Shahin Mohammadi
Shahin Mohammadi
Verified email at mit.edu - Homepage
TitleCited byYear
Kavosh: a new algorithm for finding network motifs
ZRM Kashani, H Ahrabian, E Elahi, A Nowzari-Dalini, ES Ansari, S Asadi, ...
BMC bioinformatics 10 (1), 318, 2009
1782009
Network similarity decomposition (nsd): A fast and scalable approach to network alignment
G Kollias, S Mohammadi, A Grama
IEEE Transactions on Knowledge and Data Engineering 24 (12), 2232-2243, 2011
492011
A Critical Survey of Deconvolution Methods for Separating Cell-Types in Complex Tissues
S Mohammadi, N Zuckerman, A Goldsmith, A Grama
Proceedings of IEEE, Special Issue on Principles and Applications of Science†…, 2016
222016
Single-cell transcriptomic analysis of Alzheimer’s disease
H Mathys, J Davila-Velderrain, Z Peng, F Gao, S Mohammadi, JZ Young, ...
Nature, 1, 2019
192019
Scope and limitations of yeast as a model organism for studying human tissue-specific pathways
S Mohammadi, B Saberidokht, S Subramaniam, A Grama
BMC systems biology 9 (1), 96, 2015
182015
Triangular Alignment (TAME): A Tensor-based Approach for Higher-order Network Alignment
S Mohammadi, DF Gleich, TG Kolda, A Grama
IEEE/ACM Transactions on Computational Biology and Bioinformatics, 1-1, 2016
162016
A fast approach to global alignment of protein-protein interaction networks
G Kollias, M Sathe, S Mohammadi, A Grama
BMC research notes 6 (1), 35, 2013
152013
Biological network alignment
S Mohammadi, A Grama
Functional Coherence of Molecular Networks in Bioinformatics, 97-136, 2012
122012
A geometric approach to characterize the functional identity of single cells
S Mohammadi, V Ravindra, DF Gleich, A Grama
Nature communications 9 (1), 1516, 2018
102018
A convex optimization approach for identification of human tissue-specific interactomes
S Mohammadi, A Grama
Bioinformatics 32 (12), 2016
92016
Context-Specific Recommendation System for Predicting Similar PubMed Articles
S Mohammadi, S Kylasa, G Kollias, A Grama
2016 IEEE 16th International Conference on Data Mining Workshops (ICDMW†…, 2016
52016
Inferring the effective TOR-dependent network: a computational study in yeast
S Mohammadi, S Subramaniam, A Grama
BMC systems biology 7 (1), 84, 2013
52013
Role of synthetic genetic interactions in understanding functional interactions among pathways
S Mohammadi, G Kollias, A Grama
Biocomputing 2012, 43-54, 2012
52012
Low rank spectral network alignment
H Nassar, N Veldt, S Mohammadi, A Grama, DF Gleich
Proceedings of the 2018 World Wide Web Conference, 619-628, 2018
32018
De novo identification of cell type hierarchy with application to compound marker detection
S Mohammadi, A Grama
BCB’16: ACM Conference on Bioinformatics, Computational Biology, and Health†…, 2016
32016
Combining density and overlap (CoDO): A new method for assessing the significance of overlap among subgraphs
A Magner, S Mohammadi, A Grama
arXiv preprint arXiv:1605.06167, 2016
32016
DECODE-ing sparsity patterns in single-cell RNA-seq
S Mohammadi, J Davila-Velderrain, M Kellis, A Grama
BioRxiv, 241646, 2018
22018
A novel method to enhance the sensitivity of marker detection using a refined hierarchical prior of tissue similarities
S Mohammadi, A Grama
bioRxiv, 020685, 2015
22015
Take ACTION to characterize the functional identity of single cells
S Mohammadi, V Ravindra, D Gleich, A Grama
BioRxiv, 081273, 2018
12018
Systematic Identification of TOR Downstream Effectors Using Random-Walks on the Yeast Interactome
S Mohammadi, A Grama, S Subramaniam
12013
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