Can Alkan, Ph.D.
Associate Professor @ Dept. of Computer Engineering, Bilkent University
PI, Lab for Bioinformatics & Computational Genomics

Department of Computer Engineering
Bilkent University
Engineering Building, EA-509
Bilkent, Ankara 06800
Turkey

Email:
:	@calkan_cs, @BilkentCompGen
:	@calkan_cs

Note: I don't use phones. Email me instead.

Motivated graduate students wanted. Contact me if you are interested in algorithm design for computational genomics.
Contact me for implementation based projects for undergraduate students and summer interns or check out the CS490 web page.

Pronunciation of my name:

Vita: PDF

Public calendar

Education

Postdoctoral Fellow, Genome Sciences at University of Washington, Seattle, WA, USA, October 2005 to December 2011
Supervisor: Prof. Evan E. Eichler
Ph.D., Computer Science, at Case Western Reserve University, Cleveland, OH, USA, August 2005
Supervisor: Prof. Cenk Şahinalp
B.Sc., Computer Science, Bilkent University, Ankara, Turkey, May 2000

Research Interests

I am a combinatorial algorithmicist who likes 4-letter alphabets. I work on:

Combinatorial Algorithm Design for Bioinformatics:

High throughput sequencing data analysis: mapping, alignment, structural variation discovery
Pangenomics

Hardware acceleration of bioinformatics applications

- GPGPU
- Processing-in-memory technologies
Visit my research group's web page for more details.

Service

Department Coordinator (with Ayşegül Dündar) - Erasmus and Bilateral Exchange Program

Please inspect the web page, including FAQ and application procedure before contacting for questions.

***All students who want to ask me to be their supervisor in the CS491 Senior Project Design should read my rules here before contacting me.***

Teaching

Fall 2024:

CS 202: Fundamental Structures of Computer Science II
CS 476: Automata Theory and Formal Languages

Spring 2024:

CS 202: Fundamental Structures of Computer Science II
CS 481: Bioinformatics Algorithms

Fall 2023:

CS 202: Fundamental Structures of Computer Science II
CS 476: Automata Theory and Formal Languages

Spring 2023:

CS 202: Fundamental Structures of Computer Science II

Fall 2022:

CS 476: Automata Theory and Formal Languages
CS 481: Bioinformatics Algorithms

Spring 2022:

CS 476: Automata Theory and Formal Languages

Fall 2021:

CS 481: Bioinformatics Algorithms
CS 202: Fundamental Structures of Computer Science II

Spring 2021:

CS 476: Automata Theory and Formal Languages

Fall 2020:

CS 481: Bioinformatics Algorithms
CS 681: Advanced Topics in Computational Biology

Spring 2020:

CS 476: Automata Theory and Formal Languages

Fall 2019:

CS 481: Bioinformatics Algorithms
CS 681: Advanced Topics in Computational Biology

Spring 2019:

CS 476: Automata Theory and Formal Languages

Fall 2017:

CS 476: Automata Theory and Formal Languages
CS 481: Bioinformatics Algorithms

Spring 2017:

CS 476: Automata Theory and Formal Languages

Fall 2016:

CS 476: Automata Theory and Formal Languages
CS 481: Bioinformatics Algorithms

Spring 2016:

CS 476: Automata Theory and Formal Languages

Fall 2015:

CS 476: Automata Theory and Formal Languages
CS 319: Object Oriented Software Engineering

Spring 2015:

CS 476: Automata Theory and Formal Languages

Fall 2014:

CS 476: Automata Theory and Formal Languages
CS 319: Object Oriented Software Engineering

Spring 2014:

CS 476: Automata Theory and Formal Language

Fall 2013:

CS 481: Bioinformatics Algorithms
CS 319: Object Oriented Software Engineering

Spring 2013:

CS 202: Fundamental Structures of Computer Science II
CS 319: Object Oriented Software Engineering
CS 681: Advanced Topics in Computational Biology

Fall 2012:

CS 481: Bioinformatics Algorithms

Summer 2012:

CS 319: Object Oriented Software Engineering

Spring 2012:

CS 681: Advanced Topics in Computational Biology

CS 590/690: Research Topics

CS 491: Senior Design Project
CS 490: Introduction to Research

Publications

ORCID

calkan