Learn to use Melina II, a web-based tool for promoter analysis. Melina II is a freely available web tool for finding motifs on DNA sequences, and it is an excellent analytical tool for promoter analysis. It provides you with several algorithms for predicting motifs in a data set of DNA sequences (Consensus, Meme, Gibbs, MDscan, Weeder). These motifs are applicable to promoter analysis, as they may represent transcription factor binding sites that are shared by the sequences in your data set. For researchers performing promoter analysis, Melina II is the site to go for access to several programs to run simultaneously, with graphical comparisons of the results provided.

You will learn:

  • about the algorithms that can be used through Melina II
  • how to do a basic DNA motif search
  • how to understand and interpret your search results
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:

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 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

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:

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 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

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.

Nucleotides : Tools that are primarily used in the storage, retrieval, or exploration of nucleotide-based data. Some tools may also involve protein sequence information.

BLOG POSTS

Tip of the Week: Melina II for promoter analysis: One of the most frequently-asked questions we get when we are out doing workshops is: how do I find motifs in promoters, and what can I do with them to find more information? Just last Friday we were ...

New On-line Tutorials on Promoter Analysis Tools: Comprehensive tutorials on a set of promoter analysis tools (Melina II, Consensus, MDscan, Gibbs and MEME) enable researchers to quickly and effectively use these invaluable resources. OpenHelix today ...

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