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SLiMSuite: Short Linear Motif discovery and molecular evolution toolkit

EdwardsLab Servers

Many of the EdwardsLab servers are currently under development. Please see the SLiMSuite Blog and REST server news page for more information and updates.

Servers

SLiMSuite-REST

RShiny

WebApollo

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SLiMMaker regular expression generator

Enter sequences and click "Make SLiM". Sequences can be raw sequences or fasta format. Sequences uploaded from a file will over-ride sequences in the textbox. (Example sequences are LIG_PCNA_PIPBox_1 ELM occurrences.)

SLiMMaker options:

Min. no. of sequences for an aa to be in:
Min. combined freq of accepted aa to avoid wildcard:
Max. no. different amino acids for one position:
"Amino acid(s)" to ignore. (If nucleotide, would be N-):
Whether "peptides" are actually DNA fragments
Perform iterative SLiMMaker.
Align peptides: Will use as guide regular expression, else T/True for regex-free alignment or F/False for None.
Whether to identifies gaps in aligned peptides and generate variable length motif.
Whether to extend ambiguous aa using equivalence list.
List of amino acid equivalence groups to use:
Alternative peptide list upload:

In place of peptides, an ELM Class can also be entered into the box. See the REST aliases page for more details.

SLiMMaker is available as part of the SLiMSuite package. For more information and citation details, please see the online SLiMMaker documentation.

© 2015 RJ Edwards. Contact: richard.edwards@unsw.edu.au.