What is Arabidopsis Motif Scanner?

Arabidopsis Motif Scanner

Arabidopsis Motif Scanner is a handy tool made for researchers to explore gene connections and their roles. If you're diving into the world of plant biology, especially with the Arabidopsis thaliana, this app is really going to help you out!

Understanding Gene Functions

This software lets you find where cis-regulatory elements sit in the Arabidopsis thaliana. It's a popular model plant used in biology and genetics. Plus, it helps you link that info with other data to spot gene networks managed by transcription factors.

Comprehensive Database Access

The Arabidopsis Motif Scanner, as its name hints, allows you to dig deep into the genome of the Arabidopsis thaliana. It gives you access to a detailed database full of annotations and gene interactions for every result. This means you'll have loads of useful information right at your fingertips!

Merging Data for New Discoveries

You can even mix what you've found with NGS and DNA Chip Array results. This makes it easier to uncover new gene relationships and functions.

Identifying Metabolic Pathways

This tool uses DNA-protein and protein-protein interaction data, which helps identify metabolic pathways regulated by specific transcription factors. Pretty cool, right?

User-Friendly Interface

When you first open the app, it loads up the database and shows you the Motif Scanner tab. You can search using different parameters and filter your results easily.

Combining Data in Expression Tab

The Expression tab lets you pair up cis-acting element positions with NFS or DNA Chip Array expression data. You can tweak the Fold Change Threshold, filter what shows up, and export your findings—whether all at once or just selected entries.

Viewing Gene Organization Easily

If you're curious about gene organization, check out the Gene Viewer tab! You can get there by clicking on the AGI code box in the Motif Scanner tab or just putting in the code yourself.

Diving Deeper with Interactions Tab

If you're looking at EC or Interactions cells in the Motif Scanner tab, just click them! You'll see all that info displayed nicely in a tree view within the Interactions tab.

A Great Resource for Researchers

This app is mainly aimed at experienced researchers. But don't worry if you're new! There's a comprehensive user manual available online, so you'll catch on quickly and start using this awesome research tool in no time.

Download Arabidopsis Motif Scanner!

How Download Works

Go to the Softpas website, press the 'Downloads' button, and pick the app you want to download and install—easy and fast!