Brannigan Lab


Connor is now a PhD Candidate

We held our First Annual VMD Contest!

Mark receives a FAER Grant

Jahmal Receives an Honorable Mention from the Ford Foundation

New Paper published in PNAS blobulates the human proteome

Alpha version of the blobulator now available!

Blobulation is an approach for edge-detection in protein sequences based on contiguous hydrophobicity, which we originally developed for a specific long intrinsically disordered protein (the prodomain of BDNF).

The blobulator is a webtool for blobulation, which allows the user to blobulate any sequence, and visualize the results while adjusting the two blobulation parameters to detect more edges for higher-resolution (“zooming-in”) or detect fewer edges for a more tractable visualization (“zooming-out”).

New Paper Published in eLife

Collaborative work with the Cheng lab at Washington University-St Louis was just published in eLife!  Polyunsaturated fatty acids inhibit a pentameric ligand-gated ion channel through one of two binding sites” used photolabeling and Mark’s coarse-grained MD simulations to identify two binding sites for polyunsaturated fatty acids (DHA), and functional studies with modifications to determine which site is responsible for the effects of DHA. This paper also provided another test of the method for lipid affinities from density distributions that we published here.

Congratulations, all!

Welcome, Noureen, Mariadelia, and Regina!

After a successful Fall 2022 rotation cycle, the lab has three new members! We are very excited to welcome Noureen Abdelrahman, Mariadelia Argüello Acuña, and Regina Salzer, who are all MS students in Computational and Integrative Biology.

Noureen completed her B.S. at Lafayette College, and will be working on a new collaboration with the Shain lab on adaptation of ATP synthase in thermophiles. Mariadelia completed her B.S. at Universidad de Costa Rica, and will be continuing Shriya’s project (with the Klein lab) on the role of sphingolipids in Caulobacter. Regina will be headquartered in the Griepenburg lab but will also collaborate with Jahmal on simulations of membrane-nanoparticle interactions. Welcome!

Noureen Abdelrahman
Mariadelia Argüello Acuña
Regina Salzer

Congratulations, Jesse!

Jesse successfully defended his MS thesis “SARS-CoV-2 Envelope Protein Induces Membrane Curvature Through Asymmetric Hydrophobic Mismatch” in front of his committee, CCIB, and many enthusiastic family members today. We are thrilled that he will be continuing onto do his PhD in the Brannigan lab!

Congratulations, Shriya!

Shriya successfully defended her MS thesis “Using molecular dynamics simulations to elucidate a role for bacterial ceramide” in front of her home lab (the Klein group), her committee, CCIB, and many enthusiastic family members today. Shriya started working on this computational project when she couldn’t do experiments during the pandemic – and now she is planning to join a CCIB computational group for her PhD!