Barbara Di Ventura

Computational screen of promoter configurations that robustly sense transcription factor dynamics

The paper computationally screens promoter models to identify configurations that robustly respond to sustained or pulsatile transcription factor dynamics.

Machine learning guided engineering of conditional split inteins for regulated protein splicing in mammalian cells

The paper uses machine learning to engineer conditional split inteins for light-controlled protein splicing in mammalian cells.

Two-Photon Lithography-Fabricated Deterministic Lateral Displacement Microfluidic System for Efficient Minicell Purification in Cancer Therapy

The paper describes a microfluidic system for efficient purification of minicells used in cancer therapy.

DNA Binding by the Escherichia coli MinC/MinD Complex Requires the MinC Interdomain Linker

The paper shows that the MinC/MinD complex enhances DNA binding, with the MinC linker playing a critical role, and links this to chromosome organization in E. coli.

Int&in: a machine learning-based web server for split site identification in inteins

Int&in is a web server that predicts active and inactive split sites in inteins using a Gaussian Naive Bayes model with 0.76 accuracy.

Requirements for mammalian promoters to decode transcription factor dynamics

The paper investigates how mammalian promoters decode transcription factor dynamics using optogenetics, deep learning, and mathematical modeling, finding that inefficient coupling between TF binding and transcription initiation enhances decoding.

Identification of functional Npu DnaE and gp41-1 inteins split in three fragments

The paper identifies new split sites in Npu DnaE and gp41-1 inteins, enabling functional three-piece versions for biotechnological applications.

patcHwork: A user-friendly pH sensitivity analysis web server for protein sequences and structures

patcHwork analyzes pH sensitivity in protein sequences and structures by identifying charge shifts and affected non-covalent bonds at two pH values.

Expanding the SiMPl plasmid toolbox for use with spectinomycin/streptomycin

The paper expands the SiMPl plasmid toolbox to include spectinomycin/streptomycin resistance by introducing a new plasmid pair and validating a strategy for splitting antibiotic resistance enzymes.