NETAL: a new graph-based method for global alignment of protein-protein interaction networks. - Behnam Neyshabur; Ahmadreza Khadem; Somaye Hashemifar; Seyed Shahriar Arab (Bioinform., 2013)

HubAlign: an accurate and efficient method for global alignment of protein-protein interaction networks. - Somaye Hashemifar; Jinbo Xu (Bioinform., 2014)

Joint inference of tissue-specific networks with a scale free topology. - Somaye Hashemifar; Behnam Neyshabur; Jinbo Xu (BIBM, 2015)

ModuleAlign: module-based global alignment of protein-protein interaction networks. - Somaye Hashemifar; Jianzhu Ma; Hammad Naveed; Stefan Canzar; Jinbo Xu (Bioinform., 2016)

Joint Alignment of Multiple Protein-Protein Interaction Networks via Convex Optimization. - Somaye Hashemifar; Qixing Huang; Jinbo Xu (J. Comput. Biol., 2016)

Lynx: a knowledge base and an analytical workbench for integrative medicine. - Dinanath Sulakhe; Bingqing Xie; Andrew Taylor; Mark D'Souza; Sandhya Balasubramanian; Somaye Hashemifar; Steven White; Utpal J. Dave; Gady Agam; Jinbo Xu; Sheng Wang 001; T. Conrad Gilliam; et al. (Nucleic Acids Res., 2016)

Computational prediction and analysis of protein-protein interaction networks. - Somaye Hashemifar (CoRR, 2017)

Predicting protein-protein interactions through sequence-based deep learning. - Somaye Hashemifar; Behnam Neyshabur; Aly A. Khan; Jinbo Xu (Bioinform., 2018)

DeepAD: A Robust Deep Learning Model of Alzheimer's Disease Progression for Real-World Clinical Applications. - Claudia Iriondo; Evan Casey; Mohsen Hejrati; Somaye Hashemifar (CoRR, 2022)

Cross-Domain Self-Supervised Deep Learning for Robust Alzheimer's Disease Progression Modeling. - Saba Dadsetan; Mohsen Hejrati; Shandong Wu; Somaye Hashemifar (CoRR, 2022)

Multiclass Semantic Segmentation to Identify Anatomical Sub-Regions of Brain and Measure Neuronal Health in Parkinson's Disease. - Hosein Barzekar; Hai Ngu; Han Hui Lin; Mohsen Hejrati; Steven Ray Valdespino; Sarah Chu; Baris Bingol; Somaye Hashemifar; Soumitra Ghosh (CoRR, 2023)

Robust Alzheimer's Progression Modeling using Cross-Domain Self-Supervised Deep Learning. - Saba Dadsetan; Mohsen Hejrati; Shandong Wu; Somaye Hashemifar (Trans. Mach. Learn. Res., 2023)

Self-supervised Learning for Segmentation and Quantification of Dopamine Neurons in Parkinson's Disease. - Fatemeh Haghighi; Soumitra Ghosh; Sarah Chu; Hai Ngu; Mohsen Hejrati; Han Hui Lin; Baris Bingol; Somaye Hashemifar (Trans. Mach. Learn. Res., 2023)

Speaking the Same Language: Leveraging LLMs in Standardizing Clinical Data for AI. - Arindam Sett; Somaye Hashemifar; Mrunal Yadav; Yogesh Pandit; Mohsen Hejrati (CoRR, 2024)