Hypothesis for scientific research

Hypothesis is enjoying robust use in the sciences: in STEM education (e.g., Science in the Classroom), as a tool for scientists to critique reporting of science in the popular press (e.g., Climate Feedback), for journal clubs and by individual researchers engaging in public or private group discussions on scientific papers. Some of these uses are conversational, as Hypothesis originally envisioned: people ask questions, get answers, make comments. Other annotations are more formal and authoritative; experts extract structured knowledge from the literature, annotate gene sequences with biological information or supply clarifying information to published works.

Annotating all Knowledge: Adventures in Interoperability

The Annotating All Knowledge Coalition was founded as a forum for accelerating the development of a pervasive interoperable annotation layer across all scholarly works. Figuring out what, exactly, an interoperable annotation layer means was one of the first goals of the coalition. We took the first steps towards defining what an interoperable layer looks like and how it should operate at our Face to Face meetings at FORCE2016 and I Annotate. So what are the next steps?

Participants in both events felt strongly that the best way to move forward was to “Just do it”, that is, identify a use case where you have a need to share annotations across: tools, content, platforms, workflows.

Who says neuroscientists don’t need more brains? Annotation with SciBot

You might think that neuroscientists already have enough brains, but apparently not. Over 100 neuroscientists attending the recent annual meeting of the Society for Neuroscience (SFN), took part in an annotation challenge: modifying scientific papers to add simple references that automatically generate and attach Hypothesis annotations, filled with key related information. To sweeten the pot, our friends at Gigascience gave researchers who annotated their own papers their very own brain hats.

But handing out brains is not just a conference gimmick. Thanks to our colleagues at the Neuroscience Information Framework (NIF), Hypothesis was once again featured at SFN, the largest gathering of neuroscientists in the world, attended by well over 30,000 people in San Diego Nov 12-16, 2016. The annotation challenge at SFN was a demonstration of a much larger collaboration with NIF: to increase rigor and reproducibility in neuroscience by using the NIF’s new SciBot service to annotate publications automatically with links to related materials and tools that researchers use in scientific studies.

Hypothesis at Society for Neuroscience

At long last, I’m able to sit down and summarize my thoughts and experiences on Hypothesis at the Society for Neuroscience meeting in Chicago, Oct 17-21st. First of all, a hearty, gigantic thank you to my colleagues at the Neuroscience Information Framework, a Hypothesis partner, for featuring Hypothesis at the NIF booth and for helping … Continued

Working with Wikipedia articles

Hypothesis is exploring the use of on-line annotation to provide review and enhancement of Wikipedia articles. The Neuroscience Wiki Project encourages the neuroscience community to improve the accuracy and robustness of neuroscience articles by directly editing Wikipedia.  While that approach is still best, many researchers may not have time or be unsure of proper protocols … Continued

Introducing web-based annotation to neuroscience

For as long as we have produced scholarly works, we have annotated them.  From scribbles in the margin, to underlines and highlights, to learned commentary providing additional information, academics routinely add knowledge to scholarly output.  But scholarly works are no longer in scrolls or even on paper, they are on web pages.  So shouldn’t our … Continued