| Complex interdependence regulates heterotypic transcription factor distribution and coordinates cardiogenesis L Luna-Zurita, CU Stirnimann, S Glatt, BL Kaynak, S Thomas, F Baudin, ... Cell 164 (5), 999-1014, 2016 | 252 | 2016 |
| Thermodynamics-based models of transcriptional regulation by enhancers: the roles of synergistic activation, cooperative binding and short-range repression X He, MAH Samee, C Blatti, S Sinha PLoS computational biology 6 (9), e1000935, 2010 | 230 | 2010 |
| A De Novo Shape Motif Discovery Algorithm Reveals Preferences of Transcription Factors for DNA Shape Beyond Sequence Motifs MAH Samee, BG Bruneau, KS Pollard Cell systems 8 (1), 27-42. e6, 2019 | 90 | 2019 |
| Machine learning dissection of human accelerated regions in primate neurodevelopment S Whalen, F Inoue, H Ryu, T Fair, E Markenscoff-Papadimitriou, K Keough, ... Neuron 111 (6), 857-873. e8, 2023 | 88 | 2023 |
| A systematic ensemble approach to thermodynamic modeling of gene expression from sequence data MAH Samee, B Lim, N Samper, H Lu, CA Rushlow, G Jiménez, ... Cell systems 1 (6), 396-407, 2015 | 51 | 2015 |
| YAP induces a neonatal-like pro-renewal niche in the adult heart RG Li, X Li, Y Morikawa, FJ Grisanti-Canozo, F Meng, CR Tsai, Y Zhao, ... Nature cardiovascular research 3 (3), 283-300, 2024 | 47 | 2024 |
| Evidence for deep regulatory similarities in early developmental programs across highly diverged insects M Kazemian, K Suryamohan, JY Chen, Y Zhang, MAH Samee, MS Halfon, ... Genome biology and evolution 6 (9), 2301-2320, 2014 | 43 | 2014 |
| Massively parallel dissection of human accelerated regions in human and chimpanzee neural progenitors H Ryu, F Inoue, S Whalen, A Williams, M Kircher, B Martin, B Alvarado, ... BioRxiv 256313, 2018 | 42 | 2018 |
| Quantitative modeling of a gene's expression from its intergenic sequence MAH Samee, S Sinha PLoS computational biology 10 (3), e1003467, 2014 | 41 | 2014 |
| Simulations of enhancer evolution provide mechanistic insights into gene regulation T Duque, MAH Samee, M Kazemian, HN Pham, MH Brodsky, S Sinha Molecular biology and evolution 31 (1), 184-200, 2014 | 40 | 2014 |
| Cell-type modeling in spatial transcriptomics data elucidates spatially variable colocalization and communication between cell-types in mouse brain FJG Canozo, Z Zuo, JF Martin, MAH Samee Cell Systems 13 (1), 58-70. e5, 2022 | 37 | 2022 |
| CRISPR-DIPOFF: an interpretable deep learning approach for CRISPR Cas-9 off-target prediction M Toufikuzzaman, MA Hassan Samee, M Sohel Rahman Briefings in Bioinformatics 25 (2), bbad530, 2024 | 31 | 2024 |
| Evaluating thermodynamic models of enhancer activity on cellular resolution gene expression data MAH Samee, S Sinha Methods 62 (1), 79-90, 2013 | 28 | 2013 |
| Decoding the PITX2 controlled genetic network in atrial fibrillation JD Steimle, FJG Canozo, M Park, ZA Kadow, MAH Samee, JF Martin JCI Insight, 2022 | 27 | 2022 |
| Dual-Mode Tumor Imaging Using Probes That Are Responsive to Hypoxia-Induced Pathological Conditions SAAS Subasinghe, R Pautler, MAH Samee, JT Yustein, MJ Allen Biosensors 12 (7), 478, 2022 | 19 | 2022 |
| Quantitative Measurement and Thermodynamic Modeling of Fused Enhancers Support a Two-Tiered Mechanism for Interpreting Regulatory DNA MAH Samee, T Lydiard-Martin, KM Biette, BJ Vincent, MD Bragdon, ... Cell reports 21 (1), 236-245, 2017 | 18 | 2017 |
| Minimum segment drawings of series-parallel graphs with the maximum degree three MAH Samee, MJ Alam, MA Adnan, MS Rahman International Symposium on Graph Drawing, 408-419, 2008 | 17 | 2008 |
| Noncanonical binding of transcription factors: time to revisit specificity? MAH Samee Molecular Biology of the Cell 34 (9), pe4, 2023 | 16 | 2023 |
| Structural underpinnings of mutation rate variations in the human genome Z Liu, MAH Samee Nucleic Acids Research 51 (14), 7184-7197, 2023 | 15 | 2023 |
| Incorporating chromatin accessibility data into sequence-to-expression modeling PC Peng, MAH Samee, S Sinha Biophysical journal 108 (5), 1257-1267, 2015 | 14 | 2015 |
Saurabh SinhaBiomedical Engineering, Georgia Institute of TechnologyVerified email at bme.gatech.edu
