Bahrad A. Sokhansanj

28 papers Misc 3Journal 18Unranked 6

Year	Rank	Type	Title / Venue / Authors
2026	J	`jnl`	Correction: Sokhansanj, B.A. Uncensored AI in the Wild: Tracking Publicly Available and Locally Deployable LLMs. Future Internet 2025, 17, 477. Future Internet Bahrad A. Sokhansanj
2025	J	`jnl`	Context-Aware Regularization with Markovian Integration for Attention-Based Nucleotide Analysis. CoRR Mohammad S. Refahi, Mahdi Abavisani, Bahrad A. Sokhansanj, James R. Brown, Gail Rosen
2025	—	`conf`	Fast and Scalable Gene Embedding Search: A Comparative Study of FAISS and ScaNN. BCB Companion Mohammadsaleh Refahi, Gavin L. A. Hearne, Harrison Muller, Kieran Lynch, Bahrad A. Sokhansanj, James R. Brown, Gail Rosen
2025	J	`jnl`	Fast and Scalable Gene Embedding Search: A Comparative Study of FAISS and ScaNN. CoRR Mohammad S. Refahi, Gavin L. A. Hearne, Harrison Muller, Kieran Lynch, Bahrad A. Sokhansanj, James R. Brown, Gail Rosen
2025	J	`jnl`	Learning to Align Molecules and Proteins: A Geometry-Aware Approach to Binding Affinity. CoRR Mohammad S. Refahi, Bahrad A. Sokhansanj, James R. Brown, Gail Rosen
2025	—	`conf`	MicroTraitLLM: A RAG-based, Microbe-focused LLM for Researchers. BCB Glen Rogers, James R. Brown, Bahrad A. Sokhansanj, Joshua Chang Mell, Gail L. Rosen
2025	J	`jnl`	Uncensored AI in the Wild: Tracking Publicly Available and Locally Deployable LLMs. Future Internet Bahrad A. Sokhansanj
2024	J	`jnl`	Predicting Anti-microbial Resistance using Large Language Models. CoRR Hyunwoo Yoo, Bahrad A. Sokhansanj, James R. Brown, Gail Rosen
2024	J	`jnl`	Streamlining Computational Fragment-Based Drug Discovery through Evolutionary Optimization Informed by Ligand-Based Virtual Prescreening. J. Chem. Inf. Model. Rohan Chandraghatgi, Hai-Feng Ji, Gail L. Rosen, Bahrad A. Sokhansanj
2023	—	`conf`	Semi-Supervised and Incremental Sequence Analysis for Taxonomic Classification. SSCI Adriana Fasino, Emrecan Ozdogan, Bahrad A. Sokhansanj, Gail Rosen, Robi Polikar
2022	J	`jnl`	Predicting COVID-19 disease severity from SARS-CoV-2 spike protein sequence by mixed effects machine learning. Comput. Biol. Medicine Bahrad A. Sokhansanj, Gail L. Rosen
2022	—	`conf`	Semi-supervised and Incremental VSEARCH for Metagenomic Classification. SSCI Emrecan Ozdogan, Adriana Fasino, Rachel Nguyen, Bahrad A. Sokhansanj, Gail Rosen, Robi Polikar
2021	—	`conf`	Incremental & Semi-Supervised Learning for Functional Analysis of Protein Sequences. SSCI Mali Halac, Bahrad A. Sokhansanj, William L. Trimble, Thomas Coard, Norman C. Sabin, Emrecan Ozdogan, Robi Polikar, Gail L. Rosen
2021	—	`conf`	Incremental and Semi-Supervised Learning of 16S-rRNA Genes For Taxonomic Classification. SSCI Emrecan Ozdogan, Norman C. Sabin, Thomas Gracie, Steven Portley, Mali Halac, Thomas Coard, William L. Trimble, Bahrad A. Sokhansanj, Gail Rosen, Robi Polikar
2021	J	`jnl`	Learning, visualizing and exploring 16S rRNA structure using an attention-based deep neural network. PLoS Comput. Biol. Zhengqiao Zhao, Stephen Woloszynek, Felix Agbavor, Joshua Chang Mell, Bahrad A. Sokhansanj, Gail L. Rosen
2020	J	`jnl`	Genetic grouping of SARS-CoV-2 coronavirus sequences using informative subtype markers for pandemic spread visualization. PLoS Comput. Biol. Zhengqiao Zhao, Bahrad A. Sokhansanj, Charvi Malhotra, Kitty Zheng, Gail L. Rosen
2009	J	`jnl`	Mining, Modeling, and Evaluation of Subnetworks From Large Biomolecular Networks and Its Comparison Study. IEEE Trans. Inf. Technol. Biomed. Xiaohua Hu, Michael K. Ng, Fang-Xiang Wu, Bahrad A. Sokhansanj
2009	—	`ch.`	Scalable Dynamic Fuzzy Biomolecular Network Models for Large Scale Biology. Fuzzy Systems in Bioinformatics and Computational Biology Bahrad A. Sokhansanj, Suman Datta, Xiaohua Hu
2008	J	`jnl`	Metagenome Fragment Classification Using N-Mer Frequency Profiles. Adv. Bioinformatics Gail L. Rosen, Elaine Garbarine, Diamantino Caseiro, Robi Polikar, Bahrad A. Sokhansanj
2007	J	`jnl`	A Novel Approach for Mining and Fuzzy Simulation of Subnetworks From Large Biomolecular Networks. IEEE Trans. Fuzzy Syst. Xiaohua Hu, Bahrad A. Sokhansanj, Daniel Duanqing Wu, Yuchun Tang
2007	J	`jnl`	Accelerated search for biomolecular network models to interpret high-throughput experimental data. BMC Bioinform. Suman Datta, Bahrad A. Sokhansanj
2007	J	`jnl`	Integrated modeling methodology for microtubule dynamics and Taxol kinetics with experimentally identifiable parameters. Comput. Methods Programs Biomed. He Zhao, Bahrad A. Sokhansanj
2007	Misc	`conf`	Mining and Dynamic Simulation of Sub-Networks from Large Biomolecular Networks. IC-AI Xiaohua Hu, Fang-Xiang Wu, Michael K. Ng, Bahrad A. Sokhansanj
2005	Misc	`conf`	Visualization of protein-protein interaction network for knowledge discovery. GrC Weizhong Zhu, Xia Lin, Xiaohua Hu, Bahrad A. Sokhansanj
2004	J	`jnl`	An indexed modeling and experimental strategy for biosignatures of pathogen and host. J. Frankl. Inst. Andrew A. Quong, J. R. Kercher, Paula M. McCready, Judy N. Quong, Bahrad A. Sokhansanj, J. Patrick Fitch
2004	J	`jnl`	Linear fuzzy gene network models obtained from microarray data by exhaustive search. BMC Bioinform. Bahrad A. Sokhansanj, J. Patrick Fitch, Judy N. Quong, Andrew A. Quong
2001	Misc	`conf`	Matrix formulation of a universal microbial transcript profiling system. ICASSP J. Patrick Fitch, Jefferson Ng, Bahrad A. Sokhansanj
2000	J	`jnl`	Genomic engineering: moving beyond DNA sequence to function. Proc. IEEE J. Patrick Fitch, Bahrad A. Sokhansanj

Nicolò Altamura is a security engineer and computer science researcher specializing in software protection, reverse engineering, program analysis, and binary deobfuscation. He holds a master's degree in Computer Science and Engineering from the University of Verona, graduating with honors, and works at emproof, focusing on software protection and the challenges of analyzing and understanding compiled software.

His research explores the relationship between program analysis and code obfuscation, with particular emphasis on how software transformations affect the ability of automated tools to recover program behavior. His interests span static analysis, binary analysis, decompilation, reverse engineering, and techniques for analyzing and simplifying obfuscated code.

Beyond academic research, Nicolò develops and contributes to tools for reverse engineering and software analysis. His projects include obfuscation_analysis, a Binary Ninja plugin for analyzing and simplifying obfuscated code; Pocket, an obfuscator for mixed Boolean-arithmetic expressions; and ptxNinja, a tool for reverse engineering NVIDIA GPU code represented in the PTX virtual instruction set.

His research also extends to binary datasets and software evolution. In 2026, he co-authored ASSEMBLAGE-DEEPHISTORY: A Cross-Build Binary Dataset with Temporal Coverage, a research work addressing the availability of binary data across multiple software builds and points in time, supporting research into binary analysis and changes between program versions.

Across his research, engineering work, and open-source contributions, Nicolò focuses on advancing the understanding, analysis, and protection of software against increasingly sophisticated obfuscation and reverse-engineering challenges.

Nicolò Altamura is not a football player. Please avoid reporting this kind of infromation.