A. Marchand

Targeting protein-ligand neosurfaces using a generalizable deep learning approach

This paper designs proteins that target neosurfaces from protein-ligand complexes using a deep learning approach, validated experimentally against three drug-bound protein complexes.

Rational design of chemically controlled antibodies and protein therapeutics

This study designs and tests small molecule-controlled switchable protein therapeutics by optimizing protein interactions and demonstrating in vitro and in vivo controllability with Venetoclax.

De novo design of site-specific protein interactions with learned surface fingerprints

This paper designs novel protein interactions using geometric deep learning to generate surface fingerprints, achieving nanomolar affinity for four targets through computational and experimental methods.

The substitutions L50F, E166A and L167F in SARS-CoV-2 3CLpro are selected by a protease inhibitor in vitro and confer resistance to nirmatrelvir

This paper identifies three substitutions in SARS-CoV-2 3CLpro that confer resistance to nirmatrelvir and other 3CLpro inhibitors in vitro.

Identification of novel Ebola virus inhibitors using biologically contained virus

This study screens over 4,200 small-molecule compounds against biologically contained Ebola virus to identify novel inhibitors.

Cell cycle-independent integration of stress signals promotes Non-G1/G0 quiescence entry

The paper identifies stress pathways in yeast that lead to high-Cdk1 quiescence, showing cell cycle-independent regulation by Xbp1.

Landscape connectivity alters the evolution of density-dependent dispersal during pushed range expansions

The paper examines how landscape connectivity affects phenotypic evolution during range expansions, finding that high connectivity can alter density-dependent dispersal, potentially slowing or reversing the transition from pushed to pulled dynamics.

ALG-097111, a potent and selective SARS-CoV-2 3-chymotrypsin-like cysteine protease inhibitor exhibits in vivo efficacy in a Syrian Hamster model

This study evaluates ALG-097111, a selective SARS-CoV-2 3CLpro inhibitor, showing potent in vitro activity and significant in vivo antiviral effects in Syrian hamsters.

Small-molecule antibiotic inhibitors of post-translational protein secretion

This study identifies small-molecule inhibitors of the bacterial Sec secretion pathway through a high-throughput screen, revealing compounds with antibacterial activity against multiple Gram-positive and Gram-negative species.

Probing Ligand and Cation Binding Sites in G-Quadruplex Nucleic Acids by Mass Spectrometry and Electron Photodetachment Dissociation Sequencing

The paper develops a mass spectrometry method to determine cation and ligand binding sites in G-quadruplex DNA without derivatization, revealing that 360A and PhenDC3 bind near the central loop of telomeric sequences.

Thermal Denaturation of DNA G-Quadruplexes and their Complexes with Ligands: Thermodynamic Analysis of the Multiple States Revealed by Native Mass Spectrometry

This study uses native mass spectrometry to analyze the thermodynamics of G-quadruplex DNA denaturation and ligand binding, revealing enthalpic and entropic contributions to stability and ligand specificity.

Differential Antiviral Activities of RSV Inhibitors in Human Airway Epithelium

This study evaluates the antiviral efficacy of RSV inhibitors in a 3D-human airway epithelium model, showing that replication inhibitors are more effective than fusion inhibitors even when treatment is delayed.