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This article mainly introduces the use of ReMap, has a certain reference value, interested friends can refer to, I hope you can learn a lot after reading this article, the following let the editor take you to understand it.

ReMap collects chip_seq data from people in the GEO and Encode projects, and classifies the data from different cell lines and different types of transcription factors at the following website

Http://tagc.univ-mrs.fr/remap/index.php

In this database, two ways to view the data are provided, with transcriptional factors and cell types as the center and transcriptional factors as the center.

Click on each transcription factor to view the following information

1. Basic information

Including the classification of transcription factors, the corresponding gene and protein database links and other information, as follows

2. Peak analysis results

For the related dataset of the transcription factor, functions such as downloading peak results and visualization of the genome browser are provided, as shown below

The results centered on the cell type are as follows

In addition to viewing the results of chip_seq analysis of various transcription factors, the official website also provides an annotation tool for Enrichment analysis. Upload your own peak file, compare it with the peak interval of the existing transcription factors in the database, and analyze which transcription factors are enriched in the uploaded peak region. The usage is as follows

Upload the peak file in BED format. The possible enriched transcription factors are given in the output, as shown below.

First, calculate the number of overlap between the uploaded peak interval and the peak interval of transcription factors in the database. At the same time, sample from the uploaded peak interval by random sampling, calculate the sampling result and the number of overlap of the peak in the database. By comparing the actual overlap and the number of random sampled overlap, calculate the evaluation value. The corresponding table data are as follows.

Through ReMap, on the one hand, the peak result files of transcription factors can be retrieved and downloaded, on the other hand, transcription factor enrichment analysis can be carried out.

Thank you for reading this article carefully. I hope the article "what's the use of ReMap" shared by the editor will be helpful to everyone? at the same time, I also hope that you will support and pay attention to the industry information channel, and more related knowledge is waiting for you to learn!

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