Table 1 Patient cohort for analysis.

From: Circulating tumor DNA sequencing provides comprehensive mutation profiling for pediatric central nervous system tumors

PID

Diagnosis

Gender

Age

Specimen

Source

Time death-autopsy

Volume (mL)

[DNA] (ng/µL)

Input (ng)

Exons 500X (%)

MEC

760

DIPG

M

9

C

PM

8 h 20 m

1

<LOQ

<LOQ

0.01

54

P

PM

2

3.1

50

96

2976

765

DIPG

F

3

C

PM

10 h 45 m

1

54

100

70

619

P

Live, DT

2

0.3

11.6

78

606

846

DIPG

F

7

C

PM

13 h

1

24.5

60

90

1572

P

Live, DT

2

0.2

8.6

8.4

653

889

DIPG

F

4

C

PM

49 h

1

14.5

100

97

4346

P

Live, DT

2

0.2

8

56

515

933

DIPG

F

13

C

Live, PT, IO

 

0.5

305

100

94

2298

P

Live, PT

2

0.2

7.8

73

559

1279

DIPG

F

NA

C

PM

24 h

1

0.1

4.2

0.03

164

S

PM

1.5

8.9

50

62

643

1291

DIPG

F

4

C

PM

96 h*

1

55

100

97

3849

P

Live, PT

1

0.2

6.6

62

273

1368

DIPG

F

7

C

PM

5 h

1

5

100

96

1868

P

PM

1

2.5

50

94

3674

1446

DIPG

F

6

C

PM

N/A

1

3.1

100

98

4155

S

PM

2

3.5

50

76

2172

1549

Thalamic DMG

M

9

C

Live

 

1

<LOQ

<LOQ

0

29

P

Live

1.5

0.9

36.5

70

609

Median

C

   

9.8

100

92

1720

P/S

 

0.6

24.1

74.5

626

  1. Ten children diagnosed with DMG (n = 9 DIPG, 1 thalamic DMG), were included in the study. This table lists patient demographic characteristics (gender, age at diagnosis [years]), and specimen details: biofluid type (C CSF, P plasma, S serum); collection source (PM postmortem, PT pre-treatment, DT during treatment, IO intra-operative); time elapsed from death to autopsy processing, for PM specimens (in hours[h] and minutes[m])*; volume for DNA isolation (‘Vol’, mL); DNA concentration [DNA] (ng/µL); DNA input (ng) used to generate sequencing libraries; and quality control metrics of the resulting libraries (Exons 500X, MEC). Bottom row lists the median DNA concentration, starting DNA input, Exons 500X, and MEC for all CSF (C) and plasma/serum (P/S) specimens.
  2. DMG diffuse midline glioma, DIPG diffuse intrinsic pontine glioma, <LOQ below the limit of quantification by Qubit High Sensitivity assay, Exons 500X percentage of exons with ≥500X coverage, MEC median exon coverage.
  3. *Approximated time from death to autopsy processing for PID 1291 (exact time N/A).
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