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Home > Extras > Bioinformatics For Dummies® Bonus Material
Bioinformatics For Dummies® Bonus Material
By: Jean-Michel Claverie Ph.D., Cedric Notredame Ph.D.
 

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Chapter 12: Working with RNA

Chapter 12 images

Some RNA analysis resources

URL Description
www.bioinfo.rpi.edu/applications/mfold/
bibiserv.techfak.uni-bielefeld.de/cgi-bin/mfold_submit
bioweb.pasteur.fr/seqanal/interfaces/mfold-simple.html
mfold.burnet.edu.au
The famous Zuker Mfold and some of its mirrors.
www.genetics.wustl.edu/eddy/tRNAscan-SE Finding tRNAs in a genome
www-unix.mcs.anl.gov/compbio/PatScan/HTML/matching_nucleotides.html Finding an RNA-like structure in a genome
www.esil.univ-mrs.fr/~dgaut/download/ Finding an RNA structure in a genome (needs to be downloaded)

Ribosomal RNA resources on the Internet

URL Description
rdp.cme.msu.edu Provides data and services, including online phylogenetic analysis.
rrna.uia.ac.be/lsu A European database on the larger of the two ribosomal subunits. It contains predicted structures. You can query the database online. This site features lots of online software.
rrna.uia.ac.be/ssu Dedicated to the small ribosomal subunit.

Some non-coding RNA resources

URL Description
mbcr.bcm.tmc.edu/smallRNA/smallrna.html Dedicated to small non-coding RNAs.
rna.wustl.edu/tRNAdb/ Dedicated to tRNAs.
bighost.area.ba.cnr.it/BIG/UTRHome/ Dedicated to the untranslated regions of genes.
www.indiana.edu/~tmrna/ Dedicated to the recently discovered tmRNA that are both transfer and messenger RNAs. (If you don't yet know what this is, you MUST take a look at this fascinating Web site!)

A list of generic RNA resources

URL Description
www.imb-jena.de/RNA.html RNA World, one of the most complete sites currently available
www.rnabase.org/links/ Another very complete site