| name | qsap |
| description | QSAP — quorum-sensing (QS) related gene annotation pipeline against the QSP database (DIAMOND and/or HMMER). Use when mining autoinducer / QS circuitry (AHL, AIP, AI-2-related families as covered by QSP) from proteins or assemblies. Upstream: https://github.com/chunxiao-dcx/QSAP (QSP DB: https://github.com/chunxiao-dcx/QSP). Route via microbial-mining. Related secondary metabolites → antismash; Fe siderophores → fegenie.
|
| license | MIT |
| category | analysis-tools |
| tags | ["QSAP","quorum-sensing","QS","autoinducer","signaling","genome-mining"] |
| upstream | https://github.com/chunxiao-dcx/QSAP |
| stage | mining |
QSAP (quorum sensing)
Upstream: chunxiao-dcx/QSAP ·
QSP database: https://github.com/chunxiao-dcx/QSP
Citation
Pipeline/DB: Dai, C. QSAP / QSP — quorum-sensing protein resources
(https://github.com/chunxiao-dcx/QSAP). Cite the upstream repository and QSP
release used; add peer-reviewed QSP/QSAP citation when available in Methods.
See also docs/references.md.
Analytical thinking
Quorum sensing (群体感应) coordinates population behaviors via signal
synthases/receptors/transporters. QSAP classifies QS-related sequences from
the QSP collection. Treat hits as genetic potential — not measured autoinducer
concentrations.
| Related claim | Prefer |
|---|
| QS genes | qsap |
| Specialized metabolite / AHL-adjacent BGCs | antismash |
| Siderophores (Fe acquisition signals/competition) | fegenie |
| Broad metabolism | dram / element-cycling |
How to run
perl QSAP.pl -i input.list -o qsap_out -s sub -n 8
Decision tree
Cell–cell signaling / QS?
├─ QS gene annotation → qsap
├─ BGC / natural products → antismash
├─ Siderophores → fegenie
└─ Plasmid-borne QS context → genomad / mob-suite ∩ qsap
Related skills
antismash · fegenie · dram · genomad · mob-suite ·
microbial-mining · tool-selection
