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From: Reza S. <r7...@me...> - 2017-09-15 14:41:39
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Same here, my apologies, as I was traveling. I will follow up on notes. Best wishes, Reza > On 15 Sep 2017, at 10:53, Wout Bittremieux <wou...@ua...> wrote: > > Good luck! > >> On 15 Sep 2017, at 10:42, jinmeng <jia...@16...> wrote: >> >> Hi everyone, >> My apology for not being able to join today's TC. I have a qualify exam to take. >> >> >> Best, >> Jinmeng >> >> >> >> >> 发自我的 iPhone >>> 在 2017年9月12日，下午9:54，Wout Bittremieux <wou...@ua...> 写道： >>> >>> Dear colleagues, >>> >>> This is a reminder that our next teleconference is scheduled for Friday, September 15th, at 9:00 GMT (10:00 British Summer Time, 11:00 Western Europe & South Africa, 17:00 China). >>> >>> You can connect to our teleconference on Google Hangouts through the following link: https://hangouts.google.com/group/taNzRy6ELMDK9wbk2 >>> >>> Based on Mathias' notes from last month the agenda items are: >>> - Discussion of XML implementation issues and encoding. More information in last month's meeting notes and my previous list of remarks. >>> - Topic proposal for the EuBIC developer's meeting hackathon. >>> - Working group representation at the upcoming HUPO conference in Dublin. >>> - Any additional items that need to be discussed... >>> >>> I hope to talk to all of you on Friday. >>> >>> Best, >>> Wout >>> ------------------------------------------------------------------------------ >>> Check out the vibrant tech community on one of the world's most >>> engaging tech sites, Slashdot.org! http://sdm.link/slashdot >>> _______________________________________________ >>> Psidev-qc-dev mailing list >>> Psi...@li... >>> https://lists.sourceforge.net/lists/listinfo/psidev-qc-dev >>> > > > ------------------------------------------------------------------------------ > Check out the vibrant tech community on one of the world's most > engaging tech sites, Slashdot.org! http://sdm.link/slashdot > _______________________________________________ > Psidev-qc-dev mailing list > Psi...@li... > https://lists.sourceforge.net/lists/listinfo/psidev-qc-dev |
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From: Wout B. <wou...@ua...> - 2017-09-15 09:00:44
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Good luck! > On 15 Sep 2017, at 10:42, jinmeng <jia...@16...> wrote: > > Hi everyone, > My apology for not being able to join today's TC. I have a qualify exam to take. > > > Best, > Jinmeng > > > > > 发自我的 iPhone > 在 2017年9月12日，下午9:54，Wout Bittremieux <wou...@ua...> 写道： > >> Dear colleagues, >> >> This is a reminder that our next teleconference is scheduled for Friday, September 15th, at 9:00 GMT (10:00 British Summer Time, 11:00 Western Europe & South Africa, 17:00 China). >> >> You can connect to our teleconference on Google Hangouts through the following link: https://hangouts.google.com/group/taNzRy6ELMDK9wbk2 >> >> Based on Mathias' notes from last month the agenda items are: >> - Discussion of XML implementation issues and encoding. More information in last month's meeting notes and my previous list of remarks. >> - Topic proposal for the EuBIC developer's meeting hackathon. >> - Working group representation at the upcoming HUPO conference in Dublin. >> - Any additional items that need to be discussed... >> >> I hope to talk to all of you on Friday. >> >> Best, >> Wout >> ------------------------------------------------------------------------------ >> Check out the vibrant tech community on one of the world's most >> engaging tech sites, Slashdot.org! http://sdm.link/slashdot >> _______________________________________________ >> Psidev-qc-dev mailing list >> Psi...@li... >> https://lists.sourceforge.net/lists/listinfo/psidev-qc-dev >> |
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From: jinmeng <jia...@16...> - 2017-09-15 08:42:50
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Hi everyone, My apology for not being able to join today's TC. I have a qualify exam to take. Best, Jinmeng 发自我的 iPhone > 在 2017年9月12日，下午9:54，Wout Bittremieux <wou...@ua...> 写道： > > Dear colleagues, > > This is a reminder that our next teleconference is scheduled for Friday, September 15th, at 9:00 GMT (10:00 British Summer Time, 11:00 Western Europe & South Africa, 17:00 China). > > You can connect to our teleconference on Google Hangouts through the following link: https://hangouts.google.com/group/taNzRy6ELMDK9wbk2 > > Based on Mathias' notes from last month the agenda items are: > - Discussion of XML implementation issues and encoding. More information in last month's meeting notes and my previous list of remarks. > - Topic proposal for the EuBIC developer's meeting hackathon. > - Working group representation at the upcoming HUPO conference in Dublin. > - Any additional items that need to be discussed... > > I hope to talk to all of you on Friday. > > Best, > Wout > ------------------------------------------------------------------------------ > Check out the vibrant tech community on one of the world's most > engaging tech sites, Slashdot.org! http://sdm.link/slashdot > _______________________________________________ > Psidev-qc-dev mailing list > Psi...@li... > https://lists.sourceforge.net/lists/listinfo/psidev-qc-dev > |
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From: Wout B. <wou...@ua...> - 2017-09-12 14:00:22
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Dear colleagues, This is a reminder that our next teleconference is scheduled for Friday, September 15th, at 9:00 GMT (10:00 British Summer Time, 11:00 Western Europe & South Africa, 17:00 China). You can connect to our teleconference on Google Hangouts through the following link: https://hangouts.google.com/group/taNzRy6ELMDK9wbk2 Based on Mathias' notes from last month the agenda items are: - Discussion of XML implementation issues and encoding. More information in last month's meeting notes <https://github.com/HUPO-PSI/qcML-development/blob/master/meeting_notes/20170818_telco.md> and my previous list of remarks <https://gist.github.com/bittremieux/402c6ef08da1bba0a9495c2b0777eefc>. - Topic proposal for the EuBIC developer's meeting <http://uahost.uantwerpen.be/eubic18/> hackathon. - Working group representation at the upcoming HUPO conference in Dublin. - Any additional items that need to be discussed... I hope to talk to all of you on Friday. Best, Wout |
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From: Wout B. <wou...@ua...> - 2017-09-04 16:20:14
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Hi Mathias, Thank you for the meeting notes. Especially nice to see new people getting involved! Is Jinmeng's updated list of minimum metrics already available online? At first sight I couldn't find it in the qcML-development nor in Jinmeng's MIAPE-QC repository. Concerning the EuBIC meeting: this is explicitly geared towards mass spectrometry proteomics bioinformatics. So you can expect the attendants to be experts in our fields, and all of them will also engage in hands-on work during the hackathon sessions. I have already heard some people express their interest in a QC-related project, so I think there is definitely an opportunity to get some nice work done and introduce new people to our efforts. We will have to submit a nice topic proposal for the hackathon though. Someone should be prepared to function as lead for this project, and all project proposals will go through peer review to select the meeting program. Best, Wout > On 04 Sep 2017, at 14:40, Walzer <wa...@eb...> wrote: > > Dear colleagues, > > please find the minutes to last's conference call at https://github.com/HUPO-PSI/qcML-development/blob/master/meeting_notes/20170818_telco.md > > For next call's agenda, I'd like to suggest taking up the discussion of XML implementation issues and encoding. > > Regarding EuBIC meeting, if think it might be nice to use the opportunity for a QC project as an open beta of the format. Develop impromptu integrations/implementations, with sessions for cv updates and visualization. @Wout: what is the target 'audience'? Can we expect familiarity with MS-based proteomics? Will there be folks from other fields? > > cheers, > mths > > > On 14/08/17 14:58, Wout Bittremieux wrote: >> Dear colleagues, >> >> This is a reminder that our next teleconference is scheduled for Friday, August 18, at 9:00 GMT (10:00 British Summer Time, 11:00 Western Europe & South Africa, 17:00 China). >> >> You can connect to our teleconference on Google Hangouts through the following link: >> https://hangouts.google.com/group/taNzRy6ELMDK9wbk2 >> >> >> Agenda items are: >> >> Coordination between the CV and MIAPE-QC >> Pick up the conversation to coordinate the CV and MIAPE-QC as Jinmeng was unable to attend last month's teleconference. >> >> Discussion of the current XML schema >> Mathias has put the updated XML schema v0.0.10 and a handcrafted example qcML file on our Github repository. I'm still a bit uncertain about some things and have a few remarks which I have written down here >> <https://gist.github.com/bittremieux/402c6ef08da1bba0a9495c2b0777eefc> >> . >> >> EuBIC developer's meeting >> The EuBIC developer's meeting >> <http://uahost.uantwerpen.be/eubic18/> >> has recently been announced. This is a unique opportunity to meet proteomics bioinformaticians, and I think it would be very useful if some working group members would attend the meeting. Even more, as I'm aware that there definitely is interest in having a QC-related project included in the meeting, we should try to submit a project proposal. I won't be the lead in that myself as my main priority then will be the organization of the meeting itself. >> >> I will be on holiday the remainder of this week so I won't be able to attend the teleconference on Friday. Might I therefore ask someone else to take some notes so me and other people who might not be able to attend can still remain up to date with the things that have been discussed? Thanks. >> >> Best, >> Wout >> >> >> >> ------------------------------------------------------------------------------ >> Check out the vibrant tech community on one of the world's most >> engaging tech sites, Slashdot.org! >> http://sdm.link/slashdot >> >> >> _______________________________________________ >> Psidev-qc-dev mailing list >> >> Psi...@li... >> https://lists.sourceforge.net/lists/listinfo/psidev-qc-dev > > -- > Mathias Walzer > European Bioinformatics Institute (EMBL-EBI) > Wellcome Trust Genome Campus, Hinxton, Cambridge, UK > Office: +44 (0)1223 494 2610 > E-mail: > wa...@eb... > ------------------------------------------------------------------------------ > Check out the vibrant tech community on one of the world's most > engaging tech sites, Slashdot.org! http://sdm.link/slashdot_______________________________________________ > Psidev-qc-dev mailing list > Psi...@li... > https://lists.sourceforge.net/lists/listinfo/psidev-qc-dev |
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From: Walzer <wa...@eb...> - 2017-09-04 12:40:49
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Dear colleagues, please find the minutes to last's conference call at https://github.com/HUPO-PSI/qcML-development/blob/master/meeting_notes/20170818_telco.md For next call's agenda, I'd like to suggest taking up the discussion of XML implementation issues and encoding. Regarding EuBIC meeting, if think it might be nice to use the opportunity for a QC project as an open beta of the format. Develop impromptu integrations/implementations, with sessions for cv updates and visualization. @Wout: what is the target 'audience'? Can we expect familiarity with MS-based proteomics? Will there be folks from other fields? cheers, mths On 14/08/17 14:58, Wout Bittremieux wrote: > Dear colleagues, > > This is a reminder that our next teleconference is scheduled for Friday, August 18, at 9:00 GMT (10:00 British Summer Time, 11:00 Western Europe & South Africa, 17:00 China). > > You can connect to our teleconference on Google Hangouts through the following link: https://hangouts.google.com/group/taNzRy6ELMDK9wbk2 > > Agenda items are: > > Coordination between the CV and MIAPE-QC > Pick up the conversation to coordinate the CV and MIAPE-QC as Jinmeng was unable to attend last month's teleconference. > > Discussion of the current XML schema > Mathias has put the updated XML schema v0.0.10 and a handcrafted example qcML file on our Github repository. I'm still a bit uncertain about some things and have a few remarks which I have written down here <https://gist.github.com/bittremieux/402c6ef08da1bba0a9495c2b0777eefc>. > > EuBIC developer's meeting > The EuBIC developer's meeting <http://uahost.uantwerpen.be/eubic18/> has recently been announced. This is a unique opportunity to meet proteomics bioinformaticians, and I think it would be very useful if some working group members would attend the meeting. Even more, as I'm aware that there definitely is interest in having a QC-related project included in the meeting, we should try to submit a project proposal. I won't be the lead in that myself as my main priority then will be the organization of the meeting itself. > > I will be on holiday the remainder of this week so I won't be able to attend the teleconference on Friday. Might I therefore ask someone else to take some notes so me and other people who might not be able to attend can still remain up to date with the things that have been discussed? Thanks. > > Best, > Wout > > > ------------------------------------------------------------------------------ > Check out the vibrant tech community on one of the world's most > engaging tech sites, Slashdot.org! http://sdm.link/slashdot > > > _______________________________________________ > Psidev-qc-dev mailing list > Psi...@li... > https://lists.sourceforge.net/lists/listinfo/psidev-qc-dev -- Mathias Walzer European Bioinformatics Institute (EMBL-EBI) Wellcome Trust Genome Campus, Hinxton, Cambridge, UK Office: +44 (0)1223 494 2610 E-mail: wa...@eb... |
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From: David H. <hol...@gm...> - 2017-08-30 13:42:24
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Hi, I just had a look at the winterschool page on https://www.proteomics-academy.org/ws-2018 and I think it would be good to update the relevant links there to include this one http://uahost.uantwerpen.be/eubic18/ <http://www.google.com/url?q=http%3A%2F%2Fuahost.uantwerpen.be%2Feubic18%2F&sa=D&sntz=1&usg=AFQjCNG5OiG9mIsU0W4YUjVf08HIEvTU1w>. It might be a bit difficult to find the most up to date information from the current state of the website. Best, David Am Mittwoch, 2. August 2017 11:36:29 UTC+2 schrieb EuBIC developer's meeting: > > *— EuBIC 2018 developer’s meeting – Save the date & call for project > proposals —* > > > > We are pleased to announce that the upcoming EuBIC 2018 developer’s > meeting will be held in Ghent, Belgium, on January 9-12, 2018. > > > > The EuBIC 2018 developer's meeting will bring together scientists active > in the field of bioinformatics and computational proteomics. > > > > Date: January 9-12, 2018 > > Venue: Hotel Monasterium PoortAckere, Oude Houtlei 56, 9000 Gent, Belgium > > Website: http://uahost.uantwerpen.be/eubic18/ > <http://www.google.com/url?q=http%3A%2F%2Fuahost.uantwerpen.be%2Feubic18%2F&sa=D&sntz=1&usg=AFQjCNG5OiG9mIsU0W4YUjVf08HIEvTU1w> > > > > *Key dates* > > > > September 17, 2017: Project proposal submission deadline > > October 2, 2017: Announcement of selected projects > > October 2, 2017: Conference registration opens > > January 9-12, 2018: EuBIC 2018 developer's meeting in Ghent > > > > *Call for project proposals* > > > > The call for topics for the hackathon sessions during the EuBIC 2018 > developer's meeting is now open! > > > > During the EuBIC 2018 developer’s meeting the participants will engage in > a hackathon where they will develop bioinformatics tools and resources. The > participants will break up into small groups to work together on these > topics in an open, constructive, and productive atmosphere. > > > > You can now submit project proposals for inclusion into the EuBIC 2018 > developer’s meeting program. Submit your project proposal before 17 > September through the meeting website: > http://uahost.uantwerpen.be/eubic18/submission.html > > > > *Topics* > > > > Hackathon projects can cover all topics in proteomics bioinformatics, > including, but not limited to: > > - Tools > > - Extension of existing bioinformatics tools under the guidance of > their original authors > > - Development of novel bioinformatics tools to solve open problems > > - Benchmarking > > - Compilation of gold-truth datasets > > - Collection of reference algorithmic implementations > > - Specification of benchmarking criteria > > - Workflows > > - Definition of formal protocols > > - Development of tutorials for bioinformatics software usage > > - Data analysis > > - (Re)analysis of publicly available proteomics datasets > > > > *More information* > > > > - Website: http://uahost.uantwerpen.be/eubic18/ > > - Social media hashtag: #EuBIC18 > > - Conference email: *eub...@gmail.com <javascript:>* > > > > *Sponsorship* inquiries are welcome at *eub...@gmail.com <javascript:>* > > > > > > We look forward to welcoming you in Ghent! > > > > On behalf of the organizing committee, > > > > Wout Bittremieux > |
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From: 贾瑾萌 <jia...@16...> - 2017-08-18 08:51:11
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Hi everyone, New MIAPE-QC document attached. See you in a few minutes. Jinmeng > Begin forwarded message: > > From: Wout Bittremieux <wou...@ua...> > Subject: [Psidev-qc-dev] Upcoming teleconference Friday 18/08 > Date: 14 August 2017 at 9:58:53 PM GMT+8 > To: psi...@li... > > Dear colleagues, > > This is a reminder that our next teleconference is scheduled for Friday, August 18, at 9:00 GMT (10:00 British Summer Time, 11:00 Western Europe & South Africa, 17:00 China). > > You can connect to our teleconference on Google Hangouts through the following link: https://hangouts.google.com/group/taNzRy6ELMDK9wbk2 <https://hangouts.google.com/group/taNzRy6ELMDK9wbk2> > > Agenda items are: > > Coordination between the CV and MIAPE-QC > Pick up the conversation to coordinate the CV and MIAPE-QC as Jinmeng was unable to attend last month's teleconference. > > Discussion of the current XML schema > Mathias has put the updated XML schema v0.0.10 and a handcrafted example qcML file on our Github repository. I'm still a bit uncertain about some things and have a few remarks which I have written down here <https://gist.github.com/bittremieux/402c6ef08da1bba0a9495c2b0777eefc>. > > EuBIC developer's meeting > The EuBIC developer's meeting <http://uahost.uantwerpen.be/eubic18/> has recently been announced. This is a unique opportunity to meet proteomics bioinformaticians, and I think it would be very useful if some working group members would attend the meeting. Even more, as I'm aware that there definitely is interest in having a QC-related project included in the meeting, we should try to submit a project proposal. I won't be the lead in that myself as my main priority then will be the organization of the meeting itself. > > I will be on holiday the remainder of this week so I won't be able to attend the teleconference on Friday. Might I therefore ask someone else to take some notes so me and other people who might not be able to attend can still remain up to date with the things that have been discussed? Thanks. > > Best, > Wout > ------------------------------------------------------------------------------ > Check out the vibrant tech community on one of the world's most > engaging tech sites, Slashdot.org! http://sdm.link/slashdot > _______________________________________________ > Psidev-qc-dev mailing list > Psi...@li... > https://lists.sourceforge.net/lists/listinfo/psidev-qc-dev > |
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From: Wout B. <wou...@ua...> - 2017-08-14 14:00:08
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Dear colleagues, This is a reminder that our next teleconference is scheduled for Friday, August 18, at 9:00 GMT (10:00 British Summer Time, 11:00 Western Europe & South Africa, 17:00 China). You can connect to our teleconference on Google Hangouts through the following link: https://hangouts.google.com/group/taNzRy6ELMDK9wbk2 Agenda items are: Coordination between the CV and MIAPE-QC Pick up the conversation to coordinate the CV and MIAPE-QC as Jinmeng was unable to attend last month's teleconference. Discussion of the current XML schema Mathias has put the updated XML schema v0.0.10 and a handcrafted example qcML file on our Github repository. I'm still a bit uncertain about some things and have a few remarks which I have written down here <https://gist.github.com/bittremieux/402c6ef08da1bba0a9495c2b0777eefc>. EuBIC developer's meeting The EuBIC developer's meeting <http://uahost.uantwerpen.be/eubic18/> has recently been announced. This is a unique opportunity to meet proteomics bioinformaticians, and I think it would be very useful if some working group members would attend the meeting. Even more, as I'm aware that there definitely is interest in having a QC-related project included in the meeting, we should try to submit a project proposal. I won't be the lead in that myself as my main priority then will be the organization of the meeting itself. I will be on holiday the remainder of this week so I won't be able to attend the teleconference on Friday. Might I therefore ask someone else to take some notes so me and other people who might not be able to attend can still remain up to date with the things that have been discussed? Thanks. Best, Wout |
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From: EuBIC developer's m. <eu...@gm...> - 2017-08-02 09:36:36
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*— EuBIC 2018 developer’s meeting – Save the date & call for project proposals —* We are pleased to announce that the upcoming EuBIC 2018 developer’s meeting will be held in Ghent, Belgium, on January 9-12, 2018. The EuBIC 2018 developer's meeting will bring together scientists active in the field of bioinformatics and computational proteomics. Date: January 9-12, 2018 Venue: Hotel Monasterium PoortAckere, Oude Houtlei 56, 9000 Gent, Belgium Website: http://uahost.uantwerpen.be/eubic18/ *Key dates* September 17, 2017: Project proposal submission deadline October 2, 2017: Announcement of selected projects October 2, 2017: Conference registration opens January 9-12, 2018: EuBIC 2018 developer's meeting in Ghent *Call for project proposals* The call for topics for the hackathon sessions during the EuBIC 2018 developer's meeting is now open! During the EuBIC 2018 developer’s meeting the participants will engage in a hackathon where they will develop bioinformatics tools and resources. The participants will break up into small groups to work together on these topics in an open, constructive, and productive atmosphere. You can now submit project proposals for inclusion into the EuBIC 2018 developer’s meeting program. Submit your project proposal before 17 September through the meeting website: http://uahost.uantwerpen.be/eubic18/submission.html *Topics* Hackathon projects can cover all topics in proteomics bioinformatics, including, but not limited to: - Tools - Extension of existing bioinformatics tools under the guidance of their original authors - Development of novel bioinformatics tools to solve open problems - Benchmarking - Compilation of gold-truth datasets - Collection of reference algorithmic implementations - Specification of benchmarking criteria - Workflows - Definition of formal protocols - Development of tutorials for bioinformatics software usage - Data analysis - (Re)analysis of publicly available proteomics datasets *More information* - Website: http://uahost.uantwerpen.be/eubic18/ - Social media hashtag: #EuBIC18 - Conference email: *eu...@gm... <eu...@gm...>* *Sponsorship* inquiries are welcome at *eu...@gm... <eu...@gm...>* We look forward to welcoming you in Ghent! On behalf of the organizing committee, Wout Bittremieux |
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From: Martin E. <mar...@ru...> - 2017-07-28 15:09:58
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Dear colleague, dear member of the Proteomics community, please forward this message to potentially interested colleagues! The HUPO Proteomics Standards Initiative (PSI) develops standards for documentation and storage of Proteomics data (see http://www.psidev.info for an overview of activities). There has been a submission to the PSI Document Process by the Molecular Interactions workgroup updating the PSI-MI format to version 3.0.0 (from long-time stable XML 2.5, released 2005). The submission (incl. current version of the specification document) can be found here: http://www.psidev.info/PSI-MI-in-docproc After having passed a review of the PSI steering group with minor changes, the proposed document version 3.0.0 DRAFT now goes through 60-days public comments and external review phase (end: 29th September 2017). Purpose of the format (excerpt from the spec. doc.): The existing XML standard (PSI-MI XML2.5) has proven to be, and will continue to be, capable of capturing the vast majority of molecular interaction data, which are generated by techniques such as protein complementation assays, affinity capture, biophysical measurements and enzyme assays. However, use cases have arisen which cannot be adequately described within this XML schema, for example allosteric interactions, abstracted interactions and dynamic interactions. In order to meet these specialist use cases, a new version of the XML format has been developed, PSI-MI XML3.0. Specification document: attached and at http://www.psidev.info/PSI-MI-in-docproc Schema MIF300.xsd: https://github.com/HUPO-PSI/miXML/blob/master/3.0/src/MIF300.xsd Schema documentation (Schema browser): <https://rawgit.com/HUPO-PSI/miXML/master/3.0/doc/MIF300.html> https://rawgit.com/HUPO-PSI/miXML/master/3.0/doc/MIF300.html Schema documentation and use case examples (as Word docs.): See appendix documents at https://github.com/HUPO-PSI/miXML/tree/master/3.0/pub or <https://www.dropbox.com/sh/0oclv5c3xxluc1z/AACorWMii2v_MpwukezXi34Ca?dl=0> https://www.dropbox.com/sh/0oclv5c3xxluc1z/AACorWMii2v_MpwukezXi34Ca?dl=0 (details of appendices in the spec. doc. and below). PLEASE ADD COMMENTS to the submission page (http://www.psidev.info/PSI-MI-in-docproc) or send them directly to martin.eisenacher: at : rub.de for example regarding the following criteria: - That it is well formed that is, it is presented in accordance with the templates and is clearly written. - That it is sufficiently detailed and clearly contains and comprehensively describes the necessary and sufficient explanation of the format. - That the examples are in accordance with the specification.> > This message is to encourage you to contribute to the standards development activity by commenting on the material that is available online. We invite both positive and negative comments. If negative comments are being made, these could be on the relevance, clarity, correctness, appropriateness, etc, of the proposal as a whole or of specific parts of the proposal. If you do not feel well placed to comment on this document, but know someone who may be, please consider forwarding this request. There is no requirement that people commenting should have had any prior contact with the PSI. Many thanks for your valuable time and participation Martin Eisenacher (PSI Editor) 1. Appendices Example files showing how the schema meets each of the use cases listed in section 1.3. Note, all examples available in the IntAct database ( <http://www.ebi.ac.uk/intact> www.ebi.ac.uk/intact) unless otherwise stated 1.1 Appendix 1 Schema documentation for MIF300.xsd 1.2 Appendix 2 Example file showing the representation of all molecular interaction data from a single publication (PMID: 26919541) in PSI-MI XML3.0 note, includes use case 1.3k, rewrite of bibliography section 1.3 Appendix 3 Representation of a negative feature range (use case 1.3a) 1.4 Appendix 4 Representation of the sequence change caused by introduction of a mutation (use case 1.3b) 1.5 Appendix 5 Representation of multiple feature detection methods and feature roles (use cases 1.3c, 1.3d) 1.6 Appendix 6 Representation of kinetic parameters added at feature level (use case 1.3e) 1.7 Appendix 7 Representation of variable conditions (dynamic interactions) in an experiment (use case 1.3f) 1.8 Appendix 8 Representation of an abstracted interaction, a manually curated protein complex, in PSI-MI XML3.0 (use case 1.3g) 1.9 Appendix 9 Representation of a cooperative interaction in PSI-MI XML3.0 (Use case 1.3h) 1.10 Appendix 10 Representation of molecule sets i.e. cases where a participant may be one of a list of molecules (use case 1.3i) 1.11 Appendix 11 Representation of the systematic capture of the stoichiometry of molecules within an interaction (use case 1.3j) -- PD DR. MARTIN EISENACHER Department Leader DEPARTMENT Medical Bioinformatics Medizinisches Proteom-Center Ruhr-University Bochum Building ZKF E.141 | Universitätsstraße 150 | D-44801 Bochum Fon +49 (0)234 32-29288 | Fax +49 (0)234 32-14554 E-mail <mailto:mar...@ru...> mar...@ru... <http://www.medizinisches-proteom-center.de/> www.medizinisches-proteom-center.de |
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From: Wout B. <wou...@ua...> - 2017-07-21 14:19:52
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Dear colleagues, Please find the meeting notes of this morning's teleconference here: https://github.com/HUPO-PSI/qcML-development/blob/master/meeting_notes/20170721_telco.md Best, Wout > On 17 Jul 2017, at 17:30, Wout Bittremieux <wou...@ua...> wrote: > > Dear colleagues, > > This is a reminder that our next teleconference is scheduled for Friday, July 21st, at 9:00 GMT (10:00 British Summer Time, 11:00 Western Europe & South Africa, 17:00 China). > > You can connect to our teleconference on Google Hangouts through the following link: https://hangouts.google.com/group/taNzRy6ELMDK9wbk2 > > Provisional agenda items are: > - continued coordination between the CV and MIAPE-QC > - evaluate the CV in terms of OpenMS & iMonDB examples by Mathias & Wout > - report on new developments at Metabolomics Brisbane > - any additional items that need to be discussed... > > I hope to talk to all of you on Friday. > > Best, > Wout > ------------------------------------------------------------------------------ > Check out the vibrant tech community on one of the world's most > engaging tech sites, Slashdot.org! http://sdm.link/slashdot_______________________________________________ > Psidev-qc-dev mailing list > Psi...@li... > https://lists.sourceforge.net/lists/listinfo/psidev-qc-dev |
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From: David T. <dt...@su...> - 2017-07-21 11:19:06
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Hi, Jinmeng. Enjoy the award ceremony! Congratulations! I look forward to talking to the folks who can make it to this call in a couple of hours! Thanks, Dave On 7/21/2017 6:29 AM, Jinmeng Jia wrote: Hi everyone, Unfortunately I will not be able to attend today's TC. I have just been informed that I have to attend an award ceremony this afternoon, as I need to receive the award in person. My apologies! Best, Jinmeng At 2017-07-17 23:30:19, "Wout Bittremieux" <wou...@ua...><mailto:wou...@ua...> wrote: Dear colleagues, This is a reminder that our next teleconference is scheduled for Friday, July 21st, at 9:00 GMT (10:00 British Summer Time, 11:00 Western Europe & South Africa, 17:00 China). You can connect to our teleconference on Google Hangouts through the following link: https://hangouts.google.com/group/taNzRy6ELMDK9wbk2 Provisional agenda items are: - continued coordination between the CV and MIAPE-QC - evaluate the CV in terms of OpenMS & iMonDB examples by Mathias & Wout - report on new developments at Metabolomics Brisbane - any additional items that need to be discussed... I hope to talk to all of you on Friday. Best, Wout -- Jinmeng, Jia Ph.D. candidate,Tieliu Shi's Lab Center for Bioinformatics and Computational Biology Shanghai Key Laboratory of Regulatory Biology Institute of Biomedical Sciences and School of Life Sciences East China Normal University Minhang Campus: 500 Dongchuan RD., Shanghai 200241 ------------------------------------------------------------------------------ Check out the vibrant tech community on one of the world's most engaging tech sites, Slashdot.org! http://sdm.link/slashdot _______________________________________________ Psidev-qc-dev mailing list Psi...@li...<mailto:Psi...@li...> https://lists.sourceforge.net/lists/listinfo/psidev-qc-dev The integrity and confidentiality of this email is governed by these terms / Hierdie terme bepaal die integriteit en vertroulikheid van hierdie epos. http://www.sun.ac.za/emaildisclaimer |
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From: Wout B. <wou...@ua...> - 2017-07-21 08:09:51
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Hi Reza, I haven't heard anything from him anymore after the original Twitter conversation. I'll try to quickly contact him to see whether he has recovered from his travels. Best, Wout > On 21 Jul 2017, at 10:05, Reza Salek <re...@eb...> wrote: > > Dear all, > > I will join a bit late today, Wout do you know if Jan is joining as well? > > Best Wishes, > Reza > >> On 21 Jul 2017, at 08:55, Wout Bittremieux <wou...@ua...> wrote: >> >> Dear colleagues, >> >> Please find attached a (very limited) example qcML file for the iMonDB. There is still a lot of important information missing, but the most important discussion point is how to represent these instrument parameters and statistical summary values. >> >> According to last month's discussion I've represented the summary statistics as a single quality parameter containing multiple values. >> >> Currently there are no CV terms yet to represent instrument parameters. As there are 100s of different instrument parameters for each different instrument model I typically don't try to interpret these metrics. Therefore I think a general CV term denoting an "instrument parameter" could suffice in this case. And I've specified which parameter we're dealing with as the value of the XML element. >> I'm not sure whether or not this would be the best strategy, so this is open for consideration. >> >> I have also some remarks and uncertainties related to Mathias' example file (available on GitHub) to be discussed. >> >> Thanks, >> Wout >> <imondb.qcml> >> >> >>> On 21 Jul 2017, at 09:36, Martin Eisenacher via Psidev-qc-dev <psi...@li...> wrote: >>> >>> Dear all, >>> >>> as discussed, I changed the ‚quartile‘ and ‚percentile’ CV terms to general ‘n-tuple’ terms, >>> for the attached obo file there is also a pull request in the github. >>> >>> Best regards >>> Martin >>> >>> Von: Jinmeng Jia [mailto:jia...@16...] >>> Gesendet: Freitag, 21. Juli 2017 06:29 >>> An: psi...@li... >>> Betreff: Re: [Psidev-qc-dev] Upcoming teleconference Friday 21/06 >>> >>> >>> Hi everyone, >>> >>> Unfortunately I will not be able to attend today's TC. I have just been informed that I have to attend an award ceremony this afternoon, as I need to receive the award in person. My apologies! >>> >>> Best, >>> >>> Jinmeng >>> >>> >>> >>> >>> At 2017-07-17 23:30:19, "Wout Bittremieux" <wou...@ua...> wrote: >>> >>>> Dear colleagues, >>>> >>>> This is a reminder that our next teleconference is scheduled for Friday, July 21st, at 9:00 GMT (10:00 British Summer Time, 11:00 Western Europe & South Africa, 17:00 China). >>>> >>>> You can connect to our teleconference on Google Hangouts through the following link: https://hangouts.google.com/group/taNzRy6ELMDK9wbk2 >>>> >>>> Provisional agenda items are: >>>> - continued coordination between the CV and MIAPE-QC >>>> - evaluate the CV in terms of OpenMS & iMonDB examples by Mathias & Wout >>>> - report on new developments at Metabolomics Brisbane >>>> - any additional items that need to be discussed... >>>> >>>> I hope to talk to all of you on Friday. >>>> >>>> Best, >>>> Wout >>> >>> >>> >>> >>> >>> -- >>> Jinmeng, Jia >>> Ph.D. candidate,Tieliu Shi's Lab >>> Center for Bioinformatics and Computational Biology >>> Shanghai Key Laboratory of Regulatory Biology >>> Institute of Biomedical Sciences and School of Life Sciences >>> East China Normal University >>> Minhang Campus: 500 Dongchuan RD., Shanghai 200241 >>> >>> >>> >>> >>> <20170720_psi-qc-cv_0_0_11.obo><20170720_qc-metric-collection_with_NIST.XLSX>------------------------------------------------------------------------------ >>> Check out the vibrant tech community on one of the world's most >>> engaging tech sites, Slashdot.org! http://sdm.link/slashdot >>> _______________________________________________ >>> Psidev-qc-dev mailing list >>> Psi...@li... >>> https://lists.sourceforge.net/lists/listinfo/psidev-qc-dev >> >> ------------------------------------------------------------------------------ >> Check out the vibrant tech community on one of the world's most >> engaging tech sites, Slashdot.org! http://sdm.link/slashdot >> _______________________________________________ >> Psidev-qc-dev mailing list >> Psi...@li... >> https://lists.sourceforge.net/lists/listinfo/psidev-qc-dev > |
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From: Reza S. <re...@eb...> - 2017-07-21 08:05:23
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Dear all, I will join a bit late today, Wout do you know if Jan is joining as well? Best Wishes, Reza > On 21 Jul 2017, at 08:55, Wout Bittremieux <wou...@ua...> wrote: > > Dear colleagues, > > Please find attached a (very limited) example qcML file for the iMonDB. There is still a lot of important information missing, but the most important discussion point is how to represent these instrument parameters and statistical summary values. > > According to last month's discussion I've represented the summary statistics as a single quality parameter containing multiple values. > > Currently there are no CV terms yet to represent instrument parameters. As there are 100s of different instrument parameters for each different instrument model I typically don't try to interpret these metrics. Therefore I think a general CV term denoting an "instrument parameter" could suffice in this case. And I've specified which parameter we're dealing with as the value of the XML element. > I'm not sure whether or not this would be the best strategy, so this is open for consideration. > > I have also some remarks and uncertainties related to Mathias' example file (available on GitHub) to be discussed. > > Thanks, > Wout > <imondb.qcml> > > >> On 21 Jul 2017, at 09:36, Martin Eisenacher via Psidev-qc-dev <psi...@li...> wrote: >> >> Dear all, >> >> as discussed, I changed the ‚quartile‘ and ‚percentile’ CV terms to general ‘n-tuple’ terms, >> for the attached obo file there is also a pull request in the github. >> >> Best regards >> Martin >> >> Von: Jinmeng Jia [mailto:jia...@16...] >> Gesendet: Freitag, 21. Juli 2017 06:29 >> An: psi...@li... >> Betreff: Re: [Psidev-qc-dev] Upcoming teleconference Friday 21/06 >> >> >> Hi everyone, >> >> Unfortunately I will not be able to attend today's TC. I have just been informed that I have to attend an award ceremony this afternoon, as I need to receive the award in person. My apologies! >> >> Best, >> >> Jinmeng >> >> >> >> >> At 2017-07-17 23:30:19, "Wout Bittremieux" <wou...@ua...> wrote: >> >>> Dear colleagues, >>> >>> This is a reminder that our next teleconference is scheduled for Friday, July 21st, at 9:00 GMT (10:00 British Summer Time, 11:00 Western Europe & South Africa, 17:00 China). >>> >>> You can connect to our teleconference on Google Hangouts through the following link: https://hangouts.google.com/group/taNzRy6ELMDK9wbk2 >>> >>> Provisional agenda items are: >>> - continued coordination between the CV and MIAPE-QC >>> - evaluate the CV in terms of OpenMS & iMonDB examples by Mathias & Wout >>> - report on new developments at Metabolomics Brisbane >>> - any additional items that need to be discussed... >>> >>> I hope to talk to all of you on Friday. >>> >>> Best, >>> Wout >> >> >> >> >> >> -- >> Jinmeng, Jia >> Ph.D. candidate,Tieliu Shi's Lab >> Center for Bioinformatics and Computational Biology >> Shanghai Key Laboratory of Regulatory Biology >> Institute of Biomedical Sciences and School of Life Sciences >> East China Normal University >> Minhang Campus: 500 Dongchuan RD., Shanghai 200241 >> >> >> >> >> <20170720_psi-qc-cv_0_0_11.obo><20170720_qc-metric-collection_with_NIST.XLSX>------------------------------------------------------------------------------ >> Check out the vibrant tech community on one of the world's most >> engaging tech sites, Slashdot.org! http://sdm.link/slashdot >> _______________________________________________ >> Psidev-qc-dev mailing list >> Psi...@li... >> https://lists.sourceforge.net/lists/listinfo/psidev-qc-dev > > ------------------------------------------------------------------------------ > Check out the vibrant tech community on one of the world's most > engaging tech sites, Slashdot.org! http://sdm.link/slashdot > _______________________________________________ > Psidev-qc-dev mailing list > Psi...@li... > https://lists.sourceforge.net/lists/listinfo/psidev-qc-dev |
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From: Wout B. <wou...@ua...> - 2017-07-21 07:59:53
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Dear colleagues, Please find attached a (very limited) example qcML file for the iMonDB. There is still a lot of important information missing, but the most important discussion point is how to represent these instrument parameters and statistical summary values. According to last month's discussion I've represented the summary statistics as a single quality parameter containing multiple values. Currently there are no CV terms yet to represent instrument parameters. As there are 100s of different instrument parameters for each different instrument model I typically don't try to interpret these metrics. Therefore I think a general CV term denoting an "instrument parameter" could suffice in this case. And I've specified which parameter we're dealing with as the value of the XML element. I'm not sure whether or not this would be the best strategy, so this is open for consideration. I have also some remarks and uncertainties related to Mathias' example file (available on GitHub) to be discussed. Thanks, Wout |
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From: Martin E. <mar...@ru...> - 2017-07-21 07:37:00
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Dear all,
as discussed, I changed the ,quartile' and ,percentile' CV terms to general
'n-tuple' terms,
for the attached obo file there is also a pull request in the github.
Best regards
Martin
Von: Jinmeng Jia [mailto:jia...@16...]
Gesendet: Freitag, 21. Juli 2017 06:29
An: psi...@li...
Betreff: Re: [Psidev-qc-dev] Upcoming teleconference Friday 21/06
Hi everyone,
Unfortunately I will not be able to attend today's TC. I have just been
informed that I have to attend an award ceremony this afternoon, as I need
to receive the award in person. My apologies!
Best,
Jinmeng
At 2017-07-17 23:30:19, "Wout Bittremieux" <wou...@ua...
<mailto:wou...@ua...> > wrote:
Dear colleagues,
This is a reminder that our next teleconference is scheduled for Friday,
July 21st, at 9:00 GMT (10:00 British Summer Time, 11:00 Western Europe &
South Africa, 17:00 China).
You can connect to our teleconference on Google Hangouts through the
following link: https://hangouts.google.com/group/taNzRy6ELMDK9wbk2
Provisional agenda items are:
- continued coordination between the CV and MIAPE-QC
- evaluate the CV in terms of OpenMS & iMonDB examples by Mathias & Wout
- report on new developments at Metabolomics Brisbane
- any additional items that need to be discussed...
I hope to talk to all of you on Friday.
Best,
Wout
--
Jinmeng, Jia
Ph.D. candidate,Tieliu Shi's Lab
Center for Bioinformatics and Computational Biology
Shanghai Key Laboratory of Regulatory Biology
Institute of Biomedical Sciences and School of Life Sciences
East China Normal University
Minhang Campus: 500 Dongchuan RD., Shanghai 200241
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From: Jinmeng J. <jia...@16...> - 2017-07-21 04:29:26
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Hi everyone, Unfortunately I will not be able to attend today's TC. I have just been informed that I have to attend an award ceremony this afternoon, as I need to receive the award in person. My apologies! Best, Jinmeng At 2017-07-17 23:30:19, "Wout Bittremieux" <wou...@ua...> wrote: Dear colleagues, This is a reminder that our next teleconference is scheduled for Friday, July 21st, at 9:00 GMT (10:00 British Summer Time, 11:00 Western Europe & South Africa, 17:00 China). You can connect to our teleconference on Google Hangouts through the following link: https://hangouts.google.com/group/taNzRy6ELMDK9wbk2 Provisional agenda items are: - continued coordination between the CV and MIAPE-QC - evaluate the CV in terms of OpenMS & iMonDB examples by Mathias & Wout - report on new developments at Metabolomics Brisbane - any additional items that need to be discussed... I hope to talk to all of you on Friday. Best, Wout -- Jinmeng, Jia Ph.D. candidate,Tieliu Shi's Lab Center for Bioinformatics and Computational Biology Shanghai Key Laboratory of Regulatory Biology Institute of Biomedical Sciences and School of Life Sciences East China Normal University Minhang Campus: 500 Dongchuan RD., Shanghai 200241 |
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From: Walzer <wa...@eb...> - 2017-07-17 15:49:00
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Hi! unfortunately, I will be traveling all Friday - please excuse me. best, On 17/07/17 16:30, Wout Bittremieux wrote: > Dear colleagues, > > This is a reminder that our next teleconference is scheduled for Friday, July 21st, at 9:00 GMT (10:00 British Summer Time, 11:00 Western Europe & South Africa, 17:00 China). > > You can connect to our teleconference on Google Hangouts through the following link: https://hangouts.google.com/group/taNzRy6ELMDK9wbk2 > > Provisional agenda items are: > - continued coordination between the CV and MIAPE-QC > - evaluate the CV in terms of OpenMS & iMonDB examples by Mathias & Wout > - report on new developments at Metabolomics Brisbane > - any additional items that need to be discussed... > > I hope to talk to all of you on Friday. > > Best, > Wout > > > > ------------------------------------------------------------------------------ > Check out the vibrant tech community on one of the world's most > engaging tech sites, Slashdot.org! http://sdm.link/slashdot > > > _______________________________________________ > Psidev-qc-dev mailing list > Psi...@li... > https://lists.sourceforge.net/lists/listinfo/psidev-qc-dev -- Mathias Walzer European Bioinformatics Institute (EMBL-EBI) Wellcome Trust Genome Campus, Hinxton, Cambridge, UK Office: +44 (0)1223 494 2610 E-mail: wa...@eb... |
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From: Wout B. <wou...@ua...> - 2017-07-17 15:39:53
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Dear colleagues, This is a reminder that our next teleconference is scheduled for Friday, July 21st, at 9:00 GMT (10:00 British Summer Time, 11:00 Western Europe & South Africa, 17:00 China). You can connect to our teleconference on Google Hangouts through the following link: https://hangouts.google.com/group/taNzRy6ELMDK9wbk2 Provisional agenda items are: - continued coordination between the CV and MIAPE-QC - evaluate the CV in terms of OpenMS & iMonDB examples by Mathias & Wout - report on new developments at Metabolomics Brisbane - any additional items that need to be discussed... I hope to talk to all of you on Friday. Best, Wout |
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From: weimin z. <wmz...@gm...> - 2017-06-19 08:21:26
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thank you, Wout. - weimin On Mon, Jun 19, 2017 at 4:11 PM, Wout Bittremieux < wou...@ua...> wrote: > Dear colleagues, > > Please find the meeting notes of last week's teleconference here: > https://github.com/HUPO-PSI/qcML-development/blob/master/ > meeting_notes/20170616_telco.md > > Best, > Wout > > > On 13 Jun 2017, at 15:47, Wout Bittremieux <wout.bittremieux@uantwerpen. > be> wrote: > > > > Dear colleagues, > > > > This is a reminder that our next teleconference is scheduled for Friday, > June 16th, at 9:00 GMT (10:00 British Summer Time, 11:00 Western Europe & > South Africa, 17:00 China). > > > > You can connect to our teleconference on Google Hangouts through the > following link: https://hangouts.google.com/group/taNzRy6ELMDK9wbk2 > > > > Provisional agenda items are: > > - follow-up on the CV and MIAPE-QC work by Martin & Jinmeng (cfr. > Martin's mail from last month and Jinmeng's update here) > > - evaluate the CV in terms of OpenMS & iMonDB use cases and requirements > > - report on new developments at ASMS > > - any additional items that need to be discussed... > > > > I hope to talk to all of you on Friday. > > > > Best, > > Wout > > ------------------------------------------------------------ > ------------------ > > Check out the vibrant tech community on one of the world's most > > engaging tech sites, Slashdot.org! http://sdm.link/slashdot______ > _________________________________________ > > Psidev-qc-dev mailing list > > Psi...@li... > > https://lists.sourceforge.net/lists/listinfo/psidev-qc-dev > > > ------------------------------------------------------------ > ------------------ > Check out the vibrant tech community on one of the world's most > engaging tech sites, Slashdot.org! http://sdm.link/slashdot > _______________________________________________ > Psidev-qc-dev mailing list > Psi...@li... > https://lists.sourceforge.net/lists/listinfo/psidev-qc-dev > > |
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From: Wout B. <wou...@ua...> - 2017-06-19 08:19:39
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Dear colleagues, Please find the meeting notes of last week's teleconference here: https://github.com/HUPO-PSI/qcML-development/blob/master/meeting_notes/20170616_telco.md Best, Wout > On 13 Jun 2017, at 15:47, Wout Bittremieux <wou...@ua...> wrote: > > Dear colleagues, > > This is a reminder that our next teleconference is scheduled for Friday, June 16th, at 9:00 GMT (10:00 British Summer Time, 11:00 Western Europe & South Africa, 17:00 China). > > You can connect to our teleconference on Google Hangouts through the following link: https://hangouts.google.com/group/taNzRy6ELMDK9wbk2 > > Provisional agenda items are: > - follow-up on the CV and MIAPE-QC work by Martin & Jinmeng (cfr. Martin's mail from last month and Jinmeng's update here) > - evaluate the CV in terms of OpenMS & iMonDB use cases and requirements > - report on new developments at ASMS > - any additional items that need to be discussed... > > I hope to talk to all of you on Friday. > > Best, > Wout > ------------------------------------------------------------------------------ > Check out the vibrant tech community on one of the world's most > engaging tech sites, Slashdot.org! http://sdm.link/slashdot_______________________________________________ > Psidev-qc-dev mailing list > Psi...@li... > https://lists.sourceforge.net/lists/listinfo/psidev-qc-dev |
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From: weimin z. <wmz...@gm...> - 2017-06-16 03:39:41
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Hi guys, on the road, sorry for not being able to attend. will follow up with meeting minutes. cheers, weimin On Fri, Jun 16, 2017 at 12:23 AM, Martin Eisenacher via Psidev-qc-dev < psi...@li...> wrote: > Dear QC colleagues, > > > > 1) I added more terms to the psi-qc-cv.obo (attached, now all metrics from > Davids > > and my article are integrated, further NIST and MIAPE-QC terms will > follow). > > 2) I updated the Mathias Excel defining the metrics for the obo with > corrections > > (yellow fields may be discussed tomorrow). > > > > Sorry for haven’t uploaded them to GitHub, I’m not sure whether that > > would overwrite progress made meanwhile… > > > > Bye from Bochum > > Martin > > > > *--* > > *PD DR. MARTIN EISENACHER* > > *Department Leader* > > *DEPARTMENT Medical Bioinformatics* > > *Medizinisches Proteom-Center* > > *Ruhr-University Bochum* > > *Building *ZKF E.141 | Universitätsstraße 150 | D-44801 Bochum > > *Fon *+49 (0)234 32-29288 | *Fax *+49 (0)234 32-14554 > > *E-mail *mar...@ru... > > www.medizinisches-proteom-center.de > > > > [image: > http://www.ruhr-uni-bochum.de/cd/extern/logo/Logo_RUB_BLAU_srgb.jpg] > > > > > > > > > > *Von:* Martin Eisenacher [mailto:mar...@ru...] > *Gesendet:* Freitag, 19. Mai 2017 09:58 > *An:* 'psi...@li...' <psidev-qc-dev@lists. > sourceforge.net> > *Betreff:* AW: [Psidev-qc-dev] Upcoming teleconference on Friday > > > > Dear QC colleagues, > > > > unexpectedly (and unfortunately) I cannot attend > > the Hangout. > > > > Attached is a slightly updated obo file. > > I will add the other metrics from our Excel, other NIST metrics and > > metrics from MIAPE QC document. > > Together with Gerhard I will start to assemble a CV mapping > > file for the CV validator. Therefore we need the crafted qcML file (from > github). > > > > From current point of view I will not attend ASMS. > > > > Best regards > > Martin > > > > > > *Von:* Bittremieux Wout [mailto:wou...@ua... > <wou...@ua...>] > *Gesendet:* Dienstag, 16. Mai 2017 09:49 > *An:* psi...@li... > *Betreff:* [Psidev-qc-dev] Upcoming teleconference on Friday > > > > Dear colleagues, > > > > As agreed during the annual PSI meeting last month in Beijing we will keep > in close contact with each other through monthly teleconferences. These > teleconferences will take place each third Friday of the month at 9:00 GMT. > > > > Our first teleconference is scheduled for next *Friday, May 19th, at 9:00 > GMT* (11:00 Western Europe & South Africa, 17:00 China). > > > > You can connect to our teleconference on Google Hangouts through the > following link: https://hangouts.google.com/group/taNzRy6ELMDK9wbk2 > > > > Provisional agenda items are: > > - follow-up on crafting an example qcML file incorporating the proposed > changes > > - follow-up on converting the list of identified QC metrics to the CV > > - ASMS attendance and meet-up > > - any additional items that need to be discussed... > > > > I hope to talk to all of you on Friday. > > > > Best, > > Wout > > ------------------------------------------------------------ > ------------------ > Check out the vibrant tech community on one of the world's most > engaging tech sites, Slashdot.org! http://sdm.link/slashdot > _______________________________________________ > Psidev-qc-dev mailing list > Psi...@li... > https://lists.sourceforge.net/lists/listinfo/psidev-qc-dev > > |
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From: David T. <dt...@su...> - 2017-06-15 17:51:16
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Hi, Wout. Thank you very much for ensuring we were ready for tomorrow's teleconference! I look forward to talking with everyone at 11AM South Africa time. The country has a holiday tomorrow, but I will enjoy hearing your voices, nonetheless! Dave On 6/13/2017 3:47 PM, Wout Bittremieux wrote: Dear colleagues, This is a reminder that our next teleconference is scheduled for Friday, June 16th, at 9:00 GMT (10:00 British Summer Time, 11:00 Western Europe & South Africa, 17:00 China). You can connect to our teleconference on Google Hangouts through the following link: https://hangouts.google.com/group/taNzRy6ELMDK9wbk2 Provisional agenda items are: - follow-up on the CV and MIAPE-QC work by Martin & Jinmeng (cfr. Martin's mail from last month and Jinmeng's update here<https://github.com/Jinmeng-QC/MIAPE-QC/blob/master/summary_update.md>) - evaluate the CV in terms of OpenMS & iMonDB use cases and requirements - report on new developments at ASMS - any additional items that need to be discussed... I hope to talk to all of you on Friday. Best, Wout ------------------------------------------------------------------------------ Check out the vibrant tech community on one of the world's most engaging tech sites, Slashdot.org! http://sdm.link/slashdot _______________________________________________ Psidev-qc-dev mailing list Psi...@li...<mailto:Psi...@li...> https://lists.sourceforge.net/lists/listinfo/psidev-qc-dev The integrity and confidentiality of this email is governed by these terms / Hierdie terme bepaal die integriteit en vertroulikheid van hierdie epos. http://www.sun.ac.za/emaildisclaimer |
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From: Martin E. <mar...@ru...> - 2017-06-15 16:23:26
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Dear QC colleagues, 1) I added more terms to the psi-qc-cv.obo (attached, now all metrics from Davids and my article are integrated, further NIST and MIAPE-QC terms will follow). 2) I updated the Mathias Excel defining the metrics for the obo with corrections (yellow fields may be discussed tomorrow). Sorry for havent uploaded them to GitHub, Im not sure whether that would overwrite progress made meanwhile Bye from Bochum Martin -- PD DR. MARTIN EISENACHER Department Leader DEPARTMENT Medical Bioinformatics Medizinisches Proteom-Center Ruhr-University Bochum Building ZKF E.141 | Universitätsstraße 150 | D-44801 Bochum Fon +49 (0)234 32-29288 | Fax +49 (0)234 32-14554 E-mail mar...@ru... <mailto:mar...@ru...> www.medizinisches-proteom-center.de <http://www.medizinisches-proteom-center.de/> Von: Martin Eisenacher [mailto:mar...@ru...] Gesendet: Freitag, 19. Mai 2017 09:58 An: 'psi...@li...' <psi...@li...> Betreff: AW: [Psidev-qc-dev] Upcoming teleconference on Friday Dear QC colleagues, unexpectedly (and unfortunately) I cannot attend the Hangout. Attached is a slightly updated obo file. I will add the other metrics from our Excel, other NIST metrics and metrics from MIAPE QC document. Together with Gerhard I will start to assemble a CV mapping file for the CV validator. Therefore we need the crafted qcML file (from github). >From current point of view I will not attend ASMS. Best regards Martin Von: Bittremieux Wout [mailto:wou...@ua...] Gesendet: Dienstag, 16. Mai 2017 09:49 An: psi...@li... <mailto:psi...@li...> Betreff: [Psidev-qc-dev] Upcoming teleconference on Friday Dear colleagues, As agreed during the annual PSI meeting last month in Beijing we will keep in close contact with each other through monthly teleconferences. These teleconferences will take place each third Friday of the month at 9:00 GMT. Our first teleconference is scheduled for next Friday, May 19th, at 9:00 GMT (11:00 Western Europe & South Africa, 17:00 China). You can connect to our teleconference on Google Hangouts through the following link: https://hangouts.google.com/group/taNzRy6ELMDK9wbk2 Provisional agenda items are: - follow-up on crafting an example qcML file incorporating the proposed changes - follow-up on converting the list of identified QC metrics to the CV - ASMS attendance and meet-up - any additional items that need to be discussed... I hope to talk to all of you on Friday. Best, Wout |
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