Agarwal V - Search Results

1

Massively parallel characterization of transcriptional regulatory elements in three diverse human cell types.

Agarwal V, Inoue F, Schubach M, Martin BK, Dash PM, Zhang Z, Sohota A, Noble WS, Yardimci GG, Kircher M, Shendure J, Ahituv N. Agarwal V, et al. bioRxiv [Preprint]. 2023 Mar 6:2023.03.05.531189. doi: 10.1101/2023.03.05.531189. bioRxiv. 2023. PMID: 36945371 Free PMC article. Preprint.

2

Functional characterization of enhancer evolution in the primate lineage.

Klein JC, Keith A, Agarwal V, Durham T, Shendure J. Klein JC, et al. Among authors: agarwal v. Genome Biol. 2018 Jul 25;19(1):99. doi: 10.1186/s13059-018-1473-6. Genome Biol. 2018. PMID: 30045748 Free PMC article.

3

Functional testing of thousands of osteoarthritis-associated variants for regulatory activity.

Klein JC, Keith A, Rice SJ, Shepherd C, Agarwal V, Loughlin J, Shendure J. Klein JC, et al. Among authors: agarwal v. Nat Commun. 2019 Jun 4;10(1):2434. doi: 10.1038/s41467-019-10439-y. Nat Commun. 2019. PMID: 31164647 Free PMC article.

4

Massively parallel profiling and predictive modeling of the outcomes of CRISPR/Cas9-mediated double-strand break repair.

Chen W, McKenna A, Schreiber J, Haeussler M, Yin Y, Agarwal V, Noble WS, Shendure J. Chen W, et al. Among authors: agarwal v. Nucleic Acids Res. 2019 Sep 5;47(15):7989-8003. doi: 10.1093/nar/gkz487. Nucleic Acids Res. 2019. PMID: 31165867 Free PMC article.

5

Predicting mRNA Abundance Directly from Genomic Sequence Using Deep Convolutional Neural Networks.

Agarwal V, Shendure J. Agarwal V, et al. Cell Rep. 2020 May 19;31(7):107663. doi: 10.1016/j.celrep.2020.107663. Cell Rep. 2020. PMID: 32433972 Free article.

6

lentiMPRA and MPRAflow for high-throughput functional characterization of gene regulatory elements.

Gordon MG, Inoue F, Martin B, Schubach M, Agarwal V, Whalen S, Feng S, Zhao J, Ashuach T, Ziffra R, Kreimer A, Georgakopoulos-Soares I, Yosef N, Ye CJ, Pollard KS, Shendure J, Kircher M, Ahituv N. Gordon MG, et al. Among authors: agarwal v. Nat Protoc. 2020 Aug;15(8):2387-2412. doi: 10.1038/s41596-020-0333-5. Epub 2020 Jul 8. Nat Protoc. 2020. PMID: 32641802 Free PMC article.

7

A systematic evaluation of the design and context dependencies of massively parallel reporter assays.

Klein JC, Agarwal V, Inoue F, Keith A, Martin B, Kircher M, Ahituv N, Shendure J. Klein JC, et al. Among authors: agarwal v. Nat Methods. 2020 Nov;17(11):1083-1091. doi: 10.1038/s41592-020-0965-y. Epub 2020 Oct 12. Nat Methods. 2020. PMID: 33046894 Free PMC article.

8

Author Correction: lentiMPRA and MPRAflow for high-throughput functional characterization of gene regulatory elements.

Gordon MG, Inoue F, Martin B, Schubach M, Agarwal V, Whalen S, Feng S, Zhao J, Ashuach T, Ziffra R, Kreimer A, Georgakopoulos-Soares I, Yosef N, Ye CJ, Pollard KS, Shendure J, Kircher M, Ahituv N. Gordon MG, et al. Among authors: agarwal v. Nat Protoc. 2021 Jul;16(7):3736. doi: 10.1038/s41596-020-00422-z. Nat Protoc. 2021. PMID: 33128032 No abstract available.

9

Genome-wide strand asymmetry in massively parallel reporter activity favors genic strands.

Roberts BS, Partridge EC, Moyers BA, Agarwal V, Newberry KM, Martin BK, Shendure J, Myers RM, Cooper GM. Roberts BS, et al. Among authors: agarwal v. Genome Res. 2021 May;31(5):866-876. doi: 10.1101/gr.270751.120. Epub 2021 Apr 20. Genome Res. 2021. PMID: 33879525 Free PMC article.

10

The landscape of alternative polyadenylation in single cells of the developing mouse embryo.

Agarwal V, Lopez-Darwin S, Kelley DR, Shendure J. Agarwal V, et al. Nat Commun. 2021 Aug 24;12(1):5101. doi: 10.1038/s41467-021-25388-8. Nat Commun. 2021. PMID: 34429411 Free PMC article.

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