NLM IRP Seminar Schedule
UPCOMING SEMINARS
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May 14, 2024 Stanley Liang
Knowledge-driven Latent Diffusion For COVID-19 Pneumonia Radiology Pattern Synthesis -
May 21, 2024 Ziynet Kesimoglu
TBD -
May 23, 2024 Leslie Ronish
TBD -
May 28, 2024 Harutyun Saakyan
TBD -
May 30, 2024 Deepak Gupta
TBD
RECENT SEMINARS
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May 14, 2024 Stanley Liang
Knowledge-driven Latent Diffusion For COVID-19 Pneumonia Radiology Pattern Synthesis -
May 9, 2024 Pascal Mutz
The Riboviria protein structurome expands virus protein annotation and highlights protein relations -
May 2, 2024 OPEN
TBD -
April 30, 2024 Wenya Rowe
The conformal central charge of the spin-1/2 XX model derived from long-chain asymptotics -
April 25, 2024 Ermin Hodzic
Condition-Aware Cell Type Deconvolution of Bulk Tissues
Scheduled Seminars on Feb. 15, 2024
Contact NLM_IRP_Seminar_Scheduling@mail.nih.gov with questions about this seminar.
Abstract:
Though typically associated with a single folded state, some globular proteins remodel their secondary and/or tertiary structures in response to cellular stimuli. AlphaFold2 (AF2) readily generates one dominant protein structure for these fold-switching (a.k.a. metamorphic) proteins, but it often fails to predict their alternative experimentally observed structures. Wayment-Steele, et al. steered AF2 to predict alternative structures of a few metamorphic proteins using a method they call AF-cluster. However, their paper lacks some essential controls needed to assess AF-cluster’s reliability. We find that using ColabFold-based random sequence sampling–a method we call CF-random–is a more accurate and less computationally intense alternative to AF-cluster. In addition, CF-random effectively captures the alternative conformations of functional and membrane transport proteins with fewer predicted samples than other AF2-based enhanced sampling approaches. We suggest that CF-random predicts the alternative conformations of proteins using associative sequence homology rather than generative coevolutionary inference.