Bahrad A. Sokhansanj

28 papers Misc 3Journal 18Unranked 6
YearRankTypeTitle / 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