Welcome To Expresso Webserver

Expresso is an online web server for exploring the interaction of transcription factors and their target genes in plants using ChIP-Seq data. It was developed by Delasa Aghamirzaie, Karthik Raja Velmurugan, Shuchi Wu and Doaa Altarawy at Virginia Tech, doctoral students in interdisciplinary Genetics, Bioinformatics, and Computational Biology program. There are currently 20 transcription factors in the Expresso database, which is being updated monthly.

How to use services in the Expresso

  • If you want to search for a transcription factor and identify its target genes in the Expresso: Click Here
  • If you want to search for selected target genes and identify their candidate transcription factors based on available ChIP-Seq data: Click Here
  • If you want to mine your own gene expression data: Upload your gene expression data in order to identify highly correlating pairs of transcription factors and inferred targets genes: Click Here

Workflow

Expresso is designed to serve plant science researchers with a user-friendly interface as well as performance-efficient frame. You can see Expresso analysis pipeline here.

analysis pipeline
  • We collected more than 50 datasets form the NCBI GEO database. However, we were only able to incorporate 20 of those datasets after applying quality control to the datasets. We are updating and expanding our database every month to integrate the increasing number of ChIP-Seq datasets.
  • Since different analysis methods were used by different investigators, we devised Expresso pipeline to reanalyze available ChIP-Seq datasets using in-house Python scripts followed by MEME (Multiple Em for Motif Elicitation, Version 4.9.1).

Instead of going though separate ChIP-Seq datasets, Expresso provides the user with the capacity of systematically searching transcription factor-target gene interactions in plants.