Zobrazeno 1 - 9
of 9
pro vyhledávání: '"Matthew J. Smola"'
Autor:
Greggory M. Rice, Kevin M. Weeks, Gillian Houlihan, Matthew J. Smola, Catherine A. Giannetti, Philipp Holliger, Thomas W. Christy, Alain Laederach, Jing Wang, Nikolay V. Dokholyan
Publikováno v:
Biochemistry
Higher-order structure governs function for many RNAs. However, discerning this structure for large RNA molecules in solution is an unresolved challenge. Here, we present SHAPE-JuMP (selective 2'-hydroxyl acylation analyzed by primer extension and ju
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::3886067b0ebfbff2e4e6ee9d8446f682
https://doi.org/10.1021/acs.biochem.1c00270
https://doi.org/10.1021/acs.biochem.1c00270
Autor:
Megan D. Schertzer, Allison R Baker, Daniel Sprague, Qidi Chen, Jessime M. Kirk, Peter J. Mucha, Kevin M. Weeks, David W Collins, J. Mauro Calabrese, Joshua Wooten, Matthew J. Smola, Kaoru Inoue, David M Lee, Shuo Wang, Christopher R Horning, Susan O Kim
Publikováno v:
Nature genetics
The functions of most long non-coding RNAs (lncRNAs) are unknown. In contrast to proteins, lncRNAs with similar functions often lack linear sequence homology; thus, the identification of function in one lncRNA rarely informs the identification of fun
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::e570555bbfc483ee93ec21febd5195a3
https://doi.org/10.1038/s41588-018-0207-8
https://doi.org/10.1038/s41588-018-0207-8
Autor:
Kevin M. Weeks, Matthew J. Smola
Publikováno v:
Nature Protocols. 13:1181-1195
This protocol is an extension to: Nat. Protoc. 10, 1643-1669 (2015); doi:10.1038/nprot.2015.103; published online 01 October 2015RNAs play key roles in many cellular processes. The underlying structure of RNA is an important determinant of how transc
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::d3d462cfdb89856e51ef9af553a46058
https://doi.org/10.1038/nprot.2018.010
https://doi.org/10.1038/nprot.2018.010
Publikováno v:
Nature Protocols. 10:1643-1669
SHAPE chemistries exploit small electrophilic reagents that react with the 2′-hydroxyl group to interrogate RNA structure at single-nucleotide resolution. Mutational profiling (MaP) identifies modified residues based on the ability of reverse trans
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::36245f23a368a9fbbd375a2c6ba2101b
https://doi.org/10.1038/nprot.2015.103
https://doi.org/10.1038/nprot.2015.103
Autor:
Jack D. Keene, J. Mauro Calabrese, Kaoru Inoue, Matthew B Friedersdorf, David M Lee, Cindo O. Nicholson, Matthew J. Smola, Kevin M. Weeks, Thomas W. Christy
The 18-kb Xist long noncoding RNA (lncRNA) is essential for X-chromosome inactivation during female eutherian mammalian development. Global structural architecture, cell-induced conformational changes, and protein-RNA interactions within Xist are poo
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::04e96c6f859dc9ebd10802b60498d196
https://europepmc.org/articles/PMC5027438/
https://europepmc.org/articles/PMC5027438/
Autor:
Thomas Acton, Matthew J. Smola, Keith Hamilton, Gaetano T. Montelione, Hsiau-Wei Lee, Rong Xiao, Theresa Ramelot, James H. Prestegard, Colleen Ciccosanti, John Everett, Michael A. Kennedy
Publikováno v:
Biochemistry. 50:1442-1453
GmACP3 from Geobacter metallireducens is a specialized acyl carrier protein (ACP) whose gene, gmet_2339, is located near genes encoding many proteins involved in lipopolysaccharide (LPS) biosynthesis, indicating a likely function for GmACP3 in LPS pr
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::59f646a9143fc4d5ba83d9afdb11eee7
https://doi.org/10.1021/bi101932s
https://doi.org/10.1021/bi101932s
Publikováno v:
Proteins: Structure, Function, and Bioinformatics. 74:794-798
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::3085a6935ec90bfac7698bb797ddbc05
https://doi.org/10.1002/prot.22308
https://doi.org/10.1002/prot.22308
Autor:
Christopher Cozens, Sew Y. Peak-Chew, Philipp Holliger, Piet Herdewijn, Alexey S. Morgunov, Kevin M. Weeks, Matthew J. Smola, Alexander I. Taylor, Vitor B. Pinheiro
Publikováno v:
Nature
The emergence of catalysis in early genetic polymers such as RNA is considered a key transition in the origin of life, pre-dating the appearance of protein enzymes. DNA also demonstrates the capacity to fold into three-dimensional structures and form
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::6cf7a5bb681710288d1693edf99d441e
https://lirias.kuleuven.be/handle/123456789/472341
https://lirias.kuleuven.be/handle/123456789/472341
SHAPE-MaP is unique among RNA structure probing strategies in that it both measures flexibility at single-nucleotide resolution and quantifies the uncertainties in these measurements. We report a straightforward analytical framework that incorporates
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::21d59e1724a185b56d0183c08c91a98e