Introduction

Biologists possess the detailed knowledge critical for extracting biological insight from genome-wide data resources, and yet they are increasingly faced with nontrivial computational analysis challenges posed by genome-scale methodologies. To lower this computational barrier, particularly in the early data exploration phases, we have developed an interactive pattern discovery and visualization approach, Spark, designed with epigenomic data in mind. Here we demonstrate Spark's ability to reveal both known and novel epigenetic signatures, including a previously unappreciated binding association between the YY1 transcription factor and the corepressor CTBP2 in human embryonic stem cells.

Publications

  1. Spark: a navigational paradigm for genomic data exploration.
    Cite this
    Nielsen CB, Younesy H, O'Geen H, Xu X, Jackson AR, Milosavljevic A, Wang T, Costello JF, Hirst M, Farnham PJ, Jones SJ, 2012-11-01 - Genome research

Credits

  1. Cydney B Nielsen
    Developer

    Canada's Michael Smith Genome Sciences Centre, BC Cancer Agency, Canada

  2. Hamid Younesy
    Developer

  3. Henriette O'Geen
    Developer

  4. Xiaoqin Xu
    Developer

  5. Andrew R Jackson
    Developer

  6. Aleksandar Milosavljevic
    Developer

  7. Ting Wang
    Developer

  8. Joseph F Costello
    Developer

  9. Martin Hirst
    Developer

  10. Peggy J Farnham
    Developer

  11. Steven J M Jones
    Investigator

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Summary
AccessionBT000323
Tool TypeApplication
Category
PlatformsLinux/Unix
Technologies
User InterfaceTerminal Command Line
Download Count0
Submitted BySteven J M Jones