@article{550a3e04c5b8426897d0e792231c0f18,
title = "A galaxy implementation of next-generation clustered heatmaps for interactive exploration of molecular profiling data",
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.Weillustrate 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.",
author = "Broom, {Bradley M.} and Ryan, {Michael C.} and Brown, {Robert E.} and Futa Ikeda and Mark Stucky and Kane, {David W.} and James Melott and Chris Wakefield and Casasent, {Tod D.} and Rehan Akbani and Weinstein, {John N.}",
note = "Funding Information: This work was supported by grants from {"}Next Generation{"} clustered Heat Maps for fluent, interactive exploration of omic data (1U24 CA199461 01, NIH/ NCI), an Integrative Pipeline for Analysis & Translational Application of TCGA Data grant (GDAC; 3U24 CA143883, NIH/NCI), Batch Effects in Molecular Profiling Data on Cancers: Detection, Quantification, Interpretation, and Correction (1U24CA210949, NIH/NCI), Integrated Analysis of Protein Expression Data from the Reverse Phase Protein Array (RPPA) Platform (1U24CA210950, NIH/NCI), A Proteomics and Metabolomics Core Facility at the University of Texas MD Anderson Cancer Center (RP130397, CPRIT), and MD Anderson Cancer Center support grant P30 CA016672 (the Bioinformatics Shared Resource). Funding Information: This research was supported in part by the Michael & Susan Dell Foundation (honoring Lorraine Dell) and by the Mary K. Chapman Foundation. Publisher Copyright: {\textcopyright} 2017 American Association for Cancer Research.",
year = "2017",
month = nov,
day = "1",
doi = "10.1158/0008-5472.CAN-17-0318",
language = "English (US)",
volume = "77",
pages = "e23--e26",
journal = "Cancer Research",
issn = "0008-5472",
number = "21",
}