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Roozbeh Dehghannasiri · SciRah

Researcher profile · Semantic Scholar

Roozbeh Dehghannasiri

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Roozbeh Dehghannasiri — researcher profile on SciRah

h-index: 13
Works: 60
Citations: 719

Most-cited papers

Large-scale benchmarking of circRNA detection tools reveals large differences in sensitivity but not in precision
Marieke Vromman, J. Anckaert, S. Bortoluzzi, Alessia Buratin +32 more
2023bioRxiv99 citations Open access
Semantic Scholar
Optimal experimental design for materials discovery
Roozbeh Dehghannasiri, D. Xue, P. Balachandran, Mohammadmahdi R. Yousefi +3 more
201771 citations Open access
Semantic Scholar
Optimal Experimental Design for Gene Regulatory Networks in the Presence of Uncertainty
Roozbeh Dehghannasiri, Byung-Jun Yoon, E. Dougherty
2015IEEE/ACM Transactions on Computational Biology & Bioinformatics59 citations
Semantic Scholar
RNA splicing programs define tissue compartments and cell types at single-cell resolution
J. Olivieri, Roozbeh Dehghannasiri, Peter L. Wang, SoRi Jang +8 more
2021bioRxiv55 citations Open access
Semantic Scholar
Intrinsically Bayesian Robust Kalman Filter: An Innovation Process Approach
Roozbeh Dehghannasiri, M. S. Esfahani, Edward R. Dougherty
2017IEEE Transactions on Signal Processing47 citations
Semantic Scholar
Interstitial macrophages are a focus of viral takeover and inflammation in COVID-19 initiation in human lung
Timothy Ting-Hsuan Wu, K. Travaglini, Arjun Rustagi, Duo Xu +21 more
2024Journal of Experimental Medicine41 citations Open access
Semantic Scholar
Efficient experimental design for uncertainty reduction in gene regulatory networks
Roozbeh Dehghannasiri, Byung-Jun Yoon, E. Dougherty
2015BMC Bioinformatics39 citations Open access
Semantic Scholar
Improved detection of gene fusions by applying statistical methods reveals oncogenic RNA cancer drivers
Roozbeh Dehghannasiri, D. E. Freeman, Milos Jordanski, G. Hsieh +3 more
2019Proceedings of the National Academy of Sciences of the United States of America36 citations Open access
Semantic Scholar
The SpliZ generalizes ‘percent spliced in’ to reveal regulated splicing at single-cell resolution
J. Olivieri, Roozbeh Dehghannasiri, J. Salzman
2022Nature Methods32 citations Open access
Semantic Scholar
Optimal Bayesian Kalman Filtering With Prior Update
Roozbeh Dehghannasiri, M. S. Esfahani, Xiaoning Qian, E. Dougherty
2018IEEE Transactions on Signal Processing27 citations
Semantic Scholar
Specific splice junction detection in single cells with SICILIAN
Roozbeh Dehghannasiri, J. Olivieri, Ana Damljanovic, J. Salzman
2020Genome Biology21 citations Open access
Semantic Scholar
Intrinsically Bayesian robust Karhunen-Loève compression
Roozbeh Dehghannasiri, Xiaoning Qian, E. Dougherty
2018Signal Processing17 citations
Semantic Scholar
Sequential Experimental Design for Optimal Structural Intervention in Gene Regulatory Networks Based on the Mean Objective Cost of Uncertainty
Mahdi Imani, Roozbeh Dehghannasiri, U. Braga-Neto, E. Dougherty
2018Cancer Informatics15 citations Open access
Semantic Scholar
Optimal Objective-Based Experimental Design for Uncertain Dynamical Gene Networks with Experimental Error
Daniel N. Mohsenizadeh, Roozbeh Dehghannasiri, E. Dougherty
2016IEEE/ACM Transactions on Computational Biology & Bioinformatics13 citations Open access
Semantic Scholar
Pretraining and the lasso
Erin Craig, Mert Pilanci, Thomas Le Menestrel, Balasubramanian Narasimhan +6 more
2024Journal of The Royal Statistical Society Series B-statistical Methodology11 citations Open access
Semantic Scholar
A novel de-interlacing method based on locally-adaptive Nonlocal-means
Roozbeh Dehghannasiri, S. Shirani
2012Asilomar Conference on Signals, Systems and Computers11 citations
Semantic Scholar
Scalable and unsupervised discovery from raw sequencing reads using SPLASH2
Marek Kokot, Roozbeh Dehghannasiri, Tavor Z. Baharav, Julia Salzman +1 more
2024Nature Biotechnology10 citations
Semantic Scholar
A Bayesian robust Kalman smoothing framework for state-space models with uncertain noise statistics
Roozbeh Dehghannasiri, Xiaoning Qian, E. Dougherty
2018EURASIP Journal on Advances in Signal Processing10 citations Open access
Semantic Scholar
Activated interstitial macrophages are a predominant target of viral takeover and focus of inflammation in COVID-19 initiation in human lung
T. Wu, K. Travaglini, Arjun Rustagi, Duo Xu +21 more
2023bioRxiv9 citations Open access
Semantic Scholar
TGS1 impacts snRNA 3′-end processing, ameliorates survival motor neuron-dependent neurological phenotypes in vivo and prevents neurodegeneration
Lu Chen, Caitlin M. Roake, Paolo Maccallini, Francesca Bavasso +26 more
2022Nucleic Acids Research9 citations Open access
Semantic Scholar
ReadZS detects cell type-specific and developmentally regulated RNA processing programs in single-cell RNA-seq
Elisabeth Meyer, Kaitlin Chaung, Roozbeh Dehghannasiri, J. Salzman
2021bioRxiv8 citations Open access
Semantic Scholar
Mouse lemur cell atlas informs primate genes, physiology and disease
C. Ezran, Shixuan Liu, Stephen Chang, Jingsi Ming +23 more
2025Nature7 citations Open access
Semantic Scholar
Ambiguous splice sites distinguish circRNA and linear splicing in the human genome
Roozbeh Dehghannasiri, L. Szabo, J. Salzman
2018Bioinform.7 citations Open access
Semantic Scholar
A view interpolation method without explicit disparity estimation
Roozbeh Dehghannasiri, S. Shirani
20132013 IEEE International Conference on Multimedia and Expo Workshops (ICMEW)7 citations
Semantic Scholar
Unsupervised reference-free inference reveals unrecognized regulated transcriptomic complexity in human single cells
Roozbeh Dehghannasiri, G. Henderson, Rob Bierman, Tavor Z. Baharav +3 more
2025bioRxiv6 citations Open access
Semantic Scholar
An organism-wide atlas of hormonal signaling based on the mouse lemur single-cell transcriptome
Shixuan Liu, C. Ezran, Michael F. Z. Wang, Zheng-Da Li +158 more
2024Nature Communications6 citations Open access
Semantic Scholar
Frame rate up-conversion using nonparametric estimator
Roozbeh Dehghannasiri, S. M. Reza Soroushmehr, S. Shirani
2014International Conference on Information Photonics6 citations
Semantic Scholar
SPLASH2 provides ultra-efficient, scalable, and unsupervised discovery on raw sequencing reads
Marek Kokot, Roozbeh Dehghannasiri, Tavor Z. Baharav, J. Salzman +1 more
2023bioRxiv5 citations Open access
Semantic Scholar
Optimal experimental design in the context of canonical expansions
Roozbeh Dehghannasiri, Xiaoning Qian, E. Dougherty
2017IET Signal Processing5 citations
Semantic Scholar
ReadZS detects developmentally regulated RNA processing programs in single cell RNA-seq and defines subpopulations independent of gene expression
Elisabeth Meyer, Roozbeh Dehghannasiri, Kaitlin Chaung, J. Salzman
20234 citations
Semantic Scholar
An experimental design framework for Markovian gene regulatory networks under stationary control policy
Roozbeh Dehghannasiri, Mohammad Shahrokh Esfahani, E. Dougherty
2018BMC Systems Biology4 citations Open access
Semantic Scholar
A Bayesian framework for robust Kalman filtering under uncertain noise statistics
Roozbeh Dehghannasiri, M. S. Esfahani, E. Dougherty
2016Asilomar Conference on Signals, Systems and Computers4 citations
Semantic Scholar
TGS1 controls snRNA 3’ end processing, prevents neurodegeneration and ameliorates SMN-dependent neurological phenotypes in vivo
Lu Chen, Caitlin M. Roake, Paolo Maccallini, Francesca Bavasso +19 more
2020bioRxiv3 citations Open access
Semantic Scholar
Robust Smoothing for State-Space Models with Unknown Noise Statistics
Roozbeh Dehghannasiri, Xiaoning Qian, E. Dougherty
2018Asilomar Conference on Signals, Systems and Computers3 citations
Semantic Scholar
Optimal experimental design in canonical expansions with applications to signal compression
Roozbeh Dehghannasiri, Xiaoning Qian, E. Dougherty
2016IEEE Global Conference on Signal and Information Processing3 citations
Semantic Scholar
Erratum to: Efficient experimental design for uncertainty reduction in gene regulatory networks
Roozbeh Dehghannasiri, Byung-Jun Yoon, E. Dougherty
2015BMC Bioinformatics3 citations Open access
Semantic Scholar
Mouse lemur transcriptomic atlas informs primate genes, mutations, physiology, and disease
C. Ezran, Shixuan Liu, Stephen Chang, Jingsi Ming +23 more
2024bioRxiv2 citations Open access
Semantic Scholar
The SZS is an efficient statistical method to identify regulated splicing events in droplet-based RNA sequencing
J. Olivieri, Roozbeh Dehghannasiri, J. Salzman
2020bioRxiv2 citations Open access
Semantic Scholar
Reference-free discovery with barcoded single-cell sequencing.
Roozbeh Dehghannasiri, Marek Kokot, Alexander L. Starr, J. Maziarz +7 more
2026Nature Biotechnology1 citations
Semantic Scholar
Author Correction: Large-scale benchmarking of circRNA detection tools reveals large differences in sensitivity but not in precision
Marieke Vromman, J. Anckaert, S. Bortoluzzi, Alessia Buratin +32 more
2025Nature Methods1 citations
Semantic Scholar
sc-SPLASH provides ultra-efficient reference-free discovery in barcoded single-cell sequencing
Roozbeh Dehghannasiri, Marek Kokot, Alexander L. Starr, J. Maziarz +7 more
2024bioRxiv1 citations Open access
Semantic Scholar
NOMAD2 provides ultra-efficient, scalable, and unsupervised discovery on raw sequencing reads
Marek Kokot, Roozbeh Dehghannasiri, Tavor Z. Baharav, Julia Salzman +1 more
20231 citations
Semantic Scholar
Objective Uncertainty Quantification
E. Dougherty, Lori A. Dalton, Roozbeh Dehghannasiri
2019Simulation Foundations, Methods and Applications1 citations
Semantic Scholar
A Bayesian robust Kalman smoothing framework for state-space models with uncertain noise statistics
Roozbeh Dehghannasiri, Xiaoning Qian, Edward R. Dougherty
2018EURASIP Journal on Advances in Signal Processing1 citations Open access
Semantic Scholar
Bayesian Kalman filtering in the presence of unknown noise statistics using factor graphs
Roozbeh Dehghannasiri, M. S. Esfahani, Xiaoning Qian, E. Dougherty
2017Asilomar Conference on Signals, Systems and Computers1 citations
Semantic Scholar
Inference of Nonlinear ODE-Based Gene Regulatory Networks via Intrinsically Bayesian Robust Kalman Filtering
Roozbeh Dehghannasiri, M. S. Esfahani, E. Dougherty
2016ACM International Conference on Bioinformatics, Computational Biology and Biomedicine1 citations
Semantic Scholar
Designing experiments for optimal reduction of uncertainty in gene regulatory networks
Roozbeh Dehghannasiri, Byung-Jun Yoon, E. Dougherty
20132013 IEEE International Workshop on Genomic Signal Processing and Statistics1 citations
Semantic Scholar
RNase H1 counteracts DNA damage and ameliorates SMN-dependent phenotypes in a Drosophila model of Spinal Muscular Atrophy
Livia Scatolini, Lucia Graziadio, Damiano Guerrini, Paolo Maccallini +19 more
2025bioRxiv0 citations Open access
Semantic Scholar
SPLASH 2 provides ultra-efficient , scalable , and unsupervised discovery on raw sequencing reads 1 2
Marek Kokot, Roozbeh Dehghannasiri, Tavor Z. Baharav, Julia Salzman +1 more
20230 citations
Semantic Scholar
Publisher Correction: The SpliZ generalizes ‘percent spliced in’ to reveal regulated splicing at single-cell resolution
J. Olivieri, Roozbeh Dehghannasiri, J. Salzman
2022Nature Methods0 citations Open access
Semantic Scholar

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