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GATE: software for the analysis and visualization of high-dimensional time series expression data

GATE: software for the analysis and visualization of high-dimensional time series expression data
GATE: software for the analysis and visualization of high-dimensional time series expression data
We present Grid Analysis of Time series Expression (GATE), an integrated computational software platform for the analysis and visualization of high-dimensional biomolecular time series. GATE uses a correlation-based clustering algorithm to arrange molecular time series on a two-dimensional hexagonal array and dynamically colors individual hexagons according to the expression level of the molecular component to which they are assigned, to create animated movies of systems-level molecular regulatory dynamics. In order to infer potential regulatory control mechanisms from patterns of correlation, GATE also allows interactive interrogation of movies against a wide variety of prior knowledge datasets. GATE movies can be paused and are interactive, allowing users to reconstruct networks and perform functional enrichment analyses. Movies created with GATE can be saved in Flash format and can be inserted directly into PDF manuscript files as interactive figures.
1367-4803
143-144
MacArthur, Ben D.
2c0476e7-5d3e-4064-81bb-104e8e88bb6b
Lachmann, Alexander
349577ae-81e3-42f7-ae13-960b8e7eb094
Lemischka, Ihor R.
3deafa24-f76b-4bfa-90e3-e2b802786bdc
Ma'ayan, Avi
74c9899b-5532-4865-96d9-11bac1c27f62
MacArthur, Ben D.
2c0476e7-5d3e-4064-81bb-104e8e88bb6b
Lachmann, Alexander
349577ae-81e3-42f7-ae13-960b8e7eb094
Lemischka, Ihor R.
3deafa24-f76b-4bfa-90e3-e2b802786bdc
Ma'ayan, Avi
74c9899b-5532-4865-96d9-11bac1c27f62

MacArthur, Ben D., Lachmann, Alexander, Lemischka, Ihor R. and Ma'ayan, Avi (2010) GATE: software for the analysis and visualization of high-dimensional time series expression data. Bioinformatics, 26 (1), 143-144. (doi:10.1093/bioinformatics/btp628). (PMID:19892805)

Record type: Article

Abstract

We present Grid Analysis of Time series Expression (GATE), an integrated computational software platform for the analysis and visualization of high-dimensional biomolecular time series. GATE uses a correlation-based clustering algorithm to arrange molecular time series on a two-dimensional hexagonal array and dynamically colors individual hexagons according to the expression level of the molecular component to which they are assigned, to create animated movies of systems-level molecular regulatory dynamics. In order to infer potential regulatory control mechanisms from patterns of correlation, GATE also allows interactive interrogation of movies against a wide variety of prior knowledge datasets. GATE movies can be paused and are interactive, allowing users to reconstruct networks and perform functional enrichment analyses. Movies created with GATE can be saved in Flash format and can be inserted directly into PDF manuscript files as interactive figures.

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More information

Published date: January 2010

Identifiers

Local EPrints ID: 175699
URI: https://eprints.soton.ac.uk/id/eprint/175699
ISSN: 1367-4803
PURE UUID: 5bfcd2fd-7171-4cae-b479-1db474fa9f85

Catalogue record

Date deposited: 25 Feb 2011 14:53
Last modified: 16 Jul 2019 23:46

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