An interactive analysis and exploration tool for epigenomic data

H. Younesy, C. B. Nielsen, T. Möller, O. Alder, R. Cullum, M. C. Lorincz, M. M. Karimi, S. J M Jones

Research output: Contribution to journalArticle

10 Citations (Scopus)

Abstract

In this design study, we present an analysis and abstraction of the data and tasks related to the domain of epigenomics, and the design and implementation of an interactive tool to facilitate data analysis and visualization in this domain. Epigenomic data can be grouped into subsets either by k-means clustering or by querying for combinations of presence or absence of signal (on/off) in different epigenomic experiments. These steps can easily be interleaved and the comparison of different workflows is explicitly supported. We took special care to contain the exponential expansion of possible on/off combinations by creating a novel querying interface. An interactive heat map facilitates the exploration and comparison of different clusters. We validated our iterative design by working closely with two groups of biologists on different biological problems. Both groups quickly found new insight into their data as well as claimed that our tool would save them several hours or days of work over using existing tools.

Original languageEnglish
Pages (from-to)91-100
Number of pages10
JournalComputer Graphics Forum
Volume32
Issue number3 PART1
DOIs
Publication statusPublished - Jun 2013
Externally publishedYes

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Data visualization
Experiments
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ASJC Scopus subject areas

  • Computer Networks and Communications

Cite this

Younesy, H., Nielsen, C. B., Möller, T., Alder, O., Cullum, R., Lorincz, M. C., ... Jones, S. J. M. (2013). An interactive analysis and exploration tool for epigenomic data. Computer Graphics Forum, 32(3 PART1), 91-100. https://doi.org/10.1111/cgf.12096

An interactive analysis and exploration tool for epigenomic data. / Younesy, H.; Nielsen, C. B.; Möller, T.; Alder, O.; Cullum, R.; Lorincz, M. C.; Karimi, M. M.; Jones, S. J M.

In: Computer Graphics Forum, Vol. 32, No. 3 PART1, 06.2013, p. 91-100.

Research output: Contribution to journalArticle

Younesy, H, Nielsen, CB, Möller, T, Alder, O, Cullum, R, Lorincz, MC, Karimi, MM & Jones, SJM 2013, 'An interactive analysis and exploration tool for epigenomic data', Computer Graphics Forum, vol. 32, no. 3 PART1, pp. 91-100. https://doi.org/10.1111/cgf.12096
Younesy H, Nielsen CB, Möller T, Alder O, Cullum R, Lorincz MC et al. An interactive analysis and exploration tool for epigenomic data. Computer Graphics Forum. 2013 Jun;32(3 PART1):91-100. https://doi.org/10.1111/cgf.12096
Younesy, H. ; Nielsen, C. B. ; Möller, T. ; Alder, O. ; Cullum, R. ; Lorincz, M. C. ; Karimi, M. M. ; Jones, S. J M. / An interactive analysis and exploration tool for epigenomic data. In: Computer Graphics Forum. 2013 ; Vol. 32, No. 3 PART1. pp. 91-100.
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