Mermaid flowcharts for perturbation design: diagrams-as-code, curated databases, and the E. coli lac operon as a worked example

Methods paper on Mermaid flowcharts for perturbation design, using the E. coli lac operon as a worked example. Primary document: PDF (figures embedded). Version 1.6 (June 28, 2026): PDF-only deposit for clarity; Markdown source remains on GitHub. Includes Voigt et al. (2016) synthetic biology framing (reference 11).

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Publication Details

Journal
Zenodo (CERN European Organization for Nuclear Research)
Published
2026-06-28
DOI
https://doi.org/10.5281/zenodo.21006713
Primary Topic
Gene Regulatory Network Analysis
Type
preprint
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preprint

Mermaid flowcharts for perturbation design: diagrams-as-code, curated databases, and the E. coli lac operon as a worked example

Gary Welz
Zenodo (CERN European Organization for Nuclear Research)
Gene Regulatory Network Analysis
preprint

Mermaid flowcharts for perturbation design: diagrams-as-code, curated databases, and the E. coli lac operon as a worked example

Gary Welz
preprint en

Abstract

Methods paper on Mermaid flowcharts for perturbation design, using the E. coli lac operon as a worked example. Primary document: PDF (figures embedded). Version 1.6 (June 28, 2026): PDF-only deposit for clarity; Markdown source remains on GitHub. Includes Voigt et al. (2016) synthetic biology framing (reference 11).

Zenodo (CERN European Organization for Nuclear Research)
The Graduate Center, CUNY (US)
Gene Regulatory Network Analysis
DOIOpen Access PDFOpenAlex
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Mermaid flowcharts for perturbation design: diagrams-as-code, curated databases, and the E. coli lac operon as a worked example — Gary Welz · Zenodo (CERN European Organization for Nuclear Research) (2026) | TGRS Research Map | TGRS