si-shRNA Selector statistics

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si-shRNA Selector specifications

Information


Unique identifier OMICS_27399
Name si-shRNA Selector
Software type Application/Script
Interface Command line interface
Restrictions to use None
Input format GenBank,FASTA,TXT
Output format TSV
Operating system Unix/Linux, Mac OS, Windows
Computer skills Advanced
Stability Stable
Maintained Yes

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Maintainers


  • person_outline Aleksey Ogurtsov <>
  • person_outline Olga Matveeva <>
  • person_outline Svetlana Shabalina <>

Publication for si-shRNA Selector

si-shRNA Selector in publications

 (2)
PMCID: 4345305
PMID: 25602583
DOI: 10.1038/mtna.2014.73

[…] duplex region was changed to 20 nt, and 2 nt from the native sequence were used as the 3′ overhang. the sequences for the l22 forms of the sli-sirnas that targeted r1 and r2b were selected using the si-shrna selector set at the default settings, except the length of the duplex was changed to 20 nt. si-shrna selector uses a different algorithm from siduplex for selection of antisense strands. […]

PMCID: 3102291
PMID: 21604810
DOI: 10.1021/nn200989r

[…] enough for genome-wide si/shrna screening. the program and numerous rnai experiments with various sirna and shrna constructs are publicly available at ftp://ftp.ncbi.nlm.nih.gov/pub/shabalin/sirna/si_shrna_selector/., finally, protein–rna interactions are common in protein synthesis, binding transfer rna (trna), and ribosomal rna (rrna), as well as binding messenger rna (mrna) and small […]


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si-shRNA Selector institution(s)
Department of Human Genetics, University of Utah, Salt Lake City, UT, USA; Department of Molecular Biology, Princeton University, Princeton, NJ, USA; Department of Applied Mathematics, Massachusetts Institute of Technology, Cambridge, MA, USA; Department of Computer and Information Science, Norwegian University of Science and Technology, Trondheim, Norway; Department of Cancer Research and Molecular Medicine, Norwegian University of Science and Technology, Trondheim, Norway; MGGT, Russian Academy of Sciences, Moscow, Russia; Engelhardt Institute of Molecular Biology, Russian Academy of Sciences, Moscow, Russia; National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, MD, USA
si-shRNA Selector funding source(s)
Supported by the Department of Health and Human Services (National Institutes of Health, National Library of Medicine) intramural funds, and the Russian Foundation for Basic Research and the RAS Presidium ‘‘Molecular and cell biology’’.

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