ILM: A web server for predicting RNA secondary structures with pseudoknots

Jianhua Ruan; Gary D. Stormo; Weixiong Zhang

doi:10.1093/nar/gkh444

ILM: A web server for predicting RNA secondary structures with pseudoknots

Jianhua Ruan, Gary D. Stormo, Weixiong Zhang

Research output: Contribution to journal › Article › peer-review

26 Scopus citations

Abstract

The ILM web server provides a web interface to two algorithms, iterated loop matching and maximum weighted matching, for efficiently predicting RNA secondary structures with pseudoknots. The algorithms can utilize either thermodynamic or comparative information or both, and thus can work on both aligned and individual sequences. Predicted secondary structures are presented in several formats compatible with a variety of existing visualization tools. The service can be accessed at http://cic.cs.wustl.edu/RNA/.

Original language	English
Pages (from-to)	W146-W149
Journal	Nucleic acids research
Volume	32
Issue number	WEB SERVER ISS.
DOIs	https://doi.org/10.1093/nar/gkh444
State	Published - Jul 1 2004

Access to Document

10.1093/nar/gkh444

Cite this

@article{c5e1f799eb07424cbfd2de1cd1397b61,

title = "ILM: A web server for predicting RNA secondary structures with pseudoknots",

abstract = "The ILM web server provides a web interface to two algorithms, iterated loop matching and maximum weighted matching, for efficiently predicting RNA secondary structures with pseudoknots. The algorithms can utilize either thermodynamic or comparative information or both, and thus can work on both aligned and individual sequences. Predicted secondary structures are presented in several formats compatible with a variety of existing visualization tools. The service can be accessed at http://cic.cs.wustl.edu/RNA/.",

author = "Jianhua Ruan and Stormo, {Gary D.} and Weixiong Zhang",

note = "Funding Information: J.R. thanks Ivo Hofacker for providing the dotplot routine and Mark Bober for setting up the web server. We also thank two anonymous reviewers for their very useful comments. This research was supported in part by NSF grants IIS-0196057 and EIA-0113618 under the ITR program. G.D.S. was supported by NIH grant HG00249.",

year = "2004",

month = jul,

day = "1",

doi = "10.1093/nar/gkh444",

language = "English",

volume = "32",

pages = "W146--W149",

journal = "Nucleic acids research",

issn = "0305-1048",

number = "WEB SERVER ISS.",

}

TY - JOUR

T1 - ILM

T2 - A web server for predicting RNA secondary structures with pseudoknots

AU - Ruan, Jianhua

AU - Stormo, Gary D.

AU - Zhang, Weixiong

N1 - Funding Information: J.R. thanks Ivo Hofacker for providing the dotplot routine and Mark Bober for setting up the web server. We also thank two anonymous reviewers for their very useful comments. This research was supported in part by NSF grants IIS-0196057 and EIA-0113618 under the ITR program. G.D.S. was supported by NIH grant HG00249.

PY - 2004/7/1

Y1 - 2004/7/1

N2 - The ILM web server provides a web interface to two algorithms, iterated loop matching and maximum weighted matching, for efficiently predicting RNA secondary structures with pseudoknots. The algorithms can utilize either thermodynamic or comparative information or both, and thus can work on both aligned and individual sequences. Predicted secondary structures are presented in several formats compatible with a variety of existing visualization tools. The service can be accessed at http://cic.cs.wustl.edu/RNA/.

AB - The ILM web server provides a web interface to two algorithms, iterated loop matching and maximum weighted matching, for efficiently predicting RNA secondary structures with pseudoknots. The algorithms can utilize either thermodynamic or comparative information or both, and thus can work on both aligned and individual sequences. Predicted secondary structures are presented in several formats compatible with a variety of existing visualization tools. The service can be accessed at http://cic.cs.wustl.edu/RNA/.

UR - http://www.scopus.com/inward/record.url?scp=3242880117&partnerID=8YFLogxK

U2 - 10.1093/nar/gkh444

DO - 10.1093/nar/gkh444

M3 - Article

C2 - 15215368

AN - SCOPUS:3242880117

SN - 0305-1048

VL - 32

SP - W146-W149

JO - Nucleic acids research

JF - Nucleic acids research

IS - WEB SERVER ISS.

ER -

ILM: A web server for predicting RNA secondary structures with pseudoknots

Abstract

Access to Document

Other files and links

Fingerprint

Cite this