- IHM-repval - salilab.org

IHM Meeting doodle poll
by Brinda Vallat 11 May '18

11 May '18

Thanks to everyone who filled out the doodle poll <https://doodle.com/poll/uddhrpu5mr3msqaq>. Based on the doodle poll, the next "large group" IHM meeting is fixed for Thursday, May 24th at 7:00 AM PDT / 9:00 AM CDT / 10:00 AM EDT / 3:00 PM BST / 4:00 PM CEST / 11:00 PM JST. Meeting agenda and instructions to join the meeting will be sent in a follow-up email closer to the meeting date. Looking forward to another productive discussion. Brinda On Mon, May 7, 2018 at 4:50 PM, Brinda Vallat <brinda.vallat(a)rcsb.org> wrote: > Hello Everyone, > > Please fill out the doodle poll <https://doodle.com/poll/uddhrpu5mr3msqaq> by > tonight so that we can figure out a convenient time for the IHM meeting. > > Thank you, > Brinda > > ---------- Forwarded message ---------- > From: Brinda Vallat <brinda.vallat(a)rcsb.org> > Date: Fri, May 4, 2018 at 2:48 PM > Subject: Reminder: IHM Meeting doodle poll > To: ihm-repval(a)salilab.org > > > Hello Everyone, > > Please fill out the IHM meeting doodle poll > <https://doodle.com/poll/uddhrpu5mr3msqaq> by Monday, May 7, 2018. > > Thank you, > Brinda > > > On Mon, Apr 30, 2018 at 10:37 AM, Brinda Vallat <brinda.vallat(a)rcsb.org> > wrote: > >> Hello Everyone, >> >> We plan to have a "large" group IHM meeting this month. >> >> We will update everyone regarding the progress on the IHM dictionary and >> PDB-Dev. However, the primary purpose of these meetings is to have an open >> discussion about the IHM project. >> >> Please fill out the Doodle poll below to let us know your availability so >> that we can schedule a meeting time that is convenient to most people. >> >> https://doodle.com/poll/uddhrpu5mr3msqaq >> >> Please fill out the poll by Monday, May 7 2018. >> >> Thank you, >> Brinda >> >> -- >> Brinda Vallat >> >> RCSB >> Center for Integrative Proteomics Research >> Rutgers, The State University of New Jersey >> 174 Frelinghuysen Rd >> Piscataway NJ 08854-8076 >> Email: brinda.vallat(a)rcsb.org >> Phone: 848-445-4948 >> >> > > > -- > Brinda Vallat > > RCSB > Center for Integrative Proteomics Research > Rutgers, The State University of New Jersey > 174 Frelinghuysen Rd > Piscataway NJ 08854-8076 > Email: brinda.vallat(a)rcsb.org > Phone: 848-445-4948 > > > > > -- > Brinda Vallat > > RCSB > Center for Integrative Proteomics Research > Rutgers, The State University of New Jersey > 174 Frelinghuysen Rd > Piscataway NJ 08854-8076 > Email: brinda.vallat(a)rcsb.org > Phone: 848-445-4948 > > -- Brinda Vallat RCSB Center for Integrative Proteomics Research Rutgers, The State University of New Jersey 174 Frelinghuysen Rd Piscataway NJ 08854-8076 Email: brinda.vallat(a)rcsb.org Phone: 848-445-4948

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Reminder: IHM Meeting doodle poll
by Brinda Vallat 07 May '18

07 May '18

Hello Everyone, Please fill out the doodle poll <https://doodle.com/poll/uddhrpu5mr3msqaq> by tonight so that we can figure out a convenient time for the IHM meeting. Thank you, Brinda ---------- Forwarded message ---------- From: Brinda Vallat <brinda.vallat(a)rcsb.org> Date: Fri, May 4, 2018 at 2:48 PM Subject: Reminder: IHM Meeting doodle poll To: ihm-repval(a)salilab.org Hello Everyone, Please fill out the IHM meeting doodle poll <https://doodle.com/poll/uddhrpu5mr3msqaq> by Monday, May 7, 2018. Thank you, Brinda On Mon, Apr 30, 2018 at 10:37 AM, Brinda Vallat <brinda.vallat(a)rcsb.org> wrote: > Hello Everyone, > > We plan to have a "large" group IHM meeting this month. > > We will update everyone regarding the progress on the IHM dictionary and > PDB-Dev. However, the primary purpose of these meetings is to have an open > discussion about the IHM project. > > Please fill out the Doodle poll below to let us know your availability so > that we can schedule a meeting time that is convenient to most people. > > https://doodle.com/poll/uddhrpu5mr3msqaq > > Please fill out the poll by Monday, May 7 2018. > > Thank you, > Brinda > > -- > Brinda Vallat > > RCSB > Center for Integrative Proteomics Research > Rutgers, The State University of New Jersey > 174 Frelinghuysen Rd > Piscataway NJ 08854-8076 > Email: brinda.vallat(a)rcsb.org > Phone: 848-445-4948 > > -- Brinda Vallat RCSB Center for Integrative Proteomics Research Rutgers, The State University of New Jersey 174 Frelinghuysen Rd Piscataway NJ 08854-8076 Email: brinda.vallat(a)rcsb.org Phone: 848-445-4948 -- Brinda Vallat RCSB Center for Integrative Proteomics Research Rutgers, The State University of New Jersey 174 Frelinghuysen Rd Piscataway NJ 08854-8076 Email: brinda.vallat(a)rcsb.org Phone: 848-445-4948

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Reminder: IHM Meeting doodle poll
by Brinda Vallat 04 May '18

04 May '18

Hello Everyone, Please fill out the IHM meeting doodle poll <https://doodle.com/poll/uddhrpu5mr3msqaq> by Monday, May 7, 2018. Thank you, Brinda On Mon, Apr 30, 2018 at 10:37 AM, Brinda Vallat <brinda.vallat(a)rcsb.org> wrote: > Hello Everyone, > > We plan to have a "large" group IHM meeting this month. > > We will update everyone regarding the progress on the IHM dictionary and > PDB-Dev. However, the primary purpose of these meetings is to have an open > discussion about the IHM project. > > Please fill out the Doodle poll below to let us know your availability so > that we can schedule a meeting time that is convenient to most people. > > https://doodle.com/poll/uddhrpu5mr3msqaq > > Please fill out the poll by Monday, May 7 2018. > > Thank you, > Brinda > > -- > Brinda Vallat > > RCSB > Center for Integrative Proteomics Research > Rutgers, The State University of New Jersey > 174 Frelinghuysen Rd > Piscataway NJ 08854-8076 > Email: brinda.vallat(a)rcsb.org > Phone: 848-445-4948 > > -- Brinda Vallat RCSB Center for Integrative Proteomics Research Rutgers, The State University of New Jersey 174 Frelinghuysen Rd Piscataway NJ 08854-8076 Email: brinda.vallat(a)rcsb.org Phone: 848-445-4948

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IHM Meeting: Doodle poll
by Brinda Vallat 30 Apr '18

30 Apr '18

Hello Everyone, We plan to have a "large" group IHM meeting this month. We will update everyone regarding the progress on the IHM dictionary and PDB-Dev. However, the primary purpose of these meetings is to have an open discussion about the IHM project. Please fill out the Doodle poll below to let us know your availability so that we can schedule a meeting time that is convenient to most people. https://doodle.com/poll/uddhrpu5mr3msqaq Please fill out the poll by Monday, May 7 2018. Thank you, Brinda -- Brinda Vallat RCSB Center for Integrative Proteomics Research Rutgers, The State University of New Jersey 174 Frelinghuysen Rd Piscataway NJ 08854-8076 Email: brinda.vallat(a)rcsb.org Phone: 848-445-4948

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Meeting summary from the "large group" I/H methods meeting
by Brinda Vallat 17 Nov '17

17 Nov '17

Thanks to everyone who joined us for the I/H methods meeting yesterday. It is a challenge every time we organize one of these meetings since our time zones span all the way from Japan to California and it is always inconvenient to someone or the other. Regardless, thank you for joining the meeting and contributing towards a very productive discussion. The meeting summary is now available on the project GitHub wiki page <https://github.com/ihmwg/IHM-dictionary/wiki/IHM-Meeting-Summary-Nov-16-2017>. Please let me know if you have any questions in this regard. Brinda ---------- Forwarded message ---------- From: Brinda Vallat <brinda.vallat(a)rcsb.org> Date: Wed, Nov 15, 2017 at 12:33 PM Subject: Reminder: This month's "large group" I/H methods meeting tomorrow To: ihm-repval(a)salilab.org Hello Everyone, Based on the doodle poll <https://doodle.com/poll/h6uqs77v4mp7fbgy>, this month's I/H methods meeting is fixed for Thursday, November 16th at 1PM PST, 3PM CST, 4PM EST, 9PM GMT, 10PM CET and 6AM JST (November 17th). The following have confirmed their attendance. *Confirmed attendees* Ben Webb (UCSF, US) Tom Goddard (UCSF, US) Brinda Vallat (RCSB, US) John Westbrook (RCSB, US) Aleks Gutmanas (PDBe, UK) John Berrisford (PDBe, UK) Kumaran Baskaran (BMRB, US) Lukas Honig (TU, Berlin) Gert-Jan Bekker (PDBj, Japan) If anyone else would like to join the meeting, please let me know. I encourage everyone to attend so as to make these meetings more effective. *Meeting agenda* 1. Update on I/H methods project 2. Open discussion *Connection details* We will use Level 3 phone bridge for the voice call and joinme for screen sharing. We will not have any video. *For the Level 3 voice call: * 1. Using a regular phone, call the following number based on which country you are calling from. If the toll-free number does not work for some reason, please use the toll number. Toll-free Toll *US* 8007475150 <(800)%20747-5150> 3032481290 <(303)%20248-1290> *UK* 08004960577 02079040082 *Germany* 08001014525 030700150716 *Japan* 0120925970 0350501282, 0357674709 *Netherlands* 08002658213 0207084833 *Spain* 900800371 917911823 *Switzerland* 0800700283 0434569404 2. Enter the following access code: 4454974 followed by # *For the Joinme screen share: * 3. Go to http://join.me/rcsbmeeting <http://join.me/rcsbmeeting> Please let me know if you have any further questions. Thank you. -- Brinda Vallat RCSB Center for Integrative Proteomics Research Rutgers, The State University of New Jersey 174 Frelinghuysen Rd Piscataway NJ 08854-8076 Email: brinda.vallat(a)rcsb.org Phone: 848-445-4948 <(848)%20445-4948> -- Brinda Vallat RCSB Center for Integrative Proteomics Research Rutgers, The State University of New Jersey 174 Frelinghuysen Rd Piscataway NJ 08854-8076 Email: brinda.vallat(a)rcsb.org Phone: 848-445-4948

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Reminder: This month's "large group" I/H methods meeting tomorrow
by Brinda Vallat 15 Nov '17

15 Nov '17

Hello Everyone, Based on the doodle poll <https://doodle.com/poll/h6uqs77v4mp7fbgy>, this month's I/H methods meeting is fixed for Thursday, November 16th at 1PM PST, 3PM CST, 4PM EST, 9PM GMT, 10PM CET and 6AM JST (November 17th). The following have confirmed their attendance. *Confirmed attendees* Ben Webb (UCSF, US) Tom Goddard (UCSF, US) Brinda Vallat (RCSB, US) John Westbrook (RCSB, US) Aleks Gutmanas (PDBe, UK) John Berrisford (PDBe, UK) Kumaran Baskaran (BMRB, US) Lukas Honig (TU, Berlin) Gert-Jan Bekker (PDBj, Japan) If anyone else would like to join the meeting, please let me know. I encourage everyone to attend so as to make these meetings more effective. *Meeting agenda* 1. Update on I/H methods project 2. Open discussion *Connection details* We will use Level 3 phone bridge for the voice call and joinme for screen sharing. We will not have any video. *For the Level 3 voice call: * 1. Using a regular phone, call the following number based on which country you are calling from. If the toll-free number does not work for some reason, please use the toll number. Toll-free Toll *US* 8007475150 <(800)%20747-5150> 3032481290 <(303)%20248-1290> *UK* 08004960577 02079040082 *Germany* 08001014525 030700150716 *Japan* 0120925970 0350501282, 0357674709 *Netherlands* 08002658213 0207084833 *Spain* 900800371 917911823 *Switzerland* 0800700283 0434569404 2. Enter the following access code: 4454974 followed by # *For the Joinme screen share: * 3. Go to http://join.me/rcsbmeeting <http://join.me/rcsbmeeting> Please let me know if you have any further questions. Thank you. -- Brinda Vallat RCSB Center for Integrative Proteomics Research Rutgers, The State University of New Jersey 174 Frelinghuysen Rd Piscataway NJ 08854-8076 Email: brinda.vallat(a)rcsb.org Phone: 848-445-4948

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This month's "large group" I/H methods meeting: agenda and connection details
by Brinda Vallat 14 Nov '17

14 Nov '17

Hello Everyone, Based on the doodle poll <https://doodle.com/poll/h6uqs77v4mp7fbgy>, this month's I/H methods meeting is fixed for Thursday, November 16th at 1PM PST, 3PM CST, 4PM EST, 9PM GMT, 10PM CET and 6AM JST (November 17th). The following have confirmed attendance via the doodle poll. *Confirmed attendees* Ben Webb (UCSF, US) Tom Goddard (UCSF, US) Brinda Vallat (RCSB, US) John Westbrook (RCSB, US) Aleks Gutmanas (PDBe, UK) John Berrisford (PDBe, UK) Lukas Honig (TU, Berlin) Gert-Jan Bekker (PDBj, Japan) If anyone else would like to join the meeting, please let me know. I encourage everyone to attend so as to make these meetings more effective. *Meeting agenda* 1. Update on I/H methods project 2. Open discussion *Connection details* We will use Level 3 phone bridge for the voice call and joinme for screen sharing. We will not have any video. *For the Level 3 voice call: * 1. Using a regular phone, call the following toll-free number based on which country you are calling from: *US * 8007475150 *UK* 08004960577 *Germany* 08001014525 *Japan* 0120925970 *Netherlands* 08002658213 *Spain* 900800371 *Switzerland* 0800700283 2. Enter the following access code: 4454974 followed by # *For the Joinme screen share: * 3. Go to http://join.me/rcsbmeeting <http://join.me/rcsbmeeting> Please let me know if you have any further questions. Thank you. -- Brinda Vallat RCSB Center for Integrative Proteomics Research Rutgers, The State University of New Jersey 174 Frelinghuysen Rd Piscataway NJ 08854-8076 Email: brinda.vallat(a)rcsb.org Phone: 848-445-4948 <(848)%20445-4948>

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This month's "large group" integrative/hybrid modeling videoconference
by Ben Webb 10 Nov '17

10 Nov '17

Hi all - we will be having a videoconference for the integrative/hybrid modeling project this month, on Thursday November 16th: https://github.com/ihmwg/IHM-dictionary/wiki/Meetings We will update everyone on our progress on the IHM dictionary, but the primary purpose of this meeting is open discussion - anyone from the group can raise any issues they may be having with the design of the dictionary, deposition of models, and so on. Please fill out the Doodle poll to let us know your availability, so we can schedule the call at a time that most people can make: https://doodle.com/poll/h6uqs77v4mp7fbgy Ben -- ben(a)salilab.org https://salilab.org/~ben/ "It is a capital mistake to theorize before one has data." - Sir Arthur Conan Doyle

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Updates to PDB-Dev
by Brinda Vallat 11 Jul '17

11 Jul '17

Hello Everyone, The PDB-Dev website has been moved to a new URL (https://pdb-dev.wwpdb.org). Please update your bookmarks accordingly. The old URL will automatically redirect to the new one. If you encounter any problems accessing the PDB-Dev website through the new URL, please let me know. Thank you, Brinda -- Brinda Vallat RCSB Center for Integrative Proteomics Research Rutgers, The State University of New Jersey 174 Frelinghuysen Rd Piscataway NJ 08854-8076 Email: brinda.vallat(a)rcsb.org Phone: 848-445-4948

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IHM meeting summary
by Brinda Vallat 12 Jun '17

12 Jun '17

Hello Everyone, Thank you for joining the IHM meeting last Thursday. Please find attached the summary of the meeting. The summary can also be found on the wiki page <https://github.com/ihmwg/IHM-dictionary/wiki/IHM-Meeting-Summary-Jun-8-2017> of the IHM dictionary GitHub site <https://github.com/ihmwg/IHM-dictionary>. Special thanks to Tom Goddard from RBVI (UCSF) for demonstrating the use of ChimeraX to visualize integrative models. Please feel free to reach out to Ben Webb or Tom Goddard or myself if you have any questions regarding the IHM project. The summary has the email ids of all participants and the ihm-repval email list (ihm-repval(a)salilab.org) can also be used to reach out to the entire group. We will schedule the next meeting in a couple of months and will run a doodle poll as usual to fix a convenient time. The weekly IHM meeting is held on Thursdays at 12:00 noon EDT via Skype. If anyone would like to join the coming meetings, please let me know. These meetings are convenient for continuing in-depth discussions on the project. Thank you once again. -- Brinda Vallat RCSB Center for Integrative Proteomics Research Rutgers, The State University of New Jersey 174 Frelinghuysen Rd Piscataway NJ 08854-8076 Email: brinda.vallat(a)rcsb.org Phone: 848-445-4948

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