March 2026 - Bmegradstudents-list

[Bmeroundtable-list] Changes to Air handling Shut Down
by Rhonda Wolf Jones 16 Mar '26

16 Mar '26

Due to high winds, the air handling system will be shut down on Thursday, March 19. The water on the 3rd floor will still be shut off on Tuesday, March 17. Boiler Up! Rhonda Jones (she/her/hers) Program Administration & Events Specialist Weldon School of Biomedical Engineering O 765.494.3940 | C 765.427.2065 rwjones(a)purdue.edu [cid:image001.png@01DCB535.A319BF60] -- Bmeroundtable-list mailing list Bmeroundtable-list(a)ecn.purdue.edu https://engineering.purdue.edu/ECN/mailman/listinfo/bmeroundtable-list

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[Bmeroundtable-list] Reminder about March 17
by Rhonda Wolf Jones 13 Mar '26

13 Mar '26

On Tuesday, March 17, for those not leaving on spring break, we wanted to alert you that the air handling system in MJIS will be shut down on March 17. This means no air circulation, no heat, nor air conditioning. They are also going to take this opportunity to shut down all water access on the third floor to repair the leaks. Plan accordingly and work from home if you can. Happy St. Patrick's Day Boiler Up! Rhonda Jones (she/her/hers) Program Administration & Events Specialist Weldon School of Biomedical Engineering O 765.494.3940 | C 765.427.2065 rwjones(a)purdue.edu [cid:image001.png@01DCB2EA.FD480840] -- Bmeroundtable-list mailing list Bmeroundtable-list(a)ecn.purdue.edu https://engineering.purdue.edu/ECN/mailman/listinfo/bmeroundtable-list

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🗓 Qiangqiang Shi - Seminar Purdue AI‑Driven Biomolecular Design, Biotech & Computational Biology Position on March 11, 2026 | Read Meeting Report
by Robin D Terwilliger via Read AI 11 Mar '26

11 Mar '26

The meeting presented Dr. Xiangxiang Shi's postdoctoral work at the intersection of biomaterials, drug delivery, and cancer immunotherapy, organized around three research stories: a pro-drug–tethered lipid nanoparticle (LNP) platform for co-delivering small-molecule inhibitors and mRNA, a lung-targeted intravenous mRNA vaccine strategy, and chemical barcoding for multiplexed nanoparticle screening. Dr. Shi... ͏ ‌ ͏ ‌ ͏ ‌ ͏ ‌ ͏ ‌ ͏ ‌ ͏ ‌ ͏ ‌ ͏ ‌ ͏ ‌ ͏ ‌ ͏ ‌ ͏ ‌ ͏ ‌ ͏ ‌ ͏ ‌ ͏ ‌ ͏ ‌ ͏ ‌ ͏ ‌ ͏ ‌ ͏ ‌ ͏ ‌ ͏ ‌ ͏ ‌ ͏ ‌ ͏ ‌ ͏ ‌ ͏ ‌ ͏ ‌ ͏ ‌ ͏ ‌ ͏ ‌ ͏ ‌ ͏ ‌ ͏ ‌ ͏ ‌ ͏ ‌ ͏ ‌ ͏ ‌ ͏ ‌ ͏ ‌ ͏ ‌ ͏ ‌ ͏ ‌ ͏ ‌ ͏ ‌ ͏ ‌ ͏ ‌ ͏ ‌ ͏ ‌ ͏ ‌ ͏ ‌ ͏ ‌ ͏ ‌ ͏ ‌ ͏ ‌ ͏ ‌ ͏ ‌ ͏ ‌ ͏ ‌ ͏ ‌ ͏ ‌ ͏ ‌ 👋 You've been invited to view this report because Robin D Terwilliger added Read to the meeting and wanted to share the recap with you. Qiangqiang Shi - Seminar Purdue AI‑Driven Biomolecular Design, Biotech & Computational Biology Position March 11, 2026 ( https://u25608997.ct.sendgrid.net/ls/click?upn=u001.CrUrehIev9dAOd9CS5LlcqT… ) map[action_items:[Crystal D O'Neal will analyze the collected serum and lung tissue samples for cytokine changes and T cell functional markers and report the results.] billing_plan:<nil> chapters:[map[chapter:Meeting opening and logistics topics:[Dr. Xiangxiang Shi presented research on precision nanomaterials for co-delivery of small-molecule drugs and mRNA for cancer immunotherapy.]] map[chapter:Speaker background and research overview topics:[]] map[chapter:Biological rationale and therapeutic strategy topics:[The team designed a pro-drug lipid that conjugates an IDO inhibitor to a lipid via a disulfide linkage for redox-triggered release. A 3-in-1 RNP approach co-delivering an IDO inhibitor and IL-12 mRNA aims to synergistically activate T cells while preventing exhaustion.]] map[chapter:Pro-drug lipid nanoparticle design, screening, and efficacy topics:[A lead pro-drug LNP from a 21-member library showed stability in physiologic conditions and triggered drug release under reducing conditions. Intratumoral delivery of the IL-12 pro-drug LNP induced high intratumoral T-cell infiltration, increased IFN-α/γ production, lowered exhaustion, and achieved complete tumor regression in a mouse colon cancer model.]] map[chapter:Lung-targeted LNP chemistry screening and candidates topics:[A separate chemistry screen produced lung-targeting LNP candidates; 1C18 showed strong lung transfection in mice.]] map[chapter:Lung organ and cell targeting, model setup topics:[The lung-targeting RNP transfects lung APCs, especially dendritic cells, enabling antigen presentation in the lung.]] map[chapter:RNP formulations and CD8 T-cell response comparison topics:[The 1C18 RNP produced the strongest CD8 T-cell response in lung tissue and outperformed the Moderna benchmark in this model. Multiple RNP formulations showed reduced T-cell exhaustion compared with the Moderna RNP in the reported assays. Co-loading IL-2 mRNA with antigen mRNA increased antigen-specific CD8 responses and tissue-resident memory T-cell responses in the lung.]] map[chapter:Adjuvant co-loading, memory, and tumor inhibition experiments topics:[Five-dose combination vaccination significantly reduced lung tumor burden in the aggressive lung cancer model used.]] map[chapter:Project summary and cancer immunity framing topics:[]] map[chapter:Barcode screening concept and chemical barcode design topics:[A chemical barcode system was developed that can be encoded into nanomaterials and read by mass spectrometry to quantify biodistribution of multiple nanoparticles in a single mouse.]] map[chapter:Barcode insertion, imaging, and compatibility with carriers topics:[Barcode chemistry can be incorporated into lipids, polymers, liposomes, and proteins without materially affecting delivery performance in preliminary tests.]] map[chapter:Library scale, machine learning optimization, and future applications topics:[The team proposes coupling barcode library synthesis with machine learning to optimize barcode-carrier structures for targeted RNA delivery and in vivo gene editing applications.]] map[chapter:Acknowledgements and Presentation Close topics:[]] map[chapter:Q&A — Lab Direction (Tool vs Application) topics:[The presenter will base her lab on a delivery platform with dual tracks: continued RMT-related optimization and higher-risk barcode-enabled innovations for gene delivery. The barcode delivery approach aims to enable predictable gene delivery with downstream applications in cancer immunotherapy, in situ vaccination, and in vivo gene editing.]] map[chapter:Q&A — Protein Barcoding Stability and Disease Modeling topics:[Chemical barcodes on proteins are unlikely to remain stable for a month in vivo; one to two weeks is more realistic based on the presenter’s assessment.]] map[chapter:Q&A — Combining Therapies and Tumor Model Dependence topics:[Therapeutic outcomes differed by tumor model; strong anti-tumor effect was observed in the colon cancer model but not in an autologous lung cancer model, so combination strategies will be model-dependent.]] map[chapter:Q&A — Automation, Assay Priorities, and In Vitro/In Vivo Metrics topics:[For automation and screening, the presenter prioritized mRNA transfection efficiency and nanoparticle room-temperature stability in vitro, and organ transduction efficiency and liver toxicity in vivo.]] map[chapter:Q&A — Dosing Strategy, Immune Feedback, and Functional T-cell Data topics:[The presenter is collecting serum and tissue samples to analyze cytokines and local immune environment and plans to test those data shortly.]]] content_tease_experiment_variant:<nil> distributor_names_string:Robin D Terwilliger email_access_invite_token:eyJhbGciOiJIUzI1NiIsInR5cCI6IkpXVCJ9.eyJraW5kIjoic2Vzc2lvbl9lbWFpbF9hY2Nlc3NfaW52aXRlIiwiZXhwaXJlc19hdCI6MTgwNDc5OTM5MjIxMywic2Vzc2lvbl9pZCI6IjAxS0tGNDA4SFBRS0VIQjNOSlBOSFQ3Q0hGIiwiZW1haWwiOiJibWVncmFkc3R1ZGVudHMtbGlzdEBlY24ucHVyZHVlLmVkdSJ9.FwdkHSmDDM0yNqVOtp3NAkcRiw75TgHlL1wSNcB6nF4 email_domain:<nil> email_verification_token:eyJhbGciOiJIUzI1NiIsInR5cCI6IkpXVCJ9.eyJraW5kIjoiZW1haWxfdmVyaWZpY2F0aW9uIiwiZXhwaXJlc19hdCI6MTgwNDc5OTM5MjIxMywiZW1haWwiOiJibWVncmFkc3R1ZGVudHMtbGlzdEBlY24ucHVyZHVlLmVkdSJ9.XgOe0pvg3Di68k785txemKf2TTlZ6k_2DXWqdpboTLY end_time_string:<nil> engagement_score:%!s(float64=68) has_thumbnail:%!s(bool=false) is_meeting_owner:%!s(bool=false) is_read_user:%!s(bool=false) is_subject_line_emoji_experiment:<nil> is_upsell_experiment:<nil> is_upsell_preview:<nil> is_zoom_upsell:<nil> key_questions:[How can the IDO–kynurenine–AHR pathway that drives T-cell exhaustion be prevented? If an IDO inhibitor and IL-12 mRNA are co-encapsulated in one RNP, will therapeutic effects be amplified? Are there carrier materials beyond standard RNP/lipid nanoparticles that can be used for gene delivery? Can multiple nanoparticles be screened in a single mouse using barcodes? How is the chemical barcode read once encoded into nanomaterials? Where will your future lab sit on the spectrum between tool development and applications? How stable are chemical barcodes on proteins in vivo — could they persist for a month? If you combine the two therapies that showed different survival outcomes, would you get intermediate or improved results? For automation and AI-guided screening, what minimal assays provide the most actionable information? Did you investigate dosing saturation or compensatory immune regulation with your aggressive vaccination strategy? What functional features and cytokine profiles do these T cells exhibit in the local environment?] late_by_string:0s live_notes_url:<nil> meeting_date_string:March 11, 2026 meeting_platform:teams meeting_title:Qiangqiang Shi - Seminar Purdue AI‑Driven Biomolecular Design, Biotech & Computational Biology Position metrics_level:full num_domain_users:<nil> num_recommendations:<nil> on_time:%!s(bool=true) overall_score:%!s(float64=75) raw_meeting_end_time:2026-03-11T20:04:22 raw_meeting_start_time:2026-03-11T19:00:00 raw_session_data_expiration_date:Apr 10 recipient_has_meeting_recap_enabled:%!s(bool=false) remaining_reports:<nil> report_quota:<nil> report_url:https://u25608997.ct.sendgrid.net/ls/click?upn=u001.CrUrehIev9dA… rss_vanity_id:<nil> search_copilot_upsell_content:Crystal D O'Neal will analyze the collected serum and lung tissue samples for cytokine changes and T cell functional markers and report the results. search_copilot_upsell_link_placeholder:Crystal%20D%20O%27Neal%20will%20analyze%20the%20collected%20serum%20and%20lung%20tissue%20samples%20for%20cytokine%20changes%20and%20T%20cell%20functional%20markers%20and%20report%20the%20results. search_copilot_upsell_variant:sc_upsell_3 send_recap_to_participants:<nil> sentiment_score:%!s(float64=81) session_id:01KKF408HPQKEHB3NJPNHT7CHF sgParameters:map[replyTo:rterwill@purdue.edu templateID:d-27268193e8204d13bd4207d81aabe6c2 templateName:Participant Meeting Recap 3/6/2026 - Revert Action Items Section versionID:066ab4f9-a894-4a56-b6e5-44efc96f9e75] start_time_string:<nil> subject:<nil> summary:The meeting presented Dr. Xiangxiang Shi's postdoctoral work at the intersection of biomaterials, drug delivery, and cancer immunotherapy, organized around three research stories: a pro-drug–tethered lipid nanoparticle (LNP) platform for co-delivering small-molecule inhibitors and mRNA, a lung-targeted intravenous mRNA vaccine strategy, and chemical barcoding for multiplexed nanoparticle screening. Dr. Shi... summary_paragraphs:[The meeting presented Dr. Xiangxiang Shi's postdoctoral work at the intersection of biomaterials, drug delivery, and cancer immunotherapy, organized around three research stories: a pro-drug–tethered lipid nanoparticle (LNP) platform for co-delivering small-molecule inhibitors and mRNA, a lung-targeted intravenous mRNA vaccine strategy, and chemical barcoding for multiplexed nanoparticle screening. Dr. Shi...] talk_time:<nil> talking_pace:<nil> top_talkers:[map[name:Crystal D O'Neal rank:%!s(float64=1) talk_time_percentage:%!s(float64=100) talk_time_string:1h 5m 43s] map[name:Pengfei Wu rank:%!s(float64=2) talk_time_percentage:%!s(float64=0) talk_time_string:4s]] topics:[Dr. Xiangxiang Shi presented research on precision nanomaterials for co-delivery of small-molecule drugs and mRNA for cancer immunotherapy. A 3-in-1 RNP approach co-delivering an IDO inhibitor and IL-12 mRNA aims to synergistically activate T cells while preventing exhaustion. The team designed a pro-drug lipid that conjugates an IDO inhibitor to a lipid via a disulfide linkage for redox-triggered release. A lead pro-drug LNP from a 21-member library showed stability in physiologic conditions and triggered drug release under reducing conditions. Intratumoral delivery of the IL-12 pro-drug LNP induced high intratumoral T-cell infiltration, increased IFN-α/γ production, lowered exhaustion, and achieved complete tumor regression in a mouse colon cancer model. A separate chemistry screen produced lung-targeting LNP candidates; 1C18 showed strong lung transfection in mice. The lung-targeting RNP transfects lung APCs, especially dendritic cells, enabling antigen presentation in the lung. The 1C18 RNP produced the strongest CD8 T-cell response in lung tissue and outperformed the Moderna benchmark in this model. Multiple RNP formulations showed reduced T-cell exhaustion compared with the Moderna RNP in the reported assays. Co-loading IL-2 mRNA with antigen mRNA increased antigen-specific CD8 responses and tissue-resident memory T-cell responses in the lung. Five-dose combination vaccination significantly reduced lung tumor burden in the aggressive lung cancer model used. A chemical barcode system was developed that can be encoded into nanomaterials and read by mass spectrometry to quantify biodistribution of multiple nanoparticles in a single mouse. Barcode chemistry can be incorporated into lipids, polymers, liposomes, and proteins without materially affecting delivery performance in preliminary tests. The team proposes coupling barcode library synthesis with machine learning to optimize barcode-carrier structures for targeted RNA delivery and in vivo gene editing applications. The presenter will base her lab on a delivery platform with dual tracks: continued RMT-related optimization and higher-risk barcode-enabled innovations for gene delivery. The barcode delivery approach aims to enable predictable gene delivery with downstream applications in cancer immunotherapy, in situ vaccination, and in vivo gene editing. Chemical barcodes on proteins are unlikely to remain stable for a month in vivo; one to two weeks is more realistic based on the presenter’s assessment. Therapeutic outcomes differed by tumor model; strong anti-tumor effect was observed in the colon cancer model but not in an autologous lung cancer model, so combination strategies will be model-dependent. For automation and screening, the presenter prioritized mRNA transfection efficiency and nanoparticle room-temperature stability in vitro, and organ transduction efficiency and liver toxicity in vivo. The presenter is collecting serum and tissue samples to analyze cytokines and local immune environment and plans to test those data shortly.] used_reports:<nil> zoom_reauthentication_required:<nil>] Access this meeting report ( https://u25608997.ct.sendgrid.net/ls/click?upn=u001.CrUrehIev9dAOd9CS5LlcqT… ) Account creation required. This is your personal link, please do not forward this email to others. View Report ( https://u25608997.ct.sendgrid.net/ls/click?upn=u001.CrUrehIev9dAOd9CS5LlcqT… ) Recap Chapters & Topics 🔒 Upgrade to view chapters & topics ( https://u25608997.ct.sendgrid.net/ls/click?upn=u001.CrUrehIev9dAOd9CS5LlcqT… ) Chapters & Topics 🔒 Upgrade to view chapters & topics ( https://u25608997.ct.sendgrid.net/ls/click?upn=u001.CrUrehIev9dAOd9CS5LlcqT… ) Chapters & Topics • Meeting opening and logistics • map[action_items:[Crystal D O'Neal will analyze the collected serum and lung tissue samples for cytokine changes and T cell functional markers and report the results.] billing_plan:<nil> chapters:[map[chapter:Meeting opening and logistics topics:[Dr. Xiangxiang Shi presented research on precision nanomaterials for co-delivery of small-molecule drugs and mRNA for cancer immunotherapy.]] map[chapter:Speaker background and research overview topics:[]] map[chapter:Biological rationale and therapeutic strategy topics:[The team designed a pro-drug lipid that conjugates an IDO inhibitor to a lipid via a disulfide linkage for redox-triggered release. A 3-in-1 RNP approach co-delivering an IDO inhibitor and IL-12 mRNA aims to synergistically activate T cells while preventing exhaustion.]] map[chapter:Pro-drug lipid nanoparticle design, screening, and efficacy topics:[A lead pro-drug LNP from a 21-member library showed stability in physiologic conditions and triggered drug release under reducing conditions. Intratumoral delivery of the IL-12 pro-drug LNP induced high intratumoral T-cell infiltration, increased IFN-α/γ production, lowered exhaustion, and achieved complete tumor regression in a mouse colon cancer model.]] map[chapter:Lung-targeted LNP chemistry screening and candidates topics:[A separate chemistry screen produced lung-targeting LNP candidates; 1C18 showed strong lung transfection in mice.]] map[chapter:Lung organ and cell targeting, model setup topics:[The lung-targeting RNP transfects lung APCs, especially dendritic cells, enabling antigen presentation in the lung.]] map[chapter:RNP formulations and CD8 T-cell response comparison topics:[The 1C18 RNP produced the strongest CD8 T-cell response in lung tissue and outperformed the Moderna benchmark in this model. Multiple RNP formulations showed reduced T-cell exhaustion compared with the Moderna RNP in the reported assays. Co-loading IL-2 mRNA with antigen mRNA increased antigen-specific CD8 responses and tissue-resident memory T-cell responses in the lung.]] map[chapter:Adjuvant co-loading, memory, and tumor inhibition experiments topics:[Five-dose combination vaccination significantly reduced lung tumor burden in the aggressive lung cancer model used.]] map[chapter:Project summary and cancer immunity framing topics:[]] map[chapter:Barcode screening concept and chemical barcode design topics:[A chemical barcode system was developed that can be encoded into nanomaterials and read by mass spectrometry to quantify biodistribution of multiple nanoparticles in a single mouse.]] map[chapter:Barcode insertion, imaging, and compatibility with carriers topics:[Barcode chemistry can be incorporated into lipids, polymers, liposomes, and proteins without materially affecting delivery performance in preliminary tests.]] map[chapter:Library scale, machine learning optimization, and future applications topics:[The team proposes coupling barcode library synthesis with machine learning to optimize barcode-carrier structures for targeted RNA delivery and in vivo gene editing applications.]] map[chapter:Acknowledgements and Presentation Close topics:[]] map[chapter:Q&A — Lab Direction (Tool vs Application) topics:[The presenter will base her lab on a delivery platform with dual tracks: continued RMT-related optimization and higher-risk barcode-enabled innovations for gene delivery. The barcode delivery approach aims to enable predictable gene delivery with downstream applications in cancer immunotherapy, in situ vaccination, and in vivo gene editing.]] map[chapter:Q&A — Protein Barcoding Stability and Disease Modeling topics:[Chemical barcodes on proteins are unlikely to remain stable for a month in vivo; one to two weeks is more realistic based on the presenter’s assessment.]] map[chapter:Q&A — Combining Therapies and Tumor Model Dependence topics:[Therapeutic outcomes differed by tumor model; strong anti-tumor effect was observed in the colon cancer model but not in an autologous lung cancer model, so combination strategies will be model-dependent.]] map[chapter:Q&A — Automation, Assay Priorities, and In Vitro/In Vivo Metrics topics:[For automation and screening, the presenter prioritized mRNA transfection efficiency and nanoparticle room-temperature stability in vitro, and organ transduction efficiency and liver toxicity in vivo.]] map[chapter:Q&A — Dosing Strategy, Immune Feedback, and Functional T-cell Data topics:[The presenter is collecting serum and tissue samples to analyze cytokines and local immune environment and plans to test those data shortly.]]] content_tease_experiment_variant:<nil> distributor_names_string:Robin D Terwilliger email_access_invite_token:eyJhbGciOiJIUzI1NiIsInR5cCI6IkpXVCJ9.eyJraW5kIjoic2Vzc2lvbl9lbWFpbF9hY2Nlc3NfaW52aXRlIiwiZXhwaXJlc19hdCI6MTgwNDc5OTM5MjIxMywic2Vzc2lvbl9pZCI6IjAxS0tGNDA4SFBRS0VIQjNOSlBOSFQ3Q0hGIiwiZW1haWwiOiJibWVncmFkc3R1ZGVudHMtbGlzdEBlY24ucHVyZHVlLmVkdSJ9.FwdkHSmDDM0yNqVOtp3NAkcRiw75TgHlL1wSNcB6nF4 email_domain:<nil> email_verification_token:eyJhbGciOiJIUzI1NiIsInR5cCI6IkpXVCJ9.eyJraW5kIjoiZW1haWxfdmVyaWZpY2F0aW9uIiwiZXhwaXJlc19hdCI6MTgwNDc5OTM5MjIxMywiZW1haWwiOiJibWVncmFkc3R1ZGVudHMtbGlzdEBlY24ucHVyZHVlLmVkdSJ9.XgOe0pvg3Di68k785txemKf2TTlZ6k_2DXWqdpboTLY end_time_string:<nil> engagement_score:%!s(float64=68) has_thumbnail:%!s(bool=false) is_meeting_owner:%!s(bool=false) is_read_user:%!s(bool=false) is_subject_line_emoji_experiment:<nil> is_upsell_experiment:<nil> is_upsell_preview:<nil> is_zoom_upsell:<nil> key_questions:[How can the IDO–kynurenine–AHR pathway that drives T-cell exhaustion be prevented? If an IDO inhibitor and IL-12 mRNA are co-encapsulated in one RNP, will therapeutic effects be amplified? Are there carrier materials beyond standard RNP/lipid nanoparticles that can be used for gene delivery? Can multiple nanoparticles be screened in a single mouse using barcodes? How is the chemical barcode read once encoded into nanomaterials? Where will your future lab sit on the spectrum between tool development and applications? How stable are chemical barcodes on proteins in vivo — could they persist for a month? If you combine the two therapies that showed different survival outcomes, would you get intermediate or improved results? For automation and AI-guided screening, what minimal assays provide the most actionable information? Did you investigate dosing saturation or compensatory immune regulation with your aggressive vaccination strategy? What functional features and cytokine profiles do these T cells exhibit in the local environment?] late_by_string:0s live_notes_url:<nil> meeting_date_string:March 11, 2026 meeting_platform:teams meeting_title:Qiangqiang Shi - Seminar Purdue AI‑Driven Biomolecular Design, Biotech & Computational Biology Position metrics_level:full num_domain_users:<nil> num_recommendations:<nil> on_time:%!s(bool=true) overall_score:%!s(float64=75) raw_meeting_end_time:2026-03-11T20:04:22 raw_meeting_start_time:2026-03-11T19:00:00 raw_session_data_expiration_date:Apr 10 recipient_has_meeting_recap_enabled:%!s(bool=false) remaining_reports:<nil> report_quota:<nil> report_url:https://u25608997.ct.sendgrid.net/ls/click?upn=u001.CrUrehIev9dA… rss_vanity_id:<nil> search_copilot_upsell_content:Crystal D O'Neal will analyze the collected serum and lung tissue samples for cytokine changes and T cell functional markers and report the results. search_copilot_upsell_link_placeholder:Crystal%20D%20O%27Neal%20will%20analyze%20the%20collected%20serum%20and%20lung%20tissue%20samples%20for%20cytokine%20changes%20and%20T%20cell%20functional%20markers%20and%20report%20the%20results. search_copilot_upsell_variant:sc_upsell_3 send_recap_to_participants:<nil> sentiment_score:%!s(float64=81) session_id:01KKF408HPQKEHB3NJPNHT7CHF sgParameters:map[replyTo:rterwill@purdue.edu templateID:d-27268193e8204d13bd4207d81aabe6c2 templateName:Participant Meeting Recap 3/6/2026 - Revert Action Items Section versionID:066ab4f9-a894-4a56-b6e5-44efc96f9e75] start_time_string:<nil> subject:<nil> summary:The meeting presented Dr. Xiangxiang Shi's postdoctoral work at the intersection of biomaterials, drug delivery, and cancer immunotherapy, organized around three research stories: a pro-drug–tethered lipid nanoparticle (LNP) platform for co-delivering small-molecule inhibitors and mRNA, a lung-targeted intravenous mRNA vaccine strategy, and chemical barcoding for multiplexed nanoparticle screening. Dr. Shi... summary_paragraphs:[The meeting presented Dr. Xiangxiang Shi's postdoctoral work at the intersection of biomaterials, drug delivery, and cancer immunotherapy, organized around three research stories: a pro-drug–tethered lipid nanoparticle (LNP) platform for co-delivering small-molecule inhibitors and mRNA, a lung-targeted intravenous mRNA vaccine strategy, and chemical barcoding for multiplexed nanoparticle screening. Dr. Shi...] talk_time:<nil> talking_pace:<nil> top_talkers:[map[name:Crystal D O'Neal rank:%!s(float64=1) talk_time_percentage:%!s(float64=100) talk_time_string:1h 5m 43s] map[name:Pengfei Wu rank:%!s(float64=2) talk_time_percentage:%!s(float64=0) talk_time_string:4s]] topics:[Dr. Xiangxiang Shi presented research on precision nanomaterials for co-delivery of small-molecule drugs and mRNA for cancer immunotherapy. A 3-in-1 RNP approach co-delivering an IDO inhibitor and IL-12 mRNA aims to synergistically activate T cells while preventing exhaustion. The team designed a pro-drug lipid that conjugates an IDO inhibitor to a lipid via a disulfide linkage for redox-triggered release. A lead pro-drug LNP from a 21-member library showed stability in physiologic conditions and triggered drug release under reducing conditions. Intratumoral delivery of the IL-12 pro-drug LNP induced high intratumoral T-cell infiltration, increased IFN-α/γ production, lowered exhaustion, and achieved complete tumor regression in a mouse colon cancer model. A separate chemistry screen produced lung-targeting LNP candidates; 1C18 showed strong lung transfection in mice. The lung-targeting RNP transfects lung APCs, especially dendritic cells, enabling antigen presentation in the lung. The 1C18 RNP produced the strongest CD8 T-cell response in lung tissue and outperformed the Moderna benchmark in this model. Multiple RNP formulations showed reduced T-cell exhaustion compared with the Moderna RNP in the reported assays. Co-loading IL-2 mRNA with antigen mRNA increased antigen-specific CD8 responses and tissue-resident memory T-cell responses in the lung. Five-dose combination vaccination significantly reduced lung tumor burden in the aggressive lung cancer model used. A chemical barcode system was developed that can be encoded into nanomaterials and read by mass spectrometry to quantify biodistribution of multiple nanoparticles in a single mouse. Barcode chemistry can be incorporated into lipids, polymers, liposomes, and proteins without materially affecting delivery performance in preliminary tests. The team proposes coupling barcode library synthesis with machine learning to optimize barcode-carrier structures for targeted RNA delivery and in vivo gene editing applications. The presenter will base her lab on a delivery platform with dual tracks: continued RMT-related optimization and higher-risk barcode-enabled innovations for gene delivery. The barcode delivery approach aims to enable predictable gene delivery with downstream applications in cancer immunotherapy, in situ vaccination, and in vivo gene editing. Chemical barcodes on proteins are unlikely to remain stable for a month in vivo; one to two weeks is more realistic based on the presenter’s assessment. Therapeutic outcomes differed by tumor model; strong anti-tumor effect was observed in the colon cancer model but not in an autologous lung cancer model, so combination strategies will be model-dependent. For automation and screening, the presenter prioritized mRNA transfection efficiency and nanoparticle room-temperature stability in vitro, and organ transduction efficiency and liver toxicity in vivo. The presenter is collecting serum and tissue samples to analyze cytokines and local immune environment and plans to test those data shortly.] used_reports:<nil> zoom_reauthentication_required:<nil>] See all 18 chapters → ( https://u25608997.ct.sendgrid.net/ls/click?upn=u001.CrUrehIev9dAOd9CS5LlcqT… ) Action Items • Crystal D O'Neal will analyze the collected serum and lung tissue samples for cytokine changes and T cell functional markers and report the results. • See all 1 action items → ( https://u25608997.ct.sendgrid.net/ls/click?upn=u001.CrUrehIev9dAOd9CS5LlcqT… ) Key Questions • How can the IDO–kynurenine–AHR pathway that drives T-cell exhaustion be prevented? • If an IDO inhibitor and IL-12 mRNA are co-encapsulated in one RNP, will therapeutic effects be amplified? See all 11 key questions → ( https://u25608997.ct.sendgrid.net/ls/click?upn=u001.CrUrehIev9dAOd9CS5LlcqT… ) Review notes ( https://u25608997.ct.sendgrid.net/ls/click?upn=u001.CrUrehIev9dAOd9CS5LlcqT… ) Work smarter, not harder Read makes meetings more effective and efficient with meeting recaps, transcripts, playback, personalized coaching, meeting recommendations, and more. Get started for free → ( https://u25608997.ct.sendgrid.net/ls/click?upn=u001.CrUrehIev9dAOd9CS5LlcqT… ) Need help? Visit the Support Center ( https://u25608997.ct.sendgrid.net/ls/click?upn=u001.CrUrehIev9dAOd9CS5Llcqx… ) or contact us ( support(a)read.ai ). Unsubscribe ( https://u25608997.ct.sendgrid.net/asm/unsubscribe/?user_id=25608997&data=FS… ) • Email Preferences ( https://u25608997.ct.sendgrid.net/ls/click?upn=u001.CrUrehIev9dAOd9CS5LlcqT… ) Team at Read AI • 999 3rd Ave, Suite 3300, Seattle, WA 98104

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Weldon Graduate Program Announcements March 11th, 2026
by Tammy R Siemers 11 Mar '26

11 Mar '26

[4,354 Breaking News Photos and Premium High Res Pictures - Getty Images] Weldon Graduate Program Announcements March 11th, 2026 * Career and Internship Opportunities * FDA Opportunity * Invitation to Princeton Graduate School's 2026 GradFUTURES Forum conference: March 23-27 * OIGP Newsletter * New Course from MSE in Fall 2026 - MSE 597 (Materials for Biomedical Devices) * Workshops and Deadlines * News from You Career and Internship Opportunities Internship Positions * Clinical Development Engineering Intern, Calyxo<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fwww.linke…> * Co-op: Clinical Development, Patient Advocacy and Medical Affairs, Prime Medicine<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fwww.linke…> * Co-op: In-Vivo Delivery, Prime Medicine<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fwww.linke…> * Co-op: Platform Technologies & Innovation, Prime Medicine<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fwww.linke…> * Biostatistics Summer Intern 2026, CareDx<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fwww.linke…> * 2026 Future Talent Program, Translational Genome Analytics, Computational Biology Co-op, Merck<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fwww.linke…> * 2026 Co-op, Analytical Technical Operations, Moderna<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fwww.linke…> * Lab Support Intern, BioAgilytix<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fwww.linke…> * Biomedical Solutions Specialist Intern, Relevate Health<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fwww.linke…> * Scientific Solutions Summer Associate, Tempus AI<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fwww.linke…> * Intern, Regulatory Affairs, SK Life Science<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fwww.linke…> * Regulatory Intern, Summer 2026, Discovery Life Sciences<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fwww.linke…> * Summer Intern, Global Medical Affairs, Karyopharm Therapeutics<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fwww.linke…> * Internship: Scientific Strategy & Operations, Form Bio<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fwww.linke…> * Intern, Bioinformatics, Revolution Medicines<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fwww.linke…> * Co-op, Computational Lab, United Therapeutics<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fwww.linke…> * Exploratory Technology Intern, Legend Biotech<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fwww.linke…> * Medical Affairs Co-op, Legend Biotech<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fwww.linke…> * Research and Development Internship, Surmodics<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fwww.linke…> * Health Scientific Writer Intern, Voloridge Investment Management<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fwww.linke…> * Research and Development Internship, Biocoat<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fwww.linke…> Postdoctoral Positions * Postdoctoral Associate, Rutgers University<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fwww.linke…> * Post Doctoral Associate, University of Pittsburgh<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fwww.linke…> * NPA Website: https://careers.nationalpostdoc.org/jobs/<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fcareers.n…> Full Time Positions * Supply Chain Engineer, Orthopaedics, DePuy Synthes<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fjj.wd5.my…> * Lecturer/Senior Lecturer, BME, University of Vermont<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fwww.uvmjo…> * For more information, you can reach out to our alumni Jen Anderson (anderje(a)iu.edu<mailto:anderje@iu.edu>) who shared this information with me. * Senior Scientist, Clinical Science and Evidence Generation, Danaher Corporation<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fwww.linke…> * Research Scientist, Northwell Health<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fwww.linke…> * Research Scientist, Odyssey<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fwww.linke…> * Associate Director, Biologics, Broad Institute<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fwww.linke…> * Assistant Professor, Biomedical Engineering, UMass Lowell<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fwww.linke…> * Field Application Scientist, Kinetica<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fwww.linke…> * STEM Expert, Synstack Technologies<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fwww.linke…> * Senior Scientist, Assay Research, Pattern Bioscience<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fwww.linke…> * BME Faculty Jobs List<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fericaprat…> * Purdue Start-up Job Board<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fpurduefou…>-Foundry Start Up Companies Looking to Hire * ACTS Career Center<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fcareers.a…>-Association for Clinical and Translational Science * Academic Careers<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Facademicc…> * Doc Jobs<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fwww.docjo…>-Jobs beyond traditional clinical and academic roles FDA Opportunity The Food and Drug Administration does much more than just regulate food and drugs. FDA is also responsible for ensuring the safety and effectiveness of medical devices, biologics, veterinary products, cosmetics, and products that emit radiation. The Office of Cardiovascular Devices has teams of engineers, scientists, clinicians, and public health experts that oversee medical devices such as pacemakers, stents, heart valves and more. This includes scientific and regulatory reviews of device design, bench testing, animal testing, clinical trials, manufacturing, adverse events, and recalls. Our reviewers have the opportunity to work on many novel devices and contribute at every stage from early development all the way to commercialization. It's extremely rewarding to be part of an organization whose goal is to bring safe, effective and life-saving medical technologies to patients around the world! We are always interested in speaking with engineers or scientists with prior experience or research in medical technologies. U.S. Citizens who are interested in learning more about opportunities with FDA at our campus near Washington, DC can send their resume/CV or questions to: CardioHiring(a)fda.hhs.gov<mailto:CardioHiring@fda.hhs.gov>. Invitation to Princeton Graduate School's 2026 GradFUTURES Forum conference: March 23-27 On behalf of the Princeton University Graduate School, we cordially invite you and your graduate students and postdocs to attend the virtual sessions of the 2026 GradFUTURES Forum Graduate Student Professional Development Conference<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fgradfutur…> to be held March 23-27. Founded in 2020, the GradFUTURES Forum is a week-long professional development conference that is FREE and open to graduate students from other institutions across the country and around the world. (Postdocs, administrators, and faculty who work with and support graduate students are also welcome to register.) Featuring dozens of keynote speakers, skill-building workshops, career panels, the conference offers dozens of online programs that support graduate students' and postdocs' success and prepare them for diverse career pathways. In years past, we have had hundreds of participants from more than 100+ unique institutions attend this signature conference for graduate students. Please visit this webpage<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fgradfutur…> to view the schedule (click on each date) and register for virtual sessions. (URL- https://gradfutures.princeton.edu/Forum/Virtual<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fgradfutur…>) Highlighting a few online talks of value to GCC members (times in Eastern Time): * The Professional Development Advantage: Rodney Priestley and Eva Kubu, Princeton Graduate School * Understanding the changing PhD opportunity landscape: Matt Sigelman, Burning Glass Institute * Innovative Approaches for supporting International Graduate Students: Fanta Aw (NAFSA), Amy Nice (Institute for Progress, Former White House OSTP), Violet Buxton-Walsh (Institute for Progress) and Robin Catmur-Smith (International Student Resource Center) * Global Careers: Thriving As An International Scholar, Sonali Majumdar, Princeton Graduate School OIGP Newsletter See attached New Course from MSE in Fall 2026 - MSE 597 (Materials for Biomedical Devices) See attached Workshops and Deadlines Here are some upcoming workshops and deadlines more detailed information about the workshops will be sent out separately closer to the event. March 11th Efficient Inference and Serving: vLLM March 11th Navigating the IRB Process and Submitting Your Study (GSPD<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fgspd.gosi…>) March 11th Quad Fellowship Information Session (GSPD<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fgspd.gosi…>) March 11th Crafting your Digital Brand: LinkedIn Workshop withy PrincetonOne & Hueman People Solutions (CCO<https://www.cco.purdue.edu/Calendar/Event/1065>) March 12th Healthy Financial Habits (GSPD<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fgspd.gosi…>) March 12th Time Management (GSPD<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fgspd.gosi…>) March 12th BD's Technology Leadership Development Program Info Session (Register<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fbd.yello.…>) March 18th BD's Technology Leadership Development Program Info Session (Register<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fbd.yello.…>) March 19th Vetter Pharma Training Program Digital Information Session (CCO<https://www.cco.purdue.edu/Calendar/Event/1128>) March 23rd Deadline to submit abstract for Innovate Indy Research Symposium (Submit Abstract<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fpurdue.ca…>) March 23rd - 27th GradFUTURES Forum Grad Student Professional Dev Conference (GradFUTURES<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fgradfutur…>) March 24th How to Deliver a Winning Presentation (GSPD<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fgspd.gosi…>) March 24th Preparing for Academic Interviews (GSPD<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fgspd.gosi…>) March 24th Surviving to Thriving in Graduate School (GSPD<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fgspd.gosi…>) March 24th BD's Technology Leadership Development Program Info Session (Register<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fbd.yello.…>) March 25th Build Your Own RAG System (GSPD<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fgspd.gosi…>) March 25th Medium is the Message: Turning a Research Paper into a Zine: Part 1 (GSPD<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fgspd.gosi…>) March 25th Navigating Attention: Using Visual Hierarchy to Lead Viewers Through Your Poster: Part 1 (GSPD<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fgspd.gosi…>) March 25th Time Management (GSPD<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fgspd.gosi…>) March 26th Conducting a Literature Review (GSPD<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fgspd.gosi…>) March 26th Mindfulness (GSPD<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fgspd.gosi…>) March 26th Research with Scite.ai (GSPD<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fgspd.gosi…>) March 27th Building Healthy Working Relationships in Graduate School (GSPD<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fgspd.gosi…>) March 27th LinkedIn (GSPD<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fgspd.gosi…>) March 27th Speak Up, Stand Strong: Self-Advocacy in Grad School (GSPD<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fgspd.gosi…>) March 30th Investment Basics (GSPD<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fgspd.gosi…>) March 30th Presenting Your Research: How to Sell Others on Your Ideas (GSPD<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fgspd.gosi…>) March 30th Sleeping for Success (GSPD<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fgspd.gosi…>) March 31st Debt Management (GSPD<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fgspd.gosi…>) March 31st Deadline to apply for Virtual Applied Research Consortium (VARC) Program (Apply<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fwww.zinte…>) March 31st CCO International Student workshop 5: Stress Management & Networking (CCO<https://www.cco.purdue.edu/Calendar/Event/1057>) March 31st Vetter Pharma Training Program Digital Information Session (CCO<https://www.cco.purdue.edu/Calendar/Event/1129>) March 31st 2026 College of Health and Human Sciences Career Fair (CCO<https://www.cco.purdue.edu/Calendar/Event/1060>) April 1st Medium is the Message: Turning a Research Paper into a Zine: Part 2 (GSPD<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fgspd.gosi…>) April 1st Navigating Attention: Using Visual Hierarchy to Lead Viewers Through Your Poster: Part 2 (GSPD<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fgspd.gosi…>) April 1st Review of Model Compression (GSPD<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fgspd.gosi…>) April 1st Deadline to Submit Application for IFER Fellowship (Apply<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fifer.org%…>) April 1st Develop Your Elevator Pitch to Share Your Personal Brand (CCO<https://www.cco.purdue.edu/Calendar/Event/1033>) April 2nd Finding Balance with Self-Care (GSPD<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fgspd.gosi…>) April 2nd How to Deliver a Winning Presentation (GSPD<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fgspd.gosi…>) April 3rd Imposter Syndrome - CAPS (GSPD<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fgspd.gosi…>) April 6th Computational Research PhD Fellowships Info Session (GSPD<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fgspd.gosi…>) April 6th How to Find and Prepare for Fellowship Applications (GSPD<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fgspd.gosi…>) April 7th Budgeting and Saving Money (GSPD<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fgspd.gosi…>) April 7th Interactive Fellowship Office Hour (GSPD<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fgspd.gosi…>) April 7th Job Search Intensive - Pivoting in Your Job Search Strategy (CCO<https://www.cco.purdue.edu/Calendar/Event/1036>) April 8th Citation Management with Zotero (GSPD<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fgspd.gosi…>) April 8th Investment Basics (GSPD)<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fgspd.gosi…> April 8th Knowledge Graph in NLP (GSPD<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fgspd.gosi…>) April 8th Deadline to submit application for AI Seed Grant Funding Competition (Apply<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fpurdue.ca…>) April 8th CCO International Student Workshop 6: Think Outside the Box: International Alumni Panel (CCO<https://www.cco.purdue.edu/Calendar/Event/1066>) April 9th Preparing to Buy a Car (GSPD<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fgspd.gosi…>) April 9th Time Management (GSPD<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fgspd.gosi…>) April 10th Conducting a Literature Review (GSPD<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fgspd.gosi…>) April 10th Postdoc Power Session (GSPD<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fgspd.gosi…>) April 10th RCR: Discipline-Specific Training April 13th NIH Fellowship Opportunities for Graduate Students (GSPD<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fgspd.gosi…>) April 13th NIH Fellowship Opportunities for PhD Candidates and Postdoctoral Scholars (GSPD<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fgspd.gosi…>) April 14th Healthy Financial Habits (GSPD<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fgspd.gosi…>) April 14th Success Over Stress (GSPD<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fgspd.gosi…>) April 15th Budgeting and Saving Money (GSPD<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fgspd.gosi…>) April 15th Just in Time Career Fair 2026 (CCO<https://www.cco.purdue.edu/Calendar/Event/1076>) April 16th Purdue OWL: Visual Abstracts (GSPD<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fgspd.gosi…>) April 20th Building Healthy Working Relationships in Graduate School (GSPD<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fgspd.gosi…>) April 20th Introduction to Student-Centered Teaching (GSPD<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fgspd.gosi…>) April 21st Preparing to Buy a Car (GSPD<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fgspd.gosi…>) April 21st Strategic Postdoc-ing: Consulting Hour (In-Person) (GSPD<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fgspd.gosi…>) April 21st Strategic Postdoc-ing: How to Plan for Training Success (In-Person) (GSPD<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fgspd.gosi…>) April 23rd Retirement Planning (GSPD<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fgspd.gosi…>) April 27th - 28th Future Faculty Boot Camp (GSPD<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fgspd.gosi…>) April 27th Speak Up, Stand Strong: Self-Advocacy in Grad School (GSPD<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fgspd.gosi…>) Tammy Siemers She/Her Associate Director, Graduate Education BME Students (ONLY): Schedule appointments with me via BoilerConnect here<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fpurdue.ca…>. Weldon School of Biomedical Engineering 206 S. Martin Jischke Drive, West Lafayette, IN 47907-2032 o: 765-496-0294 Achiever, Relator, Includer, Restorative, Developer [cid:image002.png@01DCB177.62BB9F40]<https://www.purdue.edu/?utm_source=signature&utm_medium=email&utm_campaign=…>

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[Bmeroundtable-list] TODAY - 3 P.M. - SEMINAR!
by Crystal D O'Neal 11 Mar '26

11 Mar '26

Please join us in 2001 for this amazing seminar! BME Seminar Wednesday, March 11, 2026 3:00 - 4:00 pm, MJIS 2001 Microsoft Teams meeting Join: https://teams.microsoft.com/meet/29439842767101?p=6YaWmmFKW0hKsRNqo2<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fteams.mic…> Meeting ID: 294 398 427 671 01 Passcode: ox2ok3mp "Precision Nanomaterials for Cancer Immunotherapy and Bioengineering" [cid:image002.jpg@01DCB166.BEA95060] Qiangqiang Shi, PhD Postdoctoral Researcher in Bioengineering University of Pennsylvania Abstract: Precision nanomaterials are transforming bioengineering by making therapeutic function programmable and measurable in vivo. In this seminar, I will present three complementary efforts that use molecularly defined design to program biological function and enable quantitative in vivo readouts. First, I will describe prodrug-tethered lipid nanoparticles (LNPs) that couple controlled intracellular drug release with cytokine mRNA delivery to amplify antitumor immunity while improving safety. Second, I will discuss lung-targeted intravenous mRNA vaccination that redirects antigen expression to the lung to promote local immune surveillance and durable tumor protection. Third, I will introduce precision chemical barcode system for nanoparticles encoding and quantification. Together, these studies position precision and encoded nanomaterials as a new operating paradigm for nanobiomaterials. Bio: Qiangqiang Shi, is a postdoctoral researcher in Bioengineering at the University of Pennsylvania in Prof. Michael Mitchell's laboratory. His research centers on precision nanomaterials for drug and mRNA delivery, with an emphasis on cancer immunotherapy. He develops prodrug-tethered lipid nanoparticles (LNPs) for controlled immunomodulation, lung-targeted intravenous mRNA vaccine strategies to program local anti-tumor immunity. He also develops chemical barcode system that enables built, read, and encode information into nanoparticles. He has authored first/co-first-author papers in Nature Nanotechnology, Nature Chemistry, Nature Reviews Cancer, and PNAS and other leading journals. Sincerely, Crystal O'Neal Administrative Manager Weldon School of Biomedical Engineering 206 South Martin Jischke Drive, Room 3003C| West Lafayette, Indiana 47907 cdoneal(a)purdue.edu<mailto:cdoneal@purdue.edu> [cid:image001.jpg@01DCB166.8DE81510] [https://res.public.onecdn.static.microsoft/assets/bookwithme/misc/CalendarP…] <https://outlook.office.com/bookwithme/user/1b43da6f85ea41e584c7489a6a7f9898…> Book time to meet with me<https://outlook.office.com/bookwithme/user/1b43da6f85ea41e584c7489a6a7f9898…> -- Bmeroundtable-list mailing list Bmeroundtable-list(a)ecn.purdue.edu https://engineering.purdue.edu/ECN/mailman/listinfo/bmeroundtable-list

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[Bmeroundtable-list] CONGRATULATIONS TO TAMMY SIEMERS!!
by Crystal D O'Neal 11 Mar '26

11 Mar '26

Please join me in congratulating Tammy R Siemers on being the recipient of the 2025 Community Spirit Award! Tammy, thank you for everything that you do for the Weldon School, Graduate Students, and overall community! [?] [Group of people holding sack lunches] BME's Tammy Siemers receives 2025 Community Spirit Award<https://click.communicate.purdue.edu/?qs=eyJkZWtJZCI6IjE3ZDM1NGFjLWQ5MWMtNG…> Tammy Siemers, associate director of graduate programs in the Weldon School of Biomedical Engineering, is the recipient of the 2025 Community Spirit Award, presented annually to a Purdue staff member who sets a high standard for service, encourages a sustained commitment to civic participation and inspires others to make service a central part of their lives. Sincerely, Crystal O'Neal Administrative Manager Weldon School of Biomedical Engineering 206 South Martin Jischke Drive, Room 3003C| West Lafayette, Indiana 47907 cdoneal(a)purdue.edu<mailto:cdoneal@purdue.edu> [cid:image002.jpg@01DCB145.23C16950] [https://res.public.onecdn.static.microsoft/assets/bookwithme/misc/CalendarP…] <https://outlook.office.com/bookwithme/user/1b43da6f85ea41e584c7489a6a7f9898…> Book time to meet with me<https://outlook.office.com/bookwithme/user/1b43da6f85ea41e584c7489a6a7f9898…> -- Bmeroundtable-list mailing list Bmeroundtable-list(a)ecn.purdue.edu https://engineering.purdue.edu/ECN/mailman/listinfo/bmeroundtable-list

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[Bmeroundtable-list] Seminar speaker tomorrow
by Rhonda Wolf Jones 11 Mar '26

11 Mar '26

There is no seminar speaker next week, but we have a special seminar tomorrow at 9 am in MJIS 2001. [cid:image004.png@01DCB142.8F3B2C50] Boiler Up! Rhonda Jones (she/her/hers) Program Administration & Events Specialist Weldon School of Biomedical Engineering O 765.494.3940 | C 765.427.2065 rwjones(a)purdue.edu [cid:image003.png@01DCB142.8F0FFDA0] -- Bmeroundtable-list mailing list Bmeroundtable-list(a)ecn.purdue.edu https://engineering.purdue.edu/ECN/mailman/listinfo/bmeroundtable-list

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BioRender
by Rhonda Wolf Jones 10 Mar '26

10 Mar '26

The Weldon School has a 1-year group user license for BioRender available for researchers within the school. BioRender is an online scientific illustration software that offers simple drag-and-drop functionality, enabling researchers to create scientific figures up to 50 times faster than traditional methods. It includes over 40,000 scientifically accurate biology and instrumentation icons from over 30 fields of life science. Access can be obtained by emailing Rhonda Jones (rwjones(a)purdue.edu<mailto:rwjones@purdue.edu>). Boiler Up! Rhonda Jones (she/her/hers) Program Administration & Events Specialist Weldon School of Biomedical Engineering O 765.494.3940 | C 765.427.2065 rwjones(a)purdue.edu [cid:image001.png@01DCB092.AFBD8820]

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Available for lunch tomorrow?
by Rhonda Wolf Jones 10 Mar '26

10 Mar '26

We have a seminar speaker tomorrow who is new to Purdue, in health sciences. I need a few students to have lunch with her tomorrow in 2041 from 11:30 to 1 pm. If you are available and interested, please message me and also tell me what you want for lunch 😊 Boiler Up! Rhonda Jones (she/her/hers) Program Administration & Events Specialist Weldon School of Biomedical Engineering O 765.494.3940 | C 765.427.2065 rwjones(a)purdue.edu [cid:image001.png@01DCB08D.26AE0B90]

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🗓 Yilai Li - Seminar Purdue AI‑Driven Biomolecular Design, Biotech & Computational Biology Position on March 9, 2026 | Read Meeting Report
by Robin D Terwilliger via Read AI 09 Mar '26

09 Mar '26

The meeting presented Dr. Yilai Li’s seminar on using generative AI to improve 3D reconstruction in cryo-electron microscopy (cryo-EM). Dr. Li reviewed the growth and importance of cryo-EM in structural biology, outlined the experimental workflow (plunge freezing, 2D projection imaging, particle picking, and 3D density reconstruction), and characterized reconstruction as... ͏ ‌ ͏ ‌ ͏ ‌ ͏ ‌ ͏ ‌ ͏ ‌ ͏ ‌ ͏ ‌ ͏ ‌ ͏ ‌ ͏ ‌ ͏ ‌ ͏ ‌ ͏ ‌ ͏ ‌ ͏ ‌ ͏ ‌ ͏ ‌ ͏ ‌ ͏ ‌ ͏ ‌ ͏ ‌ ͏ ‌ ͏ ‌ ͏ ‌ ͏ ‌ ͏ ‌ ͏ ‌ ͏ ‌ ͏ ‌ ͏ ‌ ͏ ‌ ͏ ‌ ͏ ‌ ͏ ‌ ͏ ‌ ͏ ‌ ͏ ‌ ͏ ‌ ͏ ‌ ͏ ‌ ͏ ‌ ͏ ‌ ͏ ‌ ͏ ‌ ͏ ‌ ͏ ‌ ͏ ‌ ͏ ‌ ͏ ‌ ͏ ‌ ͏ ‌ ͏ ‌ ͏ ‌ ͏ ‌ ͏ ‌ ͏ ‌ ͏ ‌ ͏ ‌ ͏ ‌ ͏ ‌ ͏ ‌ ͏ ‌ ͏ ‌ 👋 You've been invited to view this report because Robin D Terwilliger added Read to the meeting and wanted to share the recap with you. Yilai Li - Seminar Purdue AI‑Driven Biomolecular Design, Biotech & Computational Biology Position March 9, 2026 ( https://u25608997.ct.sendgrid.net/ls/click?upn=u001.CrUrehIev9dAOd9CS5LlcqT… ) map[action_items:[] billing_plan:<nil> chapters:[map[chapter:Opening and Speaker Introduction topics:[]] map[chapter:Seminar Topic and High-level Motivation topics:[Dr. Li’s seminar focused on using generative AI for 3D cryo-EM reconstruction. Structural biology relies on experimental techniques like cryo-EM to determine biomolecular structures, which are essential because structure determines function.]] map[chapter:Cryo-EM Impact and Adoption topics:[]] map[chapter:Experimental Workflow and Data Collection topics:[Cryo-EM output consists of many noisy 2D particle projections that can be used to reconstruct 3D density maps after estimating orientations and translations. A gap exists: limited AI models operate directly in density-map (voxel) space compared with atomic-coordinate models.]] map[chapter:Modeling and Unknowns in the Forward Model topics:[Reconstruction is an ill-posed inverse problem with unknown rotations, translations, imaging parameters, noise, and potential heterogeneity.]] map[chapter:Inverse Problems, Priors, and Bayesian Framing topics:[Priors and Bayesian approaches can guide reconstruction toward physically plausible solutions.]] map[chapter:Prior-FM Project, Data, and Model Architecture topics:[The project will train a foundation model (prior-FM) on ~40,000 public high-resolution cryo-EM densities curated from EMDB. The team selected flow matching as the generative framework and a 3D U-Net architecture for the voxel-space model.]] map[chapter:Flow-matching prior and unconditional sampling topics:[Cryo-FM is trained to map a Gaussian distribution to cryo-EM data distribution using flow matching. The model supports unconditional sampling by iteratively following a learned vector field from Gaussian noise to the data distribution.]] map[chapter:Bayesian formulation and flow posterior sampling topics:[Bayes’ theorem was re-expressed in the flow-matching context to combine a learned prior and a forward-operator-derived likelihood for posterior sampling. Posterior sampling can be performed with the pre-trained FlowFM without any fine-tuning or retraining of the prior.]] map[chapter:Synthetic missing-wedge test and quantitative result topics:[A synthetic missing-wedge posterior sampling test increased average FSC in the masked region from 0 to 0.42.]] map[chapter:Integration into EM iterative refinement and anisotropy correction topics:[Integrating FlowFM into iterative EM reconstruction resolved anisotropic deficits and recovered structural details that standard EM missed.]] map[chapter:Spatially non-uniform noise modeling and multi-dataset results topics:[FlowFM was extended to model spatially varying noise via bandpass/wavelet decomposition across frequency and real-space locations.]] map[chapter:Supervised fine-tuning for map modification and benchmarking topics:[Fine-tuning the prior as a supervised model for map modification produced better FSC0.5 results than EM-READY on the provided dataset. The model and code are open-source and accompanied by two publications and documentation.]] map[chapter:Related work, open source, and future directions topics:[Future work priorities include resolution-aware priors, faster/stabler posterior sampling, richer likelihoods, and autonomous end-to-end workflows.]] map[chapter:Presentation closing and acknowledgements topics:[The presenter concluded the talk and invited questions after thanking their postdoc lab and collaborators.]] map[chapter:Applicability to other nanoparticle systems topics:[Applying the reconstruction approach to large nanoparticles (e.g., 50–150 nm LNPs) should be straightforward for homogeneous samples and more challenging for heterogeneous ones.]] map[chapter:Complex compositions and model generality topics:[The model is trained on diverse EMDB density maps (including complexes with RNA/DNA) and focuses on local features, so it is not restricted to proteins.]] map[chapter:Rationale for density-map reconstruction and structural workflows topics:[Density maps are treated as a necessary validation step for cryo-EM and are part of the established workflow from data to density to atomic model.]] map[chapter:Cryo-ET vs cryo-EM, orientations, and hallucination risk topics:[Cryo-ET provides known orientations and richer 3D information but distributes electron dose across tilts, whereas cryo-EM concentrates dose per particle, creating trade-offs between methods. With extremely limited or single-orientation inputs, the model can produce prior-driven reconstructions that may include hallucinated features, making denoising the primary realistic goal.]] map[chapter:Extensions to medical imaging and inverse problems topics:[The presenter identified forward-process modeling combined with structural priors as a promising approach for ill-posed inverse problems in MRI, CT, ultrasound, and spectroscopy.]] map[chapter:Meeting close, logistics, and administrative questions topics:[]]] content_tease_experiment_variant:<nil> distributor_names_string:Robin D Terwilliger email_access_invite_token:eyJhbGciOiJIUzI1NiIsInR5cCI6IkpXVCJ9.eyJraW5kIjoic2Vzc2lvbl9lbWFpbF9hY2Nlc3NfaW52aXRlIiwiZXhwaXJlc19hdCI6MTgwNDYxOTM2MjQwMywic2Vzc2lvbl9pZCI6IjAxS0s5VlFZRkhRVkpaMVlHOFhXMFZFWEhIIiwiZW1haWwiOiJibWVncmFkc3R1ZGVudHMtbGlzdEBlY24ucHVyZHVlLmVkdSJ9.cTUiqufzjLaHnvJnFzjJHpuBmIKLk40_OZe2yNGtlAs email_domain:<nil> email_verification_token:eyJhbGciOiJIUzI1NiIsInR5cCI6IkpXVCJ9.eyJraW5kIjoiZW1haWxfdmVyaWZpY2F0aW9uIiwiZXhwaXJlc19hdCI6MTgwNDYxOTM2MjQwNCwiZW1haWwiOiJibWVncmFkc3R1ZGVudHMtbGlzdEBlY24ucHVyZHVlLmVkdSJ9.JDKc1Nv3J-MNH5rvvDOLTfHIOrlPhvVyUAExniEQN8g end_time_string:<nil> engagement_score:%!s(float64=64) has_thumbnail:%!s(bool=false) is_meeting_owner:%!s(bool=false) is_read_user:%!s(bool=false) is_subject_line_emoji_experiment:<nil> is_upsell_experiment:<nil> is_upsell_preview:<nil> is_zoom_upsell:<nil> key_questions:[Could the methods used for protein reconstruction be applied to other nanoparticle-based systems such as LNPs or coil-like particles? How large are the particles discussed and what size range would be targeted for application? Can the model reconstruct structures composed of mixed biomolecules (lipids, carbohydrates, proteins) rather than proteins alone? Why reconstruct a density map first instead of going directly from images to atomic models? Does this approach offer advantages over cryo-ET, and would one still use cryo-ET if available? How does the model handle very limited orientations or scarce data, and what is the risk of hallucination? Could this framework be applied to medical imaging modalities (MRI, CT, ultrasound) and spectroscopy inverse problems like SAXS? What are the processes for handling conflicts of interest for co-op internships and working externally during the school year?] late_by_string:0s live_notes_url:<nil> meeting_date_string:March 9, 2026 meeting_platform:teams meeting_title:Yilai Li - Seminar Purdue AI‑Driven Biomolecular Design, Biotech & Computational Biology Position metrics_level:full num_domain_users:<nil> num_recommendations:<nil> on_time:%!s(bool=true) overall_score:%!s(float64=72) raw_meeting_end_time:2026-03-09T19:05:04 raw_meeting_start_time:2026-03-09T18:00:00 raw_session_data_expiration_date:Apr 8 recipient_has_meeting_recap_enabled:%!s(bool=false) remaining_reports:<nil> report_quota:<nil> report_url:https://u25608997.ct.sendgrid.net/ls/click?upn=u001.CrUrehIev9dA… rss_vanity_id:<nil> search_copilot_upsell_content:Could the methods used for protein reconstruction be applied to other nanoparticle-based systems such as LNPs or coil-like particles? search_copilot_upsell_link_placeholder:Could%20the%20methods%20used%20for%20protein%20reconstruction%20be%20applied%20to%20other%20nanoparticle-based%20systems%20such%20as%20LNPs%20or%20coil-like%20particles%3F search_copilot_upsell_variant:sc_upsell_5 send_recap_to_participants:<nil> sentiment_score:%!s(float64=79) session_id:01KK9VQYFHQVJZ1YG8XW0VEXHH sgParameters:map[replyTo:rterwill@purdue.edu templateID:d-27268193e8204d13bd4207d81aabe6c2 templateName:Participant Meeting Recap 3/6/2026 - Revert Action Items Section versionID:066ab4f9-a894-4a56-b6e5-44efc96f9e75] start_time_string:<nil> subject:<nil> summary:The meeting presented Dr. Yilai Li’s seminar on using generative AI to improve 3D reconstruction in cryo-electron microscopy (cryo-EM). Dr. Li reviewed the growth and importance of cryo-EM in structural biology, outlined the experimental workflow (plunge freezing, 2D projection imaging, particle picking, and 3D density reconstruction), and characterized reconstruction as... summary_paragraphs:[The meeting presented Dr. Yilai Li’s seminar on using generative AI to improve 3D reconstruction in cryo-electron microscopy (cryo-EM). Dr. Li reviewed the growth and importance of cryo-EM in structural biology, outlined the experimental workflow (plunge freezing, 2D projection imaging, particle picking, and 3D density reconstruction), and characterized reconstruction as...] talk_time:<nil> talking_pace:<nil> top_talkers:[map[name:Crystal D O'Neal rank:%!s(float64=1) talk_time_percentage:%!s(float64=100) talk_time_string:1h 5m 52s] map[name:Pengfei Wu rank:%!s(float64=2) talk_time_percentage:%!s(float64=0) talk_time_string:5s]] topics:[Dr. Li’s seminar focused on using generative AI for 3D cryo-EM reconstruction. Structural biology relies on experimental techniques like cryo-EM to determine biomolecular structures, which are essential because structure determines function. Cryo-EM output consists of many noisy 2D particle projections that can be used to reconstruct 3D density maps after estimating orientations and translations. A gap exists: limited AI models operate directly in density-map (voxel) space compared with atomic-coordinate models. Reconstruction is an ill-posed inverse problem with unknown rotations, translations, imaging parameters, noise, and potential heterogeneity. Priors and Bayesian approaches can guide reconstruction toward physically plausible solutions. The project will train a foundation model (prior-FM) on ~40,000 public high-resolution cryo-EM densities curated from EMDB. The team selected flow matching as the generative framework and a 3D U-Net architecture for the voxel-space model. Cryo-FM is trained to map a Gaussian distribution to cryo-EM data distribution using flow matching. The model supports unconditional sampling by iteratively following a learned vector field from Gaussian noise to the data distribution. Bayes’ theorem was re-expressed in the flow-matching context to combine a learned prior and a forward-operator-derived likelihood for posterior sampling. Posterior sampling can be performed with the pre-trained FlowFM without any fine-tuning or retraining of the prior. A synthetic missing-wedge posterior sampling test increased average FSC in the masked region from 0 to 0.42. Integrating FlowFM into iterative EM reconstruction resolved anisotropic deficits and recovered structural details that standard EM missed. FlowFM was extended to model spatially varying noise via bandpass/wavelet decomposition across frequency and real-space locations. Fine-tuning the prior as a supervised model for map modification produced better FSC0.5 results than EM-READY on the provided dataset. The model and code are open-source and accompanied by two publications and documentation. Future work priorities include resolution-aware priors, faster/stabler posterior sampling, richer likelihoods, and autonomous end-to-end workflows. The presenter concluded the talk and invited questions after thanking their postdoc lab and collaborators. Applying the reconstruction approach to large nanoparticles (e.g., 50–150 nm LNPs) should be straightforward for homogeneous samples and more challenging for heterogeneous ones. The model is trained on diverse EMDB density maps (including complexes with RNA/DNA) and focuses on local features, so it is not restricted to proteins. Density maps are treated as a necessary validation step for cryo-EM and are part of the established workflow from data to density to atomic model. Cryo-ET provides known orientations and richer 3D information but distributes electron dose across tilts, whereas cryo-EM concentrates dose per particle, creating trade-offs between methods. With extremely limited or single-orientation inputs, the model can produce prior-driven reconstructions that may include hallucinated features, making denoising the primary realistic goal. The presenter identified forward-process modeling combined with structural priors as a promising approach for ill-posed inverse problems in MRI, CT, ultrasound, and spectroscopy.] used_reports:<nil> zoom_reauthentication_required:<nil>] Access this meeting report ( https://u25608997.ct.sendgrid.net/ls/click?upn=u001.CrUrehIev9dAOd9CS5LlcqT… ) Account creation required. This is your personal link, please do not forward this email to others. View Report ( https://u25608997.ct.sendgrid.net/ls/click?upn=u001.CrUrehIev9dAOd9CS5LlcqT… ) Recap Chapters & Topics 🔒 Upgrade to view chapters & topics ( https://u25608997.ct.sendgrid.net/ls/click?upn=u001.CrUrehIev9dAOd9CS5LlcqT… ) Chapters & Topics 🔒 Upgrade to view chapters & topics ( https://u25608997.ct.sendgrid.net/ls/click?upn=u001.CrUrehIev9dAOd9CS5LlcqT… ) Chapters & Topics • Opening and Speaker Introduction • map[action_items:[] billing_plan:<nil> chapters:[map[chapter:Opening and Speaker Introduction topics:[]] map[chapter:Seminar Topic and High-level Motivation topics:[Dr. Li’s seminar focused on using generative AI for 3D cryo-EM reconstruction. Structural biology relies on experimental techniques like cryo-EM to determine biomolecular structures, which are essential because structure determines function.]] map[chapter:Cryo-EM Impact and Adoption topics:[]] map[chapter:Experimental Workflow and Data Collection topics:[Cryo-EM output consists of many noisy 2D particle projections that can be used to reconstruct 3D density maps after estimating orientations and translations. A gap exists: limited AI models operate directly in density-map (voxel) space compared with atomic-coordinate models.]] map[chapter:Modeling and Unknowns in the Forward Model topics:[Reconstruction is an ill-posed inverse problem with unknown rotations, translations, imaging parameters, noise, and potential heterogeneity.]] map[chapter:Inverse Problems, Priors, and Bayesian Framing topics:[Priors and Bayesian approaches can guide reconstruction toward physically plausible solutions.]] map[chapter:Prior-FM Project, Data, and Model Architecture topics:[The project will train a foundation model (prior-FM) on ~40,000 public high-resolution cryo-EM densities curated from EMDB. The team selected flow matching as the generative framework and a 3D U-Net architecture for the voxel-space model.]] map[chapter:Flow-matching prior and unconditional sampling topics:[Cryo-FM is trained to map a Gaussian distribution to cryo-EM data distribution using flow matching. The model supports unconditional sampling by iteratively following a learned vector field from Gaussian noise to the data distribution.]] map[chapter:Bayesian formulation and flow posterior sampling topics:[Bayes’ theorem was re-expressed in the flow-matching context to combine a learned prior and a forward-operator-derived likelihood for posterior sampling. Posterior sampling can be performed with the pre-trained FlowFM without any fine-tuning or retraining of the prior.]] map[chapter:Synthetic missing-wedge test and quantitative result topics:[A synthetic missing-wedge posterior sampling test increased average FSC in the masked region from 0 to 0.42.]] map[chapter:Integration into EM iterative refinement and anisotropy correction topics:[Integrating FlowFM into iterative EM reconstruction resolved anisotropic deficits and recovered structural details that standard EM missed.]] map[chapter:Spatially non-uniform noise modeling and multi-dataset results topics:[FlowFM was extended to model spatially varying noise via bandpass/wavelet decomposition across frequency and real-space locations.]] map[chapter:Supervised fine-tuning for map modification and benchmarking topics:[Fine-tuning the prior as a supervised model for map modification produced better FSC0.5 results than EM-READY on the provided dataset. The model and code are open-source and accompanied by two publications and documentation.]] map[chapter:Related work, open source, and future directions topics:[Future work priorities include resolution-aware priors, faster/stabler posterior sampling, richer likelihoods, and autonomous end-to-end workflows.]] map[chapter:Presentation closing and acknowledgements topics:[The presenter concluded the talk and invited questions after thanking their postdoc lab and collaborators.]] map[chapter:Applicability to other nanoparticle systems topics:[Applying the reconstruction approach to large nanoparticles (e.g., 50–150 nm LNPs) should be straightforward for homogeneous samples and more challenging for heterogeneous ones.]] map[chapter:Complex compositions and model generality topics:[The model is trained on diverse EMDB density maps (including complexes with RNA/DNA) and focuses on local features, so it is not restricted to proteins.]] map[chapter:Rationale for density-map reconstruction and structural workflows topics:[Density maps are treated as a necessary validation step for cryo-EM and are part of the established workflow from data to density to atomic model.]] map[chapter:Cryo-ET vs cryo-EM, orientations, and hallucination risk topics:[Cryo-ET provides known orientations and richer 3D information but distributes electron dose across tilts, whereas cryo-EM concentrates dose per particle, creating trade-offs between methods. With extremely limited or single-orientation inputs, the model can produce prior-driven reconstructions that may include hallucinated features, making denoising the primary realistic goal.]] map[chapter:Extensions to medical imaging and inverse problems topics:[The presenter identified forward-process modeling combined with structural priors as a promising approach for ill-posed inverse problems in MRI, CT, ultrasound, and spectroscopy.]] map[chapter:Meeting close, logistics, and administrative questions topics:[]]] content_tease_experiment_variant:<nil> distributor_names_string:Robin D Terwilliger email_access_invite_token:eyJhbGciOiJIUzI1NiIsInR5cCI6IkpXVCJ9.eyJraW5kIjoic2Vzc2lvbl9lbWFpbF9hY2Nlc3NfaW52aXRlIiwiZXhwaXJlc19hdCI6MTgwNDYxOTM2MjQwMywic2Vzc2lvbl9pZCI6IjAxS0s5VlFZRkhRVkpaMVlHOFhXMFZFWEhIIiwiZW1haWwiOiJibWVncmFkc3R1ZGVudHMtbGlzdEBlY24ucHVyZHVlLmVkdSJ9.cTUiqufzjLaHnvJnFzjJHpuBmIKLk40_OZe2yNGtlAs email_domain:<nil> email_verification_token:eyJhbGciOiJIUzI1NiIsInR5cCI6IkpXVCJ9.eyJraW5kIjoiZW1haWxfdmVyaWZpY2F0aW9uIiwiZXhwaXJlc19hdCI6MTgwNDYxOTM2MjQwNCwiZW1haWwiOiJibWVncmFkc3R1ZGVudHMtbGlzdEBlY24ucHVyZHVlLmVkdSJ9.JDKc1Nv3J-MNH5rvvDOLTfHIOrlPhvVyUAExniEQN8g end_time_string:<nil> engagement_score:%!s(float64=64) has_thumbnail:%!s(bool=false) is_meeting_owner:%!s(bool=false) is_read_user:%!s(bool=false) is_subject_line_emoji_experiment:<nil> is_upsell_experiment:<nil> is_upsell_preview:<nil> is_zoom_upsell:<nil> key_questions:[Could the methods used for protein reconstruction be applied to other nanoparticle-based systems such as LNPs or coil-like particles? How large are the particles discussed and what size range would be targeted for application? Can the model reconstruct structures composed of mixed biomolecules (lipids, carbohydrates, proteins) rather than proteins alone? Why reconstruct a density map first instead of going directly from images to atomic models? Does this approach offer advantages over cryo-ET, and would one still use cryo-ET if available? How does the model handle very limited orientations or scarce data, and what is the risk of hallucination? Could this framework be applied to medical imaging modalities (MRI, CT, ultrasound) and spectroscopy inverse problems like SAXS? What are the processes for handling conflicts of interest for co-op internships and working externally during the school year?] late_by_string:0s live_notes_url:<nil> meeting_date_string:March 9, 2026 meeting_platform:teams meeting_title:Yilai Li - Seminar Purdue AI‑Driven Biomolecular Design, Biotech & Computational Biology Position metrics_level:full num_domain_users:<nil> num_recommendations:<nil> on_time:%!s(bool=true) overall_score:%!s(float64=72) raw_meeting_end_time:2026-03-09T19:05:04 raw_meeting_start_time:2026-03-09T18:00:00 raw_session_data_expiration_date:Apr 8 recipient_has_meeting_recap_enabled:%!s(bool=false) remaining_reports:<nil> report_quota:<nil> report_url:https://u25608997.ct.sendgrid.net/ls/click?upn=u001.CrUrehIev9dA… rss_vanity_id:<nil> search_copilot_upsell_content:Could the methods used for protein reconstruction be applied to other nanoparticle-based systems such as LNPs or coil-like particles? search_copilot_upsell_link_placeholder:Could%20the%20methods%20used%20for%20protein%20reconstruction%20be%20applied%20to%20other%20nanoparticle-based%20systems%20such%20as%20LNPs%20or%20coil-like%20particles%3F search_copilot_upsell_variant:sc_upsell_5 send_recap_to_participants:<nil> sentiment_score:%!s(float64=79) session_id:01KK9VQYFHQVJZ1YG8XW0VEXHH sgParameters:map[replyTo:rterwill@purdue.edu templateID:d-27268193e8204d13bd4207d81aabe6c2 templateName:Participant Meeting Recap 3/6/2026 - Revert Action Items Section versionID:066ab4f9-a894-4a56-b6e5-44efc96f9e75] start_time_string:<nil> subject:<nil> summary:The meeting presented Dr. Yilai Li’s seminar on using generative AI to improve 3D reconstruction in cryo-electron microscopy (cryo-EM). Dr. Li reviewed the growth and importance of cryo-EM in structural biology, outlined the experimental workflow (plunge freezing, 2D projection imaging, particle picking, and 3D density reconstruction), and characterized reconstruction as... summary_paragraphs:[The meeting presented Dr. Yilai Li’s seminar on using generative AI to improve 3D reconstruction in cryo-electron microscopy (cryo-EM). Dr. Li reviewed the growth and importance of cryo-EM in structural biology, outlined the experimental workflow (plunge freezing, 2D projection imaging, particle picking, and 3D density reconstruction), and characterized reconstruction as...] talk_time:<nil> talking_pace:<nil> top_talkers:[map[name:Crystal D O'Neal rank:%!s(float64=1) talk_time_percentage:%!s(float64=100) talk_time_string:1h 5m 52s] map[name:Pengfei Wu rank:%!s(float64=2) talk_time_percentage:%!s(float64=0) talk_time_string:5s]] topics:[Dr. Li’s seminar focused on using generative AI for 3D cryo-EM reconstruction. Structural biology relies on experimental techniques like cryo-EM to determine biomolecular structures, which are essential because structure determines function. Cryo-EM output consists of many noisy 2D particle projections that can be used to reconstruct 3D density maps after estimating orientations and translations. A gap exists: limited AI models operate directly in density-map (voxel) space compared with atomic-coordinate models. Reconstruction is an ill-posed inverse problem with unknown rotations, translations, imaging parameters, noise, and potential heterogeneity. Priors and Bayesian approaches can guide reconstruction toward physically plausible solutions. The project will train a foundation model (prior-FM) on ~40,000 public high-resolution cryo-EM densities curated from EMDB. The team selected flow matching as the generative framework and a 3D U-Net architecture for the voxel-space model. Cryo-FM is trained to map a Gaussian distribution to cryo-EM data distribution using flow matching. The model supports unconditional sampling by iteratively following a learned vector field from Gaussian noise to the data distribution. Bayes’ theorem was re-expressed in the flow-matching context to combine a learned prior and a forward-operator-derived likelihood for posterior sampling. Posterior sampling can be performed with the pre-trained FlowFM without any fine-tuning or retraining of the prior. A synthetic missing-wedge posterior sampling test increased average FSC in the masked region from 0 to 0.42. Integrating FlowFM into iterative EM reconstruction resolved anisotropic deficits and recovered structural details that standard EM missed. FlowFM was extended to model spatially varying noise via bandpass/wavelet decomposition across frequency and real-space locations. Fine-tuning the prior as a supervised model for map modification produced better FSC0.5 results than EM-READY on the provided dataset. The model and code are open-source and accompanied by two publications and documentation. Future work priorities include resolution-aware priors, faster/stabler posterior sampling, richer likelihoods, and autonomous end-to-end workflows. The presenter concluded the talk and invited questions after thanking their postdoc lab and collaborators. Applying the reconstruction approach to large nanoparticles (e.g., 50–150 nm LNPs) should be straightforward for homogeneous samples and more challenging for heterogeneous ones. The model is trained on diverse EMDB density maps (including complexes with RNA/DNA) and focuses on local features, so it is not restricted to proteins. Density maps are treated as a necessary validation step for cryo-EM and are part of the established workflow from data to density to atomic model. Cryo-ET provides known orientations and richer 3D information but distributes electron dose across tilts, whereas cryo-EM concentrates dose per particle, creating trade-offs between methods. With extremely limited or single-orientation inputs, the model can produce prior-driven reconstructions that may include hallucinated features, making denoising the primary realistic goal. The presenter identified forward-process modeling combined with structural priors as a promising approach for ill-posed inverse problems in MRI, CT, ultrasound, and spectroscopy.] used_reports:<nil> zoom_reauthentication_required:<nil>] See all 21 chapters → ( https://u25608997.ct.sendgrid.net/ls/click?upn=u001.CrUrehIev9dAOd9CS5LlcqT… ) Action Items No action items generated Key Questions • Could the methods used for protein reconstruction be applied to other nanoparticle-based systems such as LNPs or coil-like particles? • How large are the particles discussed and what size range would be targeted for application? See all 8 key questions → ( https://u25608997.ct.sendgrid.net/ls/click?upn=u001.CrUrehIev9dAOd9CS5LlcqT… ) Review notes ( https://u25608997.ct.sendgrid.net/ls/click?upn=u001.CrUrehIev9dAOd9CS5LlcqT… ) Work smarter, not harder Read makes meetings more effective and efficient with meeting recaps, transcripts, playback, personalized coaching, meeting recommendations, and more. Get started for free → ( https://u25608997.ct.sendgrid.net/ls/click?upn=u001.CrUrehIev9dAOd9CS5LlcqT… ) Need help? Visit the Support Center ( https://u25608997.ct.sendgrid.net/ls/click?upn=u001.CrUrehIev9dAOd9CS5Llcqx… ) or contact us ( support(a)read.ai ). Unsubscribe ( https://u25608997.ct.sendgrid.net/asm/unsubscribe/?user_id=25608997&data=Am… ) • Email Preferences ( https://u25608997.ct.sendgrid.net/ls/click?upn=u001.CrUrehIev9dAOd9CS5LlcqT… ) Team at Read AI • 999 3rd Ave, Suite 3300, Seattle, WA 98104

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