David M Lee
University of North Carolina at Chapel Hill
9 Papers
12 Citations
David M Lee is an academic researcher from University of North Carolina at Chapel Hill. The author has contributed to research in topics: XIST & Gene. The author has an hindex of 4, co-authored 9 publications.
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Papers
Functional classification of long non-coding RNAs by k-mer content.
Jessime M. Kirk,Susan O Kim,Susan O Kim,Kaoru Inoue,Kaoru Inoue,Matthew J. Smola,Matthew J. Smola,David M Lee,Megan D. Schertzer,Joshua Wooten,Allison R Baker,Allison R Baker,Daniel Sprague,David W Collins,Christopher R Horning,Shuo Wang,Qidi Chen,Kevin M. Weeks,Peter J. Mucha,J. Mauro Calabrese +19 more
TL;DR: A sequence comparison method to deconstruct linear sequence relationships in lncRNAs and evaluate similarity based on the abundance of short motifs called k-mers found that lnc RNAs of related function often had similar k-mer profiles despite lacking linear homology.
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SHAPE reveals transcript-wide interactions, complex structural domains, and protein interactions across the Xist lncRNA in living cells
Matthew J. Smola,Thomas W. Christy,Kaoru Inoue,Cindo O. Nicholson,Matthew B Friedersdorf,Jack D. Keene,David M Lee,J. Mauro Calabrese,Kevin M. Weeks +8 more
TL;DR: The structure-selective chemical probing of the Xist lncRNA in living cells found that the RNA adopts well-defined and complex structures throughout its entire 18-kb length, creating a broad quantitative framework for understanding structure–function interrelationships for Xist and other lncRNAs in cells.
224
lncRNA-Induced Spread of Polycomb Controlled by Genome Architecture, RNA Abundance, and CpG Island DNA.
Megan D. Schertzer,Keean C.A. Braceros,Joshua Starmer,Rachel E Cherney,David M Lee,Gabriela Salazar,Megan Justice,Steven R. Bischoff,Dale O. Cowley,Pablo Ariel,Mark J. Zylka,Jill M. Dowen,Terry Magnuson,J. Mauro Calabrese +13 more
TL;DR: It is proposed that CGIs that autonomously recruit PRCs interact with lncRNAs and their associated proteins through three-dimensional space to nucleate the spread of PRCs in lncRNA-targeted domains.
124
A piggyBac-based toolkit for inducible genome editing in mammalian cells.
Megan D. Schertzer,Eliza Thulson,Keean C.A. Braceros,David M Lee,Emma R Hinkle,Ryan M. Murphy,Susan O Kim,Eva C.M. Vitucci,J. Mauro Calabrese +8 more
TL;DR: It is shown that CRISPR-Bac can be used to knock down proteins of interest, to create targeted genetic deletions with high efficiency, and to activate or repress transcription of protein-coding genes and an imprinted long noncoding RNA.
Elements at the 5′ end of Xist harbor SPEN-independent transcriptional antiterminator activity
Jackson B. Trotman,David M Lee,Rachel E Cherney,Susan O Kim,Susan O Kim,Kaoru Inoue,Kaoru Inoue,Megan D. Schertzer,Steven R. Bischoff,Dale O. Cowley,J. Mauro Calabrese +10 more
TL;DR: Xist requires sequence elements beyond its first two kilobases to robustly silence transcription, and the 5′ end of Xist harbors SPEN-independent transcriptional antiterminator activity that can repress proximal cleavage and polyadenylation.
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