| Predicting effective microRNA target sites in mammalian mRNAs V Agarwal, GW Bell, JW Nam, DP Bartel elife 4, e05005, 2015 | 6668 | 2015 |
| Expanded identification and characterization of mammalian circular RNAs JU Guo, V Agarwal, H Guo, DP Bartel Genome biology 15, 1-14, 2014 | 1555 | 2014 |
| Assessing the ceRNA hypothesis with quantitative measurements of miRNA and target abundance R Denzler, V Agarwal, J Stefano, DP Bartel, M Stoffel Molecular cell 54 (5), 766-776, 2014 | 640 | 2014 |
| Effective gene expression prediction from sequence by integrating long-range interactions Z Avsec, V Agarwal*, D Visentin*, JR Ledsam, A Grabska-Barwinska, ... Nature Methods, 2021 | 507 | 2021 |
| Global analyses of the effect of different cellular contexts on microRNA targeting JW Nam, OS Rissland, D Koppstein, C Abreu-Goodger, CH Jan, ... Molecular cell 53 (6), 1031-1043, 2014 | 353 | 2014 |
| Impact of microRNA levels, target-site complementarity, and cooperativity on competing endogenous RNA-regulated gene expression R Denzler, SE McGeary, V Agarwal, DP Bartel, M Stoffel Molecular cell 64 (3), 565-579, 2016 | 263 | 2016 |
| Predicting mRNA abundance directly from genomic sequence using deep convolutional neural networks V Agarwal, J Shendure Cell reports 31 (7), 2020 | 175 | 2020 |
| Genome-wide analysis reveals rapid and dynamic changes in miRNA and siRNA sequence and expression during ovule and fiber development in allotetraploid cotton (Gossypium … M Pang*, AW Woodward*, V Agarwal*, X Guan, M Ha, V Ramachandran, ... Genome Biol 10 (11), R122, 2009 | 174 | 2009 |
| Massively parallel profiling and predictive modeling of the outcomes of CRISPR/Cas9-mediated double-strand break repair W Chen, A McKenna, J Schreiber, M Haeussler, Y Yin, V Agarwal, ... Nucleic acids research 47 (15), 7989-8003, 2019 | 162 | 2019 |
| A systematic evaluation of the design and context dependencies of massively parallel reporter assays JC Klein*, V Agarwal*, F Inoue*, A Keith*, B Martin, M Kircher, N Ahituv, ... Nature Methods, 1-9, 2020 | 137* | 2020 |
| Interspecies regulation of microRNAs and their targets M Ha, M Pang, V Agarwal, ZJ Chen Biochimica et Biophysica Acta (BBA)-Gene Regulatory Mechanisms 1779 (11 …, 2008 | 121 | 2008 |
| Predicting microRNA targeting efficacy in Drosophila V Agarwal, AO Subtelny, P Thiru, I Ulitsky, DP Bartel Genome biology 19, 1-23, 2018 | 113 | 2018 |
| Functional testing of thousands of osteoarthritis-associated variants for regulatory activity JC Klein, A Keith, SJ Rice, C Shepherd, V Agarwal, J Loughlin, ... Nature communications 10 (1), 2434, 2019 | 81 | 2019 |
| lentiMPRA and MPRAflow for high-throughput functional characterization of gene regulatory elements MG Gordon*, F Inoue*, B Martin*, M Schubach*, V Agarwal, S Whalen, ... Nature Protocols, 1-28, 2020 | 72 | 2020 |
| Independent regulation of vertebral number and vertebral identity by microRNA-196 paralogs SFL Wong*, V Agarwal*, JH Mansfield, N Denans, MG Schwartz, ... Proceedings of the National Academy of Sciences, 201512655, 2015 | 68 | 2015 |
| Functional Characterization of Enhancer Evolution in the Primate Lineage JC Klein, A Keith, V Agarwal, T Durham, J Shendure Genome Biology 19 (99), 2018 | 49 | 2018 |
| The genetic and biochemical determinants of mRNA degradation rates in mammals V Agarwal, DR Kelley Genome Biology, 2022 | 47 | 2022 |
| The landscape of alternative polyadenylation in single cells of the developing mouse embryo V Agarwal*, S Lopez-Darwin*, DR Kelley, J Shendure Nature Communications 12 (5101), 2021 | 39 | 2021 |
| High-throughput characterization of the role of non-B DNA motifs on promoter function I Georgakopoulos-Soares, J Victorino, GE Parada, V Agarwal, J Zhao, ... Cell genomics 2 (4), 2022 | 22 | 2022 |
| Multiplex genomic recording of enhancer and signal transduction activity in mammalian cells W Chen, J Choi, JF Nathans, V Agarwal, B Martin, E Nichols, A Leith, ... bioRxiv, 2021 | 21 | 2021 |
David BartelProfessor of Biology, HHMI, MIT, Whitehead InstituteVerified email at wi.mit.edu
