Learn to use the GLAM2 algorithm (Gapped Local Alignment of Motifs), which is part of a motif discovery tool that can detect conserved motifs in a set of DNA or protein sequences that you provide. 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. GLAM2 is a powerful tool for analyzing sequences for gapped motifs.

You will learn:

  • to create properly formatted files for sequence data
  • to understand the output display options and features
  • to visualize the locations and orientations of motif elements
TUTORIAL RELATED CONTENT

TUTORIALS

This tutorial is a part of the tutorial group Motif analysis tools. You might find the other tutorials in the group interesting:

Melina II: A Web-Based Tool for Promoter Analysis

Gibbs Motif Sampler: A motif finder and analysis tool

MDscan: Motif Discovery scan for nucleotide and protein motifs

Consensus: A pattern and motif recognition program

MEME Algorithm: Multiple Expectation Maximum for Motif Elicitation

MEME Suite Overview: Motif-based sequence analysis tools

World Tour of Genomics Resources 2: Great tools from around the world

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


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

MEME Suite Sequence Annotation Tools: MEME suite motif finding and annotating tools

MDscan: Motif Discovery scan for nucleotide and protein motifs

PROSITE: Database of protein domains, families and functional sites

MEME Algorithm: Multiple Expectation Maximum for Motif Elicitation

MEME Suite Overview: Motif-based sequence analysis tools

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

SMART: Protein domain annotation and analysis of domain architectures

InterPro: A comprehensive protein signature resource

CATEGORIES

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.

BLOG POSTS

Tip of the Week: MEME Suite of Motif Discovery Tools: In this week's tip I'm going to introduce you to a suite of motif discovery tools, and show you (briefly) how to use one of the tools. The MEME suite is a comprehensive collection of tools for analysi...

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