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| Efficient pairwise RNA structure prediction using probabilistic alignment constraints in Dynalign AO Harmanci, G Sharma, DH Mathews BMC bioinformatics 8, 1-21, 2007 | 146 | 2007 |
| HDAC inhibitors elicit metabolic reprogramming by targeting super-enhancers in glioblastoma models TTT Nguyen, Y Zhang, E Shang, C Shu, C Torrini, J Zhao, E Bianchetti, ... The Journal of clinical investigation 130 (7), 3699-3716, 2020 | 116 | 2020 |
| CaSpER identifies and visualizes CNV events by integrative analysis of single-cell or bulk RNA-sequencing data A Serin Harmanci, AO Harmanci, X Zhou Nature communications 11 (1), 89, 2020 | 116 | 2020 |
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| TurboFold: iterative probabilistic estimation of secondary structures for multiple RNA sequences AO Harmanci, G Sharma, DH Mathews BMC bioinformatics 12, 1-22, 2011 | 113 | 2011 |
| An integrative ENCODE resource for cancer genomics J Zhang, D Lee, V Dhiman, P Jiang, J Xu, P McGillivray, H Yang, J Liu, ... Nature communications 11 (1), 3696, 2020 | 106 | 2020 |
| A uniform survey of allele-specific binding and expression over 1000-Genomes-Project individuals J Chen, J Rozowsky, TR Galeev, A Harmanci, R Kitchen, J Bedford, ... Nature communications 7 (1), 11101, 2016 | 99 | 2016 |
| Quantification of private information leakage from phenotype-genotype data: linking attacks A Harmanci, M Gerstein Nature methods 13 (3), 251-256, 2016 | 99 | 2016 |
| Enhanced transcriptome maps from multiple mouse tissues reveal evolutionary constraint in gene expression DD Pervouchine, S Djebali, A Breschi, CA Davis, PP Barja, A Dobin, ... Nature communications 6 (1), 5903, 2015 | 89 | 2015 |
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| MUSIC: identification of enriched regions in ChIP-Seq experiments using a mappability-corrected multiscale signal processing framework A Harmanci, J Rozowsky, M Gerstein Genome biology 15, 1-15, 2014 | 65 | 2014 |
| PARTS: probabilistic alignment for RNA joinT secondary structure prediction AO Harmanci, G Sharma, DH Mathews Nucleic acids research 36 (7), 2406-2417, 2008 | 61 | 2008 |
