Amino Acid Substitution Matrices Based on 4-Body Delaunay Contact Profiles. - Ahmet Sacan; Ismail Hakki Toroslu (BIBE, 2007)

LFM-Pro: a tool for detecting significant local structural sites in proteins. - Ahmet Sacan; Ozgur Ozturk; Hakan Ferhatosmanoglu; Yusu Wang 001 (Bioinform., 2007)

Distance-based indexing of residue contacts for protein structure retrieval and alignment. - Ahmet Sacan; Ismail H. Toroslu; Hakan Ferhatosmanoglu (BIBE, 2008)

Automated Data Discovery in Similarity Score Queries. - Fatih Altiparmak; Ali Saman Tosun; Hakan Ferhatosmanoglu; Ahmet Sacan (DASFAA, 2008)

Approximate similarity search in genomic sequence databases using landmark-guided embedding. - Ahmet Sacan; Ismail Hakki Toroslu (ICDE Workshops, 2008)

CellTrack: an open-source software for cell tracking and motility analysis. - Ahmet Sacan; Hakan Ferhatosmanoglu; Huseyin Coskun (Bioinform., 2008)

Integrated search and alignment of protein structures. - Ahmet Sacan; Ismail Hakki Toroslu; Hakan Ferhatosmanoglu (Bioinform., 2008)

Secondary bitmap indexes with vertical and horizontal partitioning. - Guadalupe Canahuate; Tan Apaydin; Ahmet Sacan; Hakan Ferhatosmanoglu (EDBT, 2009)

MicroarrayDesigner: an online search tool and repository for near-optimal microarray experimental designs. - Ahmet Sacan; Nilgun Ferhatosmanoglu; Hakan Ferhatosmanoglu (BMC Bioinform., 2009)

Comparison of Multidimensional Data Access Methods for Feature-Based Image Retrieval. - Serdar Arslan; Ahmet Sacan; Esra Acar; Ismail Hakki Toroslu; Adnan Yazici (ICPR, 2010)

Online education experiences: information technologies certificate program at METU. - Erman Yükseltürk; Adnan Yazici; Ahmet Sacan; Özgür Kaya (ITiCSE, 2010)

BioDB: Integration of biological knowledgebases. - Jacqueline Gerhart; Ahmet Sacan (BIBM Workshops, 2011)

Protein Structure Visualization by Dimension Reduction and Texture Mapping. - Heng Yang; Rehman Qureshi; Ahmet Sacan (BIBM, 2011)

Reconstruction of gene regulatory networks by stepwise multiple linear regression from time-series microarray data. - Yiqian Zhou; Jacqueline Gerhart; Ahmet Sacan (BIBM Workshops, 2011)

Meta-analysis of protein structural alignment. - Jim Havrilla; Ahmet Sacan (BIBM Workshops, 2012)

A weighted hypergeometric statistic for the enrichment of gene sets. - Rehman Qureshi; Ahmet Sacan (BIBM, 2012)

Automated wound identification system based on image segmentation and Artificial Neural Networks. - Bo Song; Ahmet Sacan (BIBM, 2012)

Data simulation and regulatory network reconstruction from time-series microarray data using stepwise multiple linear regression. - Yiqian Zhou; Rehman Qureshi; Ahmet Sacan (Netw. Model. Anal. Health Informatics Bioinform., 2012)

Letter from the Associate Editors. - Ahmet Sacan; Nesime Tatbul (Proc. VLDB Endow., 2012)

Smolign: A Spatial Motifs-Based Protein Multiple Structural Alignment Method. - Hong Sun; Ahmet Sacan; Hakan Ferhatosmanoglu; Yusu Wang 001 (IEEE ACM Trans. Comput. Biol. Bioinform., 2012)

Weighted set enrichment of gene expression data. - Rehman Qureshi; Ahmet Sacan (BMC Syst. Biol., 2013)

Comparison of feature-based and image registration-based retrieval of image data using multidimensional data access methods. - Serdar Arslan; Adnan Yazici; Ahmet Sacan; Ismail H. Toroslu; Esra Acar (Data Knowl. Eng., 2013)

PDBCirclePlot: A Novel Visualization Method for Protein Structures. - Francis Bell; Chunyu Zhao; Ahmet Sacan (CoRR, 2014)

UniAlign: protein structure alignment meets evolution. - Chunyu Zhao; Ahmet Sacan (Bioinform., 2015)

Content-based search of gene expression databases using binary fingerprints of differential expression profiles. - Francis Bell; Ahmet Sacan (Netw. Model. Anal. Health Informatics Bioinform., 2015)

HIV1-human protein-protein interaction prediction based on interface architecture similarity. - Chunyu Zhao; Yizhou Zang; Wei Quan; Xiaohua Hu 001; Ahmet Sacan (BIBM, 2017)

Unfolding the Protein Surface for Pattern Matching. - Heng Yang; Chunyu Zhao; Ahmet Sacan (ISBRA, 2017)

Analysis of Paired miRNA-mRNA Microarray Expression Data Using a Stepwise Multiple Linear Regression Model. - Yiqian Zhou; Rehman Qureshi; Ahmet Sacan (ISBRA, 2017)

ImmunoTar - integrative prioritization of cell surface targets for cancer immunotherapy. - Rawan Shraim; Brian Mooney; Karina L. Conkrite; Amber K. Hamilton; Gregg B. Morin; Poul H. Sorensen; John M. Maris; Sharon J. Diskin; Ahmet Sacan (Bioinform., 2025)