- Industry - phenix-online.org

Save the Date - Phenix Developers Meeting and Industry Roundtable - 3/16-19
by Ashley Dawn 06 Feb '26

06 Feb '26

Dear Consortium Members, Please save the dates - we are planning the *Spring Phenix Developers Meeting* in Berkeley, CA, on *March 16-19, 2025. * An agenda and Zoom links are forthcoming. You are invited to Developer's talks on Monday and Tuesday, March 16 & 17. We will host an Industry Roundtable discussion on *Thursday, March 19* in the morning (USA Pacific Time). This is a chance to ask questions and discuss any issues directly with the Developers. If you would like to add company members to subscribe to our industry partners listserv, please email industry-join(a)phenix-online.org with “subscribe” (no quotes) as the subject line and nothing in the body. By subscribing, you will receive information about developer meetings, workshops, and industry-focused sessions that happen a few times a year. If you no longer want to receive these emails, you may choose to use "unsubscribe" in the subject line. This is not a discussion listserv. If you have software questions, please email help(a)phenix-online.org. Please let me know if you have questions or if you would like to reserve a spot to attend the meeting in person. Thank you, Ashley Ashley Dawn (she/her/hers) Program Manager, Phenix Industrial Consortium <https://phenix-online.org/> Molecular Biophysics & Integrated Bioimaging (MBIB <https://biosciences.lbl.gov/mbib/>) Lawrence Berkeley Laboratory 510-486-5455

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Workshop talks
by Nigel Moriarty 10 Oct '25

10 Oct '25

Folks The majority of the talk PDF files have been uploaded. Some of the remaining are not well understood in PDF format but I will upload them as they appear in my inbox. Cheers Nigel --- Nigel W. Moriarty Building 91, Molecular Biophysics and Integrated Bioimaging Lawrence Berkeley National Laboratory Berkeley, CA 94720-8235 Email : NWMoriarty(a)LBL.gov Web : CCI.LBL.gov ORCID : orcid.org/0000-0001-8857-9464

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Starting NOW - Industry Session - Sept. 30 - 2025 Fall Phenix Developers Meeting
by Ashley Dawn 30 Sep '25

30 Sep '25

*****STARTING NOW**** The Phenix Developers will host the *Industry Roundtable Discussion TODAY, Tuesday, September 30 starting promptly at 16:00* (GMT+1). This is your chance to ask questions and discuss any issues directly with the Developers. The Zoom information is below. We look forward to having you join the meeting and discussion. Thank you, Ashley ────────── Join Zoom Meeting https://lbnl.zoom.us/j/96952236198?pwd=lW66IyJdGxG9ibElTn5SmIhUwcTAw2.1 Meeting ID: 969 5223 6198 Passcode: 062039 --- One tap mobile +12133388477,,96952236198# US (Los Angeles) +16692192599,,96952236198# US (San Jose) --- Join by SIP • 96952236198(a)zoomcrc.com Join instructions https://lbnl.zoom.us/meetings/96952236198/invitations?signature=t_k5-kmgh7m… Ashley Dawn (she/her/hers) Program Manager, Phenix Industrial Consortium <https://phenix-online.org/> Molecular Biophysics & Integrated Bioimaging (MBIB <https://biosciences.lbl.gov/mbib/>) Lawrence Berkeley Laboratory 510-486-5455

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Industry Session TODAY Sept. 30 - 2025 Fall Phenix Developers Meeting
by Ashley Dawn 30 Sep '25

30 Sep '25

Dear Consortium Members, The *2025 Fall Phenix Developers Meeting * <https://phenix-online.org/workshops/sep-2025-cambridge/index.html>is this week in Cambridge, UK and online. The Phenix Developers will host an *Industry Roundtable Discussion today, Tuesday, September 30 starting promptly at 16:00* (British Summer Time/GMT+1). This is your chance to ask questions and discuss any issues directly with the Developers. The agenda posted on the workshop website <https://phenix-online.org/workshops/sep-2025-cambridge/index.html> shows the complete schedule for those attending in person. *Schedule - Tuesday September 30th* At 16:00 (British Summer Time/GMT+1) a round table conference of developers and industry users to discuss future directions of Phenix. Industry consortium members are encouraged to attend. You may add the industry session to your Google Calendar <https://calendar.google.com/calendar/event?action=TEMPLATE&tmeid=MHMxZWwycj…> The Zoom information is below. We look forward to having you join the meeting and discussion. Thank you, Ashley ────────── Join Zoom Meeting https://lbnl.zoom.us/j/96952236198?pwd=lW66IyJdGxG9ibElTn5SmIhUwcTAw2.1 Meeting ID: 969 5223 6198 Passcode: 062039 --- One tap mobile +12133388477,,96952236198# US (Los Angeles) +16692192599,,96952236198# US (San Jose) --- Join by SIP • 96952236198(a)zoomcrc.com Join instructions https://lbnl.zoom.us/meetings/96952236198/invitations?signature=t_k5-kmgh7m… Ashley Dawn (she/her/hers) Program Manager, Phenix Industrial Consortium <https://phenix-online.org/> Molecular Biophysics & Integrated Bioimaging (MBIB <https://biosciences.lbl.gov/mbib/>) Lawrence Berkeley Laboratory 510-486-5455

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Starting NOW - Developer Talks - Sept. 29 - 2025 Fall Phenix Developers Meeting
by Ashley Dawn 29 Sep '25

29 Sep '25

*****STARTING NOW**** The Phenix Developers will host a series of talks today. Please join Zoom to hear them (link below). *Monday, September 29th* *Speaker* *Time* *Topic* Paul D. Adams 9.00 Introduction Randy Read 9:00 Docking models into cryo-EM data Nigel Moriarty 9:30 Best practices for ligands 10:00 *Morning break* Dorothee Liebschner 10:30 Current status of DiSCaMB integration/Ligand Validation Lukasz Golon 11:00 Fast Quantum Crystallography: Satisfying DiSCaMB's Need for Speed. Vincent Chen 11:30 The Future of MolProbity 12:00 *Lunch* Benjamin Eltzner 13:00 RNAprecis: Using shapes on multiple scales for structure correction Airlie McCoy 13:30 The next generation of Phaser tools Malgorzata Biczysko 14:00 Towards QM electron density in Q|R 14:30 *Afternoon break* Pavel Afonine 15:00 Local Resolution in CryoEM. Modeling keto-enol tautomerization in Phenix Tom Terwilliger 15:30 AI tools for Phenix users and developers Billy Poon 16:00 Phenix updates 17:00 *Finish* * <https://calendar.google.com/calendar/event?action=TEMPLATE&tmeid=MHMxZWwycj…>Join Zoom Meeting:* https://lbnl.zoom.us/j/96952236198?pwd=lW66IyJdGxG9ibElTn5SmIhUwcTAw2.1 Meeting ID: 969 5223 6198 Passcode: 062039 --- One tap mobile +12133388477,,96952236198# US (Los Angeles) +16692192599,,96952236198# US (San Jose) --- Join by SIP • 96952236198(a)zoomcrc.com Join instructions https://lbnl.zoom.us/meetings/96952236198/invitations?signature=t_k5-kmgh7m… Ashley Dawn (she/her/hers) Program Manager, Phenix Industrial Consortium <https://phenix-online.org/> Molecular Biophysics & Integrated Bioimaging (MBIB <https://biosciences.lbl.gov/mbib/>) Lawrence Berkeley Laboratory 510-486-5455 <https://calendar.google.com/calendar/event?action=TEMPLATE&tmeid=MHMxZWwycj…>

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Talks TOMORROW Sept. 29 - 2025 Fall Phenix Developers Meeting - Developer Talks and Industry Session
by Ashley Dawn 28 Sep '25

28 Sep '25

Dear Consortium Members, The *2025 Fall Phenix Developers Meeting * <https://phenix-online.org/workshops/sep-2025-cambridge/index.html>is this week in Cambridge, UK and online. The Phenix Developers will host a series of talks tomorrow, Monday, Sept 29, and they will host an Industry Roundtable Discussion on Tuesday, September 30 starting promptly at 16:00 (British Summer Time/GMT+1). This is your chance to ask questions and discuss any issues directly with the Developers. The agenda posted on the workshop website <https://phenix-online.org/workshops/sep-2025-cambridge/index.html> shows the complete schedule for those attending in person. Here's the finalized schedule of talks: *Schedule - Monday, September 29th* *Speaker* *Time* *Topic* Paul D. Adams 9.00 Introduction Randy Read 9:00 Docking models into cryo-EM data Nigel Moriarty 9:30 Best practices for ligands 10:00 *Morning break* Dorothee Liebschner 10:30 Current status of DiSCaMB integration/Ligand Validation Lukasz Golon 11:00 Fast Quantum Crystallography: Satisfying DiSCaMB's Need for Speed. Vincent Chen 11:30 The Future of MolProbity 12:00 *Lunch* Benjamin Eltzner 13:00 RNAprecis: Using shapes on multiple scales for structure correction Airlie McCoy 13:30 The next generation of Phaser tools Malgorzata Biczysko 14:00 Towards QM electron density in Q|R 14:30 *Afternoon break* Pavel Afonine 15:00 Local Resolution in CryoEM. Modeling keto-enol tautomerization in Phenix Tom Terwilliger 15:30 AI tools for Phenix users and developers Billy Poon 16:00 Phenix updates 17:00 *Finish* You may add the talks to your Google Calendar <https://calendar.google.com/calendar/event?action=TEMPLATE&tmeid=MHMxZWwycj…> *Schedule - Tuesday September 30th* At 16:00 (British Summer Time/GMT+1) a round table conference of developers and industry users to discuss future directions of Phenix. Industry consortium members are encouraged to attend. You may add the industry session to your Google Calendar <https://calendar.google.com/calendar/event?action=TEMPLATE&tmeid=MHMxZWwycj…> The Zoom information is below. We look forward to having you join the meeting and discussion. Thank you, Ashley ────────── Join Zoom Meeting https://lbnl.zoom.us/j/96952236198?pwd=lW66IyJdGxG9ibElTn5SmIhUwcTAw2.1 Meeting ID: 969 5223 6198 Passcode: 062039 --- One tap mobile +12133388477,,96952236198# US (Los Angeles) +16692192599,,96952236198# US (San Jose) --- Join by SIP • 96952236198(a)zoomcrc.com Join instructions https://lbnl.zoom.us/meetings/96952236198/invitations?signature=t_k5-kmgh7m… Ashley Dawn (she/her/hers) Program Manager, Phenix Industrial Consortium <https://phenix-online.org/> Molecular Biophysics & Integrated Bioimaging (MBIB <https://biosciences.lbl.gov/mbib/>) Lawrence Berkeley Laboratory 510-486-5455

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Starts Monday - 2025 Fall Phenix Developers Meeting - Developer Talks and Industry Session
by Ashley Dawn 24 Sep '25

24 Sep '25

Dear Consortium Members, The *2025 Fall Phenix Developers Meeting * <https://phenix-online.org/workshops/sep-2025-cambridge/index.html>is next week *September 29-30, 2025 *in Cambridge, UK and online. The Phenix Developers will host a series of talks on Monday, and they will host an *Industry Roundtable Discussion on Tuesday, September 30 starting promptly at 16:00* (British Summer Time/GMT+1). This is your chance to ask questions and discuss any issues directly with the Developers. The agenda posted on the workshop website <https://phenix-online.org/workshops/sep-2025-cambridge/index.html> shows the complete schedule for those attending in person. Here's the finalized schedule of talks: *Monday 29th September* *Speaker* *Time* *Topic* Paul D. Adams 9.00 Introduction Randy Read 9:00 Docking models into cryo-EM data Nigel Moriarty 9:30 Best practices for ligands 10:00 *Morning break* Dorothee Liebschner 10:30 Current status of DiSCaMB integration/Ligand Validation Lukasz Golon 11:00 Fast Quantum Crystallography: Satisfying DiSCaMB's Need for Speed. Vincent Chen 11:30 The Future of MolProbity 12:00 *Lunch* Benjamin Eltzner 13:00 RNAprecis: Using shapes on multiple scales for structure correction Airlie McCoy 13:30 The next generation of Phaser tools Malgorzata Biczysko 14:00 Towards QM electron density in Q|R 14:30 *Afternoon break* Pavel Afonine 15:00 Local Resolution in CryoEM. Modeling keto-enol tautomerization in Phenix Tom Terwilliger 15:30 AI tools for Phenix users and developers Billy Poon 16:00 Phenix updates 17:00 *Finish* You may add the talks to your Google Calendar <https://calendar.google.com/calendar/event?action=TEMPLATE&tmeid=MHMxZWwycj…> *Tuesday September 30th* 16:00 (British Summer Time/GMT+1) round table conference of developers and industry users to discuss future directions of Phenix. Industry consortium members are encouraged to attend. You may add the industry session to your Google Calendar <https://calendar.google.com/calendar/event?action=TEMPLATE&tmeid=MHMxZWwycj…> The Zoom information is below. We look forward to having you join the meeting and discussion. Thank you, Ashley ────────── Join Zoom Meeting https://lbnl.zoom.us/j/96952236198?pwd=lW66IyJdGxG9ibElTn5SmIhUwcTAw2.1 Meeting ID: 969 5223 6198 Passcode: 062039 --- One tap mobile +12133388477,,96952236198# US (Los Angeles) +16692192599,,96952236198# US (San Jose) --- Join by SIP • 96952236198(a)zoomcrc.com Join instructions https://lbnl.zoom.us/meetings/96952236198/invitations?signature=t_k5-kmgh7m… Ashley Dawn (she/her/hers) Program Manager, Phenix Industrial Consortium <https://phenix-online.org/> Molecular Biophysics & Integrated Bioimaging (MBIB <https://biosciences.lbl.gov/mbib/>) Lawrence Berkeley Laboratory 510-486-5455

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Update: 2025 Autumn Phenix Developers Meeting Sept 29 - Oct 2 (Cambridge, UK)
by Dorothee Liebschner 19 Aug '25

19 Aug '25

Dear Consortium Members, *There are a few updates in the schedule! * The *2025 Autumn Phenix Developers Meeting* will take place *September 29 – October 2, 2025*, in *Cambridge, UK*. The developer talks will be on *Monday September 29*. An *Industry Roundtable discussion will be held on Tuesday September 30 @ 4pm British Summer Time*. The roundtable offers an opportunity to engage directly with the Phenix developers: ask questions, share feedback, and discuss relevant topics. We'll share a detailed agenda for the talks soon. Let me know if you are interested in attending in person. All the best, Dorothee P.S.: This message is sent to our main points of contact. If other colleagues at your organization are interested in attending, please feel free to share this invitation with them. -- Dorothee Liebschner, PhD (she/her) Research Scientist Molecular Biophysics and Integrated Bioimaging Division Lawrence Berkeley National Laboratory 1 Cyclotron Road, M/S 91R0183 Berkeley, CA 94720 Web: https://phenix-online.org

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2025 Autumn Phenix Developers Meeting Sept 29 - Oct 2 (Cambridge, UK)
by Dorothee Liebschner 06 Aug '25

06 Aug '25

Dear Consortium Members, The *2025 Autumn Phenix Developers Meeting* will take place *September 29 – October 2, 2025*, in *Cambridge, UK*. The Phenix team will host a series of developer talks on *Monday and Tuesday (September 29–30)*. An *Industry Roundtable discussion will be held on Wednesday, October 1*. The roundtable offers an opportunity to engage directly with the Phenix developers: ask questions, share feedback, and discuss relevant topics. A detailed agenda for the talks will be shared soon. The event is in person, but the talks and the roundtable will be open for virtual participation. We’ll send details closer to the event. We look forward to having you join the meeting and discussion. All the best, Dorothee P.S.: This message is sent to our main points of contact. If other colleagues at your organization are interested in attending, please feel free to share this invitation with them. -- Dorothee Liebschner, PhD (she/her) Research Scientist Molecular Biophysics and Integrated Bioimaging Division Lawrence Berkeley National Laboratory 1 Cyclotron Road, M/S 91R0183 Berkeley, CA 94720 Web: https://phenix-online.org

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joining the industry mailing list
by Robert Oeffner 28 Jul '25

28 Jul '25

Dear Ashley, Maybe I have dropped out of the industry mailing list as I haven't received notifications about the upcoming Phenix workshop in the Autumn in Cambridge this year. If so, would you be able to add me again? Many thanks, Rob This email and any attachments thereto may contain private, confidential, and privileged material for the sole use of the intended recipient. Any review, copying or distribution of this email (or any attachments thereto) by others is strictly prohibited. If you are not the intended recipient, please delete the original and any copies of this email and any attachments thereto and notify the sender immediately.

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