[Eosc-life-wp4] EOSC-Life WP4 workshop on pseudo/anonymisation

Helen Parkinson parkinso at ebi.ac.uk
Fri Nov 8 10:00:16 GMT 2019


Hi Callum, all,

thanks for the use cases here, these are very clear.

best

Helen

On 08/11/2019 09:53, Callum Smith wrote:
> Dear All,
>
> I know of a use case here in Oxford where de-identification of data 
> requires HPC resources, specifically de-identification of 4D fMRI 
> videos that is hugely compute intensive. If we mandate data has to be 
> de-identified _before_ it comes to the cloud, we force the creation of 
> more private clouds which I think is against the spirit of EOSC. In 
> such a scenario it’s very hard to identify who becomes the third party 
> holding the pseudonymisation as Petr has highlighted, as that party 
> also needs to have access to a fully configured HPC. By commoditising 
> the pseudonymisation layer into containers, at least some of the 
> headache goes away. It’s particularly hard (read: procedurally 
> impossible) to do this within a single organisation or university.
>
> Regards,
> Callum
>
> -- 
> Callum Smith
> Instruct-ERIC
> callum at instruct-eric.eu <mailto:callum at instruct-eric.eu>
>
>> On 8 Nov 2019, at 07:16, Petr Holub <petr.holub at bbmri-eric.eu 
>> <mailto:petr.holub at bbmri-eric.eu>> wrote:
>>
>> Dear Jan-Willem, Christian, all,
>>
>> it really depends on the setup of the whole environment - it could 
>> actually make sense in scenarios, where the cloud is not a generic 
>> public cloud, but it is a contracted cloud service that allows the 
>> data controller (or more generally data source) to virtually extend 
>> their capacities while keeping the cloud logically private. If some 
>> deidentification or anonymization service is provided as a part of 
>> such setup, it would work fine, because the provcedure would be 
>> implemented before the data is released by the controller for a 
>> particular purpose.
>>
>> Similarly, you have the concept of trusted third parties to do 
>> pseudonymization - in the context of rare diseases, the EUPID service 
>> is expected to be used for EJP RD for instance, in order to generate 
>> linkable pseudonyms. It is conceptually similar setup.
>>
>> Cheers,
>> Petr
>>
>>
>>
>> **Assoc. Prof.*RNDr. Petr Holub, Ph.D.
>> *Senior IT/Data Protection Manager*
>>
>> BBMRI-ERIC*  | Neue Stiftingtalstrasse 2/B/6 |  8010 Graz | AUSTRIA
>> Phone: +43 316 34 99 17-18  | Fax: +43 316 34 99 17-99 | Mobile: +43 
>> 664 88 72 18 77
>> Skype:holubp |petr.holub at bbmri-eric.eu 
>> <mailto:petr.holub at bbmri-eric.eu> | www.bbmri-eric.eu 
>> <http://www.bbmri-eric.eu/><https://mail.acpcloud.de/owa/redir.aspx?C=tQtD-G9C_kuPP8hViFQ4hgNjuhtf_dEI0JIE-vC5gXhf36JcThZMI5N8J9ocveR1mgFita1orqo.&URL=http%3a%2f%2fwww.bbmri-eric.eu%2f>
>>
>> ------------------------------------------------------------------------
>> *From:*Eosc-life-wp4 <eosc-life-wp4-bounces at elixir-europe.org 
>> <mailto:eosc-life-wp4-bounces at elixir-europe.org>> on behalf of 
>> Boiten, Jan-Willem (Lygature) <janwillem.boiten at lygature.org 
>> <mailto:janwillem.boiten at lygature.org>>
>> *Sent:*Thursday, November 7, 2019 19:11
>> *To:*Serena BATTAGLIA <Serena.BATTAGLIA at ecrin.org 
>> <mailto:Serena.BATTAGLIA at ecrin.org>>; 
>> Christian.Ohmann at med.uni-duesseldorf.de 
>> <mailto:Christian.Ohmann at med.uni-duesseldorf.de> 
>> <Christian.Ohmann at med.uni-duesseldorf.de 
>> <mailto:Christian.Ohmann at med.uni-duesseldorf.de>>; 
>> eosc-life-wp4 at elixir-europe.org 
>> <mailto:eosc-life-wp4 at elixir-europe.org> 
>> <eosc-life-wp4 at elixir-europe.org 
>> <mailto:eosc-life-wp4 at elixir-europe.org>>
>> *Cc:*rita.banzi at marionegri.it <mailto:rita.banzi at marionegri.it> 
>> <rita.banzi at marionegri.it <mailto:rita.banzi at marionegri.it>>
>> *Subject:*Re: [Eosc-life-wp4] EOSC-Life WP4 workshop on 
>> pseudo/anonymisation
>> Hi Serena/Christian,
>>
>> I would think that EOSC services for deidentification would not 
>> really make sense. The data needs to be deidentified before 
>> uploading. There might be some strategies around this, but I don’t 
>> see the use cases yet. And that’s where it should start in my view: 
>> why would you want to upload the data identifying and only deidentify 
>> in the cloud? I would be happy to discuss tomorrow, but I am only 
>> available for the first 30 minutes.
>>
>> Best regards,
>> Jan-Willem
>>
>> *From:*Eosc-life-wp4 <eosc-life-wp4-bounces at elixir-europe.org 
>> <mailto:eosc-life-wp4-bounces at elixir-europe.org>>*On Behalf Of*Serena 
>> BATTAGLIA
>> *Sent:*07 November 2019 15:48
>> *To:*Christian.Ohmann at med.uni-duesseldorf.de 
>> <mailto:Christian.Ohmann at med.uni-duesseldorf.de>; 
>> eosc-life-wp4 at elixir-europe.org <mailto:eosc-life-wp4 at elixir-europe.org>
>> *Cc:*rita.banzi at marionegri.it <mailto:rita.banzi at marionegri.it>
>> *Subject:*Re: [Eosc-life-wp4] EOSC-Life WP4 workshop on 
>> pseudo/anonymisation
>>
>> Dear Christian,
>>
>> I was also thinking about the specific question of small simple size 
>> in small populations/rare diseases. Any idea?
>>
>> Regarding your point b): I don’t know, but perhaps Jan-Willem could 
>> have some ideas; let’s discuss tomorrow.
>>
>> Best,
>> Serena
>>
>> *De :*Christian.Ohmann at med.uni-duesseldorf.de 
>> <mailto:Christian.Ohmann at med.uni-duesseldorf.de>[mailto:Christian.Ohmann at med.uni-duesseldorf.de]
>> *Envoyé :*jeudi 7 novembre 2019 15:42
>> *À :*Serena BATTAGLIA <Serena.BATTAGLIA at ecrin.org 
>> <mailto:Serena.BATTAGLIA at ecrin.org>>;eosc-life-wp4 at elixir-europe.org 
>> <mailto:eosc-life-wp4 at elixir-europe.org>
>> *Cc :*rita.banzi at marionegri.it <mailto:rita.banzi at marionegri.it>
>> *Objet :*RE: EOSC-Life WP4 workshop on pseudo/anonymisation
>>
>> Dear Serena,
>>
>> the workshop on pseudo/anonymisation may also cover the following topics:
>>
>> a) Different strategies for performing de-identification (e.g. stand 
>> alone tools applied by the researcher, de-identification tools 
>> integrated in repositories, consulting Services by experts)
>>
>> b) EOSC-Services for de-identification: Does it make sense? How could 
>> it be implemented?
>>
>> Kind regards
>>
>> Christian
>> ------------------------------------------------------------------------
>>
>> *From:*Eosc-life-wp4 [eosc-life-wp4-bounces at elixir-europe.org 
>> <mailto:eosc-life-wp4-bounces at elixir-europe.org>] on behalf of Serena 
>> BATTAGLIA [Serena.BATTAGLIA at ecrin.org 
>> <mailto:Serena.BATTAGLIA at ecrin.org>]
>> *Sent:*28 October 2019 13:57
>> *To:*eosc-life-wp4 at elixir-europe.org 
>> <mailto:eosc-life-wp4 at elixir-europe.org>
>> *Cc:*Rita Banzi
>> *Subject:*[Eosc-life-wp4] EOSC-Life WP4 workshop on pseudo/anonymisation
>>
>> Dear all,
>>
>> Just a kind reminder to populate the list of potential speakers and 
>> experts to be invited for the pseudo/anonymisation workshop in 
>> January; for reference, the draft agenda is available here:
>> https://docs.google.com/document/d/1K7eu2xVzcq8BENbX5CgBQSOUuQFt4D-HY3kGcJx1QKU/edit
>>
>> we will discuss the final list during the next telco, on 8 November 
>> 10 am CET
>>
>> Thank you all for your help
>>
>> Best,
>> Serena
>>
>> *De :*Eosc-life-wp4 
>> [mailto:eosc-life-wp4-bounces at elixir-europe.org]*De la part de*Serena 
>> BATTAGLIA
>> *Envoyé :*mercredi 9 octobre 2019 11:55
>> *À :*eosc-life-wp4 at elixir-europe.org 
>> <mailto:eosc-life-wp4 at elixir-europe.org>
>> *Objet :*Re: [Eosc-life-wp4] EOSC-Life WP4 Telco 04
>>
>> Dear all,
>>
>> The minutes of the last telco are available 
>> here:https://docs.google.com/document/d/1w4z3rzxxhiUGpq8lmaP7z8VK1yN5DSoF/edit#heading=h.9dkzmfg2vla7
>> Please don’t hesitate to amend or add comments if need be.
>>
>> At the end of the telco I forgot to mention that*the next one will be 
>> scheduled on 8 November*, as the 1^st will be a bank holiday in most 
>> of the participating countries; an updated calendar invite will 
>> follow shortly. Apologies for the inconvenience this could generate
>>
>> Best,
>> Serena
>>
>> *De :*Eosc-life-wp4 
>> [mailto:eosc-life-wp4-bounces at elixir-europe.org]*De la part de*Serena 
>> BATTAGLIA
>> *Envoyé :*vendredi 27 septembre 2019 12:19
>> *À :*eosc-life-wp4 at elixir-europe.org 
>> <mailto:eosc-life-wp4 at elixir-europe.org>
>> *Objet :*[Eosc-life-wp4] EOSC-Life WP4 Telco 04
>>
>> Dear all,
>>
>> The agenda of WP4 Telco 04 is available 
>> here:https://drive.google.com/drive/folders/1EayrSBT4w2NUOIUivvsrC8AOWMyyFPAw
>> In case you will not be able to attend, please add your names 
>> directly to the ‘apologies’ list
>>
>> I wish you all a nice week end,
>> Serena
>>
>> *Serena Battaglia, PhD *
>> Capacity Project Manager
>> *ECRIN*
>> 5-7 rue Watt | 75013 Paris, France
>> T: +33 1 80 05 86 38
>> serena.battaglia at ecrin.org <mailto:serena.battaglia at ecrin.org>
>> www.ecrin.org <http://www.ecrin.org/>|<image001.jpg> 
>> <https://twitter.com/ECRIN_ERIC>@ECRIN_ERIC 
>> <https://twitter.com/ECRIN_ERIC>__
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>>
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>
>
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-- 
Helen Parkinson, PhD
Team Leader - Samples, Phenotypes and Ontologies
Head of Molecular Archives
European Bioinformatics Institute (EMBL-EBI)
European Molecular Biology Laboratory
Wellcome Trust Genome Campus
Hinxton
Cambridge CB10 1SD
United Kingdom

EBI (0) +44 1223 494672
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Skype: helen.parkinson.ebi
http://www.ebi.ac.uk/about/people/helen-parkinson

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