Characterizing Sequence-Function Relationships in Chimeric DcuS/EnvZ Histidine Kinases

Lucas B. Lippert, Samuel R. Hinton, Andrew S. Holston, Karl J. Romanowicz, Calin Plesa

This GitHub repository hosts R Markdown (RMD), Jupyter Notebook (IPYNB), additional scripts, and links to the rendered code for reproducing the data analysis in the following manuscript:

Lippert LB, Hinton SR, Holston AS, Romanowicz KJ, Plesa C. (2026) Characterizing Sequence-Function Relationships in Chimeric DcuS/EnvZ Histidine Kinases. In Prep.

Links to Rendered Code:

synTCS-MutLib bin boundaries and population fraction calculations

Barcode Counts to Median Bin for No Ligand Samples

Barcode Counts to Median Bin for Fumarate Samples

Barcode Counts to Median Bin for Aspartate Samples

Merge and MEFL Convert

Structure Annotation - DSSP Output Processing

Fold Change Heatmaps

Gain-of-Function Analysis

Dial-Out Mutant Selection

NCBI BioProject:

• Project Accession Number: PRJNA1468850 for raw .fastq files used in Makefile

Figshare Data Repositories

• Barcode Count Files
• Other Data Files Inputted/Outputted

Direct any questions regarding this repository to the corresponding author: Calin Plesa.