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New Shotgun Mass Spec Workflow Could Improve Reproducibility of Protein Quantitation in DDA

Researchers at Sweden's Karolinska Institute and Royal Institute of Technology have developed a new data analysis workflow for shotgun mass spec that could help improve the technique's quantitative reproducibility. Detailed in a paper published this month in Molecular & Cellular Proteomics, the approach uses a new quality scoring system that allows for more reliable recovery of missing data points across multiple mass spec runs.

Upcoming Webinar: Scientific Rigor and Data Reproducibility

The topics of scientific rigor and data reproducibility have been increasingly covered in the scientific and mainstream media, and are being addressed by publishers, professional organizations, and funding agencies, including NIH. This webinar – the first in a series titled Training Modules to Enhance Data Reproducibility (TMEDR) – will address topics of scientific rigor as they pertain to pre-clinical neuroscience research.

R's role in science breakthrough: reproducibility of psychology studies

R is a natural fit for a reproducibility project like this: as a scripting language, the R script itself provides a reproducible documentation of every step of the process. (Revolution R Open, Microsoft's enhanced R distribution, additionally includes features to facilitate reproducibility when using R packages.) The R script used for the psychology replication project describes and executes the process for checking the results of the papers.

A Proactive Approach to Reproducibility with Evidence-Based Research on Research

The new Meta-Research Section in PLOS Biology is not the only example of how PLOS strives to improve the scientific endeavor through innovative communication efforts. PLOS has always recognized that publication of studies that reproduce published work or null results, either confirming or refuting the original result, is essential for progress in research. In fact, the largest journal at PLOS, PLOS ONE, is one of only a handful of publications that actively encourage these types of submissions with The Missing Pieces Collection.

Emphasize Sex in Research, orders National Institutes of Health

While experiments may be published even in a top scientific journal, other researchers who attempt to repeat the same experiments under the same conditions often find contradicting results. As a measure of this, a recent study attempted to reproduce psychology publications and successfully replicated only 39 out of 100 studies. It turns out that excluding sex in experimental design may have contributed to reproducibility issues. Furthermore, sex can also have a biological impact on our scientific understanding and influence how well early biological studies translate into advances in human medicine.