Atac-seq data normalization and method for utilizing same
AssigneeSeoul National University R&Db Foundation
InventorsHang Rae KIM, Hyun Mu SHIN, Gwanghun KIM
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Abstract
The present invention relates to ATAC-seq data normalization for utilizing epigenetic information associated with chromatin openness, and a method for utilizing same. According to the present invention, it is possible to readily normalize and quantitatively compare ATAC-seq in various samples and various cohorts, and selected differential peaks can be used in various epigenetic studies, the diagnosis of diseases, and prediction of the prognoses of diseases.
Claims20
A method for selecting normalization control peak for normalization of ATAC-seq (Assay for Transposase-Accessible Chromatin using sequencing), the method comprising steps of:
- a) aligning and peak calling cell-derived ATAC-seq data;
- b) selecting overlapped peaks between cell samples among the peaks called in step a);
- c) selecting a peak coincident with DNase I hypersensitivity consensus peak among the peaks selected in step b);
- and
- d) selecting a peak having a coefficient of variation (CV) of less than 0.3 and peak width of less than 500 bp among the peaks selected in step c).
A biomarker composition for predicting the responsiveness of anti-PD-1 therapy, the composition comprising one or more predictive peaks selected from the group consisting of SEQ ID NO:
- 233 to SEQ ID NO:
- 299.
Dependencies are inferred from the claim text.