An efficient data structure for applying multiple seeds in homology search. - Alireza Hadj Khodabakhshi; Mehdi Mirzazadeh; Arvind Gupta (BIBE, 2007)

Design of Artificial Tubular Protein Structures in 3D Hexagonal Prism Lattice Under HP Model. - Arvind Gupta; Mehdi Karimi 001; Alireza Hadj Khodabakhshi; Ján Manuch; Arash Rafiey (BIOCOMP, 2007)

Structure-Approximating Design of Stable Proteins in 2D HP Model Fortified by Cysteine Monomers. - Alireza Hadj Khodabakhshi; Ján Manuch; Arash Rafiey; Arvind Gupta (APBC, 2008)

Inverse protein folding in 3D hexagonal prism lattice under HP model. - Alireza Hadj Khodabakhshi; Ján Manuch; Arash Rafiey; Arvind Gupta (BIOCOMP, 2008)

A Robust Class of Stable Proteins in the 2D HPC Model. - Alireza Hadj Khodabakhshi; Ján Manuch; Arash Rafiey; Arvind Gupta (BIRD, 2008)

Stable Structure-Approximating Inverse Protein Folding in 2D Hydrophobic-Polar-Cysteine (HPC) Model. - Alireza Hadj Khodabakhshi; Ján Manuch; Arash Rafiey; Arvind Gupta (J. Comput. Biol., 2009)

Inverse Protein Folding in 3D Hexagonal Prism Lattice under HPC Model. - Alireza Hadj Khodabakhshi; Ján Manuch; Arash Rafiey; Arvind Gupta (J. Comput. Biol., 2009)

Human variation database: an open-source database template for genomic discovery. - Anthony P. Fejes; Alireza Hadj Khodabakhshi; Inanç Birol; Steven J. M. Jones (Bioinform., 2011)

Identifying cancer mutation targets across thousands of samples: MuteProc, a high throughput mutation analysis pipeline. - Alireza Hadj Khodabakhshi; Anthony P. Fejes; Inanç Birol; Steven J. M. Jones (BMC Bioinform., 2013)

Classifying Malware Using Function Representations in a Static Call Graph. - Thomas Dalton; Mauritius Schmidtler; Alireza Hadj Khodabakhshi (CSoNet, 2020)

PhreshPhish: A Real-World, High-Quality, Large-Scale Phishing Website Dataset and Benchmark. - Thomas Dalton; Hemanth Gowda; Girish Rao; Sachin Pargi; Alireza Hadj Khodabakhshi; Joseph Rombs; Stephan Jou; Manish Marwah (CoRR, 2025)