Table 2.

Distributions of (pre‐)analytical factors among TSVs with agreement and outliers identified by (A) NGS and (B) ddPCR. Results are presented as median (range) unless indicated otherwise. When ≤ 2 outliers are present, only a range is given. Multiplication factor: cfDNA concentration (ng·mL⁻¹)/Sequencing input (ng), TSV, tumor‐specific variant; NP, not present, no lower limit outliers were present in ddPCR.

A
Variable	Agreement	Lower limit outlier	Upper limit outlier
Number of TSVs
Cohort 1	N = 296	N = 8	N = 8
Cohort 2	N = 467	N = 10	N = 21
Cohort 3	N = 29	N = 2	N = 1
Number of samples
Cohort 1	N = 91	N = 5	N = 2
Cohort 2	N = 261	N = 8	N = 11
Cohort 3	N = 15	N = 1	N = 1
Molecular coverage
Cohort 1	3145 (436–9444)	424 (62–889)	8512 (3029–9641)
Cohort 2	2090 (169–22 905)	203 (68–257)	9202 (3224–22 919)
Cohort 3	1336 (584–3268)	269–338	2842
cfDNA concentration (ng·mL−1)
Cohort 1	54 (5–568)	19 (14–31)	218 (218–568)
Cohort 2	14 (3–452)	4 (3–34)	192 (17–353)
Cohort 3	20 (9–45)	8–8	58
Multiplication factor
Cohort 1	2.73 (0.33–28.41)	0.93 (.060–1.47)	9.0 (9.0–28.41)
Cohort 2	0.64 (0.64–4.17)	0.64 (0.64–0.69)	4.17 (0.64–4.17)
Cohort 3	2.02 (0.86–4.50)	0.83–0.83	5.85
Sequencing input (ng)
Cohort 1	20 (11–24)	21 (20–23)	24 (20–24)
Cohort 2	20 (4–64)	6 (4–50)	47 (6–50)
Cohort 3	10 (10–10)	10–10	10

B
Variable	Agreement	Lower limit outlier	Upper limit outlier
Number of TSVs
Cohort 1	N = 72	N = 0	N = 2
Cohort 2	N = 186	N = 0	N = 11
Number of samples
Cohort 1	N = 72	N = 0	N = 2
Cohort 2	N = 124	N = 0	N = 6
Molecular coverage
Cohort 1	1835 (67–8477)	NP	2260–3525
Cohort 2	465 (43–6627)	NP	1044 (129–8648)
cfDNA concentration (ng·mL−1)
Cohort 1	59 (11–670)	NP	92–210
Cohort 2	13 (3–268)	NP	118 (9–192)
Multiplication factor
Cohort 1	5.21 (2.64–30.06)	NP	4.94 – 11.31
Cohort 2	4.17 (4.17–4.17)	NP	4.17 (4.17–6.25)
Sequencing input (ng)
Cohort 1	12 (1–54)	NP	14–32
Cohort 2	3 (1–64)	NP	28 (2–46)