Example Analysis of Hi-C Data Browser browser

Editor to share with you the example analysis of Hi-C Data Browser browser, I believe that most people do not know much about it, so share this article for your reference, I hope you can learn a lot after reading this article, let's learn about it!

Lieberman-Aiden et al used Hi-C technology to study the three-dimensional structure of human lymphoblasts and put forward the concept of Ahand B compartment for the first time.

The link to pubmed is as follows

Https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2858594/

For the hi-c data involved in this article, a website has been developed for retrieval and viewing, at the following URL

Http://hic.umassmed.edu/heatmap/heatmap.php

Through the top drop-down box, select a different database to view, as shown below

Cell line is used to select cell lines, providing data for K562 and GM06690 cell lines, x-axis and y-axis are used to select the chromosome names to be displayed, Resolution specifies the resolution, Data Type specifies the data type, whether it is the normalized data or the original data, or the result of correlation, Color Range specifies the mapping range of colors, and after selecting the data, Click the View window to view the interaction map between two chromosomes.

Through this function, the hi-c maps of different observations can be easily compared. The interaction map within chromatin No. 1 is shown as follows.

By clicking the left mouse button, select the cells of an interaction matrix, and you can view the details between the corresponding two bin in the right interface, as shown below

You can also drag out a rectangular area with the left mouse button and view it through zoom, or enter the genome region to zoom in, as shown below

The effect after zooming in is as follows

The corresponding interaction matrix can be downloaded through the Download button, and the hi-c data in the article can be explored in detail through this website.

The above is all the contents of the article "sample Analysis of Hi-C Data Browser browsers". Thank you for reading! I believe we all have a certain understanding, hope to share the content to help you, if you want to learn more knowledge, welcome to follow the industry information channel!