Sounkou Kim

Principles of Bioinformatics

Bioprogramming

   Threre are some example that use the word 'Bio Programming' as a technique in genetic engineering related to synthetic biology such as synthesizing or modifying biological object like DNA, proteins, or even cells. [1][2] Therefore, to avoid confusion, the word 'Bioprogramming' written without blank would be limitted in meaning as programming in computer used to bioinformatics in 2015 1st semestser Bioinformatics class. Professor Bhak suggested following two examples:

• BioPHP

BioPHP is a package of PHP, with classes for DNA and protein sequence analysis, alignment, database parsing, and othe bioinformatics tools. It is not independent programming language from PHP, but a bunch of add-on tools specialized in bioinformatics. http://en.wikipedia.org/wiki/BioPHP

• BioPerl

BioPerl is a collection of Perl modules that facilitate the development of Perl scripts for bioinformatics applications. http://en.wikipedia.org/wiki/BioPerl 

  As shown in both examples, bioprogramming does not mean by the original programming language only for bioinformatics, but the use of existing general programming language such as Java[3]  or R[4] specially for bioinformatics. There is  even bioinformatics-specialized OS, Bio-Linux, the Linux distribution with pakages of bioinformatics tools in OS level.

Genomics

  Genomics is a study on sequencing, analysing, or modifying genome, the complete set of DNA within an organism. Based on development in sequencing technology and followed completion of genome sequencing, the "omics" reolution - the study on 'total' thing about the subject  - had begun. By dealing with functions of gene, structures of translated protein, modifying and recovering genes, genomics can be applied in development of genomic medicine or synthetic biology.