Freiburg RNA tools: A central online resource for RNA-focused research and teaching

Martin Raden; Syed M. Ali; Omer S. Alkhnbashi; Anke Busch; Fabrizio Costa; Jason A. Davis; Florian Eggenhofer; Rick Gelhausen; Jens Georg; Steffen Heyne; Michael Hiller; Kousik Kundu; Robert Kleinkauf; Steffen C. Lott; Mostafa M. Mohamed; Alexander Mattheis; Milad Miladi; Andreas S. Richter; Sebastian Will; Joachim Wolff; Patrick R. Wright; Rolf Backofen

doi:10.1093/nar/gky329

Freiburg RNA tools: A central online resource for RNA-focused research and teaching

Martin Raden
, Syed M. Ali
, Omer S. Alkhnbashi
, Anke Busch
, Fabrizio Costa
, Jason A. Davis
, Florian Eggenhofer
, Rick Gelhausen
, Jens Georg
, Steffen Heyne
, Michael Hiller
, Kousik Kundu
, Robert Kleinkauf
, Steffen C. Lott
, Mostafa M. Mohamed
, Alexander Mattheis
, Milad Miladi
, Andreas S. Richter
, Sebastian Will
, Joachim Wolff

Patrick R. Wright, Rolf Backofen^*

^*Corresponding author for this work

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

128 Scopus citations

Abstract

The Freiburg RNA tools webserver is a well established online resource for RNA-focused research. It provides a unified user interface and comprehensive result visualization for efficient command line tools. The webserver includes RNA-RNA interaction prediction (IntaRNA, CopraRNA, metaMIR), sRNA homology search (GLASSgo), sequence-structure alignments (LocARNA, MARNA, CARNA, ExpaRNA), CRISPR repeat classification (CRISPRmap), sequence design (antaRNA, INFO-RNA, SECISDesign), structure aberration evaluation of point mutations (RaSE), and RNA/protein-family models visualization (CMV), and other methods. Open education resources offer interactive visualizations of RNA structure and RNA-RNA interaction prediction as well as basic and advanced sequence alignment algorithms.

Original language	English
Pages (from-to)	W25-W29
Journal	Nucleic Acids Research
Volume	46
Issue number	W1
DOIs	https://doi.org/10.1093/nar/gky329
State	Published - 2 Jul 2018
Externally published	Yes

Bibliographical note

Publisher Copyright:
© 2018 The Author(s).

ASJC Scopus subject areas

Genetics

Access to Document

10.1093/nar/gky329

Cite this

Raden, M., Ali, S. M., Alkhnbashi, O. S., Busch, A., Costa, F., Davis, J. A., Eggenhofer, F., Gelhausen, R., Georg, J., Heyne, S., Hiller, M., Kundu, K., Kleinkauf, R., Lott, S. C., Mohamed, M. M., Mattheis, A., Miladi, M., Richter, A. S., Will, S., ... Backofen, R. (2018). Freiburg RNA tools: A central online resource for RNA-focused research and teaching. Nucleic Acids Research, 46(W1), W25-W29. https://doi.org/10.1093/nar/gky329

@article{d62adb8981ed45bc98c82105af1415f0,

title = "Freiburg RNA tools: A central online resource for RNA-focused research and teaching",

abstract = "The Freiburg RNA tools webserver is a well established online resource for RNA-focused research. It provides a unified user interface and comprehensive result visualization for efficient command line tools. The webserver includes RNA-RNA interaction prediction (IntaRNA, CopraRNA, metaMIR), sRNA homology search (GLASSgo), sequence-structure alignments (LocARNA, MARNA, CARNA, ExpaRNA), CRISPR repeat classification (CRISPRmap), sequence design (antaRNA, INFO-RNA, SECISDesign), structure aberration evaluation of point mutations (RaSE), and RNA/protein-family models visualization (CMV), and other methods. Open education resources offer interactive visualizations of RNA structure and RNA-RNA interaction prediction as well as basic and advanced sequence alignment algorithms.",

author = "Martin Raden and Ali, \{Syed M.\} and Alkhnbashi, \{Omer S.\} and Anke Busch and Fabrizio Costa and Davis, \{Jason A.\} and Florian Eggenhofer and Rick Gelhausen and Jens Georg and Steffen Heyne and Michael Hiller and Kousik Kundu and Robert Kleinkauf and Lott, \{Steffen C.\} and Mohamed, \{Mostafa M.\} and Alexander Mattheis and Milad Miladi and Richter, \{Andreas S.\} and Sebastian Will and Joachim Wolff and Wright, \{Patrick R.\} and Rolf Backofen",

note = "Publisher Copyright: {\textcopyright} 2018 The Author(s).",

year = "2018",

month = jul,

day = "2",

doi = "10.1093/nar/gky329",

language = "English",

volume = "46",

pages = "W25--W29",

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Raden, M, Ali, SM, Alkhnbashi, OS, Busch, A, Costa, F, Davis, JA, Eggenhofer, F, Gelhausen, R, Georg, J, Heyne, S, Hiller, M, Kundu, K, Kleinkauf, R, Lott, SC, Mohamed, MM, Mattheis, A, Miladi, M, Richter, AS, Will, S, Wolff, J, Wright, PR & Backofen, R 2018, 'Freiburg RNA tools: A central online resource for RNA-focused research and teaching', Nucleic Acids Research, vol. 46, no. W1, pp. W25-W29. https://doi.org/10.1093/nar/gky329

TY - JOUR

T1 - Freiburg RNA tools

T2 - A central online resource for RNA-focused research and teaching

AU - Raden, Martin

AU - Ali, Syed M.

AU - Alkhnbashi, Omer S.

AU - Busch, Anke

AU - Costa, Fabrizio

AU - Davis, Jason A.

AU - Eggenhofer, Florian

AU - Gelhausen, Rick

AU - Georg, Jens

AU - Heyne, Steffen

AU - Hiller, Michael

AU - Kundu, Kousik

AU - Kleinkauf, Robert

AU - Lott, Steffen C.

AU - Mohamed, Mostafa M.

AU - Mattheis, Alexander

AU - Miladi, Milad

AU - Richter, Andreas S.

AU - Will, Sebastian

AU - Wolff, Joachim

AU - Wright, Patrick R.

AU - Backofen, Rolf

PY - 2018/7/2

Y1 - 2018/7/2

N2 - The Freiburg RNA tools webserver is a well established online resource for RNA-focused research. It provides a unified user interface and comprehensive result visualization for efficient command line tools. The webserver includes RNA-RNA interaction prediction (IntaRNA, CopraRNA, metaMIR), sRNA homology search (GLASSgo), sequence-structure alignments (LocARNA, MARNA, CARNA, ExpaRNA), CRISPR repeat classification (CRISPRmap), sequence design (antaRNA, INFO-RNA, SECISDesign), structure aberration evaluation of point mutations (RaSE), and RNA/protein-family models visualization (CMV), and other methods. Open education resources offer interactive visualizations of RNA structure and RNA-RNA interaction prediction as well as basic and advanced sequence alignment algorithms.

AB - The Freiburg RNA tools webserver is a well established online resource for RNA-focused research. It provides a unified user interface and comprehensive result visualization for efficient command line tools. The webserver includes RNA-RNA interaction prediction (IntaRNA, CopraRNA, metaMIR), sRNA homology search (GLASSgo), sequence-structure alignments (LocARNA, MARNA, CARNA, ExpaRNA), CRISPR repeat classification (CRISPRmap), sequence design (antaRNA, INFO-RNA, SECISDesign), structure aberration evaluation of point mutations (RaSE), and RNA/protein-family models visualization (CMV), and other methods. Open education resources offer interactive visualizations of RNA structure and RNA-RNA interaction prediction as well as basic and advanced sequence alignment algorithms.

UR - https://www.scopus.com/pages/publications/85050886325

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DO - 10.1093/nar/gky329

M3 - Article

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AN - SCOPUS:85050886325

SN - 0305-1048

VL - 46

SP - W25-W29

JO - Nucleic Acids Research

JF - Nucleic Acids Research

IS - W1

ER -

Freiburg RNA tools: A central online resource for RNA-focused research and teaching

Abstract

Bibliographical note

ASJC Scopus subject areas

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