NetworkPainter: dynamic intracellular pathway animation in Cytobank

Karr, Jonathan R; Guturu, Harendra; Chen, Edward Y; Blair, Stuart L; Irish, Jonathan M; Kotecha, Nikesh; Covert, Markus W

doi:10.1186/s12859-015-0602-4

Back to Previous Page

- Add this to...
- Twitter
- Facebook
- Google Bookmarks
- LinkedIn

NetworkPainter: dynamic intracellular pathway animation in Cytobank

Published Date:

May 25 2015

Publisher's site:

http://dx.doi.org/10.1186/s12859-015-0602-4 New Site Icon

Source:

BMC Bioinformatics. 16(1).

[PDF-1.76 MB]

Details:

Alternative Title:

BMC Bioinformatics

Personal Author:

Karr, Jonathan R ; Guturu, Harendra ; Chen, Edward Y ; Blair, Stuart L ; Irish, Jonathan M ; ... More ▼

Description:

Background

High-throughput technologies such as flow and mass cytometry have the potential to illuminate cellular networks. However, analyzing the data produced by these technologies is challenging. Visualization is needed to help researchers explore this data.

Results

We developed a web-based software program, NetworkPainter, to enable researchers to analyze dynamic cytometry data in the context of pathway diagrams. NetworkPainter provides researchers a graphical interface to draw and “paint” pathway diagrams with experimental data, producing animated diagrams which display the activity of each network node at each time point.

Conclusion

NetworkPainter enables researchers to more fully explore multi-parameter, dynamical cytometry data.

Electronic supplementary material

The online version of this article (doi:10.1186/s12859-015-0602-4) contains supplementary material, which is available to authorized users.

Subject:

[+]

Pubmed ID:

26003204

Pubmed Central ID:

PMC4491883

Document Type:

Journal Article

Funding:

1P50GM107615/GM/NIGMS NIH HHS/United States ; 5DP1LM01150-05/DP/NCCDPHP CDC HHS/United States ; CA125994-01A1/CA/NCI NIH HHS/United States ; CA143231/CA/NCI NIH HHS/United States ; K99 CA125994/CA/NCI NIH HHS/United States ; ... More ▼

Collection(s):

CDC Public Access

Main Document Checksum:

[+]

Supporting Files:

	license.txt	text/plain
	12859_2015_602_Fig1_HTML.gif	image/gif
	12859_2015_602_Fig1_HTML.jpg	image/jpeg
	12859_2015_602_Fig2_HTML.gif	image/gif
	12859_2015_602_Fig2_HTML.jpg	image/jpeg
	12859_2015_602_MOESM1_ESM.pdf	application/pdf
	12859_2015_Article_602.nxml	text/plain

No Related Documents.

You May Also Like:

Impact of recent innovations in the use of mass cytometry in support of drug development

Personal Author:

Nassar, Ala F.; Ogura, Hideki; Wisnewski, Adam V.;

Published Date:

Jun 16 2015

Source:

Drug Discov Today. 20(10):1169-1175.

Description:

Cytometry by time-of-flight (CyTOF) is a novel technology for the real-time analysis of single cells. CyTOF is a significant advance in fields including immunology, hematology, and oncology. It resolves multiple metal-conjugated probes per cell with ...

File Type:

[PDF - 329.87 KB]
WholeCellViz: data visualization for whole-cell models

Personal Author:

Lee, Ruby; Karr, Jonathan R; Covert, Markus W;

Published Date:

Aug 21 2013

Source:

BMC Bioinformatics. 2013; 14:253.

Description:

BackgroundWhole-cell models promise to accelerate biomedical science and engineering. However, discovering new biology from whole-cell models and other high-throughput technologies requires novel tools for exploring and analyzing complex, high-dimens...

File Type:

[PDF - 1.84 MB]
Motion Editing And Reuse Techniques And Their Role In Studying Events Between A Machine And Its Operator

Personal Author:

Volberg, Ovsei; Ambrose, Dean H.;

Published Date:

1/1/2000

Description:

Motion capture involves recording the position and global orientation of joint sensors of a real object, in most cases a real person performing some human activities. This information is usually recorded at uniformly spaced instances of time, or as i...

File Type:

[PDF - 68.05 KB]
Synergistic Induction of Apoptosis in Brain Cancer Cells by Targeted Co delivery of siRNA and Anti-cancer drugs

Personal Author:

Kim, Cheoljin; Shah, Birju P.; Subramaniam, Prasad; Lee, Ki-Bum;

Published Date:

Aug 05 2011

Source:

Mol Pharm. 8(5):1955-1961.

Description:

Multiple dysregulated pathways in tumors necessitate targeting multiple oncogenic elements by combining orthogonal therapeutic moieties like short-interfering RNAs (siRNA) and drug molecules in order to achieve a synergistic therapeutic effect. In th...

File Type:

[PDF - 2.00 MB]
Tailoring of Membrane Proteins by Alternative Splicing of Pre-mRNA†

Personal Author:

Mittendorf, Kathleen F.; Deatherage, Catherine L.; Ohi, Melanie D.; Sanders, Charles R.;

Published Date:

Jun 29 2012

Source:

Biochemistry. 51(28):5541-5556.

Description:

Alternative splicing (AS) of RNA is a key mechanism for diversification of the eukaryotic proteome. In this process, different mRNA transcripts can be produced through altered excision and/or inclusion of exons during processing of the pre-mRNA molec...

File Type:

[PDF - 3.47 MB]