Spring Batch as a model for CRISPR Cas9

 


The analogy between Spring Batch workflows and the CRISPR-Cas9 gene editing process is both creative and insightful. It provides a structured way to conceptualize the complex biological steps involved in CRISPR-Cas9 by mapping them to familiar software engineering concepts

### Key Components of the Analogy

1. **Reader (Batch) / Identifying the DNA Sequence (CRISPR-Cas9)**  

   - In Spring Batch, the "Reader" fetches data for processing. Similarly, in CRISPR-Cas9, the first step is identifying the specific DNA sequence to be edited. This step is crucial as it determines the target for the gene-editing process.

2. **Processor (Batch) / Guide RNA Design and Cas9 Binding (CRISPR-Cas9)**  

   - The "Processor" in Spring Batch transforms or processes data. In CRISPR-Cas9, designing the guide RNA (gRNA) and binding the Cas9 enzyme to the target DNA are analogous processing steps. The gRNA ensures specificity, while Cas9 acts as the molecular "scissors."

3. **Writer (Batch) / Cleavage and Repair (CRISPR-Cas9)**  

   - The "Writer" in Spring Batch saves or outputs the processed data. In CRISPR-Cas9, the cleavage of DNA by Cas9 and the subsequent repair by the cell's machinery are the final steps that "write" the new genetic information into the genome.

 

### Visualizing the Analogy

A diagram mapping Spring Batch workflows to CRISPR-Cas9 steps would be an excellent visual tool. It could show:

- The "Reader" step as identifying the DNA target.

- The "Processor" steps as designing gRNA and binding Cas9.

- The "Writer" steps as DNA cleavage and repair.

Please visit my Github template

https://www.github.com/didipostman/CrisprCas9

You will notice that I used an interface DNA_SequenceProcessor that implements ItemProcessor where I used Karp Rabin Algorithm for designing the guide RNA (gRNA) and binding the Cas9 enzyme to the target DNA.

 

-- Minds, like parachutes, function best when open. ,,,

                      (o o)

 / --------oOO--(_)--OOo--------------------\

 | Wadï Mami didipostman

 | Github : https://www.github.com/didipostman 

| e-mail : wmami@steg.com.tn / didipostman77@gmail.com

 | Twitter : @MamiWad3

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