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Transcriptor: a comprehensive platform for annotation of the enzymatic functions of transcripts
Ailin Ren1,2, Dachuan Zhang3,2, Yu Tian1,2
1Tianjin Institute of Industrial Biotechnology, Chinese Academy of Sciences, Tianjin 300308, P. R. China.
Bioinformatics (Oxford, England)
|July 28, 2020
Summary
Transcriptor is a new web platform for annotating enzyme-encoding transcripts, especially for organisms without a reference genome. It aids in discovering new functions and understanding metabolic roles using extensive enzymatic reaction data.
Area of Science:
- Genomics
- Bioinformatics
- Enzymology
Background:
- Sequencing technology advances have increased data accessibility.
- Research is increasingly focused on organisms lacking a reference genome.
- Limited user-friendly web servers exist for enzymatic function annotation.
Purpose of the Study:
- Introduce Transcriptor, a novel platform for annotating enzyme-encoding transcripts.
- Address the need for accessible tools in non-model organisms.
Main Methods:
- Evaluation of transcripts using over 300,000 in-house enzymatic reactions.
- Utilized Enzyme Commission numbers for functional annotation.
Main Results:
- Transcriptor enables ontology term identification and enzyme association.
- Facilitates visualization and prediction of domains and regulatory structures (e.g., long noncoding RNAs).
- Supports functional discovery in both model and non-model species.
Conclusions:
- Transcriptor can elucidate the roles of transcriptomes and secondary metabolite biosynthesis.
- It is particularly valuable for organisms lacking a reference genome.
- The platform is available at http://design.rxnfinder.org/transcriptor/.
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