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Literature DB >> 16293669

Gene Time E{chi}pression Warper: a tool for alignment, template matching and visualization of gene expression time series.

Abstract

UNLABELLED: An application tool for alignment, template matching and visualization of gene expression time series is presented. The core algorithm is based on dynamic time warping techniques used in the speech recognition field. These techniques allow for non-linear (elastic) alignment of temporal sequences of feature vectors and consequently enable detection of similar shapes with different phases. AVAILABILITY: The Java program, examples and a tutorial are available at http://www.psb.ugent.be/cbd/papers/gentxwarper/

Mesh：

Year: 2005 PMID： 16293669 DOI： 10.1093/bioinformatics/bti787

Source DB: PubMed Journal: Bioinformatics ISSN： 1367-4803 Impact factor: 6.937

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Cited

10 in total

1. Fast multisegment alignments for temporal expression profiles.

Authors: Adam A Smith; Mark Craven
Journal: Comput Syst Bioinformatics Conf Date: 2008

2. Genome-wide analysis of a Wnt1-regulated transcriptional network implicates neurodegenerative pathways.

Authors: Eric M Wexler; Ezra Rosen; Daning Lu; Gregory E Osborn; Elizabeth Martin; Helen Raybould; Daniel H Geschwind
Journal: Sci Signal Date: 2011-10-04 Impact factor: 8.192

3. Development and application of a modified dynamic time warping algorithm (DTW-S) to analyses of primate brain expression time series.

Authors: Yuan Yuan; Yi-Ping Phoebe Chen; Shengyu Ni; Augix Guohua Xu; Lin Tang; Martin Vingron; Mehmet Somel; Philipp Khaitovich
Journal: BMC Bioinformatics Date: 2011-08-18 Impact factor: 3.169

Gene Time E{chi}pression Warper: a tool for alignment, template matching and visualization of gene expression time series.

1. Fast multisegment alignments for temporal expression profiles.

2. Genome-wide analysis of a Wnt1-regulated transcriptional network implicates neurodegenerative pathways.

3. Development and application of a modified dynamic time warping algorithm (DTW-S) to analyses of primate brain expression time series.

4. STEM: a tool for the analysis of short time series gene expression data.

5. BTW: a web server for Boltzmann time warping of gene expression time series.

Review 6. The analytical landscape of static and temporal dynamics in transcriptome data.

7. DynOmics to identify delays and co-expression patterns across time course experiments.

8. Clustered alignments of gene-expression time series data.

9. DTW4Omics: comparing patterns in biological time series.

10. Similarity queries for temporal toxicogenomic expression profiles.