February 2025 - Embrio-list

Invitation to the Quantitative Biology Symposium – Joint Event with EMBRIO
by David Gazzo 28 Feb '25

28 Feb '25

Dear EMBRIO Members, On behalf of the *Q-Bio@ND* community, we are excited to invite you to the upcoming *Quantitative Biology Symposium*, a joint event with *EMBRIO*, taking place on *Friday, April 11, 2025*, on *Notre Dame's Campus* in the Carey Auditorium & the Jordan Hall of Science, from *8:30 AM to 7:00 PM*. This full-day symposium offers a valuable opportunity to connect *ND* and *EMBRIO researchers*, exchange insights, and foster collaborations in *quantitative and computational biology*. The event will feature engaging research discussions, networking opportunities, and complimentary meals throughout the day. *Event Highlights:* - *Opening remarks* by *Dean Santiago Schnell <https://schnell-lab.nd.edu/>* - *Research talks* by *ND and EMBRIO/Purdue faculty* - *Trainee short talks* featuring research from graduate students, postdocs, and research scientists - *Poster presentation session* (open to all research topics—postdocs, graduate, and undergraduate students encouraged to participate!) - *Informal networking sessions* to build connections within and across research communities We’d love to have you join us! If you’re interested, please *RSVP here <https://docs.google.com/forms/d/e/1FAIpQLSd22Fw8gUkR3MUWZeWxfAQlIGTHoVxQZoA…>* For additional details, visit *qbio.nd.edu <http://qbio.nd.edu> for event details <https://qbio.nd.edu/events/2025/04/11/q-bio-nd-embrio-joint-symposium/>* or feel free to reach out to *sraha(a)nd.edu* or *dgazzo(a)nd.edu* with any questions. Looking forward to a day of exciting discussions and collaboration! Cheers, David *Additional Gatherings* On the evening of *Thursday, April 10*, we are tentatively planning to host an *informal dinner gathering* for *EMBRIO investigators and key personnel*, with further details to be shared closer to the event. For trainees arriving the night before, we will also hold an informal gathering option as well! [image: image.png] Full Links RSVP: https://docs.google.com/forms/d/e/1FAIpQLSd22Fw8gUkR3MUWZeWxfAQlIGTHoVxQZoA… Event Details: https://qbio.nd.edu/events/2025/04/11/q-bio-nd-embrio-joint-symposium/ -- David Gazzo University of Notre Dame Graduate Student Researcher | Zartman Lab <http://sites.nd.edu/zartmanlab/> Bioengineering Graduate Program <https://bioengineering.nd.edu/> Aerospace and Mechanical Engineering <https://ame.nd.edu/> Chemical and Biomolecular Engineering <https://cbe.nd.edu/>

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EMBRIO All-Hands Seminar Today 3pm Evans and Kim Labs Present Thrust 1B Updates
by Ladd, Brent Thomas 24 Feb '25

24 Feb '25

Dear EMBRIOphytes, Plan to join us for the Institute’s all-hands seminar this afternoon at 3PM ET with Thrust 1B collaborative project presented by Janice Evan’s lab (Zachery Tawfiq Kyner) and Taeyoon Kim's lab (Jeffery Coulter) . The zoom link for all seminars this spring semester: https://purdue-edu.zoom.us/j/97946412458?pwd=YUurFKck0n1am07eA7b0O0TVKsVwpC…<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fpurdue-ed…> If you missed any previous seminars, you may find the recordings on our shared Box drive in the All-Hands Meetings Recordings folder<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fapp.box.c…>. The upcoming Thrust level seminar schedule is below. See you all this afternoon! Brent 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…<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fpurdue-ed…> Previous All Hands Recordings<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fapp.box.c…> 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 + Taeyoon Kim Labs; Thrust 1B Mar 10 Chris Staiger and Anjali Iyer-Pascuzzi Labs; Thrust 2A Mar 24 Jeremiah Zartman Lab; Thrust 2B Apr 7 Qing Deng Lab; Thrust 3B Apr 21 Mary Mullins Lab; Thrust 3A May 5 Stephanie Gardner Lab; Thrust 4 May 19 Ale Magana Lab; Thrust 4 March 26-28, 2025. Multicellular Engineered Living Systems (M-CELS) Symposium 2025. Organizers invite you to participate in the “M-CELS: Advances in Basic Research and Translational Opportunities<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Furldefens…>” symposium, which will be held on March 26-28, 2025, at the OMNI Hilton Head Resort in South Carolina, USA. April 11, 2025. Q-Bio Symposium, University of Notre Dame. Registration, Speakers, Poster Session Details forthcoming. May 12-16, 2025 Cytoskeleton Modeling Workshop, NC State. For more details and to register, please visit the workshop website: https://cytosimworkshop.wordpress.ncsu.edu<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fcytosimwo…> Registration Deadline: March 30, 2025 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.…>. Madison, WI, USA. 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(a)purdue.edu

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Emergence Newsletter Issue 39: Events, Dates, New Publications and more...
by Ladd, Brent Thomas 20 Feb '25

20 Feb '25

[cid:47818416-c9cb-49e7-ad46-697a255f398b] Emergence: A newsletter of discovery, education, and outreach from the EMBRIO Institute Issue 39: February 20, 2025 DIRECTORS’ NOTE Plan to join us for the Institute’s all-hands seminar this coming Monday, February 24th, 3PM ET with Janice Evan’s lab leading the presentation for Thrust 1B. 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.c…>. The upcoming Thrust level seminar schedule is below. Please hold on your calendars (calendar invites were sent today) the week of June 9-13 for the annual EMBRIO Summer School (Mon-Wed) and Annual Meeting (Thurs-Fri). Due to several research conferences and schedule conflicts for June and July, this is the best week available. Stay tuned for more details. An exciting event that EMBRIO is participating in will be the Q-Bio Symposium slated for Friday, April 11th planned and hosted by the quantitative biology student committee at the University of Notre Dame, in South Bend, Indiana, including trainees in the Zartman lab. EMBRIO researchers are being invited to present research talks, and a poster session will be held. EMBRIO trainees and collaborators are encouraged to submit and present a poster. Additional details on speakers, posters, registration will be forthcoming. As a result of changes to the NSF BII program in 2024, EMBRIO placed considerable focus the last six months on unifying our collective progress and expertise into an innovative vision for the future of the Institute. The near-term outcome of this effort resulted in successfully submitting a new funding proposal to NSF this week. Although uncertainties abound at the federal level, we will stay in communication with NSF as the review process unfolds. A huge thank you to Jeremy Zartman for his tireless commitment leading the writing effort. As Institute Co-Director with David Umulis, along with the core writers and all who provided input, reviews and feedback, we were able to shape our collective expertise into an innovative vision for the future of the Institute. This would not have been possible without you, the EMBRIO community of investigators, researchers, and trainees, who have collaborated and learned from one another to build a solid foundation of research and knowledge in these first 3.5 years. Continuing with those thoughts, congrats to all who have submitted journal manuscripts for review and/or as preprints and have published EMBRIO research this winter (~ the last 4+ months). Check out the latest EMBRIO research findings from these Institute labs in the “Hot of the Press Publications & Preprints” section below: Glazier, Iyer-Pascuzzi, Jayant, Kim, Kinzer-Ursem, Mullins, Pienaar, Staiger, Umulis, and Zartman. Please let Brent know (laddb(a)purdue.edu<mailto:laddb@purdue.edu>) if we’ve missed a recent publication, preprint, or submission. Trainees and Research Staff: stay tuned for details on an EMBRIO Best Manuscript Competition. Congratulations to Dr. Shulan Xiao on successfully defending her Ph.D. dissertation earlier this month! Shulan’s research in the Jayant lab, along with collaborating in Thrust 1, led to her work being published in Cell Reports. You can check out that paper here: https://doi.org/10.1016/j.celrep.2024.114413<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fdoi.org%2…> A last reminder to EMBRIO investigators at Purdue if you haven’t yet posted your summer intern research projects in SURF, please do so. EMBRIO will cover the faculty portion of the stipend and housing agreement. The SURF program provides an 11-week on campus research experience. Get your project posted now for consideration (details and links below). EMBRIO members check out these conferences in 2025: Multicellular Engineered Living Systems (M-CELS) Symposium 2025. Organizers invite you to participate in the “M-CELS: Advances in Basic Research and Translational Opportunities<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Furldefens…>” symposium, which will be held on March 26-28, 2025, at the OMNI Hilton Head Resort in South Carolina, USA. July 9-13, 2025 the International Zebrafish Conference<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fwww.izfs.…> will be held in Madison, WI, with potential for an EMBRIO Workshop to be hosted there – stay tuned! 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.c…> Materials from Summer School & Annual Retreat<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fapp.box.c…> Institute Skills and Strengths Sharing Platform<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fdocs.goog…> Orientation to EMBRIO<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fapp.box.c…> Sign the Data Sharing Policy Agreement<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fpurdue.ca…> EMBRIO Personnel List<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fapp.box.c…> 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.g…> See a more complete list of Scholarly Products produced under support of EMBRIO Institute<https://www.purdue.edu/research/embrio/research/scholarly-products.php> Ding, Shihang, Pei-En Chou, Shinji Deguchi, and Taeyoon Kim. 2025. “Impacts of Structural Properties of Myosin II Filaments on Force Generation,” eLife, February 7, 2025 reviewed preprint. https://doi.org/10.7554/elife.105236.1<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fdoi.org%2…> . Gazzo, D., T.L. Kinzer-Ursem, and J.J. Zartman. 2024. “Proteins clump: Mechanics and transport during neurodegeneration.” Biophysical Journal, 123,1-3. https://doi.org/10.1016/j.bpj.2024.06.004<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fdoi.org%2…> . Gazzo, David V., and Jeremiah J. Zartman. 2025. “Calcium Imaging in Drosophila.” In Calcium Signaling: Methods and Protocols, edited by Caroline M. Gorvin, 257–71. New York, NY: Springer US. https://doi.org/10.1007/978-1-0716-4164-4_19. Hiles, Rachel, Abigail Rogers, Namrata Jaiswal, Weiwei Zhang, Jules Butchacas, Marcus V. Merfa, Taylor Klass, et al. 2024. “A Ralstonia Solanacearum Type III Effector Alters the Actin and Microtubule Cytoskeleton to Promote Bacterial Virulence in Plants.” PLOS Pathogens 20 (12): e1012814. https://doi.org/10.1371/journal.ppat.1012814<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fdoi.org%2…> . Khan, Hammad F., Sayan Dutta, Alicia N. Scott, Shulan Xiao, Saumitra Yadav, Xiaoling Chen, Uma K. Aryal, Tamara L. Kinzer-Ursem, Jean-Christophe Rochet, and Krishna Jayant. 2024. “Site-Specific Seeding of Lewy Pathology Induces Distinct Pre-Motor Cellular and Dendritic Vulnerabilities in the Cortex.” Nature Communications 15 (1): 10775. https://doi.org/10.1038/s41467-024-54945-0<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fdoi.org%2…> . Kim, June Hyung, and Taeyoon Kim. 2024. “The Mechanism of Dynamic Steady States in Lamellipodia.” bioRxiv, January, 2024.11.18.62420. https://doi.org/10.1101/2024.11.18.624201<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fdoi.org%2…> . Matin, Meisam Habibi, Shulan Xiao, and Krishna Jayant. 2024. “Mild Focal Cooling Selectively Impacts Computations in Dendritic Trees.” bioRxiv, January, 2024.11.02.621672. https://doi.org/10.1101/2024.11.02.621672<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fdoi.org%2…> . Minsuk, Sharon B., T. J. Sego, David M. Umulis, Mary C. Mullins, and James A. Glazier. 2025. “Modeling Epithelial Morphogenesis and Cell Rearrangement during Zebrafish Epiboly: Tissue Deformation, Cell-Cell Coupling, and the Mechanical Response to Stress.” bioRxiv, January, 2025.02.12.637977. https://doi.org/10.1101/2025.02.12.637977<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fdoi.org%2…> . Ogawa, S.T., W. ZhangP, C.J. Staiger, and S.A. Kessler.* 202X. MLO-mediated Ca2+ influx regulates root hair tip growth in Arabidopsis. New Phytol. Submitted 01-28-25. Rabbi, Md Foysal, Gijsje H. Koenderink, Yuval Mulla, and Taeyoon Kim. 2025. “Fine-Tuning of Material Properties via Catch Bonds.” bioRxiv, January, 2025.01.09.632258. https://doi.org/10.1101/2025.01.09.632258<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fdoi.org%2…> . Slater, Brandon, Alfredo Sciortino, Andreas R. Bausch, and Taeyoon Kim. 2024. “Cluster Formation and Phase Separation Driven by Mobile Myosin Motors in the Motility Assay.” bioRxiv, January, 2024.11.30.626189. https://doi.org/10.1101/2024.11.30.626189<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fdoi.org%2…> . Xu, Liyuan, Weiwei Zhang, Lei Huang, Chunhua Zhang, and Christopher J. Staiger. 2025. “Actomyosin and the Arp2/3 Complex Are Involved in the Internalization of Cellulose Synthase Complexes.” bioRxiv, January, 2025.01.19.633783. https://doi.org/10.1101/2025.01.19.633783<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fdoi.org%2…> . Zhang, Weiwei, Nilay Kumar, Jessica R. Helwig, Alexis Hoerter, Anjali S. Iyer-Pascuzzi, David M. Umulis, Elsje Pienaar, and Christopher J. Staiger. 2025. “Local Traveling Waves of Cytosolic Calcium Elicited by Defense Signals or Wounding Are Propagated by Distinct Mechanisms.” bioRxiv, January, 2025.01.23.634554. https://doi.org/10.1101/2025.01.23.634554<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fdoi.org%2…> . 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.” EMBRIO Partnership with SURF (Summer Undergraduate Research Fellowship) Purdue EMBRIO faculty, it is time to post your summer research projects to recruit undergraduate researchers to your lab! Summer Undergraduate Research Fellowship (SURF)<https://maillinks.purdue.edu/t/46944966/1704294751/89814806/0/1007625/?x=5e…> PROJECT POSTINGS ARE OPEN! This 11-week, on-campus summer program provides a unique opportunity to mentor undergraduate students through hands-on research experiences. Students receive a $6,500 stipend, subsidized by the school/department and college affiliated with the project. Learn more about the program and submit your project today<https://maillinks.purdue.edu/t/46944966/1704294751/98563639/0/1007625/?x=f1…>! Priority Deadline: December 1, 2024. Submit now to maximize your project’s visibility! 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…<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fpurdue-ed…> Previous All Hands Recordings<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fapp.box.c…> 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 Chris Staiger and Anjali Iyer-Pascuzzi Labs; Thrust 2A Mar 24 Jeremiah Zartman Lab; Thrust 2B Apr 7 Qing Deng Lab; Thrust 3B Apr 21 Mary Mullins Lab; Thrust 3A May 5 Stephanie Gardner Lab; Thrust 4 May 19 Ale Magana Lab; Thrust 4 March 26-28, 2025. Multicellular Engineered Living Systems (M-CELS) Symposium 2025. Organizers invite you to participate in the “M-CELS: Advances in Basic Research and Translational Opportunities<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Furldefens…>” symposium, which will be held on March 26-28, 2025, at the OMNI Hilton Head Resort in South Carolina, USA. April 11, 2025. Q-Bio Symposium, University of Notre Dame. Registration, Speakers, Poster Session Details forthcoming. May 12-16, 2025 Cytoskeleton Modeling Workshop, NC State (Details below) 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.…>. Madison, WI, USA. Cytoskeleton Modeling Workshop, NC State From: Julio Monti Belmonte <jbelmon2(a)ncsu.edu<mailto:jbelmon2@ncsu.edu>> Date: Thu, Feb 6, 2025, 4:38 PM Subject: Cytoskeleton Modelling Workshop May 12-16 at NC State To: <cytosimworkshop(a)ncsu.edu<mailto:cytosimworkshop@ncsu.edu>> Dear Colleagues, We are pleased to announce the first in-person Cytoskeleton Modeling Workshop in the United States, utilizing the CytoSim<https://nam04.safelinks.protection.outlook.com/?url=http%3A%2F%2Fcytosim.or…> software<https://nam04.safelinks.protection.outlook.com/?url=http%3A%2F%2Fcytosim.or…>. This workshop will be held at NC State, Raleigh, NC<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fcytosimwo…>, from May 12-16, 2025. Over the course of five days, the workshop will feature a combination of lectures<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fcytosimwo…>, guest talks<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fcytosimwo…>, and hands-on hackathon sessions. This workshop is open to individuals from a wide range of backgrounds, including Physics, Biology, Chemistry, and related fields, as well as participants at all career stages (undergraduate students to faculty). No prior programming experience is required. Key Learning Outcomes: - How to download, install, and run CytoSim simulations on your own machine - An overview of the biophysical properties and dynamics of various cytoskeletal systems and their components - An introduction to all the features and functionalities available in CytoSim - Techniques and scripts for extracting and analyzing simulation data - Methods for performing parameter scans and running simulations on computer clusters In the final days of the workshop, we will host hackathon sessions, where participants can apply the knowledge gained throughout the workshop to work on projects of their choosing, either independently or in groups, with the support of our instructors: François Nédélec<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fwww.slcu.…>, Daniel Cortes<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fcorteslab…> and Julio Belmonte<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fbelmonte.…>. Additional Information: - There are no registration<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fcytosimwo…> fees for this workshop; however, participants are responsible for their own travel and lodging expenses. Discounted accommodation rates are available at a nearby university dormitory<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fcytosimwo…>. - Lunch and coffee will be provided throughout the workshop. For more details and to register, please visit the workshop website: https://cytosimworkshop.wordpress.ncsu.edu<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fcytosimwo…> Registration Deadline: March 30, 2025 Given limited space, applicants will be notified by early April regarding their acceptance to the workshop. We encourage you to share this announcement with any colleagues who may be interested in attending. We look forward to welcoming you to Raleigh in May! Best regards, Julio M. Belmonte Assistant Professor Department of Physics NC State University Awards Let us know about your grants and other awards! 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.c…> , or they have graduated, let Brent know their names and email contacts (laddb(a)purdue.edu<mailto:laddb@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(a)purdue.edu

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EMBRIO Thrust 1A Seminar Today 3-4PM
by Ladd, Brent Thomas 10 Feb '25

10 Feb '25

Dear EMBRIOphytes, Looking forward to having you all together this afternoon 3-4pm EST, as we kick off our Thrust projects spring seminar series with Krishna Jayant presenting for Thrust 1A. Zoom Link: https://purdue-edu.zoom.us/j/97946412458?pwd=YUurFKck0n1am07eA7b0O0TVKsVwpC…<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fpurdue-ed…> Upcoming dates for Thrust seminars: Feb 10 Krishna Jayant Lab; Thrust 1A Feb 24 Janice Evans Lab; Thrust 1B Mar 10 Chris Staiger and Anjali Iyer-Pascuzzi Labs; Thrust 2A Mar 24 Jeremiah Zartman Lab; Thrust 2B Apr 7 Qing Deng Lab; T3B Apr 21 Mary Mullins Lab; T3A May 5 Stephanie Gardner Lab; T4 May 19 Ale Magana Lab (Joreen/Abby); T4 You may be interested to check out the Cytoskeleton Modelling Workshop happening May 12-16 at NC State (details below). From: Julio Monti Belmonte <jbelmon2(a)ncsu.edu<mailto:jbelmon2@ncsu.edu>> Date: Thu, Feb 6, 2025, 4:38 PM Subject: Cytoskeleton Modelling Workshop May 12-16 at NC State To: <cytosimworkshop(a)ncsu.edu<mailto:cytosimworkshop@ncsu.edu>> Dear Colleagues, We are pleased to announce the first in-person Cytoskeleton Modeling Workshop in the United States, utilizing the CytoSim<https://nam04.safelinks.protection.outlook.com/?url=http%3A%2F%2Fcytosim.or…> software<https://nam04.safelinks.protection.outlook.com/?url=http%3A%2F%2Fcytosim.or…>. This workshop will be held at NC State, Raleigh, NC<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fcytosimwo…>, from May 12-16, 2025. Over the course of five days, the workshop will feature a combination of lectures<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fcytosimwo…>, guest talks<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fcytosimwo…>, and hands-on hackathon sessions. This workshop is open to individuals from a wide range of backgrounds, including Physics, Biology, Chemistry, and related fields, as well as participants at all career stages (undergraduate students to faculty). No prior programming experience is required. Key Learning Outcomes: - How to download, install, and run CytoSim simulations on your own machine - An overview of the biophysical properties and dynamics of various cytoskeletal systems and their components - An introduction to all the features and functionalities available in CytoSim - Techniques and scripts for extracting and analyzing simulation data - Methods for performing parameter scans and running simulations on computer clusters In the final days of the workshop, we will host hackathon sessions, where participants can apply the knowledge gained throughout the workshop to work on projects of their choosing, either independently or in groups, with the support of our instructors: François Nédélec<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fwww.slcu.…>, Daniel Cortes<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fcorteslab…> and Julio Belmonte<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fbelmonte.…>. Additional Information: - There are no registration<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fcytosimwo…> fees for this workshop; however, participants are responsible for their own travel and lodging expenses. Discounted accommodation rates are available at a nearby university dormitory<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fcytosimwo…>. - Lunch and coffee will be provided throughout the workshop. For more details and to register, please visit the workshop website: https://cytosimworkshop.wordpress.ncsu.edu<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fcytosimwo…> Registration Deadline: March 30, 2025 Given limited space, applicants will be notified by early April regarding their acceptance to the workshop. We encourage you to share this announcement with any colleagues who may be interested in attending. We look forward to welcoming you to Raleigh in May! Best regards, Julio M. Belmonte Assistant Professor Department of Physics NC State University 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(a)purdue.edu

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