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epilogos
see how it works
how epilogos works
epilogos provides summarized views of large amounts of genome-wide datasets
marks-to-states
DNA is organized in the cell nucleus by way of a chromatin structure, which is shaped and maintained by many chromatin marks, such as histone tail modifications (e.g., H3K4me1), transcription factors (e.g., GATA1) and chromatin modifiers (e.g., EZH2).
The genome-wide occurrence of such chromatin marks can be captured using assays such as Chromatin Immunoprecipitation Sequencing (ChIP-Seq).
Chromatin states describe the combinatorial occurrence of multiple chromatin marks, using software such as ChromHMM and Segway, etc).
Chromatin states across 100s of biosamples can capture the dynamics of chromatin marks.
Although this provides clues to the function of genomic regions, it results in large datasets that remain hard to navigate.
states-capture-dynamics
states-to-epilogos
By modeling the information content, we transform multi-biosample chromatin state data into intuitive readouts called epilogos.
This process is analogous to how motif logos are derived from DNA or protein sequence alignments, and opens up new possibilities for studying chromatin mark dynamics in large genome-wide datasets.
tools
epilogos-search
The epilogos Search tool discovers chromatin state logos — epilogos — in your genomic intervals.
credits
Altius Institute for Biomedical Sciences
Wouter Meuleman (concept, project lead)
Alex Reynolds (website design and implementation)
Jacob Quon (software implementation)
Eric Rynes (software implementation)
Chad Lundberg (UI/UX design)
HiGlass team
Many thanks to Peter Kerpedjiev, Fritz Lekschas, Nezar Abdennur, Danielle Nguyen and the rest of the HiGlass team for their high-performance visualization toolkit, for multivec generation and visualization tools and extensions, and for their help with deployment and modification (citation).
citation
Meuleman et al.
Epilogos: information-theoretic navigation of multi-tissue functional genomic annotations.
Manuscript in preparation.
source code
Code is available from GitHub:
Wouter Meuleman, PhD
Investigator
P 206.267.1091
E meuleman(at)altius.org