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Ved Topkar

MD/PhD student, technology enthusiast

Accelerated cryo-EM-guided determination of three-dimensional RNA-only structures.
Kalli Kappel, Kaiming Zhang, Zhaoming Su, Wipapat Kladwang, Shanshan Li, Grigore Pintilie, Ved V Topkar, Ramya Rangan, Ivan N Zheludev, Andrew M Watkins, Joseph D Yesselman, Wah Chiu, Rhiju Das
Nature Methods
DOI: 10.1038/s41592-020-0878-9. Published on July 2, 2020.
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Anomalous reverse transcription through chemical modifications in polyadenosine stretches.
Wipapat Kladwang, Ved V Topkar, Bei Liu, Tracy L Hodges, Sarah C Keane, Hashim Al-Hashimi, Rhiju Das
Journal of the American Chemical Society
DOI: 10.1021/acs.biochem.0c00020. Published on May 14, 2020.
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Transcription factors, coregulators, and epigenetic marks are linearly correlated and highly redundant.
Tobias Ahsendorf, Franz-Josef Müller, Ved Topkar, Jeremy Gunawardena, Roland Eils
PLoS ONE
DOI: 10.1371/journal.pone.0186324. Published on December 7, 2017.
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CIRCLE-seq: a highly sensitive in vitro screen for genome-wide CRISPR–Cas9 nuclease off-targets
Shengdar Q Tsai, Nhu T Nguyen, Jose Malagon-Lopez, Ved V Topkar, Martin J Aryee, J Keith Joung
Nature Methods
DOI: 10.1038/nmeth.4278. Published on May 1, 2017.
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Open-source guideseq software for analysis of GUIDE-seq data
Shengdar Q Tsai*, Ved V Topkar*, J Keith Joung, Martin J Aryee
Nature Biotechnology
DOI: 10.1038/nbt.3534. Published on May 1, 2016.
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Broadening the targeting range of Staphylococcus aureus CRISPR-Cas9 by modifying PAM recognition
Benjamin P Kleinstiver, Michelle S Prew, Shengdar Q Tsai, Nhu T Nguyen, Ved V Topkar, Zongli Zheng, J Keith Joung
Nature Biotechnology
DOI: 10.1038/nbt.3404. Published on November 2, 2015.
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Engineered CRISPR-Cas9 nucleases with altered and improved PAM specificities
Benjamin P Kleinstiver, Michelle S Prew, Shengdar Q Tsai, Ved V Topkar, Nhu T Nguyen, Zongli Zheng, Andrew P W Gonzales, Zhuyun Li, Randall T Peterson, Ring-Ruey Joanna Yeh, Martin J Aryee, J Keith Joung
Nature
DOI: 10.1038/nature14592. Published on June 22, 2015.
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Dimeric CRISPR RNA-guided FolkI-dCas9 nucleases (RFNs) directed by truncated gRNAs for highly specific genome editing
Nicolas Wyvekens, Ved V Topkar, Cyd Khayter, J Keith Joung, Shengdar Q Tsai
Human Gene Therapy
DOI: 10.1089/hum.2015.084. Published on June 12, 2015.
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Replacing Uridine with 2-Thiouridine Enhances the Rate and Fidelity of Nonenzymatic RNA Primer Extension
Benjamin D Heuberger, Ayan Pal, Francesca Del Frate, Ved V Topkar, Jack W Szostak
Journal of the American Chemical Society
DOI: 10.1021/jacs.5b00445. Published on February 5, 2015.
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GUIDE-seq enables genome-wide profiling of off-target cleavage by CRISPR-Cas nucleases
Shengdar Q Tsai, Zongli Zheng, Nhu T Nguyen, Matthew Liebers, Ved V Topkar, Vishal Thapar, Nicolas Wyvekens, Cyd Khayter, A John Iafrate, Long P Le, Martin J Aryee, J Keith Joung
Nature Biotechnology
DOI: 10.1038/nbt.3117. Published on December 16, 2014.
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(* Indicates shared authorship)