Results 21 to 30 of about 4,242,968 (247)

Dynamic Genome Editing Using In Vivo Synthesized Donor ssDNA in Escherichia coli

Cells, 2020
As a key element of genome editing, donor DNA introduces the desired exogenous sequence while working with other crucial machinery such as CRISPR-Cas or recombinases.
Min Hao, Zhaoguan Wang, Hongyan Qiao, Peng Yin, Jianjun Qiao, Hao Qi   +5 more
doaj   +1 more source

Undesignable RNA Structure Identification via Rival Structure Generation and Structure Decomposition [PDF]

International Conference on Research in Computational Molecular Biology, pp. 270-287. Cham: Springer Nature Switzerland, 2024, 2023
RNA design is the search for a sequence or set of sequences that will fold into predefined structures, also known as the inverse problem of RNA folding. While numerous RNA design methods have been invented to find sequences capable of folding into a target structure, little attention has been given to the identification of undesignable structures ...
arxiv   +1 more source

Mechanistic Insights into Archaeal and Human Argonaute Substrate Binding and Cleavage Properties. [PDF]

PLoS ONE, 2016
Argonaute (Ago) proteins from all three domains of life are key players in processes that specifically regulate cellular nucleic acid levels.
Sarah Willkomm, Adrian Zander, Dina Grohmann, Tobias Restle   +3 more
doaj   +1 more source

Structural basis for sequence-specific recognition of guide and target strands by the Archaeoglobus fulgidus Argonaute protein

Scientific Reports, 2023
Argonaute (Ago) proteins are found in all three domains of life. The best-characterized group is eukaryotic Argonautes (eAgos). Being the structural core of RNA interference machinery, they use guide RNA molecules for RNA targeting.
Elena Manakova, Edvardas Golovinas, Reda Pocevičiūtė, Giedrius Sasnauskas, Algirdas Grybauskas, Saulius Gražulis, Mindaugas Zaremba   +6 more
doaj   +1 more source

CRISPR guides induce gene silencing in plants in the absence of Cas

Genome Biology, 2022
Background RNA-targeting CRISPR-Cas can provide potential advantages over DNA editing, such as avoiding pleiotropic effects of genome editing, providing precise spatiotemporal regulation, and expanded function including antiviral immunity.
Veerendra Kumar Sharma, Sandeep Marla, Wenguang Zheng, Divya Mishra, Jun Huang, Wei Zhang, Geoffrey Preston Morris, David Edward Cook   +7 more
doaj   +1 more source

Evaluation of off-target and on-target scoring algorithms and integration into the guide RNA selection tool CRISPOR

Genome Biology, 2016
BackgroundThe success of the CRISPR/Cas9 genome editing technique depends on the choice of the guide RNA sequence, which is facilitated by various websites.
M. Haeussler, K. Schönig, Hélène Eckert, A. Eschstruth, J. Mianné, J. Renaud, S. Schneider-Maunoury, Alena Shkumatava, L. Teboul, Jim Kent, J. Joly, J. Concordet   +11 more
semanticscholar   +1 more source

Structural insights into RNA processing by the human RISC-loading complex. [PDF]

, 2009
Targeted gene silencing by RNA interference (RNAi) requires loading of a short guide RNA (small interfering RNA (siRNA) or microRNA (miRNA)) onto an Argonaute protein to form the functional center of an RNA-induced silencing complex (RISC).
AD Haase, B Kastner, Bunpote Siridechadilok, C Matranga, Cameron Noland, David W Taylor, DS Schwarz, E Bernstein, E Ma, EF Pettersen, Enbo Ma, Eva Nogales, F Herzog, FV Rivas, H Gao, Hong-Wei Wang, IJ MacRae, IJ MacRae, IJ MacRae, JB Preall, Jennifer A Doudna, JJ Song, Karin Felderer, KH Kok, M Högbom, M Radermacher, M van Heel, PA Penczek, SH Scheres, SJ Ludtke, T Sasaki, TA Rand, TM Rana, TP Chendrimada, W Wriggers, Y Lee, Y Tomari, Y Tomari, Y Wang, Y Wang, YR Yuan, YR Yuan   +41 more
core   +2 more sources

Massively parallel Cas13 screens reveal principles for guide RNA design

Nature Biotechnology, 2020
Type VI CRISPR enzymes are RNA-targeting proteins with nuclease activity that enable specific and robust target gene knockdown without altering the genome.
H. Wessels, A. Méndez-Mancilla, Xinyi Guo, Mateusz Legut, Zharko Daniloski, Neville E. Sanjana   +5 more
semanticscholar   +1 more source

CRISPRdirect: software for designing CRISPR/Cas guide RNA with reduced off-target sites

Bioinform., 2014
Summary: CRISPRdirect is a simple and functional web server for selecting rational CRISPR/Cas targets from an input sequence. The CRISPR/Cas system is a promising technique for genome engineering which allows target-specific cleavage of genomic DNA ...
Y. Naito, Kimihiro Hino, H. Bono, K. Ui-Tei   +3 more
semanticscholar   +1 more source

High-throughput profiling of off-target DNA cleavage reveals RNA-programmed Cas9 nuclease specificity [PDF]

, 2013
The RNA-programmable Cas9 endonuclease cleaves double-stranded DNA at sites complementary to a 20-base-pair guide RNA. The Cas9 system has been used to modify genomes in multiple cells and organisms, demonstrating its potential as a facile genome ...
D Hockemeyer, D Hockemeyer, David R Liu, E Semenova, EE Perez, Enbo Ma, J Zou, JB Doyon, JD Sander, JE DiCarlo, Jennifer A Doudna, John P Guilinger, L Cong, L Tesson, LS Qi, M Jinek, M Jinek, P Mali, R Sapranauskas, Steven Lin, V Pattanayak, Vikram Pattanayak, W Jiang, WY Hwang, X Cui, X Meng, Y Doyon   +26 more
core   +1 more source