Grants
Current
- Horizon Europe EIC Pathfinder 101047160, 2022-2026
- Title: Processing-in-memory architectures and programming libraries for bioinformatics algorithms (BioPIM)
- Coordinator: Can Alkan
- Team Leaders: Onur Mutlu (ETH Zürich), Rayan Chikhi (Institut Pasteur), Dominique Lavenier (CNRS), Abu Sebastian (IBM Zürich), Ran Ginosar (Technion), Remy Cimadomo (UPMEM), Leonid Yavits (Bar-Ilan).
- Goal: Leveraging the emerging processing-in-memory (PIM) technologies to enable powerful edge computing.
- Afyon Health Sciences University Scientific Research Project (20-TEMATIK-004), 2021-2022
- Title: Developing rapid diagnostic kit for sepsis (Sepsi-Fast)
- PI: Nurullah Okumuş
- Co-PI: Can Alkan, Urartu Şeker, Serdar Ceylaner
- Goal: Determining antibiotic resistance and susceptibility in newborn sepsis cases
Past
- European Molecular Biology Organization Installation Grant (IG-2521), 2013-2019
- Title: Development and application of computational methods to
analyze next generation sequence data to characterize both normal
and disease causing variation, and build de
novo genome assemblies
- PI: Can Alkan
- Goal: Analysis of biological sequences generated with the next-gen sequencing platforms.
- Scientific and Technical Research Council of Turkey (TÜBİTAK-1001-115E596), 2016-2019
- Title: BacGenTrack – An integrated system for Bacterial Genome Tracking using high throughput sequencing technology: from identification to visualization
- PI: Can Alkan and Joao Andre Carriço
- Goal: Developing new algorithms for the field of molecular
epidemiology.
- Scientific and Technical Research Council of Turkey (TÜBİTAK-1001-215E172), 2016-2018
- Title: Algorithms for structural variation discovery using hybrid sequencing technologies and library preparation protocols.
- PI: Can Alkan
- Goal: Discovery and characterization of structural variants using multiple sequencing platforms, linked-reads, and read clouds
- The Science Academy, Turkey, Young Investigator Award (BAGEP), 2013-2014
- PI: Can Alkan
- United States of America National Institutes of Health (R01 HG006004),
2011-2015
- Title: Novel algorithms and hardware designs for ultra-fast next-gen sequence analysis
- PI: Onur Mutlu
- Co-PI: Can Alkan
- Goal: Developing specialized hardware architectures to accelerate mapping reads generated with the high throughput sequencing platforms.
- European Union Marie Curie Actions Career Integration Grant (PCIG10-GA-2011-303772), 2012-2016
- Title: Integrated approaches for genomic variation discovery
using high throughput sequencing
- PI: Can Alkan
- Goal: Developing novel combinatorial algorithms to comprehensively and quickly discover genomic variation.
- Scientific and Technical Research Council of Turkey (TÜBİTAK-1001-112E135), 2012-2015
- Title: Development and application of novel genome assembly algorithms that use multiple data sources
- PI: Can Alkan
- Goal: Developing assembly algorithms to more reliably construct de novo genome assemblies using data from multiple sources.