perceptions of…

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How the COVID-19 pandemic highlights the necessity of animal research
October 8, 2020

Recently, a petition was offered to the European Commission calling for an immediate ban on animal testing. Although a Europe-wide moratorium…

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Ten simple rules on how to write a standard operating procedure
October 8, 2020

The long-term accessibility of research data is fundamental in the economy of the research production process. However, the availability of data…

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Reproducibility in systems biology modelling
October 8, 2020

The reproducibility crisis has emerged as an important concern across many fields of science. Systems biology modelling, which involves mathematical representation…

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PAASP Editorial in the Journal Temperature
October 8, 2020

Please following this LINK to our Editorial “Enhancing quality in preclinical data: Of hot science and cool quality”, which was just published in…

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Reproducibility in systems biology modelling
August 25, 2020

A recent report by Tiwari et al. investigated the reproducibility rate in systems biology modelling by reproducing the mathematical representation of 455 kinetic…

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Risk‐of‐bias VISualization (robvis): An R package and Shiny web app for visualizing risk‐of‐bias assessments
August 17, 2020

There is currently no generic tool for producing figures to display and explore the risk‐of‐bias assessments that routinely take place as…

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Additional reads in August 2020
August 17, 2020

Five better ways to assess science $48 Billion Is Lost to Avoidable Experiment Expenditure Every Year Opinion: Surgisphere Fiasco Highlights Need…

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Choice of y-axis can mislead readers
August 17, 2020

Biases at the level of study design, conduct, data analysis and reporting have been recognized as major contributing factors to poor…

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Using Bayes factor hypothesis testing in neuroscience to establish evidence of absence
August 17, 2020

For neuroscience and brain research to progress, it is critical to differentiate between experimental manipulations which have no effect and those…

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Advancing science or advancing careers? Researchers’ opinions on success indicators
August 17, 2020

The way in which we assess researchers has been under the radar in the past few years. Critics argue that current…

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Academic criteria for promotion and tenure in biomedical sciences faculties: cross-sectional analysis of international sample of universities
August 17, 2020

Understanding the variability of criteria and thresholds for promotion and tenure applied across institutions requires a systematic empirical assessment. Therefore, the…

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Reproducibility of animal research in light of biological variation
August 17, 2020

Context-dependent biological variation presents a unique challenge to the reproducibility of results in experimental animal research, because organisms’ responses to experimental…

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Additional reads in May 2020
May 28, 2020

SuperPlots: Communicating reproducibility and variability in cell biology Against pandemic research exceptionalism Pseudoscience and COVID-19 — we’ve had enough already Spin…

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Octopus: The primary research record
May 28, 2020

Created in partnership with the UK Reproducibility Network, the Octopus platform is free to use and publishes all kinds of scientific…

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Using Microsoft OneNote as an ELN
May 28, 2020

Electronic research data documentation can be achieved with either comprehensive software applications or “do-it-yourself” solutions. Whereas the first is often quite…

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PLOS launches research data survey
May 28, 2020

PLOS has launched a major survey targeting researchers in North America and Europe: The goal is to deepen the understanding of…

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Die Reproduzierbarkeitskrise: Bedrohung oder Chance für die Wissenschaft? (In German)
May 28, 2020

In this Editorial, published in Biologie in unserer Zeit, Martin C. Michel and Ralf Dahm discuss threats and opportunities related to…

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Systematic review of guidelines for internal validity in the design, conduct and analysis of preclinical biomedical experiments involving laboratory animals
May 28, 2020

Several initiatives have set out to increase transparency and internal validity of preclinical studies. While many of the points raised in…

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Variability in the analysis of a single neuroimaging dataset by many teams
May 28, 2020

To test the reproducibility and robustness of results obtained in the neuroimaging field, 70 independent teams of neuroimaging experts from across…

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Commentary March 2020
March 31, 2020

Comment on Walsh et al. “The statistical significance of randomized controlled trial results is frequently fragile: a case for a Fragility…

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Additional reads in March 2020
March 31, 2020

Preregistration of exploratory research: Learning from the golden age of discovery What Research Institutions Can Do to Foster Research Integrity When…

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Comparing quality of reporting between preprints and peer-reviewed articles in the biomedical literature
March 31, 2020

Preprint usage is growing rapidly in the life sciences; however, questions remain on the relative quality of preprints when compared to…

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Research Culture: Framework for advancing rigorous research
March 31, 2020

There is a pressing need to increase the rigor of research in the life and biomedical sciences. To address this issue,…

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Improving the trustworthiness, usefulness, and ethics of biomedical research through an innovative and comprehensive institutional initiative
March 31, 2020

The reproducibility crisis triggered worldwide initiatives to improve rigor, reproducibility, and transparency in biomedical research. There are many examples of scientists,…

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Research Culture and Reproducibility
March 31, 2020

There is an ongoing debate regarding the robustness and credibility of published scientific research. In this article, the authors argue that…

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No raw data, no science: another possible source of the reproducibility crisis
March 31, 2020

Inappropriate practices of science, such as HARKing, p-hacking, and selective reporting of positive results, have been suggested as causes of irreproducibility….

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Coronavirus: The need for solid, robust data
March 31, 2020

Like everyone else we are with a great concern given the current coronavirus situation and the beginning of a global experiment:…

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Additional READS in January 2020
February 1, 2020

Measuring Transparency and Reproducibility of Biomedical Articles Causal claims about correlations reduced in press releases following academic study of health news…

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Is N-Hacking Ever OK? A simulation-based study
February 1, 2020

After an experiment has been completed and analyzed, a trend may be observed that is “not quite significant”. Sometimes in this…

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Publishers’ Responsibilities in Promoting Data Quality and Reproducibility
February 1, 2020

Scholarly publishers can help to increase data quality and reproducible research by promoting transparency and openness. Increasing transparency can be achieved…

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Rigor and Transparency Index, a new metric of quality for assessing biological and medical science methods.
February 1, 2020

The reproducibility crisis in science is a multifaceted problem involving practices and incentives, both in the laboratory and in publication.Using SciScore,…

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New Author Guidelines for Displaying Data and Reporting Data Analysis and Statistical Methods in Experimental Biology
February 1, 2020

To improve the robustness and transparency of scientific reporting, the American Society for Pharmacology and Experimental Therapeutics (ASPET), with input from PAASP’s Martin…

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ADDITIONAL READS December 2019
December 18, 2019

Why scientists need to be better at data visualization Statistical significance gives bias a free pass Petitions in scientific argumentation: Dissecting…

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A consensus-based transparency checklist
December 18, 2019

Transparency of research processes is required not only for evaluating and reproducing results, but also for research synthesis and meta-analysis from…

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Publication rates in animal research. Extent and characteristics of published and non-published animal studies followed up at two German university medical centres
December 18, 2019

Non-publication and publication bias in animal research are prominent topics in current debates on the “reproducibility crisis” and “failure rates in…

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Be positive about negatives – recommendations for the publication of negative (or null) results.
December 18, 2019

PAASP’s Anton Bespalov together with Phil Skolnick (Opiant) and Thomas Steckler (Janssen) address the issue of negative data being rarely disclosed…

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Additional reads November 2019
November 22, 2019

Fixing the Flaws in Animal Research No Crisis but No Time for Complacency Licence to publish will restore trust in science…

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Off-target toxicity is a common mechanism of action of cancer drugs undergoing clinical trials
November 22, 2019

Use of high-quality tools is an essential element of Good Research Practice. Like for many other aspects, “high quality” is a…

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Reproducible and Transparent Research Practices in Published Neurology Research
November 22, 2019

The objective of this study by Rauh et al. was to evaluate the nature and extent of reproducible and transparent research…

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Four erroneous beliefs thwarting more trustworthy research
November 22, 2019

A range of problems currently undermines public trust in biomedical research. In this article, Mark Yarborough and colleagues discuss four erroneous…

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Laboratory mice born to wild mice have natural microbiota and model human immune responses
November 22, 2019

Mice can be a valuable model for early biomedical research, but many of the drugs that demonstrate promising results in these…

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New Handbook of Experimental Pharmacology focusing on Good Research Practice
November 22, 2019

The Handbook of Experimental Pharmacology is one of the most authoritative and influential book series in pharmacology. It provides critical and…

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Additional reads August 2019
August 12, 2019

Road testing ARRIVE 2019 Rethinking impact factors: better ways to judge a journal A Waste of 1,000 Research Papers The p…

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Meta-Research: Use of the Journal Impact Factor in academic review, promotion, and tenure evaluations
August 12, 2019

When issues associated with the current academic evaluation systems are discussed, the use – and potential misuse – of the JIF…

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Outcome heterogeneity and bias in acute experimental spinal cord injury
August 12, 2019

In this meta-analysis and meta-regression, Ralf Watzlawick and colleagues determined the impact of study characteristics, methodologic and reporting bias, and the…

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Good Practice for Conference Abstracts and Presentations: GPCAP
August 12, 2019

GPCAP provides recommendations on good submission and presentation practice for scientific and medical congresses. These recommendations cover conference abstracts, posters and…

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The association between quality measures of medical university press releases and their corresponding news stories
August 12, 2019

One of the key sources of health-related and medical information are university press releases (PR). This study by Maike Winters et…

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Knowledge and attitudes among life scientists towards reproducibility within journal articles
August 12, 2019

This study by EK Samota and RP Davey investigated the knowledge of researchers about issues related to data reproducibility as well…

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3Rs missing: animal research without scientific value is unethical
August 12, 2019

The scientists in biomedical research are increasingly worried about the growing number of rules and regulations that they have to comply…

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Failing Grade: 89% of Introduction-to-Psychology Textbooks That Define or Explain Statistical Significance Do So Incorrectly
August 12, 2019

Null-hypothesis significance testing (NHST) is commonly used in psychology and biomedical research areas. However, statisticians have long warned that researchers regularly…

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A Multi-center Study on the Reproducibility of Drug-Response Assays in Mammalian Cell Lines
August 12, 2019

In the biomedical field, a significant proportion of preclinical research data sets are not robust enough to translate into successful clinical…

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Updated review of electronic laboratory notebooks (ELNs) published by LabsExplorer
May 22, 2019

LabsExplorer has recently published an updated review on electronic lab notebooks. The first review was published in 2017 (LINK) giving a…

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