I am a senior researcher at the Systems Group of the Computer Science Department, ETH Zürich. My primary research interest is developing new algorithmic methods and hardware architectures for tackling and accelerating challenging computational problems, adapted to modern heterogeneous computing environments. I am currently working with Onur Mutlu on addressing the performance bottlenecks in the realm of bioinformatics and computational genomics.
I earned my PhD in Computer Engineering from Bilkent University, Turkey, where i was a TÜBITAK fellow under the supervision of Can Alkan and Onur Mutlu. During my PhD, I developed new, more efficient algorithmic methods for comparing donor DNA segments with well-studied reference genome aiming at accelerating the discovery of genetic disorders. My PhD work is the first to leverage specialized hardware chips for accelerating the detection of dissimilar DNA segments.
Prior to enrolling at Bilkent, I was a consultant at High-Performance Computing (HPC) Service Center, PETRONAS Carigali, Kuala Lumpur from 2013 to 2015, where I led the development of analysis and visualization solutions for offshore oil and gas operations. In 2017, I Joined ZarLab as a Staff Research Associate at the Computer Science Department, University of California Los Angeles. I was responsible for developing Microbe-Scope visualization tool for accurate and comprehensive microbial community profiling. In 2018, I joined CfAED, TU Dresden, Germany, as a Guest Researcher, where I investigated speed/accuracy trade-offs in hardware accelerated read mapping in genome analysis.
I was named as the best Palestinian PhD student in Turkey and received the 2017 Yasser Arafat Award for academic excellence. I also received the HiPEAC Collaboration Grant 2018, the Scientific and Technological Research Council of Turkey (TÜBITAK ) Fellowship 2014-2018 for international students, the UNESCO Chair in Data Privacy Travel Grant 2015, the Bilkent University Merit Scholarship 2014-2018, the UTP Graduate Assistantship 2011-2013, and the IUG Excellence Scholarship 2005-2007 for my academic achievements and contributions.If you are interested in accelerating bioinformatics algorithms, please do not hesitate to contact me.
Peer-Reviewed Journal Articles:
Peer-Reviewed Conference Papers:
Manuscripts Under Submission:
CAB D 77, Department of Computer Science,
ETH Zürich, Universitätstrasse 6,
8092 Zürich, Switzerland
mohammed.alser at inf dot ethz dot ch