Brought to you by NumFOCUS Foundation and O’Reilly Media Inc.
The official Jupyter Conference
August 22-23, 2017: Training
August 23-25, 2017: Tutorials & Conference
New York, NY

Closing the gap between Jupyter and academic publishing

Mark Hahnel (figshare), Marius Tulbure (figshare)
1:50pm–2:30pm Friday, August 25, 2017
Reproducible research and open science
Location: Nassau Level: Beginner

Who is this presentation for?

  • Academics who use Jupyter and reproducibility aficionados

Prerequisite knowledge

  • Basic knowledge of the academic publishing space and the capabilities of a Jupyter notebook

What you'll learn

  • Understand the potential for mainstream adoption of Jupyter notebooks across academia to enable reproducibility and more accurate publishing of research
  • Learn how Jupyter can help add huge layers of efficiency to the academic world by supporting findable, accessible, interoperable, and reusable (FAIR) research


In academia, the published paper is the currency of the realm. However, reports of a lack of reproducibility and transparency have led funders and others to require open data and code as part of their published outputs, but current academic publishing systems still cannot support the solutions that technology has enabled, such as the Jupyter Notebook. Mark Hahnel and Marius Tulbure discuss the opportunities for Jupyter notebooks to be the final output of academic research, arguing that Jupyter could help disrupt the inefficiencies in cost and scale of open access academic publishing.

While working with publishers at figshare, Mark and Marius received several enquiries from authors about supporting executable notebooks. As a result, the company has enabled the publishing of .ipynb files directly to figshare with a file preview in the browser. Mark and Marius explain what is needed for the Jupyter notebooks to be recognized in this format and how credit can be assigned. They also demonstrate working examples and discuss the role peer review might play. Mark and Marius then turn to the work they have been doing to enable FAIR (findable, accessible, interoperable, and reusable) principles using the suite of Jupyter tools with Jupyter notebooks and showcase an executable paper with reproducible data that enables interactive hacking.

Photo of Mark Hahnel

Mark Hahnel


Mark Hahnel is the founder of figshare, an open data tool that allows researchers to publish all of their data in a citable, searchable, and sharable manner. Mark is passionate about open science and the potential it has to revolutionize the research community. He’s fresh out of academia, having just completed his PhD in stem cell biology at Imperial College London. Mark also studied genetics in Newcastle and Leeds.

Photo of Marius Tulbure

Marius Tulbure


Marius Tulbure is a developer and JavaScript enthusiast at figshare, always looking to evolve and improve his code and skills. If asked, he’ll list his hobbies as “everything,” but for the sake of brevity, they include binge-watching TV series and movies, playing his electric guitar, and trying to solve all sorts of hacking puzzles.