From: Eric D. <ede...@sy...> - 2010-10-18 23:47:50
|
Hi everyone, this is a reminder for the PSI MSS WG teleconference call tomorrow, Tuesday, at the usual time. The primary agenda item will be to finish discussion of the TraML reviews and set action items to address them. 08:00 San Francisco 11:00 New York 16:00 London 17:00 Geneva + Germany: 08001012079 + Switzerland: 0800000860 + UK: 08081095644 + USA: 1-866-314-3683 Generic international: +44 2083222500 (UK number) access code: 297427 # Agenda: 1) mzML 1.1.0 - Manuscript has been accepted to MCP: http://www.mcponline.org/content/early/2010/08/17/mcp.R110.000133.full.pdf+html - Matt has released and posted the updated 1.1.1 version of indexedmzML schema: <indexList> name attribute will be enumerated to “spectrum” or “chromatogram” to disallow other creative values - Matt will update the example files to reference mzML 1.1.0 but indexedmzML 1.1.1 - New schema is posted on the web. The tiny file has been updated. - Eric will update the web site announcing the change and update hyperlink - How do we handle lock mass corrections? - Eric should test FAIMS support in mzML - Eric should test a recent file with multiple fragmentation types to see if they are properly labeled - Other items? ---- 2) MIAPE-MS revision - Document is ready to be submitted, but.. - We need to have 3 examples to go along with a document submission - Until we provide the examples, it is not officially in the document process - We can use the sample MIAPE-compliant mzML file - Pierre-Alain will contact Juan-Pablo to see if he has some suitable examples in Proteo-Red - Pierre-Alain has received an example from Proteo-Red - Richard will look into PRIDE to see if there may be a good example there - Pierre-Alain is looking through PRIDE to find a good example. - The last example would be a MIAPE compliant mzML document - Looking in Peptidome might be an alternative for finding a nicely annotated dataset - Waiting to sync with MIAPE-MSI as well - Keep working on our documents and when we’re ready, see if we should wait - We also need to coordinate the creation of MIAPE-Quant - When officially in the process, send out submitted document to journal editors and everyone else to get the word out ---- 3) TraML development - TraML version 0.9.4 is available at http://www.psidev.info/index.php?q=node/405 - TraML was submitted to PSI document process - Reviews are back, see attached. Discuss how to address these concerns - Implementations? Please update to 0.9.4 and test - Matt has implemented in ProteoWizard complete to 0.9.4 - Matt has finished the C# bindings which will enable Skyline support - Matt will sent out a sample file - Eric will try validating with his tools - ISB implementation in ATAQS nearly done - Jim has an implementation but just will need to update to 0.9.4 - Eric will also contact Amol to discuss TraML implementations - Dave Cox at Sciex will test implement? - Need to add two new terms - Are we ready to update validator page?: http://www.psidev.info/index.php?q=node/304 ---- 4) PSI session at World HUPO in Sydney - Eric presented on the work of the group: mzML 1.1, TraML 0.9.4, MIAPE-MS ---- 5) Improving the controlled vocabulary - There is a todo list based on a previous discussion - Need someone with some time to work on it 6) SRM analysis guidelines and format - At a “Data Quality Metrics” workshop in Sydney before World HUPO (hosted by NCI), there was strong support to try to develop a set of guidelines for reporting of SRM experiments as there currently are none. A working group was identified at the meeting. Eric will organize some discussions on this. - It was also proposed that PSI work on a standard format for the reporting of SRM experiment analysis. There was some support for this. This is distinct from mzML, which holds the chromatograms. It is distinct from TraML which holds the input transitions. It might have some overlap with mzQuantML. This should be discussed and a subgroup identified. Next meeting: - In 1 week? Oct 19? |
From: Eric D. <ede...@sy...> - 2011-04-04 19:57:22
|
Hi everyone, this is a reminder for the PSI MSS WG teleconference call tomorrow, Tuesday, at the usual time. Note that there appears to be a new number for US callers. The old number is also provided below in case the new number doesn’t work out. 08:00 San Francisco 11:00 New York 16:00 London 17:00 Geneva + Germany: 08001012079 + Switzerland: 0800000860 + UK: 08081095644 + USA: NEW NUMBER: 1-866-832-8490 Old number: 1-866-314-3683 Generic international: +44 2083222500 (UK number) access code: 297427 # Agenda: 1) PSI Spring Workshop April 11-13 - Collaborative efforts with the PI WG on mzIdentML, mzQuantML, CV - Finishing TraML - Drafting SRM experiment guidelines - Drafting a format for SRM experimental results - MIAPE-MS finalization - MIAPE-Quant work? - Adjacent to the ProteomeXchange workshop - Please attend and encourage attendance ---- 2) mzML 1.1.0 - We have been contacted by Vladimir Likic, who has said that he is representing some portions of the metabolomics community and they are interested in seeing if mzML would be a good fit for them as a next-generation format. See: http://bioinformatics.bio21.unimelb.edu.au/mzml.html - Steffen feels there probably only minor changes required for GC-MS. Probably only mostly just some terms like “travel time” and the like. - Currently the ANDI format is most often used for GC-MS, but it seems out of date and is the format that would be replaced. - Steffen attended a metabolomics conf at EBI and will report - Other outstanding todo items: - Eric should test FAIMS support in mzML - Eric should test a recent file with multiple fragmentation types to see if they are properly labeled - Other items? ---- 3) TraML development - TraML version 0.9.4 is available at http://www.psidev.info/index.php?q=node/405 - TraML was submitted to PSI document process - Reviews are back and partially addressed.Still outstanding todo items - Implementations? Please update to 0.9.4 and test - Matt has implemented in ProteoWizard complete to 0.9.4 - Matt has finished the C# bindings which will enable Skyline support - Matt will sent out a sample file generated from ProteoWizard - Eric will try validating with his tools - ISB implementation in ATAQS is done - Jim has an implementation but just will need to update to 0.9.4 - Eric will also contact Amol to discuss TraML implementations - Dave Cox at Sciex will test implement? - Brendan’s comments were found and sent to the list - Need to add two new terms - Change <Validation> to <ValidationStatus> - Fix <Configuration> to (1..N) - What about MS3 support? - Steffen points out that just adding another <Product> tag isn’t enough. What if there are different collision energies for MS2 and MS3? - Seems like there was agreement to move <Interpretation>, <Prediction>, <ConfigurationList> into <Product>, thereby allowing (requiring!) separate entries for each <Product> entry. For 99% of cases, this is just a trivial move of elements. - Discussion ensued about <Product> should have “isolation window target m/z” or “selection window target m/z”. Are we isolating (pure filter) or selecting (scanning in a range)? Ran out of time. Continue on email or next time. - Are we ready to update validator page?: http://www.psidev.info/index.php?q=node/304 ---- 4) MIAPE-MS revision - Document is ready to be submitted, but.. - We need to have 3 examples to go along with a document submission - Until we provide the examples, it is not officially in the document process - Waiting to sync with MIAPE-MSI as well - Keep working on our documents and when we’re ready, see if we should wait - We also need to coordinate the creation of MIAPE-Quant - When officially in the process, send out submitted document to journal editors and everyone else to get the word out - Progress will continue at the workshop ---- 5) Improving the controlled vocabulary - There is a todo list based on a previous discussion - Need someone with some time to work on it - Some folks from PRIDE have expressed the desired to clean up the CV. Work with them. - Richard will ask David Ovelleiro to send a note to the list on his efforts - There is a list of action items from a previous call ---- 6) SRM analysis guidelines and format - At a “Data Quality Metrics” workshop in Sydney before World HUPO (hosted by NCI), there was strong support to try to develop a set of guidelines for reporting of SRM experiments as there currently are none. A working group was identified at the meeting. Eric will organize some discussions on this. - It was also proposed that PSI work on a standard format for the reporting of SRM experiment analysis. There was some support for this. This is distinct from mzML, which holds the chromatograms. It is distinct from TraML which holds the input transitions. It might have some overlap with mzQuantML. This should be discussed and a subgroup identified. Next meeting: - In person next week in Heidelberg |
From: Eric D. <ede...@sy...> - 2011-09-12 14:51:32
|
Hi everyone, let’s have a PSI MSS WG teleconference call tomorrow, Tuesday, at the usual time. 08:00 San Francisco 11:00 New York 16:00 London 17:00 Geneva + Germany: 08001012079 + Switzerland: 0800000860 + UK: 08081095644 + USA: NEW NUMBER: 1-866-832-8490 Generic international: +44 2083222500 (UK number) access code: 297427 # Agenda: 1) Meetings and workshops - Review of PSI sessions at World HUPO in Geneva - PSI Spring Workshop March 12-14 (+ProteomeXchange 15-16) - Note nearby US HUPO March 4-7 and ABRF March 17-20 - ---- 2) mzML 1.1.0 - imzML - mz5 and mzDB - digital signatures - ---- 3) TraML development - TraML version 0.9.5 is available at http://www.psidev.info/index.php?q=node/405 - TraML was resubmitted to PSI document process - Currently in community review period - Discuss response to 5th reviewer ---- 4) MIAPE-MS revision - ---- 5) Improving the controlled vocabulary - Proposed “command line parameters” CV term and implications ---- 6) SRM analysis guidelines and format - Review MIAPE-Quant for SRM - Review mzQuantML for SRM Next meeting: - Tue Sep 27 8am PDT? |
From: Eric D. <ede...@sy...> - 2011-09-26 18:17:35
|
Hi everyone, this is a reminder about the PSI MSS WG teleconference call tomorrow, Tuesday, at the usual time. 08:00 San Francisco 11:00 New York 16:00 London 17:00 Geneva + Germany: 08001012079 + Switzerland: 0800000860 + Finland: 080011569 + UK: 08081095644 + USA: NEW NUMBER: 1-866-832-8490 Generic international: +44 2083222500 (UK number) access code: 297427 # Agenda: 1) Meetings and workshops - PSI Spring Workshop March 12-14 (+ProteomeXchange 15-16) - Note nearby US HUPO March 4-7 and ABRF March 17-20 - ---- 2) mzML 1.1.0 - imzML - mz5 and mzDB - digital signatures - ---- 3) TraML development - TraML version 0.9.5 is available at http://www.psidev.info/index.php?q=node/405 - TraML was resubmitted to PSI document process - Currently in community review period - Discuss response to 5th reviewer - Discuss Alexey’s use case and needed terms ---- 4) MIAPE-MS revision - Special call on Thursday for MIAPE - * ---- 5) Improving the controlled vocabulary - Proposed “command line parameters” CV term and implications - CV term requests from Sean ---- 6) SRM analysis guidelines and format - Review MIAPE-Quant for SRM - Review mzQuantML for SRM Next meeting: - Tue Oct 11 8am PDT? |
From: Eric D. <ede...@sy...> - 2011-10-10 17:24:29
|
Hi everyone, this is a reminder about the PSI MSS WG teleconference call tomorrow, Tuesday, at the usual time. 08:00 San Francisco 11:00 New York 16:00 London 17:00 Geneva + Germany: 08001012079 + Switzerland: 0800000860 + Finland: 080011569 + UK: 08081095644 + USA: NEW NUMBER: 1-866-832-8490 Generic international: +44 2083222500 (UK number) access code: 297427 # Agenda: 1) Meetings and workshops - PSI Spring Workshop March 12-14 (+ProteomeXchange 15-16) - Note nearby US HUPO March 4-7 and ABRF March 17-20 - ---- 2) mzML 1.1.0 - imzML - mz5 and mzDB - ---- 3) TraML development - TraML version 0.9.5 is available at http://www.psidev.info/index.php?q=node/405 - TraML was resubmitted to PSI document process - Currently in community review period - Discuss manuscript and new terms ---- 4) MIAPE-MS revision - Action items for MIAPE – MS ---- 5) Improving the controlled vocabulary - Discuss proposed terms cleanup email ---- 6) SRM analysis guidelines and format - Review MIAPE-Quant for SRM - Review mzQuantML for SRM Next meeting: - Tue Oct 25 8am Seattle Time? |
From: Eric D. <Eri...@sy...> - 2011-10-24 16:53:34
|
Hi everyone, this is a reminder about the PSI MSS WG teleconference call tomorrow, Tuesday, at the usual time. 08:00 San Francisco 11:00 New York 16:00 London 17:00 Geneva + Germany: 08001012079 + Switzerland: 0800000860 + Finland: 080011569 + UK: 08081095644 + USA: NEW NUMBER: 1-866-832-8490 Generic international: +44 2083222500 (UK number) access code: 297427 # Agenda: 1) TraML development - TraML version 0.9.5 is available at http://www.psidev.info/index.php?q=node/405 - TraML manuscript is submitted ---- 2) MIAPE-MS revision - Action items for MIAPE – MS ---- 3) Improving the controlled vocabulary - Discuss proposed terms cleanup thread(s) Next meeting: - In 1 week Tue Nov 1 8am Seattle Time? <EU/US DST mismatch alert!> |
From: Eric D. <Eri...@sy...> - 2011-10-24 23:10:29
|
Hi everyone, I apologize for the quick change, but I am now unable to make the call tomorrow, so let’s postpone. Let’s tentatively reschedule for Tuesday in a week then. Sorry about the change, Eric *From:* Eric Deutsch [mailto:Eri...@sy...] *Sent:* Monday, October 24, 2011 9:53 AM *To:* Mass spectrometry standard development *Cc:* Eric Deutsch *Subject:* PSI MSS WG call reminder Hi everyone, this is a reminder about the PSI MSS WG teleconference call tomorrow, Tuesday, at the usual time. 08:00 San Francisco 11:00 New York 16:00 London 17:00 Geneva + Germany: 08001012079 + Switzerland: 0800000860 + Finland: 080011569 + UK: 08081095644 + USA: NEW NUMBER: 1-866-832-8490 Generic international: +44 2083222500 (UK number) access code: 297427 # Agenda: 1) TraML development - TraML version 0.9.5 is available at http://www.psidev.info/index.php?q=node/405 - TraML manuscript is submitted ---- 2) MIAPE-MS revision - Action items for MIAPE – MS ---- 3) Improving the controlled vocabulary - Discuss proposed terms cleanup thread(s) Next meeting: - In 1 week Tue Nov 1 8am Seattle Time? <EU/US DST mismatch alert!> |
From: Eric D. <Eri...@sy...> - 2011-10-31 19:40:20
|
Hi everyone, this is a reminder about the PSI MSS WG teleconference call tomorrow, Tuesday, postponed from last week. Since the US is currently flaunting its individuality by lingering on daylight savings time while the rest of the world has moved on, let’s switch to an hour later in the US and same time in Europe: http://www.timeanddate.com/worldclock/fixedtime.html?iso=20111101T09&p1=234 09:00 San Francisco 12:00 New York 16:00 London 17:00 Geneva + Germany: 08001012079 + Switzerland: 0800000860 + Finland: 080011569 + UK: 08081095644 + USA: NEW NUMBER: 1-866-832-8490 Generic international: +44 2083222500 (UK number) access code: 297427 # Agenda: The main topic will be discussion of recent controlled vocabulary terms: modulation time inlet temperature source temperature MS:1000442 spectrum + MS:1000231 peak + MS:1000042 peak intensity (has units and value) defined for mass spectrum + MS:100???? peak height (has units and value) + MS:100???? peak area (has units and value) MS:1001843 MS1 peak height quantification (no units or value) (concept of performing quant via this method) MS:1001844 MS1 peak area quantification (no units or value) (concept of performing quant via this method) Next meeting: - Nov 22nd 8am Seattle Time? |
From: Eric D. <ede...@sy...> - 2011-11-29 00:05:31
|
Hi everyone, this is a reminder about the PSI MSS WG teleconference call tomorrow, Tuesday, postponed from last week. 08:00 San Francisco 11:00 New York 16:00 London 17:00 Geneva + Germany: 08001012079 + Switzerland: 0800000860 + Finland: 080011569 + UK: 08081095644 + USA: 1-866-832-8490 Generic international: +44 2083222500 (UK number) access code: 297427 # Agenda: 1) Discuss response to TraML review and final release plans 2) Discuss David’s new terms Next meeting: - Dec 13 8am Seattle Time? |
From: Eric D. <ede...@sy...> - 2011-11-29 21:12:28
|
PSI MSS WG teleconference notes Present: David, Steffen, Matt, Pierre-Alain, Eric TraML: - Manuscript revisions and reviewer response has been circulated. Additional comments? - It has been noted that unlike other PSI formats, we are missing userParams in the schema. - Do we want to add userParam capability everywhere there’s cvParam? - After discussion, yes, let’s do this - Eric will update the schema and send to Matt for inspection - Will declare 1.0 and release and resubmit manuscript CV: - What do we do with “Paul ion trap”? It appears in MIAPE-MS. Resurrect from purgatory? Or obsolete and make a synonym of “quadrupole ion trap” + Decide that we will remove “Paul trap” from MIAPE-MS 3.1.1, obsolete MS:1000297, and make “Paul ion trap” an exact synonym of “quadrupole ion trap” + Put axial and redial ejection linear ion traps under linear ion traps + Not fully sure + Pierre-Alain will find an MS guru at Bruker to clarify name: electrospray supply type name: static supply electrospray name: fed supply electrospray ( need to update mapping files to accommodate this) - What’s the difference between a “source interface” and “inlet type”? - “xxxx manufacturer” and “xxxx model” terms need string datatypes? - Ran out of time. Let’s continue discussion via email Next meeting: - Dec 13 8am Seattle Time? + yes *From:* Eric Deutsch [mailto:ede...@sy...] *Sent:* Monday, November 28, 2011 4:05 PM *To:* Mass spectrometry standard development *Cc:* Eric Deutsch *Subject:* PSI MSS WG call reminder Hi everyone, this is a reminder about the PSI MSS WG teleconference call tomorrow, Tuesday, postponed from last week. 08:00 San Francisco 11:00 New York 16:00 London 17:00 Geneva + Germany: 08001012079 + Switzerland: 0800000860 + Finland: 080011569 + UK: 08081095644 + USA: 1-866-832-8490 Generic international: +44 2083222500 (UK number) access code: 297427 # Agenda: 1) Discuss response to TraML review and final release plans 2) Discuss David’s new terms Next meeting: - Dec 13 8am Seattle Time? |
From: Eric D. <ede...@sy...> - 2012-01-09 19:20:10
|
Hi everyone, this is a reminder about the PSI MSS WG teleconference call tomorrow, Tuesday, at the usual time. 08:00 San Francisco 11:00 New York 16:00 London 17:00 Geneva + Germany: 08001012079 + Switzerland: 0800000860 + Finland: 080011569 + UK: 08081095644 + USA: 1-866-832-8490 Generic international: +44 2083222500 (UK number) access code: 297427 # Agenda: 1) Plans and agenda for spring PSI workshop in San Diego March 12-14 2) mzML status 3) TraML status 4) Discuss controlled vocabulary items: - CXP - cleavage agents - others? 5) MIAPE – MS 6) MIAPE – Quant Next meeting: - Jan 31 8am Seattle Time? |
From: Juan A. V. <ju...@eb...> - 2012-01-09 19:59:02
|
Hi Eric, I am afraid tomorrow there will not be anyone at the office to be able to start the phone conference. We have a retreat of both the PRIDE and Intact groups together at a different place. Sorry about that, Juanan On 9 Jan 2012, at 19:19, Eric Deutsch wrote: > Hi everyone, this is a reminder about the PSI MSS WG teleconference call tomorrow, Tuesday, at the usual time. > > 08:00 San Francisco > 11:00 New York > 16:00 London > 17:00 Geneva > > + Germany: 08001012079 > + Switzerland: 0800000860 > + Finland: 080011569 > + UK: 08081095644 > + USA: 1-866-832-8490 > Generic international: +44 2083222500 (UK number) > > access code: 297427 # > > > Agenda: > 1) Plans and agenda for spring PSI workshop in San Diego March 12-14 > 2) mzML status > 3) TraML status > 4) Discuss controlled vocabulary items: > - CXP > - cleavage agents > - others? > 5) MIAPE – MS > 6) MIAPE – Quant > > Next meeting: > - Jan 31 8am Seattle Time? > > > ------------------------------------------------------------------------------ > Ridiculously easy VDI. With Citrix VDI-in-a-Box, you don't need a complex > infrastructure or vast IT resources to deliver seamless, secure access to > virtual desktops. With this all-in-one solution, easily deploy virtual > desktops for less than the cost of PCs and save 60% on VDI infrastructure > costs. Try it free! http://p.sf.net/sfu/Citrix-VDIinabox_______________________________________________ > Psidev-ms-dev mailing list > Psi...@li... > https://lists.sourceforge.net/lists/listinfo/psidev-ms-dev |
From: Eric D. <ede...@sy...> - 2012-01-10 00:15:56
|
Hi everyone, since the phone conferencing system will not be available to us tomorrow, let’s defer until next week. No phone conference this week, but we will meet next Tuesday. Thanks, Eric *From:* Juan Antonio Vizcaino [mailto:ju...@eb...] *Sent:* Monday, January 09, 2012 11:59 AM *To:* Mass spectrometry standard development *Subject:* Re: [Psidev-ms-dev] PSI MSS WG call reminder Hi Eric, I am afraid tomorrow there will not be anyone at the office to be able to start the phone conference. We have a retreat of both the PRIDE and Intact groups together at a different place. Sorry about that, Juanan On 9 Jan 2012, at 19:19, Eric Deutsch wrote: Hi everyone, this is a reminder about the PSI MSS WG teleconference call tomorrow, Tuesday, at the usual time. 08:00 San Francisco 11:00 New York 16:00 London 17:00 Geneva + Germany: 08001012079 + Switzerland: 0800000860 + Finland: 080011569 + UK: 08081095644 + USA: 1-866-832-8490 Generic international: +44 2083222500 (UK number) access code: 297427 # Agenda: 1) Plans and agenda for spring PSI workshop in San Diego March 12-14 2) mzML status 3) TraML status 4) Discuss controlled vocabulary items: - CXP - cleavage agents - others? 5) MIAPE – MS 6) MIAPE – Quant Next meeting: - Jan 31 8am Seattle Time? ------------------------------------------------------------------------------ Ridiculously easy VDI. With Citrix VDI-in-a-Box, you don't need a complex infrastructure or vast IT resources to deliver seamless, secure access to virtual desktops. With this all-in-one solution, easily deploy virtual desktops for less than the cost of PCs and save 60% on VDI infrastructure costs. Try it free! http://p.sf.net/sfu/Citrix-VDIinabox_______________________________________________ Psidev-ms-dev mailing list Psi...@li... https://lists.sourceforge.net/lists/listinfo/psidev-ms-dev |
From: Eric D. <Eri...@sy...> - 2012-01-30 17:46:01
|
Hi everyone, this is a reminder about the PSI MSS WG teleconference call tomorrow, Tuesday, at the usual time. 08:00 San Francisco 11:00 New York 16:00 London 17:00 Geneva + Germany: 08001012079 + Switzerland: 0800000860 + Finland: 080011569 + UK: 08081095644 + USA: 1-866-832-8490 Generic international: +44 2083222500 (UK number) access code: 297427 # Agenda: 1) Plans and agenda for spring PSI workshop in San Diego March 12-14 2) mzML status 3) TraML status 4) Discuss controlled vocabulary items: - Proposed commit from Gerhard - CXP, LECO instrument - cleavage agents - others? 5) MIAPE – MS 6) MIAPE – Quant Next meeting: - Feb 14 8am Seattle Time? |
From: Eric D. <Eri...@sy...> - 2012-01-31 16:56:54
|
Present: Jim, Florian, Steffen, Eric, Matt 1) Plans and agenda for spring PSI workshop in San Diego March 12-14 + Likely attendance by some of the present + Please advertize this more and promote attendance. + Please register now and make hotel bookings 2) mzML status 3) TraML status We need to update the web page with implementations - jTraML - Anubis - ATAQS - Metshot R package. Steffen will send. - More. 4) Discuss controlled vocabulary items. +Here are some proposed modifications to Garhard’s latest from 8 hr ago: ************ def: field defined [Term] id: MS:1000836 name: dried droplet MALDI matrix preparation def: "Dried droplet in MALDI matrix preparation." [PSI:MS] is_a: MS:1000833 ! matrix application type ************ def: field defined [Term] id: MS:1000837 name: printed MALDI matrix preparation def: "Printed MALDI matrix preparation." [PSI:MS] is_a: MS:1000833 ! matrix application type ************ def: field defined [Term] id: MS:1000838 name: sprayed MALDI matrix preparation def: "Sprayed MALDI matrix preparation." [PSI:MS] is_a: MS:1000833 ! matrix application type ************ A new relation in "precolated plate": now also a "sample plate type"; def: field defined [Term] id: MS:1000839 name: precoated MALDI sample plate def: "Precoated MALDI sample plate." [PSI:MS] is_a: MS:1000833 ! matrix application type is_a: MS:1001938 ! sample plate type [Term] id: MS:1001915 name: leukocyte elastase def: "Enzyme leukocyte elastase (EC 3.4.21.37)." [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.21.37 "BRENDA"] is_a: MS:1001045 ! cleavage agent name relationship: has_regexp MS:1001176 ! (?<=[ALIV])(?!P) We note for DOI, there is a regexp that could be applied in the validator, but this is not done presently. There was concern that “source sprayer type” should be a parent term and not allow a value. But what Should the children be?? [Term] id: MS:1001934 name: source sprayer type def: "The source sprayer type." [PSI:MS] xref: value-type:xsd\:string "The allowed value-type for this CV term." relationship: part_of MS:1001933 ! source sprayer Bring this topic up on the list. Remove value type in: [Term] id: MS:1001938 name: sample plate type def: "The sample plate type." [PSI:MS] relationship: part_of MS:1001937 ! sample plate - Proposed commit from Gerhard - CXP, LECO instrument - cleavage agents - others? 5) MIAPE – MS 6) MIAPE – Quant + No discussion for now. Will discuss at future call and workshop. Next meeting: - Feb 14 8am Seattle Time? +yes *From:* Eric Deutsch [mailto:Eri...@sy...] *Sent:* Monday, January 30, 2012 9:46 AM *To:* Mass spectrometry standard development *Cc:* Eric Deutsch *Subject:* PSI MSS WG call reminder Hi everyone, this is a reminder about the PSI MSS WG teleconference call tomorrow, Tuesday, at the usual time. 08:00 San Francisco 11:00 New York 16:00 London 17:00 Geneva + Germany: 08001012079 + Switzerland: 0800000860 + Finland: 080011569 + UK: 08081095644 + USA: 1-866-832-8490 Generic international: +44 2083222500 (UK number) access code: 297427 # Agenda: 1) Plans and agenda for spring PSI workshop in San Diego March 12-14 2) mzML status 3) TraML status 4) Discuss controlled vocabulary items: - Proposed commit from Gerhard - CXP, LECO instrument - cleavage agents - others? 5) MIAPE – MS 6) MIAPE – Quant Next meeting: - Feb 14 8am Seattle Time? |
From: Eric D. <Eri...@sy...> - 2012-02-14 00:30:28
|
Hi everyone, this is a reminder about the PSI MSS WG teleconference call tomorrow, Tuesday, at the usual time. 08:00 San Francisco 11:00 New York 16:00 London 17:00 Geneva + Germany: 08001012079 + Switzerland: 0800000860 + Finland: 080011569 + UK: 08081095644 + USA: 1-866-832-8490 Generic international: +44 2083222500 (UK number) access code: 297427 # Agenda: 1) Plans and agenda for spring PSI workshop in San Diego March 12-14 2) mzML status 3) TraML status 4) Discuss controlled vocabulary items 5) MIAPE – MS 6) MIAPE – Quant Next meeting: - Feb 28 8am Seattle Time? |
From: Eric D. <Eri...@sy...> - 2012-02-28 07:46:53
|
Hi everyone, this is a reminder about the PSI MSS WG teleconference call tomorrow, Tuesday, at the usual time. 08:00 San Francisco 11:00 New York 16:00 London 17:00 Geneva + Germany: 08001012079 + Switzerland: 0800000860 + Finland: 080011569 + UK: 08081095644 + USA: 1-866-832-8490 Generic international: +44 2083222500 (UK number) access code: 297427 # Agenda: 1) Plans and agenda for spring PSI workshop in San Diego March 12-14 2) mzML status 3) TraML status 4) Discuss controlled vocabulary items 5) MIAPE – MS 6) MIAPE – Quant Next meeting: - in San Diego March 12 |