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Published on: February 8, 2017
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BAC-browser: the tool for synthetic biology.
Tatiana A Semashko1,2, Gleb Y Fisunov3,4, Georgiy Y Shevelev5
1Research Institute for Systems Biology and Medicine, Moscow, Russian Federation. t.semashko@gmail.com.
BMC Bioinformatics
|January 24, 2025
Summary
BAC-browser v.2.1 is a new software tool for synthetic genomics. It simplifies designing and assembling DNA sequences, making complex tasks accessible to non-bioinformaticians.
Area of Science:
- Synthetic genomics
- Bioinformatics software development
Background:
- Synthetic genomics is a rapidly advancing field.
- Specialized software is crucial for designing and assembling synthetic DNA sequences.
- Non-bioinformaticians require user-friendly tools for synthetic genomics tasks.
Purpose of the Study:
- To present BAC-browser v.2.1, a graphical software for synthetic genomics.
- To provide tools for designing and assembling DNA sequences for non-bioinformaticians.
Main Methods:
- Developed BAC-browser v.2.1 with a graphical user interface.
- Implemented tools for nucleotide sequence generation from amino acid sequences using codon frequency tables.
- Integrated visualization tools for restriction sites, GC composition, GC skew, and secondary structure.
- Created a fragmentation tool for DNA sequence assembly with options for regular and thermodynamic alignment breakdowns.
Main Results:
- BAC-browser v.2.1 facilitates nucleotide sequence design and DNA sequence assembly.
- The software enables sequence generation based on organism-specific codon frequencies.
- Visualization of key sequence features and assembly of DNA fragments in different modes are demonstrated.
Conclusions:
- BAC-browser offers a comprehensive suite of tools for synthetic genomics.
- The software is freely available for download, promoting accessibility in the field.
