ChAsE

Chromatin analysis and exploration tool

Hamid Younesy, Cydney B. Nielsen, Matthew C. Lorincz, Steven J M Jones, Mohammad M. Karimi, Torsten Möller

Research output: Contribution to journalArticle

12 Citations (Scopus)

Abstract

Summary: We present ChAsE, a cross-platform desktop application developed for interactive visualization, exploration and clustering of epigenomic data such as ChIP-seq experiments. ChAsE is designed and developed in close collaboration with several groups of biologists and bioinformaticians with a focus on usability and interactivity. Data can be analyzed through k-means clustering, specifying presence or absence of signal in epigenetic data and performing set operations between clusters. Results can be explored in an interactive heat map and profile plot interface and exported for downstream analysis or as high quality figures suitable for publications.

Original languageEnglish
Pages (from-to)3324-3326
Number of pages3
JournalBioinformatics
Volume32
Issue number21
DOIs
Publication statusPublished - 1 Nov 2016
Externally publishedYes

Fingerprint

Chromatin
Epigenomics
Cluster Analysis
Visualization
Publications
Interactivity
Hot Temperature
Experiments
K-means Clustering
Usability
Figure
Chip
Heat
Clustering
Experiment
Datasets

ASJC Scopus subject areas

  • Statistics and Probability
  • Medicine(all)
  • Biochemistry
  • Molecular Biology
  • Computer Science Applications
  • Computational Theory and Mathematics
  • Computational Mathematics

Cite this

Younesy, H., Nielsen, C. B., Lorincz, M. C., Jones, S. J. M., Karimi, M. M., & Möller, T. (2016). ChAsE: Chromatin analysis and exploration tool. Bioinformatics, 32(21), 3324-3326. https://doi.org/10.1093/bioinformatics/btw382

ChAsE : Chromatin analysis and exploration tool. / Younesy, Hamid; Nielsen, Cydney B.; Lorincz, Matthew C.; Jones, Steven J M; Karimi, Mohammad M.; Möller, Torsten.

In: Bioinformatics, Vol. 32, No. 21, 01.11.2016, p. 3324-3326.

Research output: Contribution to journalArticle

Younesy, H, Nielsen, CB, Lorincz, MC, Jones, SJM, Karimi, MM & Möller, T 2016, 'ChAsE: Chromatin analysis and exploration tool', Bioinformatics, vol. 32, no. 21, pp. 3324-3326. https://doi.org/10.1093/bioinformatics/btw382
Younesy H, Nielsen CB, Lorincz MC, Jones SJM, Karimi MM, Möller T. ChAsE: Chromatin analysis and exploration tool. Bioinformatics. 2016 Nov 1;32(21):3324-3326. https://doi.org/10.1093/bioinformatics/btw382
Younesy, Hamid ; Nielsen, Cydney B. ; Lorincz, Matthew C. ; Jones, Steven J M ; Karimi, Mohammad M. ; Möller, Torsten. / ChAsE : Chromatin analysis and exploration tool. In: Bioinformatics. 2016 ; Vol. 32, No. 21. pp. 3324-3326.
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