A Galaxy Implementation of Next-Generation Clustered Heatmaps for Interactive Exploration of Molecular Profiling Data

Cancer Research
Bradley M BroomJohn N Weinstein

Abstract

Clustered heatmaps are the most frequently used graphics for visualization of molecular profiling data in biology. However, they are generally rendered as static, or only modestly interactive, images. We have now used recent advances in web technologies to produce interactive "next-generation" clustered heatmaps (NG-CHM) that enable extreme zooming and navigation without loss of resolution. NG-CHMs also provide link-outs to additional information sources and include other features that facilitate deep exploration of the biology behind the image. Here, we describe an implementation of the NG-CHM system in the Galaxy bioinformatics platform. We illustrate the algorithm and available computational tool using RNA-seq data from The Cancer Genome Atlas program's Kidney Clear Cell Carcinoma project. Cancer Res; 77(21); e23-26. ©2017 AACR.

References

Mar 1, 1997·Electrophoresis·T G MyersJ N Weinstein
Dec 9, 1998·Proceedings of the National Academy of Sciences of the United States of America·M B EisenD Botstein
Mar 4, 2000·Nature Genetics·U ScherfJ N Weinstein
Apr 3, 2003·Genome Research·Yuval KlugerMark Gerstein
Mar 29, 2008·Science·John N Weinstein
Jun 25, 2013·Nature·UNKNOWN Cancer Genome Atlas Research Network

❮ Previous
Next ❯

Citations

Mar 6, 2018·Bioinformatics·Diem-Trang TranBalagurunathan Kuberan
Jun 9, 2020·Proteomics·Anna Pamela CalinawanBoris Reva
Aug 4, 2020·Proteomics·Sunghyun Huh, Min-Sik Kim
Jul 22, 2020·Journal for Immunotherapy of Cancer·Paul A ClarkZachary S Morris
Dec 26, 2018·Journal of Proteome Research·Praveen KumarPratik D Jagtap

❮ Previous
Next ❯

Related Concepts

Related Feeds

Adenocarcinoma, Clear Cell

Clear Cell Adenocarcinoma is a tumor that arises in the female genital tract and is characterized by cells that appear clear under the microscope. Discover the latest research here.