Codon Usage Optimizer

Slide 1

Advancing Protein Expression

Codon Usage Optimizer (CUO) is a GUI-based multiplatform software written in Java. The main function of the software is to optimize genes to be transformed into the Chlamydomonas reinhardtii chloroplast genome using an original set of algorithms for calculation, data processing and automated reasoning. Furthermore, it can be used as an electronic drawboard for gene sequence analysis and design. While the software focuses on the C.reinhardtii genome, it can also be used to optimize genes into other hosts as well. Since E.coli and S.cerevisiae are popular candidates of biotechnological exploitation, they will be CUO's next shift of focus in its development.

Slide 2
Elevator Pitch
Slide Deck
In the elevator pitch we describe the unique selling point of CUO and detail our plans on how we will commercialize it using the open source platform. These tutorials demonstrate key features of CUO and help new users unleash its the awesome power. In the slide deck we describe the unique selling point of CUO and detail our plans on how we will commercialize it using the open source platform

Draft Pitch


Slide 3

Get the latest version of CUO!


Last Modified: 14.10.2012

Kasuza Table parser added
Edit Table function added
View Table function added
Translator added
Plot graph function in Moptimzier
Operation Panel improved
Tutorials added

release notes

beta0.92 released!

I am delighted to announce the release of CUO beta0.92! This release humbly marks the new era of CUO. The team had grown and sprouted like never before. With the recent recruitment of four professional bioinformaticians and a web developer into the dev team, the program is entering an accelerated development phase that was previously impossible. We even have a public engagement officer on board now to make the software more interactive from all aspects (check out our social networks :D ). Many thanks again to all the people supporting, building and using CUO. The result presented here is an accumulation of efforts and help from everyone.


  • Kasuza Table parser in Processor, A new tool to parse and save tables from Kasuza Database at breeze.
  • Edit Table in Processor, Open up and edit any table you like, even make your own.
  • View Table in Processor, View multiple tables within split seconds.
  • Translator, New tool to translate, transcribe and get complementary strain of a sequence, no more alt+tab.
  • Graph in Motpimizer, CAI and CPI in Moptimizer now comes in graph forms, call it with the new little white button beside the overall CAI and CPI.
  • Improved Operation Panel, Project indea is integrated, we can now save/open a canvas, drag and drop fragments from browserpanel to the canvas.
  • Video Tutorials, Access the crash courses from Help in menubar or visit our youtube channel.
  • Restructured folders hierachy, The program folders is now even tidier and visually smoothing to navigate.
  • Launch of facebook page, twitter, youtube channel.
Example Frame

<forum_subtle />