Difference between revisions of "Sounkou Kim"
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<p> 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. <a href="http://www.technologyreview.com/article/404707/bio-programming/">[1]</a><a href="http://aihub.net/bio-programming-hacking-dna-compiling-code-living-systems/">[2]</a> 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:</p> | <p> 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. <a href="http://www.technologyreview.com/article/404707/bio-programming/">[1]</a><a href="http://aihub.net/bio-programming-hacking-dna-compiling-code-living-systems/">[2]</a> 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:</p> | ||
<ul> | <ul> | ||
| − | <li>BioPHP</li> | + | <li><a href="http://www.biophp.org/">BioPHP</a></li> |
</ul> | </ul> | ||
| − | <p style="margin-left: 40px;">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. <a href="http://en.wikipedia.org/wiki/BioPHP">http://en.wikipedia.org/wiki/BioPHP | + | <p style="margin-left: 40px;">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. <a href="http://en.wikipedia.org/wiki/BioPHP">http://en.wikipedia.org/wiki/BioPHP</a></p> |
<ul> | <ul> | ||
| − | <li>BioPerl</li> | + | <li><a href="http://www.bioperl.org/wiki/Main_Page">BioPerl</a></li> |
</ul> | </ul> | ||
| − | <p style="margin-left: 40px;">BioPerl is a collection of Perl modules that facilitate the development of Perl scripts for bioinformatics applications. <a href="http://en.wikipedia.org/wiki/BioPerl">http://en.wikipedia.org/wiki/BioPerl</a> | + | <p style="margin-left: 40px;">BioPerl is a collection of Perl modules that facilitate the development of Perl scripts for bioinformatics applications. <a href="http://en.wikipedia.org/wiki/BioPerl">http://en.wikipedia.org/wiki/BioPerl</a> </p> |
<p> 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<a href="http://www.ijcse.com/docs/INDJCSE11-02-06-087.pdf">[3]</a> or R<a href="http://cran.r-project.org/doc/contrib/Krijnen-IntroBioInfStatistics.pdf">[4]</a> specially for bioinformatics. There is even bioinformatics-specialized OS, <a href="http://environmentalomics.org/bio-linux/">Bio-Linux</a>, the Linux distribution with pakages of bioinformatics tools in OS level.</p> | <p> 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<a href="http://www.ijcse.com/docs/INDJCSE11-02-06-087.pdf">[3]</a> or R<a href="http://cran.r-project.org/doc/contrib/Krijnen-IntroBioInfStatistics.pdf">[4]</a> specially for bioinformatics. There is even bioinformatics-specialized OS, <a href="http://environmentalomics.org/bio-linux/">Bio-Linux</a>, the Linux distribution with pakages of bioinformatics tools in OS level.</p> | ||
<h1>Genomics</h1> | <h1>Genomics</h1> | ||
Revision as of 02:30, 8 May 2015
Contents
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 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 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
Transcriptomics
Proteomics
Epigenomics and Phenomics
Canceromics and Geromics
