[open-science] Textmining: hackday by the ContentMine and DNAdigest

Fiona Nielsen fiona.nielsen at gmail.com
Mon Nov 30 12:26:57 UTC 2015

>From the volunteers and organisers of ContentMine <http://contentmine.org/>
 and DNAdigest <http://dnadigest.org/>  comes a new hackday!

*Friday Dec 11th at the Genome Campus, Hinxton*

Sign up via eventbrite:

ContentMine <http://contentmine.org/> is an open-source project, funded by
the Shuttleworth Foundation, that extracts facts from scientific literature
in machine readable form.

DNAdigest <http://dnadigest.org/> is a charity that promotes efficient
sharing of genomics data to advance scientific research.

We will use the tools of ContentMine <http://contentmine.org/> to automatically
extract references to genomic datasets from new journal publications.  Then
we can put them into a big machine-readable database that can be searched
by interested humans and machines alike.  We would love to have your
expertise and help with this experiment!

But we also want to explore with you any other areas where automatic fact
extraction could be useful.

Perhaps you work in a field where you have to manually transcribe data from
graphs?  Or perhaps you would like to scan open-access journals that are
only available via the web for a particular word or phrase?  ContentMine
has tools to do all these things and more.

If you are interested in machine-mining journals, whether that is for
genomic dataset DOIs, your own research or just out of general interest, please
come along and join us!  In-depth programming knowledge is not essential -
ContentMine is designed to make mining easy and we will have ContentMine
mentors there on the day to help you get familiar with the system.

*Tickets include lunch and catering during the day.*

*Students attend for free.*

*Sign up via eventbrite: *


Read more and join the discussion on our hackpad:



Data accessibility is a limiting factor for the reuse of genomic research

Read "Data barriers limit genetic diagnosis":

“Excellence can be achieved, if we:
Care more than others think is wise,
Risk more than others think is safe,
Dream more than others think is practical,
Expect more than others think is possible.”
- Deborah Johnson-Ross
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