Grail, Inc.

Alexander P Fields

Joerg Bredno

Onur Sakarya

Arash Jamshidi

Samuel S Gross

Oliver Claude Venn

M Cyrus Maher

Srinka Ghosh

Seyedmehdi Shojaee

Hamed Amini

Gordon M Cann

Qinwen Liu

Rongsu Qi

Jan Schellenberger

John F Beausang

The present description provides a cancer assay panel for targeted detection of cancer-specific methylation patterns. Further provided herein includes methods of designing, making, and using the cancer assay panel for diagnosis of cancer.

Methylation markers and targeted methylation probe panel

A method and system for determining one or more sources of a cell free deoxyribonucleic acid (cfDNA) test sample from a test subject. The cfDNA test sample contains a plurality of deoxyribonucleic acid (DNA) molecules with numerous CpG sites that may be methylated or unmethylated. A trained deconvolution model comprises a plurality of methylation parameters, including a methylation level at each CpG site for each source, and a function relating a sample vector as input and a source of origin prediction as output. The method generates a test sample vector comprising a site methylation metric relating to DNA molecules from the test sample that are methylated at that CpG site. The method inputs the test sample vector into the trained deconvolution model to generate a source of origin prediction indicating a predicted DNA molecule contribution of each source.

Source of origin deconvolution based on methylation fragments in cell-free DNA samples

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Menlo Park, CA, United States of America

Alexander P Fields