[open-science] New version of Open Knowledge Maps

Fri Mar 24 05:42:06 UTC 2017

Hi Peter,

I guess, it requires tons of hardware. Thank you for the detailed answer
and looking forward to playing with API

On Fri, Mar 24, 2017 at 12:34 AM, Peter Kraker <
pkraker at openknowledgemaps.org> wrote:

> Hi Roman,
>
> thanks - and good to hear from you! See my answers inline:
>
> On 23/03/2017 17:57, Roman Gurinovich wrote:
>
> Two questions:
>
> 1. Could you describe a little, how deeply search dives in the text of the
> paper?
>
> Options that come to mind:
> 1. Graphs are based on terms from papers metadata, for example 'MeSH
> terms' from Pubmed xml;
> 2. All words from the papers' fulltext are taken into account
> 3. It depends on Pubmed/BASE API results
>
>
> It's option #3. We are using titles, abstracts, authors, keywords and
> publication venue as input for the similarity matrix (you can see for
> yourself in our connector scripts [1] and [2]; everything that's returned
> as part of the list member "text" will be used in the similarity matrix).
> There is a version for PLOS [3], which uses the fulltext; but we moved to
> metadata when we were featured on the Hackernews frontpage, as it is much
> faster to compute on the fly. PubMed and BASE do not offer fulltext anyway
> (with the ecxeption of PMC).
>
> [1] https://github.com/OpenKnowledgeMaps/Headstart/blob/master/server/
> preprocessing/other-scripts/base.R
> [2] https://github.com/OpenKnowledgeMaps/Headstart/blob/master/server/
> preprocessing/other-scripts/pubmed.R
> [3] https://github.com/OpenKnowledgeMaps/Headstart/blob/master/server/
> preprocessing/other-scripts/rplos.R
>
> 2. Are you planning API to retrieve graphs in the form of RDF of similar?
> Like, querying 'mTOR' and receiving all connections between terms in the
> relevant papers.
>
>
> Yes, definitely. An API is part of our roadmap: https://github.com/
> OpenKnowledgeMaps/open-discovery/blob/master/roadmap.md#broad-overview
>
> Best,
> Peter
>

-- 

Best Regards,
Roman Gurinovich

Director, XPANSA Group | Business Systems and Data Analysis
sci.AI | Semantic Science

/// site  : xpansa.com
/// mail  : roman.gurinovich at xpansa.com
/// phone, PL : +48502994586
/// skype : roman.gurinovich
-------------- next part --------------
An HTML attachment was scrubbed...
URL: <http://lists.okfn.org/pipermail/open-science/attachments/20170324/0cda813c/attachment-0003.html>