I'm Paul Horton. From 2003 until summer 2018 I worked at a national laboratory in Japan, most of the time at the Computational Biology Research Center (CBRC).
In 2018 I moved to Taiwan; where I am a professor in the Department of Computer Science and Information Engineering at the National Cheng Kung University (NCKU:成功大學, pronounced "chéng gōng") in Tainan, Taiwan.


My research is mostly in bioinformatics. The best way to learn more is to read some of my research papers.

One project I am involved in is MethylSeqLogo, a visualization method to help understand DNA methylation at transcription factor binding sites.

I also have a potential interest in computer science work related to Chinese/Japanese languages (e.g. domain specific 中⟷日 machine translation, tools for computer assisted teaching (教學) of those languages, etc.).


I teach a few courses at NCKU. I also advise graduate students.

Software Development

A couple of projects I am working on are fastapl and perltab, utilities which facilitate convenient and flexible handling of biosequence and tabular data respectively, via user provided snippets of Perl code. I also have a few projects on gitlab.

Other geeky distractions

Don't reinvent the wheel, reinvent an ascii table.


One way to find most of my publications is via my Google Scholar Profile. This pdf file lists most of those publications and a few others.

Community Service

I serve on the editorial board of GigaScience. In the past I have served on the board of directors of the International Society of Computational Biology.

Organizing Conferences

I have been active in organizing scientific meetings in recent years and recently had occasion to put together a meeting organizer résumé. The first international conference I chaired was ISCB-Asia/SCCG 2012. I co-chaired GIW/ISCB-Asia 2014 and chaired GIW/InCoB 2015.
And then again GIW XXXI/ISCB-Asia V in Tainan. A copy of the program GIW XXXI/ISCB-Asia V can be found here.


I went to college for a long time and loved every minute of it. My degrees are PhD in Computer Science from UC Berkeley in December 1997; M.S. in Biophysics from Kyoto University in March 1992; and a B.S. in Molecular Biology from the University of Washington (Seattle), in January of 1989.

PhD Thesis:

In 1997 I wrote a PhD thesis entitled:
Strings Algorithms and Machine Learning Applications for Computation Biology

Group Photo