iMotifs specifications

Information


Unique identifier OMICS_18099
Name iMotifs
Alternative name in silico Structural Analysis of Sequence Motifs in Proteins
Interface Web user interface
Restrictions to use None
Input data A list of PDB entries separated by commas, or files in valid PDB format can be uploaded.
Input format PDB
Programming languages Perl, PHP, R
Computer skills Basic
Stability Stable
Maintained Yes

Maintainer


  • person_outline Sureshkumar Ramasamy <>

iMotifs in publications

 (4)
PMCID: 3107212
PMID: 21655095
DOI: 10.1371/journal.pone.0019581

[…] partners and predicted residues essential for the respective interactions . aragues and colleagues analyzed hub proteins, i.e., highly connected proteins, in the context of interaction motifs (imotifs) and compared their results to those previously found by kim et al. . the imotif approach is based on the idea that proteins sharing interaction partners most likely interact with them via […]

PMCID: 2993676
PMID: 21059207
DOI: 10.1186/1476-4598-9-290

[…] over-expressed in ysts versus germinomas, followed by linear regression to confirm associations between tf and mir-302 cluster expression levels. using the sequence motif analysis environment imotifs, we identified predicted binding sites for four of the 10 tfs (gata6, gata3, tcf7l2 and maf) in the mir-302 cluster promoter region. finally, we showed that mir-302 family over-expression […]

PMCID: 2906491
PMID: 20579334
DOI: 10.1186/1471-2105-11-348

[…] error estimates. the metamotif inference and visualisation tools are made openly available as part of the nestedmica motif inference suite, and the interactive motif inference analysis environment imotifs []. we also introduce a visual representation for the metamotif akin the sequence logo, which presents the metamotif as an average motif with confidence intervals for symbol weights., […]

PMCID: 1976338
PMID: 17941705
DOI: 10.1371/journal.pcbi.0030178

[…] assumption holds true for highly connected proteins (i.e., hubs in a protein–protein interaction network). building on this validation, we then developed a method for identifying interacting motifs (imotifs), which has been implemented within the protein–protein interaction framework and integration engine piana (protein interactions and network analysis) []. imotifs are not required […]


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