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A. F. Siahpirani · SciRah

Researcher profile · Semantic Scholar

A. F. Siahpirani

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A. F. Siahpirani — researcher profile on SciRah

h-index: 12
Works: 23
Citations: 886

Most-cited papers

SIRT3 mediates multi-tissue coupling for metabolic fuel switching
Kristin E. Dittenhafer-Reed, Alicia L. Richards, Jing Fan, Michael J. Smallegan +6 more
2015Cell Metabolism177 citations Open access
Semantic Scholar
Deep Sequencing of the Medicago truncatula Root Transcriptome Reveals a Massive and Early Interaction between Nodulation Factor and Ethylene Signals1[OPEN]
Estíbaliz Larrainzar, Brendan K. Riely, Sang Cheol Kim, N. Carrasquilla-Garcia +13 more
2015Plant Physiology145 citations Open access
Semantic Scholar
Inference of cell type-specific gene regulatory networks on cell lineages from single cell omic datasets
Shilu Zhang, Saptarshi Pyne, Stefan J. Pietrzak, S. Halberg +4 more
2023bioRxiv112 citations Open access
Semantic Scholar
A predictive modeling approach for cell line-specific long-range regulatory interactions
Sushmita Roy, A. F. Siahpirani, Deborah A Chasman, Sara A. Knaack +4 more
2015Nucleic Acids Research108 citations Open access
Semantic Scholar
A prior-based integrative framework for functional transcriptional regulatory network inference
A. F. Siahpirani, Sushmita Roy
2016Nucleic Acids Research69 citations Open access
Semantic Scholar
Defining Reprogramming Checkpoints from Single-Cell Analyses of Induced Pluripotency
K. A. Tran, Stefan J. Pietrzak, Nur Zafirah Zaidan, A. F. Siahpirani +5 more
2019Cell Reports56 citations Open access
Semantic Scholar
Human iPSC Modeling Reveals Mutation-Specific Responses to Gene Therapy in a Genotypically Diverse Dominant Maculopathy.
Divya Sinha, Benjamin Steyer, Pawan K. Shahi, Katherine P. Mueller +15 more
2020American Journal of Human Genetics51 citations Open access
Semantic Scholar
Identifying strengths and weaknesses of methods for computational network inference from single-cell RNA-seq data
S. McCalla, A. F. Siahpirani, Jia-Xin Li, Saptarshi Pyne +4 more
2021bioRxiv50 citations Open access
Semantic Scholar
A predictive modeling approach for cell line-specific long-range regulatory interactions
Sushmita Roy, A. F. Siahpirani, Deborah A Chasman, Sara A. Knaack +4 more
2015Nucleic Acids Research35 citations Open access
Semantic Scholar
A Pan-Cancer Modular Regulatory Network Analysis to Identify Common and Cancer-Specific Network Components
Sara A. Knaack, A. F. Siahpirani, Sushmita Roy
2014Cancer Informatics28 citations Open access
Semantic Scholar
A prior-based integrative framework for functional transcriptional regulatory network inference
A. F. Siahpirani, Sushmita Roy
2016Nucleic Acids Research21 citations Open access
Semantic Scholar
Transcriptome-wide transmission disequilibrium analysis identifies novel risk genes for autism spectrum disorder
Kunling Huang, Yu-Chang Wu, Junha Shin, Ye Zheng +9 more
2019bioRxiv20 citations Open access
Semantic Scholar
Inferring regulatory programs governing region-specificity of neuroepithelial stem cells during early hindbrain and spinal cord development
Deborah A Chasman, Nisha R. Iyer, A. F. Siahpirani, Maria Estevez Silva +8 more
2019Cell Systems16 citations Open access
Semantic Scholar
Integrative Approaches for Inference of Genome-Scale Gene Regulatory Networks.
A. F. Siahpirani, Deborah A Chasman, Sushmita Roy
2018Methods in molecular biology6 citations
Semantic Scholar
Uncovering Functional Gene Regulatory Networks in Bulk and Single-Cell Data through Robust Transcription Factor Activity Estimation and Model-Guided Experimental Validation
A. F. Siahpirani, S. McCalla, Saptarshi Pyne, Caleb M. Dillingham +2 more
2025bioRxiv5 citations Open access
Semantic Scholar
ISSR-Assisted Spatial Genetic Structure, Population Admixture, and Biodiversity Estimates Across Locally Adopted Saffron Ecotypes from 18 Different Provenances of Iran
Seid Mohammad Alavi-Siney, J. Saba, A. F. Siahpirani, J. Nasiri
2023Social Science Research Network5 citations
Semantic Scholar
Dynamic regulatory module networks for inference of cell type–specific transcriptional networks
A. F. Siahpirani, Deborah A Chasman, Morten Seirup, Sara A. Knaack +4 more
2020bioRxiv5 citations Open access
Semantic Scholar
Human iPSC modeling elucidates mutation-specific responses to gene therapy in a genotypically diverse dominant maculopathy
Divya Sinha, Benjamin Steyer, Pawan K. Shahi, Katherine P. Mueller +15 more
2019bioRxiv3 citations Open access
Semantic Scholar
Pattern Recognition in Collective Cognitive Systems: Hybrid Human-Machine Learning (HHML) By Heterogeneous Ensembles
Hesam T. Dashti, A. Ardalan, A. F. Siahpirani, Jernej Tonejc +6 more
2010International Conference on Artificial Intelligence2 citations
Semantic Scholar
Applications of Machine Learning Methods to Quantifying Phenotypic Traits that Distinguish the Wild Type from the Mutant Arabidopsis Thaliana Seedlings during Root Gravitropism
Hesam T. Dashti, Jernej Tonejc, A. Ardalan, A. F. Siahpirani +4 more
2010International Conference on Bioinformatics & Computational Biology2 citations
Semantic Scholar
Parallel Evolutionary Computation in Very Large Scale Eigenvalue Problems
Hesam T. Dashti, A. F. Siahpirani, Liya Wang, M. Kloc +1 more
2010International Conference on Scientific Computing2 citations
Semantic Scholar
Human iPSC Modeling Elucidates Mutation-Specific Responses to Gene Therapy in a Genotypically Diverse Dominant Maculopathy
Divya Sinha, Benjamin Steyer, Pawan K. Shahi, K.-F. Mueller +13 more
2019Social Science Research Network0 citations Open access
Semantic Scholar
Defining reprogramming checkpoints from single-cell analysis of induced pluripotency
Khoa A. Tran, Stefan J. Pietrzak, Nur Zafirah Zaidan, A. F. Siahpirani +4 more
20190 citations Open access
Semantic Scholar
Information Surfaces in Systems Biology and Applications to Engineering Sustainable Agriculture
Hesam T. Dashti, A. F. Siahpirani, James Driver, A. Assadi
2011Doctoral Conference on Computing, Electrical and Industrial Systems0 citations Open access
Semantic Scholar

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