A method of determining the presence of cancer in an individual comprising: a. processing an extracted genomic DNA with a deaminating agent to generate a treated genomic DNA comprising deaminated nucleotides, wherein the extracted genomic DNA is obtained from a biological sample from the individual; b. generating a methylation profile comprising one or more biomarkers selected from cg25922751, cg25432518, cg23130731, cg13911392, cg11334870, cg11252953, cg10542975, cg08098128, cg02874908, cg26769927, cg26769700, cg25574765, cg25490145, cg18384097, cg17126555, cg14247287, cg07420137, cg05098343, cg01903374, cg00907272, cg27125093, cg26112797, cg24166457, cg19300307, cg17122157, cg13555415, cg11436362, cg10673833, cg09866569, cg08075204, cg05614346, cg02053964, cg27377213, cg24480810, cg24301930, cg22513455, cg19693177, cg19675731, cg18856478, cg15797834, cg15698795, cg15341833, cg14556909, cg14083015, cg14058476, cg12192582, cg06787669, cg06439655, cg02522196, cg02233149, cg00558804, cg26680502, cg23013029, cg22552736, cg21376733, cg20847580, cg19704755, cg18842353, cg16622899, cg14999168, cg13925432, cg12967050, cg11105292, cg09419005, cg09153080, cg07380416, cg06825448, cg03891050, cg01681367, cg01456691, cg00015530, cg27410601, cg27366280, cg25666403, cg24706505, cg24107852, cg23824762, cg23021796, cg21122474, cg20336172, cg18610205, cg18456621, cg17518965, cg16748008, cg16191087, cg16061668, cg14642045, cg13924996, cg12353452, cg09335715, cg08858130, cg08480068, cg08052292, cg07428959, cg06153925, cg04147906, cg03431741, cg00282244, and cg00025044 from the treated genomic DNA; and c. comparing the methylation profile to a reference CpG methylation profile obtained from a cancer CpG methylation profile database, wherein the methylation profile is a methylation index, and the methylation index is the proportion of sequence reads showing methylation at a biomarker site divided by the total number of reads covering the site, and wherein a correlation between the methylation profile and the reference CpG methylation profile determines the presence of cancer in the individual. a. processing an extracted genomic DNA with a deaminating agent to generate a treated genomic DNA comprising deaminated nucleotides, wherein the extracted genomic DNA is obtained from a biological sample from the individual; b. generating a methylation profile comprising one or more biomarkers selected from cg25922751, cg25432518, cg23130731, cg13911392, cg11334870, cg11252953, cg10542975, cg08098128, cg02874908, cg26769927, cg26769700, cg25574765, cg25490145, cg18384097, cg17126555, cg14247287, cg07420137, cg05098343, cg01903374, cg00907272, cg27125093, cg26112797, cg24166457, cg19300307, cg17122157, cg13555415, cg11436362, cg10673833, cg09866569, cg08075204, cg05614346, cg02053964, cg27377213, cg24480810, cg24301930, cg22513455, cg19693177, cg19675731, cg18856478, cg15797834, cg15698795, cg15341833, cg14556909, cg14083015, cg14058476, cg12192582, cg06787669, cg06439655, cg02522196, cg02233149, cg00558804, cg26680502, cg23013029, cg22552736, cg21376733, cg20847580, cg19704755, cg18842353, cg16622899, cg14999168, cg13925432, cg12967050, cg11105292, cg09419005, cg09153080, cg07380416, cg06825448, cg03891050, cg01681367, cg01456691, cg00015530, cg27410601, cg27366280, cg25666403, cg24706505, cg24107852, cg23824762, cg23021796, cg21122474, cg20336172, cg18610205, cg18456621, cg17518965, cg16748008, cg16191087, cg16061668, cg14642045, cg13924996, cg12353452, cg09335715, cg08858130, cg08480068, cg08052292, cg07428959, cg06153925, cg04147906, cg03431741, cg00282244, and cg00025044 from the treated genomic DNA; and c. comparing the methylation profile to a reference CpG methylation profile obtained from a cancer CpG methylation profile database, wherein the methylation profile is a methylation index, and the methylation index is the proportion of sequence reads showing methylation at a biomarker site divided by the total number of reads covering the site, and wherein a correlation between the methylation profile and the reference CpG methylation profile determines the presence of cancer in the individual.