Visualization of omics data for systems biology

N Gehlenborg, SI O'donoghue, NS Baliga… - Nature …, 2010 - nature.com
High-throughput studies of biological systems are rapidly accumulating a wealth of'omics'-
scale data. Visualization is a key aspect of both the analysis and understanding of these …

Visualizing biological data—now and in the future

SI O'Donoghue, AC Gavin, N Gehlenborg… - Nature …, 2010 - nature.com
Methods and tools for visualizing biological data have improved considerably over the last
decades, but they are still inadequate for some high-throughput data sets. For most users, a …

Towards zoomable multidimensional maps of the cell

Z Hu, J Mellor, J Wu, M Kanehisa, JM Stuart… - Nature …, 2007 - nature.com
The detailed structure of molecular networks, including their dependence on conditions and
time, are now routinely assayed by various experimental techniques. Visualization is a vital …

OmicsNet: a web-based tool for creation and visual analysis of biological networks in 3D space

G Zhou, J Xia - Nucleic acids research, 2018 - academic.oup.com
Biological networks play increasingly important roles in omics data integration and systems
biology. Over the past decade, many excellent tools have been developed to support …

Escher: a web application for building, sharing, and embedding data-rich visualizations of biological pathways

ZA King, A Dräger, A Ebrahim… - PLoS computational …, 2015 - journals.plos.org
Escher is a web application for visualizing data on biological pathways. Three key features
make Escher a uniquely effective tool for pathway visualization. First, users can rapidly …

MiBiOmics: an interactive web application for multi-omics data exploration and integration

J Zoppi, JF Guillaume, M Neunlist, S Chaffron - BMC bioinformatics, 2021 - Springer
Background Multi-omics experimental approaches are becoming common practice in
biological and medical sciences underlining the need to design new integrative techniques …

Visualizing multi-omics data in metabolic networks with the software Omix—A case study

P Droste, S Miebach, S Niedenführ, W Wiechert, K Nöh - Biosystems, 2011 - Elsevier
Systems Biology is a multi-disciplinary research field with the aim of understanding the
function of complex processes in living organisms. These intracellular processes are …

Integrative genomics viewer

JT Robinson, H Thorvaldsdóttir, W Winckler… - Nature …, 2011 - nature.com
Rapid improvements in sequencing and array-based platforms are resulting in a flood of
diverse genome-wide data, including data from exome and whole-genome sequencing …

PaintOmics 3: a web resource for the pathway analysis and visualization of multi-omics data

R Hernández-de-Diego, S Tarazona… - Nucleic acids …, 2018 - academic.oup.com
The increasing availability of multi-omic platforms poses new challenges to data analysis.
Joint visualization of multi-omics data is instrumental in better understanding …

Visualizing genome and systems biology: technologies, tools, implementation techniques and trends, past, present and future

GA Pavlopoulos, D Malliarakis, N Papanikolaou… - …, 2015 - academic.oup.com
Abstract “Α picture is worth a thousand words.” This widely used adage sums up in a few
words the notion that a successful visual representation of a concept should enable easy …