Vikram Agarwal
Vikram Agarwal
Sanofi Pasteur
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Cited by
Predicting effective microRNA target sites in mammalian mRNAs
V Agarwal, GW Bell, JW Nam, DP Bartel
elife 4, e05005, 2015
Expanded identification and characterization of mammalian circular RNAs
JU Guo, V Agarwal, H Guo, DP Bartel
Genome biology 15, 1-14, 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
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
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
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
Predicting mRNA abundance directly from genomic sequence using deep convolutional neural networks
V Agarwal, J Shendure
Cell reports 31 (7), 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
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
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
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
Predicting microRNA targeting efficacy in Drosophila
V Agarwal, AO Subtelny, P Thiru, I Ulitsky, DP Bartel
Genome biology 19, 1-23, 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
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
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
The genetic and biochemical determinants of mRNA degradation rates in mammals
V Agarwal, DR Kelley
Genome Biology, 2022
Functional Characterization of Enhancer Evolution in the Primate Lineage
JC Klein, A Keith, V Agarwal, T Durham, J Shendure
Genome Biology 19 (99), 2018
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
Massively parallel characterization of transcriptional regulatory elements in three diverse human cell types
V Agarwal, F Inoue, M Schubach, BK Martin, PM Dash, Z Zhang, A Sohota, ...
bioRxiv, 2023
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
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