A Scalable Parallel Graph Coloring Algorithm for Distributed Memory Computers. - Erik G. Boman; Doruk Bozdag; Ümit V. Çatalyürek; Assefaw Hadish Gebremedhin; Fredrik Manne (Euro-Par, 2005)

A Parallel Distance-2 Graph Coloring Algorithm for Distributed Memory Computers. - Doruk Bozdag; Ümit V. Çatalyürek; Assefaw Hadish Gebremedhin; Fredrik Manne; Erik G. Boman; Füsun Özgüner (HPCC, 2005)

A Task Duplication Based Scheduling Algorithm Using Partial Schedules. - Doruk Bozdag; Füsun Özgüner; Eylem Ekici; Ümit V. Çatalyürek (ICPP, 2005)

Partitioning based mobile element scheduling in wireless sensor networks. - Yaoyao Gu; Doruk Bozdag; Eylem Ekici; Füsun Özgüner; Chang-Gun Lee (SECON, 2005)

A task duplication based bottom-up scheduling algorithm for heterogeneous environments. - Doruk Bozdag; Ümit V. Çatalyürek; Füsun Özgüner (IPDPS, 2006)

Mobile Element Based Differentiated Message Delivery in Wireless Sensor Networks. - Yaoyao Gu; Doruk Bozdag; Eylem Ekici (WOWMOM, 2006)

Mobility-based communication in wireless sensor networks. - Eylem Ekici; Yaoyao Gu; Doruk Bozdag (IEEE Commun. Mag., 2006)

Data harvesting with mobile elements in wireless sensor networks. - Yaoyao Gu; Doruk Bozdag; Robert W. Brewer; Eylem Ekici (Comput. Networks, 2006)

Hypergraph-based Dynamic Load Balancing for Adaptive Scientific Computations. - Ümit V. Çatalyürek; Erik G. Boman; Karen D. Devine; Doruk Bozdag; Robert T. Heaphy; Lee Ann Riesen (IPDPS, 2007)

A framework for scalable greedy coloring on distributed-memory parallel computers. - Doruk Bozdag; Assefaw Hadish Gebremedhin; Fredrik Manne; Erik G. Boman; Ümit V. Çatalyürek (J. Parallel Distributed Comput., 2008)

A Biclustering Method to Discover Co-regulated Genes Using Diverse Gene Expression Datasets. - Doruk Bozdag; Jeffrey D. Parvin; Ümit V. Çatalyürek (BICoB, 2009)

A Comprehensive Analysis Workflow for Genome-Wide Screening Data from ChIP-Sequencing Experiments. - Hatice Gulcin Ozer; Doruk Bozdag; Terry Camerlengo; Jiejun Wu; Yi-Wen Huang; Timothy D. R. Hartley; Jeffrey D. Parvin; Tim Hui-Ming Huang; Ümit V. Çatalyürek; Kun Huang 001 (BICoB, 2009)

Parallelization of Mapping Algorithms for Next Generation Sequencing Applications. - Doruk Bozdag; Catalin C. Barbacioru; Ümit V. Çatalyürek (Combinatorial Scientific Computing, 2009)

Parallel short sequence mapping for high throughput genome sequencing. - Doruk Bozdag; Catalin C. Barbacioru; Ümit V. Çatalyürek (IPDPS, 2009)

A repartitioning hypergraph model for dynamic load balancing. - Ümit V. Çatalyürek; Erik G. Boman; Karen D. Devine; Doruk Bozdag; Robert T. Heaphy; Lee Ann Riesen (J. Parallel Distributed Comput., 2009)

Compaction of Schedules and a Two-Stage Approach for Duplication-Based DAG Scheduling. - Doruk Bozdag; Füsun Özgüner; Ümit V. Çatalyürek (IEEE Trans. Parallel Distributed Syst., 2009)

Comparative analysis of biclustering algorithms. - Doruk Bozdag; Ashwin S. Kumar; Ümit V. Çatalyürek (BCB, 2010)

Exploring parallelism in short sequence mapping using Burrows-Wheeler Transform. - Doruk Bozdag; Ayat Hatem; Ümit V. Çatalyürek (IPDPS Workshops, 2010)

A Moldable Online Scheduling Algorithm and Its Application to Parallel Short Sequence Mapping. - Erik Saule; Doruk Bozdag; Ümit V. Çatalyürek (JSSPP, 2010)

Distributed-Memory Parallel Algorithms for Distance-2 Coloring and Related Problems in Derivative Computation. - Doruk Bozdag; Ümit V. Çatalyürek; Assefaw H. Gebremedhin; Fredrik Manne; Erik G. Boman; Füsun Özgüner (SIAM J. Sci. Comput., 2010)

Benchmarking Short Sequence Mapping Tools. - Ayat Hatem; Doruk Bozdag; Ümit V. Çatalyürek (BIBM, 2011)

Optimizing the stretch of independent tasks on a cluster: From sequential tasks to moldable tasks. - Erik Saule; Doruk Bozdag; Ümit V. Çatalyürek (J. Parallel Distributed Comput., 2012)

Benchmarking short sequence mapping tools. - Ayat Hatem; Doruk Bozdag; Amanda E. Toland; Ümit V. Çatalyürek (BMC Bioinform., 2013)