Learn to use the MEME suite sequence annotation tools FIMO, MAST, GLAM2SCAN and MCAST. The results are emailed to you and are available on the web, and offer extensive computational and schematic details of the motifs it has found, with links to more information and additional analysis features. Each tool uses the input motifs to search selected databases for occurrances of those motifs. FIMO find matches to individual motifs, MAST finds sequences that match a set of motifs, GLAM2SCAN find matches to a gapped motif model and MCAST finds clusters of non-overlapping matches to motifs. Download the MCAST example data file by clicking here.
You will learn:
This tutorial is a part of the tutorial group Motifs and Domains. You might find the other tutorials in the group interesting:
Melina II: A Web-Based Tool for Promoter Analysis
MINT: Molecular Interaction Database
Gibbs Motif Sampler: A motif finder and analysis tool
MDscan: Motif Discovery scan for nucleotide and protein motifs
PROSITE: Database of protein domains, families and functional sites
MEME Suite TOMTOM and GOMO algorithms: Motif discovery tool that can detect conserved motifs in a set of DNA or protein sequences that you provide
MEME Suite GLAM2 Algorithm: Part of a motif discovery tool that can detect conserved motifs in a set of DNA or protein sequences.
MEME Algorithm: Multiple Expectation Maximum for Motif Elicitation
MEME Suite Overview: Motif-based sequence analysis tools
SMART: Protein domain annotation and analysis of domain architectures
InterPro: A comprehensive protein signature resource
Algorithms and Analysis : This category contains various tools that may help perform analysis of different genomics data types. This may include sequence alignment, large-scale or complex queries, motif finding, or comparative assessments.
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Recent BioMed Central research articles citing this resource
Tong Hao et al., Unsupervised statistical discovery of spaced motifs in prokaryotic genomes Prokaryote microbial genomics. BMC Genomics (2017) doi:10.1186/s12864-016-3400-0
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Amort Thomas et al., Distinct 5-methylcytosine profiles in poly(A) RNA from mouse embryonic stem cells and brain. Genome Biology (2017) doi:10.1186/s13059-016-1139-1