Biological and Biomedical Sciences

NIH suggests "applicants proposing to use cell lines could describe the method they plan to use to verify the identity and purity of the lines, which might include short tandem repeat (STR) profiling and mycoplasma testing." Below are some resources for writing an authentication plan and procedures for authenticating cell lines.

Guidelines and Resources from Professional and Non-Profit Organizations

• Global Biological Standards Institute (GBSI)

• International Cell Line Authentication Committee (ICLAC)

Literature Review

• Know Thy Cells: Improving Biomedical Research Reproducibility by Leonard P. Freedman

• Changing the Culture of Cell Culture: Applying Best Practices and Authentication to Ensure Scientific Reproducibility by Leonard P. Freeman, Mark C. Gibson and Richard M. Neve

• Cell Line Authentication Demystified by Vivien Marx

• Standards for Cell Line Authentication and Beyond Jamie L. Almeida, Kenneth D. Cole and Anne L. Plant

• Recommendation of Short Tandem Repeat Profiling for Authenticating Human Cell Lines, Stem Cells, and Tissues by Rita Barallon, et. al.

• A Resource for Cell Line Authentication, Annotation and Quality Control by Mamie Yu, et. al.

Specific for Non-Human Cell Lines

• Authentication for non-human cell lines from ICLAC

• Mouse Cell Line Authentication by Jamie L. Almeida, Carolyn R. Hill and Kenneth D. Cole

• The Promise and Peril of Chemical Probes - Chemical probes are powerful reagents with increasing impacts on biomedical research. However, probes of poor quality or that are used incorrectly generate misleading results. To help address these issues a community driven wiki-resource has been created to improve quality and convey current best practices. (text taken from abstract)

• Biomarkers, EndpointS, and Other Tools (BEST) Resource from NIH and FDA

• Nine simple ways to make it easier to (re)use your data by Ethan P. White, et. al. 

Experimental Techniques

• What Experiment to do Next? Decision Tree adapted from Prioritizing Experiments by Prachee Avasthi

• An Analysis of Critical Factors for Quantitative Immunoblotting

• Quantitative Mass Spectrometry of Posttranslational Modifications: Keys to Confidence

• Good Practices for Building Dynamical Models in Systems Biology

• Let's Experiment: A Guide for Scientists Working at the Bench from iBiology- This FREE course tackles the above questions head-on. Scientists from a variety of backgrounds give concrete steps and advice to help you build a framework for how to design experiments in biological research

Protocol Repositories

• Bio-protocol - a peer-review protocol journal
   
• Protocols.io -  a free, central, up-to-date, crowd-sourced protocol repository
   
• Current Protocols from Wiley offers several journals dedicated to publishing protocols in a variety of disciplines. 
  • Current Protocols in Bioinformatics 
  • Current Protocols in Cell Biology
  • Current Protocols in Human Genetics
  • Current Protocols in Immunology
  • Current Protocols in Molecular Biology
  • Current Protocols in Microbiology
  • Current Protocols in Plant Biology
  • Current Protocols in Stem Cell Biology
  • Videos on techniques 

• What's in a Picture? The Temptation of Image Manipulation by Mike Rossner and Kenneth M. Yamada [Specific for blots, gels, and micrographs]

• Analysis and Correction of Inappropriate Image Duplication: the Molecular and Cellular Biology Experience by Elisabeth M. Bik, et. al. 

• Genome Editing - This collection of articles from the Nature Research journals provides an overview of current progress in developing targeted genome editing technologies. It also includes a selection of protocols that can be adapted

• Enhancing Research Reproducibility is a collection of recommendations from Federation of American Societies for Experimental Biology (FASEB) that resulted from roundtable discussions. This document discusses overarching topics, mouse and other animal models, and antibodies
   

• Misrepresentation and distortion of research in biomedical literature by Isabelle Boutron and Philippe Ravaud

Resources from Funders and Journals

• Methods and Techniques for Integrating the Biological Variable Sex into Preclinical Research from NIH

Tutorials and Case Studies

• Background, Methods, Checklists and Case Studies from Gendered Innovations at Stanford University

Literature Review

• Studying both sexes: a guiding principle for biomedicine by Janine Austin Clayton

• NIH Initiative to Balance Sex of Animals in Preclinical Studies: Generative Questions to Guide Policy, Implementation, and Metrics by Louise D. McCullough, et. al. 

• First Steps for Integrating Sex and Gender Consideration into Basic Experimental Biomedical Research by Stacey A. Ritz, et. al.

• Strategies and Methods for Research on Sex Differences in Brain and Behavior by Jill B. Becker, et. al.

• Age and Sex in Drug Development and Testing for Adults by Cara Tannenbaum and Danielle Day

• Sex and Gender Equity in Research: Rationale for SAGER Guidelines and Recommended Use by Shirin Heidari et. al.

• Criteria for Biological Reproducibility: What does "n" Mean? from Science Signaling

• Statistics for Biologists is a collection of articles addressing important statistical issues that biologists should be aware of and provides practical advice to help them improve the rigor of their work (text adapted from Nature)

• Computing Workflow for Biologist: A Roadmap by Ashley Shade and Tracey K. Teal

• A Quick Guide to Organizing Computational Biology Projects by William Stafford Noble