Mohammad R. K. Mofrad

27 papers B 1Journal 25Unranked 1
YearRankTypeTitle / Venue / Authors
2026 J jnl
Beyond Explainable AI (XAI): An Overdue Paradigm Shift and Post-XAI Research Directions.
CoRR
Saleh Afroogh, Seyd Ishtiaque Ahmed, Petra Ahrweiler, David Alvarez-Melis, Mansur Maturidi Arief, Emilia Barakova, Falco J. Bargagli-Stoffi, Erdem Biyik, Hanjie Chen, Xiang 'Anthony' Chen, Robert Clements, Keeley Crockett, Amit Dhurandhar, Fethiye Irmak Dogan, Mollie Dollinger, Motahhare Eslami, Aldo A. Faisal, Arya Farahi, Melanie Fernandez Pradie, Saadia Gabrie, Diego Garcia-Olano, Marzyeh Ghassemi, Shaona Ghosh, Hatice Gunes, Ehsan Hajiramezanali, Stefan Haufe, Biwei Huang, Angel Hwang, Md Tauhidul Islam, Junfeng Jiao, Amir-Hossein Karimi, Saber Kazeminasab, Anastasia Kuzminykh, William G. La Cava, Brian Y. Lim, Xiaofeng Liu, Mohammad R. K. Mofrad, Alicia Parrish, María Pérez-Ortiz, Shriti Raj, Swabha Swayamdipta, Salmon Talebi, Kush R. Varshney, Mihaela Vorvoreanu, Lily Weng, Alice Xiang, Yiming Xu, Ding Zhao, Jieyu Zhao
2025 J jnl
Role of pore dilation in molecular transport through the nuclear pore complex: Insights from polymer scaling theory.
PLoS Comput. Biol.
Atsushi Matsuda, Mohammad R. K. Mofrad
2024 J jnl
Exploring the performance and explainability of fine-tuned BERT models for neuroradiology protocol assignment.
BMC Medical Informatics Decis. Mak.
Salmonn Talebi, Elizabeth Tong, Anna Li, Ghiam Yamin, Greg Zaharchuk, Mohammad R. K. Mofrad
2024 J jnl
Fine-tuning protein embeddings for functional similarity evaluation.
Bioinform.
Andrew Dickson, Mohammad R. K. Mofrad
2024 J jnl
HGTDR: Advancing drug repurposing with heterogeneous graph transformers.
Bioinform.
Ali Gharizadeh, Karim Abbasi, Amin Ghareyazi, Mohammad R. K. Mofrad, Hamid R. Rabiee
2023 J jnl
Beyond the Hype: Assessing the Performance, Trustworthiness, and Clinical Suitability of GPT3.5.
CoRR
Salmonn Talebi, Elizabeth Tong, Mohammad R. K. Mofrad
2023 J jnl
GO Bench: shared hub for universal benchmarking of machine learning-based protein functional annotations.
Bioinform.
Andrew Dickson, Ehsaneddin Asgari, Alice C. McHardy, Mohammad R. K. Mofrad
2023 J jnl
On the Sensitivity and Affinity of Gold, Silver, and Platinum Surfaces against the SARS-CoV-2 Virus: A Comparative Computational Study.
J. Chem. Inf. Model.
Mohammad Khavani, Aliyeh Mehranfar, Mohammad R. K. Mofrad
2022 J jnl
TripletProt: Deep Representation Learning of Proteins Based On Siamese Networks.
IEEE ACM Trans. Comput. Biol. Bioinform.
Esmaeil Nourani, Ehsaneddin Asgari, Alice C. McHardy, Mohammad R. K. Mofrad
2021 J jnl
EpitopeVec: linear epitope prediction using deep protein sequence embeddings.
Bioinform.
Akash Bahai, Ehsaneddin Asgari, Mohammad R. K. Mofrad, Andreas Kloetgen, Alice C. McHardy
2020 J jnl
Quantification of human sperm concentration using machine learning-based spectrophotometry.
Comput. Biol. Medicine
Ali Lesani, Somaieh Kazemnejad, Mahdi Moghimi Zand, Mojtaba Azadi, Hassan Jafari, Mohammad R. K. Mofrad, Reza Nosrati
2020 B conf
UniSent: Universal Adaptable Sentiment Lexica for 1000+ Languages.
LREC
Ehsaneddin Asgari, Fabienne Braune, Benjamin Roth, Christoph Ringlstetter, Mohammad R. K. Mofrad
2019 J jnl
DiTaxa: nucleotide-pair encoding of 16S rRNA for host phenotype and biomarker detection.
Bioinform.
Ehsaneddin Asgari, Philipp C. Münch, Till R. Lesker, Alice C. McHardy, Mohammad R. K. Mofrad
2019 J jnl
MicroPheno: predicting environments and host phenotypes from 16S rRNA gene sequencing using a k-mer based representation of shallow sub-samples.
Bioinform.
Ehsaneddin Asgari, Kiavash Garakani, Alice C. McHardy, Mohammad R. K. Mofrad
2019 J jnl
ProDyn0: Inferring calponin homology domain stretching behavior using graph neural networks.
CoRR
Ali Madani, Cyna Shirazinejad, Jia Rui Ong, Hengameh Shams, Mohammad R. K. Mofrad
2019 J jnl
UniSent: Universal Adaptable Sentiment Lexica for 1000+ Languages.
CoRR
Ehsaneddin Asgari, Fabienne Braune, Christoph Ringlstetter, Mohammad R. K. Mofrad
2018 J jnl
Deep echocardiography: data-efficient supervised and semi-supervised deep learning towards automated diagnosis of cardiac disease.
npj Digit. Medicine
Ali Madani, Jia Rui Ong, Anshul Tibrewal, Mohammad R. K. Mofrad
2018 J jnl
Fast and accurate view classification of echocardiograms using deep learning.
npj Digit. Medicine
Ali Madani, Ramy Arnaout, Mohammad R. K. Mofrad, Rima Arnaout
2018 J jnl
MicroPheno: predicting environments and host phenotypes from 16S rRNA gene sequencing using a k-mer based representation of shallow sub-samples.
Bioinform.
Ehsaneddin Asgari, Kiavash Garakani, Alice C. McHardy, Mohammad R. K. Mofrad
2017 J jnl
Fast and accurate classification of echocardiograms using deep learning.
CoRR
Ali Madani, Ramy Arnaout, Mohammad R. K. Mofrad, Rima Arnaout
2016 J jnl
Comparing Fifty Natural Languages and Twelve Genetic Languages Using Word Embedding Language Divergence (WELD) as a Quantitative Measure of Language Distance.
CoRR
Ehsaneddin Asgari, Mohammad R. K. Mofrad
2016 — conf
Text Analysis and Automatic Triage of Posts in a Mental Health Forum.
CLPsych@HLT-NAACL
Ehsaneddin Asgari, Soroush Nasiriany, Mohammad R. K. Mofrad
2015 J jnl
A New Approach for Scalable Analysis of Microbial Communities.
CoRR
Ehsaneddin Asgari, Kiavash Garakani, Mohammad R. K. Mofrad
2015 J jnl
ProtVec: A Continuous Distributed Representation of Biological Sequences.
CoRR
Ehsaneddin Asgari, Mohammad R. K. Mofrad
2013 J jnl
Localized Lipid Packing of Transmembrane Domains Impedes Integrin Clustering.
PLoS Comput. Biol.
Mehrdad Mehrbod, Mohammad R. K. Mofrad
2013 J jnl
The Interaction of Vinculin with Actin.
PLoS Comput. Biol.
Javad Golji, Mohammad R. K. Mofrad
2009 J jnl
Molecular Mechanics of the α-Actinin Rod Domain: Bending, Torsional, and Extensional Behavior.
PLoS Comput. Biol.
Javad Golji, Robert Collins, Mohammad R. K. Mofrad