[Embrio-list] Emergence Newsletter Issue 41, April 17, 2025

Thu Apr 17 08:32:29 EDT 2025

[cid:9a731071-3037-4566-8a04-7bf5d6c01017]
Emergence: A newsletter of discovery, education, and outreach from the EMBRIO Institute

Issue 41: April 17, 2025

DIRECTORS’ NOTE
Plan to join us for the Institute’s next all-hands seminar Monday, April 21st, 3PM EDT with the Mullins lab leading the presentation for Thrust 3A. Following in the seminar schedule on May 5th a focus on Institute Competencies and their implementation as part of Thrust 4 research and practice will be led by the Gardner lab. We will wrap up the spring semester seminar series on May 19th with Thrust 4 research led by the Magana lab.  If you missed any previous seminars you can find the recording on our shared Box drive in the All-Hands Meetings Recordings folder<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fapp.box.com%2Fs%2F48uqgrgoy5ygp1tsj2l3lafoy8ubgkop&data=05%7C02%7Cembrio-list%40ecn.purdue.edu%7C2e417dd16f424950ee8c08dd7dabeb63%7C4130bd397c53419cb1e58758d6d63f21%7C0%7C0%7C638804900144233315%7CUnknown%7CTWFpbGZsb3d8eyJFbXB0eU1hcGkiOnRydWUsIlYiOiIwLjAuMDAwMCIsIlAiOiJXaW4zMiIsIkFOIjoiTWFpbCIsIldUIjoyfQ%3D%3D%7C0%7C%7C%7C&sdata=1rJ%2FfqK71QML2TYCM37bE5qlM1SAG1aQ5hrabgqbvLI%3D&reserved=0>.

All EMBRIO members have been sent an RSVP survey by email for input on this year’s summer school and annual meeting, along with a quick self-assessment of the Institute’s twelve competency areas. Please complete this survey asap so that we can best plan for an impactful week June 9-13 for the EMBRIO Summer School (Mon-Wed) and Annual Meeting (Thurs-Fri) hosted at Purdue University.

With NSF reporting season and progress updates in full swing, thanks to all the EMBRIO investigators and labs for submitting your progress reports and budget requests this week!

The Institute participated in an engaging day of research exchange during the Joint Quantitative Biology Symposium: “Harnessing Complexity, Revealing Simplicity”<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fsites.nd.edu%2Fq-bio2025%2F&data=05%7C02%7Cembrio-list%40ecn.purdue.edu%7C2e417dd16f424950ee8c08dd7dabeb63%7C4130bd397c53419cb1e58758d6d63f21%7C0%7C0%7C638804900144247798%7CUnknown%7CTWFpbGZsb3d8eyJFbXB0eU1hcGkiOnRydWUsIlYiOiIwLjAuMDAwMCIsIlAiOiJXaW4zMiIsIkFOIjoiTWFpbCIsIldUIjoyfQ%3D%3D%7C0%7C%7C%7C&sdata=AQEBoWXQ9N%2FspqW3lmmC6lZagUJznLPn416olCKXJEI%3D&reserved=0> last Friday, April 11th hosted by University of Notre Dame. EMBRIO researchers presenting talks included Co-Directors David Umulis and Jeremy Zartman, along with Research Scientists Linlin Li, Nilay Kumar, and Weiwei Zhang. EMBRIO poster presenters included David Gazzo, Mayesha Mim, Maria Unger, Stephen Cini, and Brent Ladd. Also participating throughout the day Elsje Pienaar and Himabindu Kovvali. The symposium was planned and hosted by the quantitative biology student committee – including David Gazzo and Mayesha Mim from the Zartman Lab. (View photos on our LinkedIn posts: here<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fwww.linkedin.com%2Ffeed%2Fupdate%2Furn%3Ali%3Aactivity%3A7316540173142368257&data=05%7C02%7Cembrio-list%40ecn.purdue.edu%7C2e417dd16f424950ee8c08dd7dabeb63%7C4130bd397c53419cb1e58758d6d63f21%7C0%7C0%7C638804900144256060%7CUnknown%7CTWFpbGZsb3d8eyJFbXB0eU1hcGkiOnRydWUsIlYiOiIwLjAuMDAwMCIsIlAiOiJXaW4zMiIsIkFOIjoiTWFpbCIsIldUIjoyfQ%3D%3D%7C0%7C%7C%7C&sdata=EAKBCaIuDzyLJ0Za6eb3%2FZqR6wrpzVJ%2BrlIQEAkP9wk%3D&reserved=0> and here<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fwww.linkedin.com%2Ffeed%2Fupdate%2Furn%3Ali%3Aactivity%3A7318606738494996482&data=05%7C02%7Cembrio-list%40ecn.purdue.edu%7C2e417dd16f424950ee8c08dd7dabeb63%7C4130bd397c53419cb1e58758d6d63f21%7C0%7C0%7C638804900144264556%7CUnknown%7CTWFpbGZsb3d8eyJFbXB0eU1hcGkiOnRydWUsIlYiOiIwLjAuMDAwMCIsIlAiOiJXaW4zMiIsIkFOIjoiTWFpbCIsIldUIjoyfQ%3D%3D%7C0%7C%7C%7C&sdata=SuzW8%2BnKm1nZkdHvkVbeU7CQs85w5ZRkba7%2F9TMvSgI%3D&reserved=0>).

Other Opportunities and Workshops for EMBRIO Members
2025 CompuCell3D Virtual Tissue Modeling Workshop and Hackathon (workshop flyer attached)

Our partners at I.U. in the Glazier Lab and Biocomplexity Institute have announced the 2025 CompuCell3D Virtual Tissue Modeling Workshop and Hackathon at Indiana University, Bloomington, July 28th to August 10th, 2025. Learn to model your biological system of interest with one-on-one help. Week 1 will cover CC3D basics. Week 2 will cover advanced topics in CC3D, followed by a 2-day model-building hackathon. Physicists, biologists, computer scientists, and modelers team up to build research-grade models of biological systems. All experience levels are welcome. For more information, email compucell3d.iu at gmail.com<mailto:compucell3d.iu at gmail.com> or visit www.compucell3d.org/Workshop25<https://nam04.safelinks.protection.outlook.com/?url=http%3A%2F%2Fwww.compucell3d.org%2FWorkshop25&data=05%7C02%7Cembrio-list%40ecn.purdue.edu%7C2e417dd16f424950ee8c08dd7dabeb63%7C4130bd397c53419cb1e58758d6d63f21%7C0%7C0%7C638804900144272935%7CUnknown%7CTWFpbGZsb3d8eyJFbXB0eU1hcGkiOnRydWUsIlYiOiIwLjAuMDAwMCIsIlAiOiJXaW4zMiIsIkFOIjoiTWFpbCIsIldUIjoyfQ%3D%3D%7C0%7C%7C%7C&sdata=waflngoof6CsLloOXg9LMMZ%2BU6KRH58OBQOsU%2FouaaY%3D&reserved=0>. Register at: www.tinyurl.com/CC3D2025<https://nam04.safelinks.protection.outlook.com/?url=http%3A%2F%2Fwww.tinyurl.com%2FCC3D2025&data=05%7C02%7Cembrio-list%40ecn.purdue.edu%7C2e417dd16f424950ee8c08dd7dabeb63%7C4130bd397c53419cb1e58758d6d63f21%7C0%7C0%7C638804900144280992%7CUnknown%7CTWFpbGZsb3d8eyJFbXB0eU1hcGkiOnRydWUsIlYiOiIwLjAuMDAwMCIsIlAiOiJXaW4zMiIsIkFOIjoiTWFpbCIsIldUIjoyfQ%3D%3D%7C0%7C%7C%7C&sdata=ywHKzorgdSNLcYTJ7JRKiz12DQ3qbt2ExHX09PmsjOY%3D&reserved=0>.

Sloan Mentorship Community of Practice Workshop: Rubrics for Holistic Competitive Decisions (flyer attached) will be held April 22nd, with leadership from EMBRIO Investigator Stephanie Gardner. Please consider registering in advance for this meeting: https://purdue-edu.zoom.us/meeting/register/UvqM_3QWTdacKoLsbGk0Sg   After registering, you will receive a confirmation email containing information about joining the meeting.

David, Jeremy, Chris, Anjali, Janice, Alejandra, Elsje, and Brent

QUICK LINKS

All-Hands Meetings Recordings<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fapp.box.com%2Fs%2F48uqgrgoy5ygp1tsj2l3lafoy8ubgkop&data=05%7C02%7Cembrio-list%40ecn.purdue.edu%7C2e417dd16f424950ee8c08dd7dabeb63%7C4130bd397c53419cb1e58758d6d63f21%7C0%7C0%7C638804900144289008%7CUnknown%7CTWFpbGZsb3d8eyJFbXB0eU1hcGkiOnRydWUsIlYiOiIwLjAuMDAwMCIsIlAiOiJXaW4zMiIsIkFOIjoiTWFpbCIsIldUIjoyfQ%3D%3D%7C0%7C%7C%7C&sdata=Bjt85mPqI2GE8UZmBqXt1HYg%2B5nXwESQAkof4Q0znsU%3D&reserved=0>

Materials from Summer School & Annual Retreat<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fapp.box.com%2Fs%2Fn0zors2bxkvmlqvv3uf0ng7fxd957atw&data=05%7C02%7Cembrio-list%40ecn.purdue.edu%7C2e417dd16f424950ee8c08dd7dabeb63%7C4130bd397c53419cb1e58758d6d63f21%7C0%7C0%7C638804900144297053%7CUnknown%7CTWFpbGZsb3d8eyJFbXB0eU1hcGkiOnRydWUsIlYiOiIwLjAuMDAwMCIsIlAiOiJXaW4zMiIsIkFOIjoiTWFpbCIsIldUIjoyfQ%3D%3D%7C0%7C%7C%7C&sdata=5uRNLA2rAg2MfUDU5arKMDGt4ruHglq0ZcCjg5uE3f8%3D&reserved=0>

Institute Skills and Strengths Sharing Platform<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fdocs.google.com%2Fpresentation%2Fd%2F1ISHO5p5QXI67UlXJyulCzOtxPeZOiPAUYvpGJqJz4YE%2Fedit%3Fusp%3Dsharing&data=05%7C02%7Cembrio-list%40ecn.purdue.edu%7C2e417dd16f424950ee8c08dd7dabeb63%7C4130bd397c53419cb1e58758d6d63f21%7C0%7C0%7C638804900144305047%7CUnknown%7CTWFpbGZsb3d8eyJFbXB0eU1hcGkiOnRydWUsIlYiOiIwLjAuMDAwMCIsIlAiOiJXaW4zMiIsIkFOIjoiTWFpbCIsIldUIjoyfQ%3D%3D%7C0%7C%7C%7C&sdata=8pORkI5tm4HWePxgexnA8xuswXBF2QG%2B%2B36JHaVEN7A%3D&reserved=0>

Orientation to EMBRIO<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fapp.box.com%2Fs%2Fom3brzae0z3o9s3c7x2fhxw6n2h1ipjt&data=05%7C02%7Cembrio-list%40ecn.purdue.edu%7C2e417dd16f424950ee8c08dd7dabeb63%7C4130bd397c53419cb1e58758d6d63f21%7C0%7C0%7C638804900144313069%7CUnknown%7CTWFpbGZsb3d8eyJFbXB0eU1hcGkiOnRydWUsIlYiOiIwLjAuMDAwMCIsIlAiOiJXaW4zMiIsIkFOIjoiTWFpbCIsIldUIjoyfQ%3D%3D%7C0%7C%7C%7C&sdata=UFx%2B57CbSc52TRGJUb01C53Dpa17TAJ2EAuiCriKR0U%3D&reserved=0>

Sign the Data Sharing Policy Agreement<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fpurdue.ca1.qualtrics.com%2Fjfe%2Fform%2FSV_25Zs5169Rs1MCNg&data=05%7C02%7Cembrio-list%40ecn.purdue.edu%7C2e417dd16f424950ee8c08dd7dabeb63%7C4130bd397c53419cb1e58758d6d63f21%7C0%7C0%7C638804900144321059%7CUnknown%7CTWFpbGZsb3d8eyJFbXB0eU1hcGkiOnRydWUsIlYiOiIwLjAuMDAwMCIsIlAiOiJXaW4zMiIsIkFOIjoiTWFpbCIsIldUIjoyfQ%3D%3D%7C0%7C%7C%7C&sdata=xVf3A7Kum%2B2B6ENXTunxXapu4wBzQOnQZ%2BW8VpCOYRQ%3D&reserved=0>

EMBRIO Personnel List<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fapp.box.com%2Fs%2Fh6eez5tmit1m3k9oih03phnbm0pb5iv4&data=05%7C02%7Cembrio-list%40ecn.purdue.edu%7C2e417dd16f424950ee8c08dd7dabeb63%7C4130bd397c53419cb1e58758d6d63f21%7C0%7C0%7C638804900144329130%7CUnknown%7CTWFpbGZsb3d8eyJFbXB0eU1hcGkiOnRydWUsIlYiOiIwLjAuMDAwMCIsIlAiOiJXaW4zMiIsIkFOIjoiTWFpbCIsIldUIjoyfQ%3D%3D%7C0%7C%7C%7C&sdata=w86%2FA2bfPmiv8UTZshX5Hfrs7u6JKlfArHEB6atUShM%3D&reserved=0>

Hot Off the Press: New & Recent EMBRIO Journal Papers and Preprints
Let us know about new papers you want to highlight for the EMBRIO community!
Check out our Google Scholar Page<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fscholar.google.com%2Fcitations%3Fhl%3Den%26view_op%3Dlist_works%26authuser%3D1%26gmla%3DAILGF5XygCQiioPdGT3HVqffFxVVw0FQs-FP9VhvTFEGQ-gkUpCpbjphO-RSK4hWWYDdhJGiTmbxfTg6qFY3dnMA3hC8%26user%3D-gQWba8AAAAJ&data=05%7C02%7Cembrio-list%40ecn.purdue.edu%7C2e417dd16f424950ee8c08dd7dabeb63%7C4130bd397c53419cb1e58758d6d63f21%7C0%7C0%7C638804900144337135%7CUnknown%7CTWFpbGZsb3d8eyJFbXB0eU1hcGkiOnRydWUsIlYiOiIwLjAuMDAwMCIsIlAiOiJXaW4zMiIsIkFOIjoiTWFpbCIsIldUIjoyfQ%3D%3D%7C0%7C%7C%7C&sdata=l2dPTtJDrzAKE3JwINNLJEwNji5SjZ7T3f8LyfQY5DI%3D&reserved=0>
See a more complete list of Scholarly Products produced under support of EMBRIO Institute<https://www.purdue.edu/research/embrio/research/scholarly-products.php>

EMBRIO currently has 32 published peer-reviewed journal papers, and 19 pre-print or in submission phase manuscripts, with more on the way!

REMINDER: EMBRIO Acknowledgement for Scholarly Papers and Posters.
For EMBRIO related research publications, NSF requires acknowledgement of EMBRIO NSF funding for our Institute to claim the work in our reporting back to NSF. Please include the following acknowledgement in your journal and conference papers and posters: “This work is based upon efforts supported by EMBRIO Institute, contract #2120200, a National Science Foundation (NSF) Biology Integration Institute.”

UPCOMING DEADLINES, IMPORTANT DATES, OPPORTUNITIES & INFO

EMBRIO All-hands Meeting Schedule, Monday’s 3-4pm ET.
Zoom Link: https://purdue-edu.zoom.us/j/97946412458?pwd=YUurFKck0n1am07eA7b0O0TVKsVwpC.1&from=addon<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fpurdue-edu.zoom.us%2Fj%2F97946412458%3Fpwd%3DYUurFKck0n1am07eA7b0O0TVKsVwpC.1%26from%3Daddon&data=05%7C02%7Cembrio-list%40ecn.purdue.edu%7C2e417dd16f424950ee8c08dd7dabeb63%7C4130bd397c53419cb1e58758d6d63f21%7C0%7C0%7C638804900144345320%7CUnknown%7CTWFpbGZsb3d8eyJFbXB0eU1hcGkiOnRydWUsIlYiOiIwLjAuMDAwMCIsIlAiOiJXaW4zMiIsIkFOIjoiTWFpbCIsIldUIjoyfQ%3D%3D%7C0%7C%7C%7C&sdata=tziYMjaDfuGFO%2Bjxa8mPxQDNzGzSdTlS%2Fdhe1QxkK9A%3D&reserved=0>

Previous All Hands Recordings<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fapp.box.com%2Fs%2F48uqgrgoy5ygp1tsj2l3lafoy8ubgkop&data=05%7C02%7Cembrio-list%40ecn.purdue.edu%7C2e417dd16f424950ee8c08dd7dabeb63%7C4130bd397c53419cb1e58758d6d63f21%7C0%7C0%7C638804900144353297%7CUnknown%7CTWFpbGZsb3d8eyJFbXB0eU1hcGkiOnRydWUsIlYiOiIwLjAuMDAwMCIsIlAiOiJXaW4zMiIsIkFOIjoiTWFpbCIsIldUIjoyfQ%3D%3D%7C0%7C%7C%7C&sdata=fM7vTwjNk74iXLrGaJMRzna4uR%2FYoFHW0HKwUC6smXc%3D&reserved=0>

Trainees and collaborators encouraged to co-present during the Thrust seminars this semester.

Month
Day
Spring Semester 2025
Jan
13
 Denise Driscoll, Purdue (ABIDES Invited Scholar)
Jan
27
Scott Howard, Notre Dame
Feb
10
Krishna Jayant Lab; Thrust 1A
Feb
24
Janice Evans Lab; Thrust 1B
Mar
10
Qing Deng Lab; Thrust 3B
Mar
24
Jeremiah Zartman Lab; Thrust 2B
Apr
7
Chris Staiger and Anjali Iyer-Pascuzzi Labs; Thrust 2A
Apr
21
Mary Mullins Lab; Thrust 3A
May
5
Stephanie Gardner Lab; Thrust 4
May
19
Ale Magana Lab; Thrust 4

April 22, 2025. Sloan Mentorship Community of Practice Virtual Workshop: Rubrics for Holistic Competitive Decisions, with leadership from EMBRIO Investigator Stephanie Gardner. Please see the attached flyer for details and QR code for the zoom link, but consider registering in advance for this meeting: https://purdue-edu.zoom.us/meeting/register/UvqM_3QWTdacKoLsbGk0Sg   After registering, you will receive a confirmation email containing information about joining the meeting.

June 9-13, 2025. EMBRIO Summer School and Annual Meeting, Purdue University. Additional Details forthcoming.
July 9-13, 2025. International Zebrafish Conference<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fwww.izfs.org%2Feducation%2F19izfc&data=05%7C02%7Cembrio-list%40ecn.purdue.edu%7C2e417dd16f424950ee8c08dd7dabeb63%7C4130bd397c53419cb1e58758d6d63f21%7C0%7C0%7C638804900144361243%7CUnknown%7CTWFpbGZsb3d8eyJFbXB0eU1hcGkiOnRydWUsIlYiOiIwLjAuMDAwMCIsIlAiOiJXaW4zMiIsIkFOIjoiTWFpbCIsIldUIjoyfQ%3D%3D%7C0%7C%7C%7C&sdata=6NTV46ZbNFe7tvFcZw8zix%2B1ltJordSNEp6U9xosgTY%3D&reserved=0>. Madison, WI, USA.

July 28 – August 10, 2025. CompuCell3D Virtual Tissue Modeling Workshop and Hackathon (workshop flyer attached)

Our partners at I.U. in the Glazier Lab and Biocomplexity Institute have announced the 2025 CompuCell3D Virtual Tissue Modeling Workshop and Hackathon at Indiana University, Bloomington, July 28th to August 10th, 2025. Learn to model your biological system of interest with one-on-one help. Week 1 will cover CC3D basics. Week 2 will cover advanced topics in CC3D, followed by a 2-day model-building hackathon. Physicists, biologists, computer scientists, and modelers team up to build research-grade models of biological systems. All experience levels are welcome. For more information, email compucell3d.iu at gmail.com<mailto:compucell3d.iu at gmail.com> or visit www.compucell3d.org/Workshop25<https://nam04.safelinks.protection.outlook.com/?url=http%3A%2F%2Fwww.compucell3d.org%2FWorkshop25&data=05%7C02%7Cembrio-list%40ecn.purdue.edu%7C2e417dd16f424950ee8c08dd7dabeb63%7C4130bd397c53419cb1e58758d6d63f21%7C0%7C0%7C638804900144369194%7CUnknown%7CTWFpbGZsb3d8eyJFbXB0eU1hcGkiOnRydWUsIlYiOiIwLjAuMDAwMCIsIlAiOiJXaW4zMiIsIkFOIjoiTWFpbCIsIldUIjoyfQ%3D%3D%7C0%7C%7C%7C&sdata=pERZY%2BTyYAbRuOSMCAEc9wGw0Zn2NBjAcXmIg3homcU%3D&reserved=0>. Register at: www.tinyurl.com/CC3D2025<https://nam04.safelinks.protection.outlook.com/?url=http%3A%2F%2Fwww.tinyurl.com%2FCC3D2025&data=05%7C02%7Cembrio-list%40ecn.purdue.edu%7C2e417dd16f424950ee8c08dd7dabeb63%7C4130bd397c53419cb1e58758d6d63f21%7C0%7C0%7C638804900144377153%7CUnknown%7CTWFpbGZsb3d8eyJFbXB0eU1hcGkiOnRydWUsIlYiOiIwLjAuMDAwMCIsIlAiOiJXaW4zMiIsIkFOIjoiTWFpbCIsIldUIjoyfQ%3D%3D%7C0%7C%7C%7C&sdata=Ol4bIaz3JOJOMr1RCjnWydUueFKvr80MH8ZzuNYeZUg%3D&reserved=0>.

Awards
Congrats to EMBRIO members receiving faculty promotions (Purdue University): Deva Chan, associate professor of biomedical engineering, Xiaoqian (Joy) Wang, associate professor of electrical and computer engineering, and Jacqueline Linnes, professor of biomedical engineering

New Lab Members?
Did you recently have new students or staff members join your EMBRIO projects? We want to add them to the listserv, Box account, demographics survey, and Personnel List for ensuring their inclusion in communications and participation. If they are not already on our Personnel spreadsheet<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fapp.box.com%2Fs%2Fh6eez5tmit1m3k9oih03phnbm0pb5iv4&data=05%7C02%7Cembrio-list%40ecn.purdue.edu%7C2e417dd16f424950ee8c08dd7dabeb63%7C4130bd397c53419cb1e58758d6d63f21%7C0%7C0%7C638804900144384960%7CUnknown%7CTWFpbGZsb3d8eyJFbXB0eU1hcGkiOnRydWUsIlYiOiIwLjAuMDAwMCIsIlAiOiJXaW4zMiIsIkFOIjoiTWFpbCIsIldUIjoyfQ%3D%3D%7C0%7C%7C%7C&sdata=2MM8ZizBAviDcpLvJ5EXIX2D%2F%2FSEIEhiqd0ywDxGHdY%3D&reserved=0> , or they have graduated, let Brent know their names and email contacts (laddb at purdue.edu<mailto:laddb at purdue.edu> )

Brent T. Ladd, Senior Research Program Manager, EMBRIO Institute<https://www.purdue.edu/research/embrio/>
Weldon School of Biomedical Engineering, Purdue University
Office: Hall for Discovery Learning and Research, Ste. 203
207 S. Martin Jischke Drive
West Lafayette, IN 47907
laddb at purdue.edu

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