W3C home > Mailing lists > Public > public-bioschemas@w3.org > July 2017

Re: Dissemination of Bioschemas specifications

From: Tony Burdett <tburdett@ebi.ac.uk>
Date: Wed, 26 Jul 2017 14:56:09 +0100
Message-Id: <8C17BD13-696E-4D04-A98A-B4280BE8903D@ebi.ac.uk>
Cc: Michel Dumontier <michel.dumontier@gmail.com>, "Gray, Alasdair J G" <A.J.G.Gray@hw.ac.uk>, Carole Goble <carole.goble@manchester.ac.uk>, "public-bioschemas@w3.org" <public-bioschemas@w3.org>
To: Leyla Garcia <ljgarcia@ebi.ac.uk>
Thanks Leyla,

I’d like to be involved in finalising the specification.  I have some comments from the samples side and some usecases that I don’t think the current specification fully supports.  If I have additions to make to the spec how would you like me to propose them, via comments in the specification document or with suggestions?

Thanks,

Tony

--
Tony Burdett
Technical Co-ordinator - Samples, Phenotypes and Ontologies Team,
European Bioinformatics Institute (EMBL-EBI)
European Molecular Biology Laboratory
Wellcome Trust Genome Campus
Hinxton
Cambridge CB10 1SD
United Kingdom
Tel: + 44 (0) 1223 49 4624

> On 26 Jul 2017, at 11:26, Leyla Garcia <ljgarcia@ebi.ac.uk> wrote:
> 
> Hi all,
> 
> We had some comments/discussion going on on the spredasheet that have now been moved to the specification document. If you want to participate, please use the specification document (https://docs.google.com/document/d/1XASuESIHU3bi1aXMxQS5-rCOQX0ugjMNkh68VF4co4Q <https://docs.google.com/document/d/1XASuESIHU3bi1aXMxQS5-rCOQX0ugjMNkh68VF4co4Q>)
> 
> I will meet with Michel during the second week of September to finalize the specification for the Biological Entity. If you want to participate in the discussion, please let us know so we can set up the right channel.
> 
> Regards,
> 
> On 26/07/2017 10:34, Michel Dumontier wrote:
>> great thanks 
>> i've added comments to the spec
>> https://docs.google.com/document/d/1XASuESIHU3bi1aXMxQS5-rCOQX0ugjMNkh68VF4co4Q/edit?ts=59785c55# <https://docs.google.com/document/d/1XASuESIHU3bi1aXMxQS5-rCOQX0ugjMNkh68VF4co4Q/edit?ts=59785c55#>
>> 
>> will discuss with Leyla and. I'll see Leyla at the biohackathon in Sept, and am planning to come to the october bioschemas meeting
>> 
>> m.
>> 
>> On Wed, Jul 26, 2017 at 9:21 AM, Gray, Alasdair J G <A.J.G.Gray@hw.ac.uk <mailto:A.J.G.Gray@hw.ac.uk>> wrote:
>> You can find links to the specs and also the github tracker for each group on the bioschemas website. 
>> http://bioschemas.org/groups/ <http://bioschemas.org/groups/> 
>> 
>> Alasdair J G Gray 
>> Fellow of the Higher Education Academy 
>> Assistant Professor in Computer Science 
>> Herriot-Watt University, Edinburgh 
>> 
>> www.macs.hw.ac.uk/~ajg33 <http://<br/%3Ewww.macs.hw.ac.uk/%7Eajg33> 
>> 
>> From: Carole Goble <carole.goble@manchester.ac.uk <mailto:carole.goble@manchester.ac.uk>>
>> Sent: Tuesday, July 25, 2017 9:09:15 PM
>> To: Michel Dumontier
>> Cc: Gray, Alasdair J G; public-bioschemas@w3.org <mailto:public-bioschemas@w3.org>
>> Subject: Re: Dissemination of Bioschemas specifications
>>  
>> 
>> 
>> 1. I stand corrected - Norman had some lovely slides on the marine use case 
>> 2. Michel - the specs are still in the googledocs so you can comment right there
>> 
>> Carole
>> 
>>> Hi all,
>>>   I had a chance to chat with Leyla at her poster today. I shared with her some feedback. Just wondering if there is a particular communications channel i should use for written feedback?
>>> 
>>> m.
>>> 
>>> On Tue, Jul 25, 2017 at 9:02 PM, Carole Goble <carole.goble@manchester.ac.uk <mailto:carole.goble@manchester.ac.uk>> wrote:
>>> They are my slides mainly - it was the spoken narrative
>>> Carole
>>> 
>>> Sent from my iPhone by
>>> Professor Carole Goble
>>> The University of Manchester
>>> UK
>>> 
>>> On 25 Jul 2017, at 15:32, "Gray, Alasdair J G" <A.J.G.Gray@hw.ac.uk <mailto:A.J.G.Gray@hw.ac.uk>> wrote:
>>> 
>>>> Are Norman’s slides available?
>>>> 
>>>> Alasdair
>>>> 
>>>>> On 25 Jul 2017, at 14:46, Carole Goble <carole.goble@manchester.ac.uk <mailto:carole.goble@manchester.ac.uk>> wrote:
>>>>> 
>>>>> The bioschemas talk and poster at BOSC also attracted a great deal of interest as did the bioschema part in elixir interoperability talk in the elixir session at ismb. Norman did a really great job of putting the reasons and benefits in terms that were immediately understandable and not about the technology but the benefit.
>>>>> 
>>>>> I'm giving a keynote at SWAT4LS - I'm going to be talking about elixir work - notably CWL, research objects and bioschemas. 
>>>>> 
>>>>> Carole 
>>>>> 
>>>>> Sent from my iPhone by
>>>>> Professor Carole Goble
>>>>> The University of Manchester
>>>>> UK
>>>>> 
>>>>> On 25 Jul 2017, at 15:31, "Gray, Alasdair J G" <A.J.G.Gray@hw.ac.uk <mailto:A.J.G.Gray@hw.ac.uk>> wrote:
>>>>> 
>>>>>> Hi Leyla,
>>>>>> 
>>>>>> Thanks for all your efforts in publicising the Bioschemas work. I hope that your poster presentation went well at ISMB.
>>>>>> 
>>>>>> I agree that we should consider putting something together for SWAT4LS. We also need to consider what other publications we are aiming to write about this work.
>>>>>> 
>>>>>> Best regards,
>>>>>> 
>>>>>> Alasdair
>>>>>> 
>>>>>>> On 27 Jun 2017, at 09:43, Leyla Garcia <ljgarcia@ebi.ac.uk <mailto:ljgarcia@ebi.ac.uk>> wrote:
>>>>>>> 
>>>>>>> Hi all,
>>>>>>> 
>>>>>>> We will have a poster at Bio-ontologies (ISMB) this year. It was meant to be about the protein case but now that we have BiologicalEntity as an umbrella it will probably cover much more than just proteins. ISMB is scheduled for the 4th weekend of July so I will share with you all the poster a couple of weeks before that. I hope we will gather some feedback about our proposal.
>>>>>>> 
>>>>>>> We will also participate in the Biohackathon this year, second week of September. As it happens right before our next meeting, I plan to go ahead with some of the implementation work. In particular, I will work on a javascript module to gather protein related information. I will do my best to make it as generic as possible so it can be modified in order to work for other entities. If by that time there is already a validation tool or any other supporting Bioschemas specifications, it would be wonderful to get some more information before hands.
>>>>>>> 
>>>>>>> And, SWAT4HCLS call for papers has been recently announced (http://swat4ls.blogspot.co.uk/2017/06/swat4ls-2017-cfp-is-out.html <http://swat4ls.blogspot.co.uk/2017/06/swat4ls-2017-cfp-is-out.html>). We should submit either a poster or a paper there as well. Deadline for paper abstract is 22.Sep with full submission on 06.Oct.
>>>>>>> 
>>>>>>> Regards,
>>>>>>> 
>>>>>> 
>>>>>> Alasdair J G Gray
>>>>>> Fellow of the Higher Education Academy
>>>>>> Assistant Professor in Computer Science, 
>>>>>> School of Mathematical and Computer Sciences 
>>>>>> (Athena SWAN Bronze Award)
>>>>>> Heriot-Watt University, Edinburgh UK.
>>>>>> 
>>>>>> Email: A.J.G.Gray@hw.ac.uk <mailto:A.J.G.Gray@hw.ac.uk>
>>>>>> Web: http://www.macs.hw.ac.uk/~ajg33 <http://www.macs.hw.ac.uk/%7Eajg33>
>>>>>> ORCID: http://orcid.org/0000-0002-5711-4872 <http://orcid.org/0000-0002-5711-4872>
>>>>>> Office: Earl Mountbatten Building 1.39
>>>>>> Twitter: @gray_alasdair
>>>>>> 
>>>> 
>>>> Alasdair J G Gray
>>>> Fellow of the Higher Education Academy
>>>> Assistant Professor in Computer Science, 
>>>> School of Mathematical and Computer Sciences 
>>>> (Athena SWAN Bronze Award)
>>>> Heriot-Watt University, Edinburgh UK.
>>>> 
>>>> Email: A.J.G.Gray@hw.ac.uk <mailto:A.J.G.Gray@hw.ac.uk>
>>>> Web: http://www.macs.hw.ac.uk/~ajg33 <http://www.macs.hw.ac.uk/%7Eajg33>
>>>> ORCID: http://orcid.org/0000-0002-5711-4872 <http://orcid.org/0000-0002-5711-4872>
>>>> Office: Earl Mountbatten Building 1.39
>>>> Twitter: @gray_alasdair
>>>> 
>>> 
>>> 
>>> 
>>> -- 
>>> Michel Dumontier
>>> Distinguished Professor of Data Science
>>> Maastricht University
>>> http://dumontierlab.com <http://dumontierlab.com/>
>> -- 
>> Professor Carole Goble CBE FREng FBCS CITP
>> School of Computer Science
>> University of Manchester
>> Manchester, UK
>> 
>> tel: +44 161 275 6195 <tel:+44%20161%20275%206195>
>> email: carole.goble@manchester.ac.uk <mailto:carole.goble@manchester.ac.uk>
>> twitter: @CaroleAnneGoble
>> 
>> email etiquette:
>> I get a lot of email and when I travel it gets even more backed up.
>> 
>> - Don't get too upset if my replies are short (see http://www.phdcomics.com/comics/archive.php?comicid=1047 <http://www.phdcomics.com/comics/archive.php?comicid=1047>)
>> - If you don't get a reply within 48 hours there is a good chance the email has scrolled into the distance. If its urgent try again or email melanie.price@manchester.ac.uk <mailto:melanie.price@manchester.ac.uk>. 
>> If you haven't heard within a week you really should try again. 
>> Founded in 1821, Heriot-Watt is a leader in ideas and solutions. With campuses and students across the entire globe we span the world, delivering innovation and educational excellence in business, engineering, design and the physical, social and life sciences. 
>> This email is generated from the Heriot-Watt University Group, which includes:
>> Heriot-Watt University, a Scottish charity registered under number SC000278
>> Edinburgh Business School a Charity Registered in Scotland, SC026900. Edinburgh Business School is a company limited by guarantee, registered in Scotland with registered number SC173556 and registered office at Heriot-Watt University Finance Office, Riccarton, Currie, Midlothian, EH14 4AS
>> Heriot- Watt Services Limited (Oriam), Scotland's national performance centre for sport. Heriot-Watt Services Limited is a private limited company registered is Scotland with registered number SC271030 and registered office at Research & Enterprise Services Heriot-Watt University, Riccarton, Edinburgh, EH14 4AS.
>> The contents (including any attachments) are confidential. If you are not the intended recipient of this e-mail, any disclosure, copying, distribution or use of its contents is strictly prohibited, and you should please notify the sender immediately and then delete it (including any attachments) from your system.
>> 
>> 
>> 
>> 
>> -- 
>> Michel Dumontier
>> Distinguished Professor of Data Science
>> Maastricht University
>> http://dumontierlab.com <http://dumontierlab.com/>


Received on Wednesday, 26 July 2017 13:56:37 UTC

This archive was generated by hypermail 2.4.0 : Friday, 17 January 2020 19:07:58 UTC