SMoPT specifications

Information


Unique identifier OMICS_20305
Name SMoPT
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
Computer skills Advanced
Stability Stable
Maintained Yes

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Maintainer


  • person_outline Joshua Plotkin <>

Publication for SMoPT

SMoPT in publications

 (10)
PMCID: 5590917
PMID: 28886110
DOI: 10.1371/journal.pone.0184206

[…] are some packages using mesh adaption strategies to improve mesh qualities, but few of them can preserve manifold meshes for complex surfaces. therefore, in this work, we develop a package named smopt to improve the mesh quality directly on the surface and perform a series of local modifications on the mesh. the qualities of the new resulted meshes are improved greatly over the original […]

PMCID: 5415969
PMID: 28624228
DOI: 10.1016/j.omtn.2017.03.001

[…] snrna-sali primers, which included psti and sali overhang restriction sites. the pcr fragment (425 bp) was cloned into a pcrii-topo vector according to the manufacturer’s manual (invitrogen). smopt and nsii sites were generated by site-directed mutagenesis according to an inner and outer primer design with fw- and rv-u7 snrna-smopt or fw- and rv-u7 snrna-nsii as inner primers […]

PMCID: 5442829
PMID: 28213976
DOI: 10.1002/sctm.16-0121

[…] snrna, the hde‐specific sequence is replaced by a specific rna antisense against target sequence and original sm binding site is modified by consensus sequence of spliceosomal sm binding sequence or smopt , . for inhibiting a splicing defect at mrna level, the modified u7 snrna is an optimal choice because it is accumulated in the nucleus similarly to other snrnas and it is small size […]

PMCID: 5333040
PMID: 28134780
DOI: 10.3390/genes8020051

[…] site for sm/lsm (sm-like) proteins []. schumperli and colleagues showed that converting the sm binding site of u7 snrna (u7 sm wt) into the consensus sequence derived from spliceosomal snrnps (u7 smopt) resulted in the assembly of the sm proteins d1 and d2 instead of the usual lsm10 and lsm11. this modification leads to the accumulation of u7 sm opt snrnps in the nucleus and prevents […]

PMCID: 5445539
PMID: 28615737
DOI: 10.1007/s00211-014-0684-3

[…] onts} \usepackage{amssymb} \usepackage{amsbsy} \usepackage{mathrsfs} \usepackage{upgreek} \setlength{\oddsidemargin}{-69pt} \begin{document}$$s_m^\mathrm{opt}$$\end{document}smopt runs as \documentclass[12pt]{minimal} \usepackage{amsmath} \usepackage{wasysym} \usepackage{amsfonts} \usepackage{amssymb} \usepackage{amsbsy} \usepackage{mathrsfs} […]


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SMoPT institution(s)
Department of Biology, University of Pennsylvania, Philadelphia, PA, USA; Wellcome Trust Centre for Cell Biology, University of Edinburgh, Edinburgh, UK
SMoPT funding source(s)
Supported by the Burroughs Wellcome Fund, the David and Lucile Packard Foundation, the James S. McDonnell Foundation, the Alfred P. Sloan Foundation, the Foundational Questions in Evolutionary Biology Fund (RFP-12-16), the U.S. Army Research Office (grant W911NF-12-1-0552), and grant D12AP00025 from the U.S. Department of the Interior; by The Wellcome Trust grant 077248; and by the Darwin Trust of Edinburgh.

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