NGPINT V3: a containerized orchestration Python software for discovery of next-generation protein-protein interactions.
basic_science · Level V
Where this comes from
- Record sourced from PubMed, PMID 40581780.
- Also identified by DOI 10.1093/bioinformatics/btaf343 and PMC identifier 12208055.
- Licence recorded as CC BY.
- The licence permits redistribution, so the abstract is shown in full and the full text is available from the publisher.
Abstract
Batch yeast two-hybrid (Y2H) assays, leveraged with next-generation sequencing, have afforded successful innovations for the analysis of protein-protein interactions. NGPINT is a Conda-based software designed to process the millions of raw sequencing reads resulting from Y2H-next-generation interaction screens. Over time, increasing compatibility and dependency issues have prevented clean NGPINT installation and operation. A system-wide update was essential to continue effective use with its companion software, Y2H-SCORES. We present NGPINT V3, a containerized implementation built with both Singularity and Docker, allowing accessibility across virtually any operating system and computing environment. This update includes streamlined dependencies and container images hosted on Sylabs (https://cloud.sylabs.io/library/schuyler/ngpint/ngpint) and Dockerhub (https://hub.docker.com/r/schuylerds/ngpint), facilitating easier adoption and integration into high-throughput and cloud-computing workflows. Full instructions and software can be also found in the GitHub repository https://github.com/Wiselab2/NGPINT_V3 and Zenodo https://doi.org/10.5281/zenodo.15256036.
Medical subject headings
- Software
- Protein Interaction Mapping
- High-Throughput Nucleotide Sequencing