CPC C12Q 1/6886 (2013.01) [C12Q 1/6869 (2013.01); C12Q 2600/154 (2013.01); G16B 5/00 (2019.02); G16B 20/00 (2019.02); G16B 25/20 (2019.02); G16B 30/10 (2019.02); G16B 40/00 (2019.02); G16B 40/20 (2019.02)] | 19 Claims |
1. A mixture for processing cell-free DNA fragments, the mixture comprising (a) converted cell-free DNA (cfDNA) molecules or amplification products thereof; and (b) a panel of different oligonucleotide probes configured to hybridize to converted cell-free DNA fragments derived from at least 500 target genomic regions;
wherein the converted cfDNA molecules comprise deaminated nucleotides obtained by treating cfDNA molecules with a deaminating agent;
wherein each target genomic region of the at least 500 target genomic regions has an anomalous methylation pattern in cancerous samples; and
wherein each of the at least 500 target genomic regions comprises a sequence with complementarity to at least a pair of probes in the panel, wherein each probe of a pair has a first portion and a second portion, wherein the first portions of a probe pair are complementary to the same sequence of at least 25 nucleotides in length, and wherein the second portions of a probe pair are complementary to different sequences at different ends of the sequence complementary to the respective first portions.
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