Shulou(Shulou.com)06/02 Report--

This article focuses on "how to use WashU Epigenome Browser to visualize hi-c data", interested friends may wish to take a look. The method introduced in this paper is simple, fast and practical. Now let the editor take you to learn how to use WashU Epigenome Browser to visualize hi-c data.

Washu Epigenome Browser is a genome browser. Compared with UCSC and other genome browsers, it can display not only two-dimensional information such as RNA_seq and chip_seq, but also the results of three-dimensional genomics data analysis such as Hi-C.

Http://epigenomegateway.wustl.edu/browser/

This browser is particularly powerful. This article only introduces how to display Hi-C data through this browser. The steps are as follows

1. Select reference species and version

Built-in common species such as humans, mice and rats. Before displaying information, you need to select the corresponding reference species and genome version, as shown in the following figure.

two。 Add displayed information

After selecting the reference species, the next step is to add the information you need to display, each of which is called track. Add it through the Tracks of the navigation bar, which can be selected from a public database or you can upload your own data. Here we select the data from the ENCODE database to display, select the common dataset through Public Data Hubs, as shown in the following figure, click the plus sign on the right to select the dataset of interest

A view of the dataset is provided below, expand the corresponding dataset by the plus sign, and then click the Assay area on the right to further select the dataset

Here we select the relevant data of the IM90 cell line, which is shown below.

You can choose more than one, here I chose hic and a variety of histone modifications and CTCF's chip_seq and RNA_seq data impromptu presentation.

3. Adjust the display mode

By default, the order of track is in the order in which it is imported, and the order of tracks can be adjusted through the toolset marked in the red box below.

Secondly, by right-clicking the corresponding track, you can adjust its color and y-axis range in detail, as shown in the following figure.

Simply adjust the color of each track, and the effect is as follows

At this point, I believe you have a deeper understanding of "how to use WashU Epigenome Browser to visualize hi-c data". You might as well do it in practice. Here is the website, more related content can enter the relevant channels to inquire, follow us, continue to learn!

Welcome to subscribe "Shulou Technology Information " to get latest news, interesting things and hot topics in the IT industry, and controls the hottest and latest Internet news, technology news and IT industry trends.