Wikidata anyone?

[Egon Willighagen]

Hi all,

anyone interested in making knowledge about the situation FAIR with Wikidata? They already started a page there [0], and it may provide useful data and data links for us to take advantage of during the actual hackathon. Of course, I'd also be looking at this from a Scholia perspective, which can summarize data about the virus, etc.

Egon

0.https://www.wikidata.org/wiki/Wikidata:WikiProject_COVID-19

--

Hi, do you like citation networks? Already 51% of all citations are available available for innovative new uses. Join me in asking the American Chemical Society to join the Initiative for Open Citations too. SpringerNature, the RSC and many others already did.

-----

E.L. Willighagen
Department of Bioinformatics - BiGCaT
Maastricht University (http://www.bigcat.unimaas.nl/)
Homepage: http://egonw.github.com/
Blog: http://chem-bla-ics.blogspot.com/
PubList: https://www.zotero.org/egonw
ORCID: 0000-0001-7542-0286
ImpactStory: https://impactstory.org/u/egonwillighagen

[Pjotr Prins]

Great idea. Why not add a working group to the wiki?

https://github.com/virtual-biohackathons/covid-19-bh20/wiki

On Mon, Mar 16, 2020 at 05:49:23PM +0100, Egon Willighagen wrote:
> Hi all,
> anyone interested in making knowledge about the situation FAIR with
> Wikidata? They already started a page there [0], and it may provide
> useful data and data links for us to take advantage of
> during the actual hackathon. Of course, I'd also be looking at this
> from a Scholia perspective, which can summarize data about the virus,
> etc.
> Egon

> 0.[1]https://www.wikidata.org/wiki/Wikidata:WikiProject_COVID-19
> --
> Hi, do you like citation networks? Already [2]51% of all citations are
> available available for [3]innovative new uses. Join me in [4]asking

> the American Chemical Society to join the Initiative for Open Citations

> too. SpringerNature, the RSC and many others [5]already did.

> -----
> E.L. Willighagen
> Department of Bioinformatics - BiGCaT

> Maastricht University ([6]http://www.bigcat.unimaas.nl/)
> Homepage: [7]http://egonw.github.com/
> Blog: [8]http://chem-bla-ics.blogspot.com/
> PubList: [9]https://www.zotero.org/egonw
> ORCID: [10]0000-0001-7542-0286
> ImpactStory: [11]https://impactstory.org/u/egonwillighagen
>
> --
> You received this message because you are subscribed to the Google
> Groups "virtual biohackathon COVID-19 2020" group.
> To unsubscribe from this group and stop receiving emails from it, send
> an email to [12]virtual-biohacka...@googlegroups.com.
> To view this discussion on the web, visit
> [13]https://groups.google.com/d/msgid/virtual-biohackathon/CAMPqvY9aBkg
> DWMO5OawD%3DrAHR6vGkCFJwfZVkcoNxTCvdtX_-A%40mail.gmail.com.
>
> References
>
> 1. https://www.wikidata.org/wiki/Wikidata:WikiProject_COVID-19
> 2. https://i4oc.org/
> 3. https://twitter.com/hashtag/acs2ioc
> 4. https://www.change.org/p/asking-the-american-chemical-society-to-join-the-initiative-for-open-citations
> 5. https://i4oc.org/#publishers
> 6. http://www.bigcat.unimaas.nl/
> 7. http://egonw.github.com/
> 8. http://chem-bla-ics.blogspot.com/
> 9. https://www.zotero.org/egonw
> 10. http://orcid.org/0000-0001-7542-0286
> 11. https://impactstory.org/u/egonwillighagen
> 12. mailto:virtual-biohacka...@googlegroups.com
> 13. https://groups.google.com/d/msgid/virtual-biohackathon/CAMPqvY9aBkgDWMO5OawD=rAHR6vGkCFJwfZ...@mail.gmail.com?utm_medium=email&utm_source=footer

[Egon Willighagen]

Will do. I have two leads at this moment:

- a markdown book with SPARQL queries: https://egonw.github.io/SARS-CoV-2-Queries/

- a WikiPathways about how the virus works (which we're trying to get into Wikidata): https://www.wikipathways.org/index.php/Pathway:WP4846

Egon

Hi, do you like citation networks? Already 51% of all citations are available available for innovative new uses. Join me in asking the American Chemical Society to join the Initiative for Open Citations too. SpringerNature, the RSC and many others already did.

-----

E.L. Willighagen
Department of Bioinformatics - BiGCaT

[Egon Willighagen]

I have added some initial ideas and resources to the wiki: https://github.com/virtual-biohackathons/covid-19-bh20/wiki/Wikidata

Egon

On Mon, Mar 16, 2020 at 6:27 PM Pjotr Prins <pjot...@gmail.com> wrote:

--

Hi, do you like citation networks? Already 51% of all citations are available available for innovative new uses. Join me in asking the American Chemical Society to join the Initiative for Open Citations too. SpringerNature, the RSC and many others already did.

-----

E.L. Willighagen
Department of Bioinformatics - BiGCaT

[Thomas Liener]

Hi Egon,

As a big wikidata fan I am, of course interested in this. So yes, if we come up with a useful proposal I will try to contribute. Othre projects like "public sequence resource" did mention wikidata already (I will help with ontologies/wikidata there) and I could imagin that some more project will in the future. So I am sure wikidata will be part of this if there is an own wikidata proposal or not! So count me, lets discuss this in the near future!

Cheers.

[Sabah Ul-Hasan]

Hi all,

I'm a postdoc in Andrew Su's group at The Scripps Research Institute who contributes to Wikidata (Github @sabahzero)

Keep me posted, I'm interested.

Best,

[Hilmar Lapp]

Me too. Getting these data into Wikidata seems like it would maximize future impact.

  -hilmar

(BTW Sabah - great to “see" you again, and a warm welcome to this group! Say hi from me to Andy when you see him, virtually I suppose.)

-- 
You received this message because you are subscribed to the Google Groups "virtual biohackathon COVID-19 2020" group.

To unsubscribe from this group and stop receiving emails from it, send an email to virtual-biohacka...@googlegroups.com.
To view this discussion on the web, visit https://groups.google.com/d/msgid/virtual-biohackathon/e2dfbfd7-deeb-4121-a8cb-73794bff09b7%40googlegroups.com.

-- 
Hilmar Lapp -:- genome.duke.edu -:- lappland.io

[Pjotr Prins]

Sabah, Hilmar, Thomas - please add your names to

https://github.com/virtual-biohackathons/covid-19-bh20/wiki/Wikidata

> --
> You received this message because you are subscribed to the Google
> Groups "virtual biohackathon COVID-19 2020" group.
> To unsubscribe from this group and stop receiving emails from it, send

> an email to [1]virtual-biohacka...@googlegroups.com.

> To view this discussion on the web, visit

> [2]https://groups.google.com/d/msgid/virtual-biohackathon/e2dfbfd7-deeb
> -4121-a8cb-73794bff09b7%40googlegroups.com.
>
> References
>
> 1. mailto:virtual-biohacka...@googlegroups.com
> 2. https://groups.google.com/d/msgid/virtual-biohackathon/e2dfbfd7-deeb-4121...@googlegroups.com?utm_medium=email&utm_source=footer

[Noushin Nabavi]

Hi, this is very interesting, I would love to support, but only have R programming skills, is this a coding heavy project?

If not, happy to sign up, in short: is it possible to know more about it?

Thanks,

Noushin 

To unsubscribe from this group and stop receiving emails from it, send an email to virtual-biohacka...@googlegroups.com.
To view this discussion on the web, visit https://groups.google.com/d/msgid/virtual-biohackathon/20200324195009.4owfbm4olqhmgwhl%40thebird.nl.

--

I respectfully acknowledge that I live,  work, and play on the traditional territory of  Lekwungen, the Songhees and Esquimalt First Nations.

Noushin Nabavi, PhD | Tel.: +1 778-999-1982

Email: nabavi...@gmail.com | Webpage: https://noushinn.github.io

[Pjotr Prins]

Add your name. The teams set up communication channels and you'll be
able to contribute.

Pj.

On Tue, Mar 24, 2020 at 01:05:41PM -0700, Noushin Nabavi wrote:
> Hi, this is very interesting, I would love to support, but only have R
> programming skills, is this a coding heavy project?
> If not, happy to sign up, in short: is it possible to know more about
> it?
> Thanks,
> Noushin
>

> On Tue, Mar 24, 2020 at 12:50 PM Pjotr Prins <[1]pjot...@gmail.com>

> wrote:
>
> Sabah, Hilmar, Thomas - please add your names to

> [2]https://github.com/virtual-biohackathons/covid-19-bh20/wiki/Wikid
> ata

> [1][3]virtual-biohacka...@googlegroups.com.

> > To view this discussion on the web, visit
> >

> [2][4]https://groups.google.com/d/msgid/virtual-biohackathon/e2dfbfd
> 7-deeb
> > -4121-a8cb-73794bff09b7%[5]40googlegroups.com.
> >
> > References
> >
> > 1. mailto:[6]virtual-biohacka...@googlegroups.com
> > 2.
> [7]https://groups.google.com/d/msgid/virtual-biohackathon/e2dfbfd7-d
> eeb-4121-a8cb...@googlegroups.com?utm_medium=email&utm_sou
> rce=footer

> --
> You received this message because you are subscribed to the Google
> Groups "virtual biohackathon COVID-19 2020" group.
> To unsubscribe from this group and stop receiving emails from it,
> send an email to

> [8]virtual-biohacka...@googlegroups.com.

> To view this discussion on the web, visit

> [9]https://groups.google.com/d/msgid/virtual-biohackathon/2020032419
> 5009.4owfbm4olqhmgwhl%40thebird.nl.

>
> --
>
> I respectfully acknowledge that I live, work, and play on the
> traditional territory of Lekwungen, the Songhees and Esquimalt First
> Nations.
> Noushin Nabavi, PhD | Tel.: +1 778-999-1982
> Email:

> [10]nabavi...@gmail.com | Webpage: [11]https://noushinn.github.io
>
> References
>
> 1. mailto:pjot...@gmail.com
> 2. https://github.com/virtual-biohackathons/covid-19-bh20/wiki/Wikidata
> 3. mailto:virtual-biohacka...@googlegroups.com
> 4. https://groups.google.com/d/msgid/virtual-biohackathon/e2dfbfd7-deeb
> 5. http://40googlegroups.com/
> 6. mailto:virtual-biohacka...@googlegroups.com
> 7. https://groups.google.com/d/msgid/virtual-biohackathon/e2dfbfd7-deeb-4121...@googlegroups.com?utm_medium=email&utm_source=footer
> 8. mailto:virtual-biohacka...@googlegroups.com
> 9. https://groups.google.com/d/msgid/virtual-biohackathon/20200324195009....@thebird.nl
> 10. mailto:nabavi...@gmail.com
> 11. https://noushinn.github.io/

[Egon Willighagen]

Seconded. Data is to be consumed and R can handle SPARQL endpoints fine. I see plenty of work needed for QA which can be done very well in R. In fact, creating QuickStatements in R also sounds perfectly viable.

To unsubscribe from this group and stop receiving emails from it, send an email to virtual-biohacka...@googlegroups.com.
To view this discussion on the web, visit https://groups.google.com/d/msgid/virtual-biohackathon/20200324201508.emcsjiwjex66mcez%40thebird.nl.

[Egon Willighagen]

Hi Sabah,

On Tue, Mar 24, 2020 at 6:40 PM Sabah Ul-Hasan <bysabah...@gmail.com> wrote:

I'm a postdoc in Andrew Su's group at The Scripps Research Institute who contributes to Wikidata (Github @sabahzero)

Keep me posted, I'm interested.

make sure to talk to Andra then :)

Egon

[Sabah Ul-Hasan]

Yes, Andra was looped in earlier in the thread :)

Cheers,

--

You received this message because you are subscribed to the Google Groups "virtual biohackathon COVID-19 2020" group.
To unsubscribe from this group and stop receiving emails from it, send an email to virtual-biohacka...@googlegroups.com.

To view this discussion on the web, visit https://groups.google.com/d/msgid/virtual-biohackathon/CAMPqvY87v71oE0jb3GceDdMmw9fW%2Bge-Lz4oRXXdCfRrg7H6XQ%40mail.gmail.com.

[Tiago Lubiana Alves]

Hello all,

Just arriving here. I have been working on https://www.wikidata.org/wiki/Wikidata:WikiProject_COVID-19 for the past weeks. I will be glad to help however I can! I have to admit that I am a bit lost with the whole bio hackathon planning. I hope I will be able to catch up. 
Best,
Tiago

[Tazro Ohta]

Hi Tiago,

Welcome! There's the slack for this vBH and the channel #wikidata is there. You are welcome to join the discussion. 

https://join.slack.com/t/virtualbiohac-xt62674/shared_invite/zt-cuur40oj-wdrVz50NocwVrH7vgKTdPg

Best,

Taz

Sent from my iPad

On Apr 5, 2020, at 11:33, Tiago Lubiana Alves <tiago.lub...@usp.br> wrote:



--

You received this message because you are subscribed to the Google Groups "virtual biohackathon COVID-19 2020" group.
To unsubscribe from this group and stop receiving emails from it, send an email to virtual-biohacka...@googlegroups.com.

To view this discussion on the web, visit https://groups.google.com/d/msgid/virtual-biohackathon/75d078b2-f078-4dbb-b86b-ab8761a18041%40googlegroups.com.

[Konrad Förstner]

Dear all,

I will also try work help here mainly in the Wikidata group. I have added myself to the list of participants.

See you soon.

Konrad

[Egon Willighagen]

Hi all #wikidata session participants,

I hope you all got in on the webinar that just started (the link you get allows you to register, after which you get the URL for Zoom). It's been recorded in case you missed.

Our #wikidata coordinator, Andra Waagmeester will later present the group.

Egon

--

You received this message because you are subscribed to the Google Groups "virtual biohackathon COVID-19 2020" group.
To unsubscribe from this group and stop receiving emails from it, send an email to virtual-biohacka...@googlegroups.com.

To view this discussion on the web, visit https://groups.google.com/d/msgid/virtual-biohackathon/1e633165-49eb-40b5-94a8-3f9026d8b9f2%40googlegroups.com.

[Andra Waagmeester]

We have also set up an etherpad: https://etherpad.wikimedia.org/p/covid-19-bh20.

To view this discussion on the web, visit https://groups.google.com/d/msgid/virtual-biohackathon/CAMPqvY-6pTdeE5bC_rTxVWu3bWfJeWdak5VLv%2Bnm4fekmEr7ZA%40mail.gmail.com.