Table 2 Mutational analysis of circulating tumor DNA and formalin-fixed paraffin-embedded tissue samples.

From: Incorporation of next-generation sequencing in clinical practice using solid and liquid biopsy for patients with non-Hodgkin’s lymphoma

UPN

Diagnosis

Gene

c.DNA

Protein

FPPE VAF

cfDNA VAF

Consenquence

4

FL

BCL2

c.140G > A

p.(Gly47Asp)

28

2

Missense

BCL2

c.175C > A

p.(Pro59Thr)

28.4

2.2

Missense

BCL2

c.151T > G

p.(Ser51Ala)

28.8

2.6

Missense

EZH2

c.1922A > T

p.(Tyr641Phe)

30.5

4

Missense

STAT6

c.1256A > G

p.(Asp419Gly)

5.3

Missense

CD58

c.254C > G

p.(Thr85Ser)

47.9

49.4

Missense

MEF2B

c.170A > G

p.(Tyr57Cys)

16.8

4

Missense

KMT2D

c.3931A > T

p.(Arg1311*)

42.2

7.6

Nonsense

KMT2D

c.13893 + 2T > A

p.(?)

22.4

4.5

Splice_donor_ + 2

TNFRSF14

c.139T > A

p.Tyr47Asn

1.1

Missense

9

DLBCL

CDKN2A

c.329G > A

p.(Trp110*)

6.9

Nonsense

KMT2D

c.14450T > G

p.(Val4817Gly)

51.3

50

Missense

11

FL

BCL2

c.392C > G

p.(Ala131Gly)

11.7

2.5

Missense

BCL2

c.517A > G

p.(Ile173Val)

9.4

1.6

Missense

CARD11

c.748T > C

p.(Ser250Pro)

14.5

Missense

CREBBP

c.4394A > G

p.(Tyr1465Cys)

32.1

4.5

Missense

CCND3

c.531_532delCTinsTG

p.(Ser178Ala)

99.7

97.3

Missense

KMT2D

c.6664C > T

p.(Gln2222*)

12.2

Nonsense

KMT2D

c.5335A > T

p.(Lys1779*)

14.5

Nonsense

CXCR4

c.1025C > G

p.(Ser342*)

1.5

Nonsense

KMT2A

c.6664C > T

p.(Gln2222*)

1

Nonsense

13

DLBCL

TP53

c.490A > T

p.(Lys164*)

31.8

Nonsense

B2M

c.2T > G

p.(Met1?)

52.4

No-start

PIM1

c.676G > A

p.(Glu226Lys)

35.5

Missense

PIM1

c.370C > T

p.(Pro124Ser)

62.1

Missense

PIM1

c.434G > A

p.(Arg145His)

6.7

Missense

PIM1

c.202C > T

p.(His68Tyr)

23.3

Missense

SOCS1

c.8C > T

p.(Ala3Val)

30.3

Missense

FOXO1

c.435del

p.(Ala146Argfs*187)

17.9

Frameshift

MEF2B

c.78C > G

p.(Phe26Leu)

52.5

Missense

MYD88

c.818T > C

p.(Leu273Pro)

33

2.1

Missense

14

FL

BCL2

c.191A > C

p.(Asp64Ala)

12

Missense

BCL2

c.93T > C

p.(Asp31Glu)

9

Missense

TNFAIP3

c.2014G > T

p.(Gly672*)

8.8

Nonsense

TNFRSF14

c.463delA

p.(Thr155Profs*)

13.3

Frameshift

KMT2D

c.172 + 2T > C

p.(?)

12.4

Splice_donor_ + 2

15

FL

CREBBP

c.4382T > C

p.(Leu1461Pro)

29.1

5.6

Missense

KMT2D

c.16489_16491delATC

p.(Ile5479del)

32.4

4

Inframe

KMT2D

c.9019delG

p.(Glu3007Lysfs*22)

26.1

4.5

Frameshift

18

DLBCL

NFKBIE

c.668_671delTGCTinsAGCG

p.(Leu223_Leu224delins*Arg)

20.6

9.8

Missense

SOCS1

c.7G > A

p.(Ala3Thr)

14

6.4

Missense

SOCS1

c.374G > C

p.(Ser125Thr)

19.1

7.7

Missense

SOCS1

c.407A > C

p.(His136Pro)

18

7.2

Missense

SOCS1

c.428G > A

p.(Ser143Asn)

13.5

7.2

Missense

SOCS1

c.398delG

p.(Gly133Alafs*72)

10.6

7.2

Frameshift

SOCS1

c.55C > T

p.(Pro19Ser)

14.6

8.3

Missense

SOCS1

c.412G > C

p.(Asp138His)

15.9

7

Missense

SOCS1

c.391C > G

p.(Gln131Glu)

16.4

7.3

Missense

SOCS1

c.391C > T

p.(Gln131*)

16.4

6.3

Nonsense

SOCS1

c.318C > G

p.(Ser106Arg)

8.7

6.2

Missense

SOCS1

c.528G > C

p.(Glu176Asp)

10.6

6.3

Missense

ARID1A

c.5012G > A

p.(Arg1671Gln)

18.4

8.3

Missense

MYC

c.482C > T

p.(Ser161Leu)

10.9

5.2

Missense

MYC

c.218_219delCCinsTA

p.(Thr73Ile)

11.2

3.6

Missense

MYC

c.1164C > G

p.(Ser388Arg)

18.7

3.5

Missense

MYC

c.557G > C

p.(Cys186Ser)

14.5

Missense

MYC

c.895G > C

p.(Ala299Pro)

18.6

3.8

Missense

MYC

c.910_999dup

p.(Lys304_Asp333dup)

40.6

Inframe

MYC

c.654C > G

p.(Ser218Arg)

15.1

3.5

Missense

MYC

c.785C > T

p.(Thr262Ile)

15.8

2.9

Missense

MYC

c.68_71delinsGCAG

p.(Phe23Cys)

9.7

2.4

Missense

MYC

c.63C > G

p.(Ser21Arg)

9.6

2.5

Missense

MYC

c.162G > C

p.(Glu54Asp)

9

3.1

Missense

MYC

c.144G > A

p.(Asp48Glu)

7.9

3.1

Missense

MYC

c.358_361delinsTTGT

p.(Asp120Leu)

11.8

Missense

REL

c.868A > G

p.(Lys290Glu)

5.7

Missense

MYC

c.361C > T

p.(Asp121Tyr)

2.7

Missense

19

FL

CARD11

c.1202A > T

p.(Asp401Val)

19.9

13.1

Missense

SOCS1

c.4G > T

p.(Val2Leu)

18.1

11.6

Missense

SOCS1

c.14A > G

p.(Asn5Ser)

20

46.6

Missense

SOCS1

c.134_139dupTCCCGG

p.(Val45_Pro46dup)

43.5

11.3

Inframe

TNFAIP3

c.1035C > A

p.(Tyr345*)

28.9

14.8

Nonsense

TNFRSF14

c.70G > T

p.(Val24Leu)

28.1

16.6

Missense

B2M

c.1A > G

p.(Met1?)

6.9

No-start

B2M

c.346 + 2T > A

p.(?)

1.5

Splice_donor_ + 2

B2M

c.35T > C

p.(Leu12Pro)

3.3

Missense

CREBBP

c.4406T > C

p.(Leu1469Pro)

1.9

Missense

KMT2D

c.10867C > T

p.(Gln3623*)

2.3

Nonsense

MYD88

c.719T > C

p.(Met240Thr)

4.7

Missense

21

DLBCL

B2M

c.176T > A

p.(Leu59*)

80.3

16.4

Nonsense

ATM

c.8284C > T

p.(Gln2762*)

54.3

16.5

Nonsense

NFKBIE

c.1147_1153delCAACCAC

p.(Gln383Serfs*46)

31.3

6.5

Frameshift

NFKBIE

c.759_762delTTAC

p.(Tyr254Serfs*13)

33.4

.6

Frameshift

PRDM1

c.75delG

p.(Arg25Serfs*13)

41.8

49.5

Frameshift

SOCS1

c.358_361delGCCTinsCC

p.(Ala120Profs*?)

39.7

7.6

Frameshift

SOCS1

c.434_437delACTG

p.(Asp145Alafs*59)

39.4

5.4

Frameshift

TNFAIP3

c.2350C > T

p.(Gln784*)

64

8.7

Nonsense

TNFAIP3

C.295 + 2T > C

p.(?)

67.5

6.1

Splice_donor_ + 2

CDKN2A

c.394G > A

p.(Ala132Thr)

32.4

1.1

Missense

CIITA

c.34_46delTACCTGTCAGAGC

p.(Tyr12Profs*15)

36.4

7

Frameshift

CIITA

c.1652delG

p.(Gly551Alafs*7)

35.9

Frameshift

CIITA

c.3262G > A

p.(Gly1880Arg)

5.3

Missense

FOXO1

c.61C > T

p.(Arg21Cys)

39.4

6.1

Missense

GNA13

c.179A > G

p.(Asp60Gly)

81.6

15.2

Missense

MYC

c.25A > G

p.(Asn9Asp)

43.3

Missense

CIITA

c.3317 + 2T > C

p.(?)

1.2

Splice_donor_ + 2

KMT2A

c.137T > G

p.(Val46Gly)

1.4

Missense

22

FL

BCL6

c.1752C > A

p.(Asn584Lys)

27.8

4.2

Missense

CCND3

c.613G > A

p.(Asp205Asn)

5.3

Missense

GNA13

c.243_244del

p.(Glu82Glyfs*19)

5

Frameshift

MYC

c.154_156del

p.(Lys51Del)

5.4

Inframe

23

DLBCL

TP53

c.839G > A

p.(Arg280Lys)

28.2

8.7

Missense

NFKBIE

c.759_762delTTAC

p.(Tyr254Serfs*13)

12.3

Frameshift

CCND3

c.626T > C

p.(Ile209Thr)

23.1

9.1

Missense

CCND3

c.604A > C

p.(Thr202Pro)

24.4

9.1

Missense

24

DLBCL

BCL2

c.17G > A

p.(Arg6Lys)

5.9

Missense

B2M

c.16G > C

p.(Ala6Pro)

49.4

42.2

Missense

TNFRSF14

c.49_50delinsCAG

p.(Lys17Glnfs*60)

8.9

Frameshift

CXCR4

c.1025C > A

p.(Ser342*)

5

Nonsense

MAL

c.59C > T

p.(Thr20Ile)

46.6

49.3

Missense

B2M

c.3G > C

p.(Met1?)

8.5

No-start

CREBBP

c.4829_4830del

p.(Pro1610Hisfs*11)

2.1

Frameshift

NRAS

c.38G > A

p.(Gly13Asp)

1

Missense

PAX5

c.979T > C

p.(Tyr327His)

2.1

Missense

PIM1

c.117G > T

p.(Gln39His)

5.4

Missense

26

DLBCL

TP53

c.725G > T

p.(Cys242Phe)

76.8

91.4

Missense

TCF3

c.1688G > A

p.(Arg563His)

17.1

28.1

Missense

28

DLBCL

CHD2

c.1281G > A

p.(Trp427*)

18.6

30.6

Nonsense

MAL

c.98T > G

p.(Phe33Cys)

6

Missense

MYC

c.1148A > G

p.(Asn383Ser)

22.9

Missense

MYC

c.490C > T

p.(Pro164Ser)

20.6

Missense

MYD88

c.818T > C

p.(Leu273Pro)

18.4

33.8

Missense

MYD88

c.797C > T

p.(Pro266Leu)

19.1

33.4

Missense

PIM1

c.550C > T

p.(Leu184Phe)

5.7

Missense

PRDM1

c.2182G > T

p.(Glu728*)

2.9

Nonsense

EP300

c.3754A > G

p.(Arg1252Gly)

1.4

Missense

31

DLBCL

BRAF

c.1780G > A

p.(Asp594Asn)

29.4

Missense

EZH2

c.1921T > A

p.(Tyr641Asn)

34.4

Missense

STAT6

c.1255G > T

p.(Asp419Tyr)

52.4

1.1

Missense

PIM1

c.409G > T

p.(Gly137*)

34

Nonsense

PIM1

c.285G > C

p.(Lys95Asn)

31.8

Missense

SOCS1

c.220C > G

p.(Leu74Val)

30.7

1.4

Missense

SOCS1

c.178T > C

p.(Ser60Pro)

28.6

1.4

Missense

KMT2D

c.14843C > G

p.(Ser4948*)

40.3

2

Nonsense

KMT2D

c.7586delG

p.(Gly2529Alafs*14)

22.7

Frameshift

32

DLBCL

NOTCH1

c.7541_7542delCT

p.(Pro2514Argfs*4)

34.7

1.3

Frameshift

ARID1A

c.4540_4543delACGGinsCCGT

p.(Thr1514_Gly1515delinsProCys)

10.1

Missense

MAL

c.98T > C

p.(Phe33Cys)

6

Missense

KMT2D

c.2886_2887delTGinsCA

p.(Ala963Thr)

11.5

Missense

MEF2B

c.928T > G

p.(Ser310Ala)

2

Missense

33

DLBCL

NFKBIE

c.98C > T

p.(Ser33Phe)

63

52.6

Missense

CCND3

c.544_554dupTCCAGCCCAGC

p.(Lys187Alafs*?)

63.7

1.5

Frameshift

CXCR4

c.1012C > T

p.(Arg338*)

45.1

Nonsense

EP300

c.6316delA

p.(Met2106Cysfs*28)

11.1

Frameshift

EP300

c.6329_6330insT

p.(Gln2110Hisfs*100)

9.9

Frameshift

MAL

c.98T > G

p.(Phe33Cys)

8.7

Missense

KMT2D

c.2886_2887delTGinsCA

p.(Ala963Thr)

13.6

Missense

MYC

c.77_78delACinsGT

p.(Asn26Ser)

67.4

1

Missense

MYC

c.63C > G

p.(Ser21Arg)

67.6

1.3

Missense

MYC

c.214C > A

p.(Pro72Thr)

68.3

Missense

MYC

c.175G > A

p.(Ala59Thr)

67.7

Missense

35

DLBCL

NRAS

c.38G > T

p.(Gly13Val)

6.1

Missense

EZH2

c.2060C > T

p.(Ala687Val)

35.4

12.5

Missense

REL

c.392A > G

p.(Asn131Ser)

57.9

4.6

Missense

ARID1A

c.2668A > G

p.(Met890Val)

31.8

49.4

Missense

ARID1A

c.4540_4543delinsCCGT

p.(Thr1514_Gly1515delinsProCys)

9.7

Missense

EP300

c.6329_6330insT

p.(Gln2110Hisfs*100)

22.2

Frameshift

EP300

c.6323A > T

p.(Gln2108Leu)

22.7

Missense

EP300

c.6316del

p.(Met2106Cysfs*28)

25.2

Frameshift

FOXO1

c.62G > T

p.(Arg21Leu)

28.8

2.2

Missense

FOXO1

c.118T > C

p.(Ser40Pro)

30.8

2.5

Missense

MAL

c.98T > G

p.(Phe33Cys)

13.5

Missense

MEF2B

c.32T > C

p.(Ile11Thr)

27.5

4.5

Missense

KMT2D

c.6221_6224dupACAA

p.(Val2076Glnfs*7)

23.9

Frameshift

KMT2D

c.12204_12207delACTC

p.(Ser4070Glyfs*25)

37.6

9.6

Frameshift

KMT2D

c.2876delA

p.(Tyr959Serfs*41)

10.2

Frameshift

KMT2D

c.2886_2887delTGinsCA

p.(Ala963Thr)

22.6

Missense

KMT2D

c.4279T > G

p.(Cys1427Gly)

2.6

Missense

37

DLBCL

BCL6

c.1760C > G

p.(Ala587Gly)

29.2

Missense

PLCG2

c.2009T > G

p.(Leu670Arg)

7.1

Missense

POT1

c.1315_1317del

p.(Ala439del)

6.4

Inframe

SOCS1

c.195_206delGCGCATCACGCG

p.(Arg66_Arg69del)

34.7

Inframe

ARID1A

c.4540_4543delACGGinsCCGT

p.(Thr1514_Gly1515delinsProCys)

16.6

Missense

EP300

c.6329_6330insT

p.(Gln2110Hisfs*100)

18.2

Frameshift

EP300

c.6316delA

p.(Met2106Cysfs*28)

18.7

Frameshift

EP300

c.6323A > T

p.(Gln2108Leu)

19.1

Missense

FOXO1

c.1478G > C

p.(Gly493Ala)

7.2

Missense

MAL

c.98T > G

p.(Phe33Cys)

19.3

Missense

KMT2D

c.13753_13757delinsTTGAC

p.(Val4585_Asn4586delinsLeuThr)

5.4

Missense

KMT2D

c.2886_2887delTGinsCA

p.(Ala963Thr)

37.6

Missense

38

DLBCL

B2M

c.2T > A

p.(Met1?)

31.9

No-start

NFKBIE

c.1108 + 2T > A

p.(?)

25.1

Splice_donor_ + 2

NFKBIE

c.759_762delTTAC

p.(Tyr254Serfs*13)

24.6

Frameshift

PRDM1

c.1142A > G

p.(Tyr381Cys)

49.5

48.3

Missense

TNFRSF14

c.632T > A

p.(Val211Asp)

32

Missense

CD58

c.70 + 2T > G

p.(?)

34.2

Splice_donor_ + 2

40

DLBCL

43

DLBCL

TNFAIP3

c.1939A > C

p.(Thr647Pro)

50.2

51.8

Missense

SOCS1

c.529C > G

p.(Leu177Val)

2.1

Missense

SOCS1

c.174C > G

p.(Phe58Leu)

2.3

Missense

SOCS1

c.598C > G

p.(Leu200Val)

1.8

Missense

SOCS1

c.614G > C

p.(Ser205Thr)

1.9

Missense

SOCS1

c.46_49delinsTCAA

p.(Ala16_Ala17delinsSerThr)

2.4

Missense

SOCS1

c.22G > C

p.(Ala8Pro)

2.2

Missense

SOCS1

c.4G > C

p.(Val2Leu)

2.2

Missense

MEF2B

c.928T > G

p.(Ser310Ala)

1.7

Missense

44

DLBCL

TP53

c.743G > A

p.(Arg248Gln)

12.6

28.7

Missense

TP53

c.919 + 1G > A

p.(?)

12.6

25.8

Splice_donor_ + 1

PRDM1

c.626_627del

p.(His209Leufs*25)

19.1

46

Frameshift

ARID1A

c.60_62del

p.(Pro21del)

9.4

Inframe

MYD88

c.719T > C

p.(Met240Thr)

35

70.9

Missense

45

DLBCL

TP53

c.404G > T

p.(Cys135Phe)

7.2

1

Missense

KRAS

c.38G > A

p.(Gly13Asp)

13.5

14.7

Missense

CARD11

c.383C > T

p.(Thr128Met)

18.2

17.5

Missense

PIM1

c.447G > T

p.(Trp149Cys)

15.9

14.7

Missense

PIM1

c.451G > C

p.(Val151Leu)

16.4

15.3

Missense

PIM1

c.242C > T

p.(Pro81Leu)

14.6

15.3

Missense

SOCS1

c.430C > T

p.(Phe144Leu)

14.4

13.9

Missense

SOCS1

c.534C > G

p.(Cys178Trp)

15.3

12.4

Missense

CCND3

c.541_544dup

p.(Ser182*)

12.1

18.1

Nonsense

EP300

c.865A > G

p.(Met289Val)

35.9

48.9

Missense

ID3

c.203A > G

p.(Glu68Gly)

16.3

11.3

Missense

ID3

c.243G > C

p.(Gln81His)

15.5

10.3

Missense

ID3

c.305C > T

p.(Ala102Val)

17.2

13.7

Missense

TP53

c.800G > T

p.(Arg267Leu)

2.3

Missense

MEF2B

c.928T > G

p.(Ser310Ala)

1.6

Missense

46

DLBCL

TP53

c.919 + 1G > T

p.(?)

22.7

Splice_donor_ + 1

TP53

c.455_456delinsT

p.(Pro152Leufs*18)

11

Frameshift

TP53

c.743G > A

p.(Arg248Gln)

8.3

Missense

PRDM1

c.695G > A

p.(Ser232Asn)

20.8

Missense

SOCS1

c.248_280del

p.(Pro83_Leu93del)

5.7

21.8

Inframe

SOCS1

c.120_122delinsACG

p.(Pro41Arg)

8.4

21.4

Missense

SOCS1

c.299C > T

p.(Thr100Ile)

7

20.7

Missense

SOCS1

c.140C > T

p.(Ala47Val)

9.3

20.6

Missense

SOCS1

c.347G > A

p.(Ser116Asn)

5.6

18.5

Missense

SOCS1

c.233G > A

p.(Gly78Glu)

7.9

25.2

Missense

CD58

c.66C > A

p.(Cys22*)

8.4

20.1

Nonsense

CIITA

c.3344G > A

p.(Ser1115Asn)

15.2

Missense

EP300

c.631G > A

p.(Gly211Ser)

6.4

49.2

Missense

TP53

c.845G > A

p.(Arg282Gln)

24

Missense

SOCS1

c.522_523delinsAT

p.(Gln175*)

16.3

Nonsense

SOCS1

c.435_*98del

p.(Asp145_*212del)

1.9

Frameshift

SOCS1

c.385_388delinsTATA

p.(His129Phe130insTyrIle)

8.3

Missense

SOCS1

c.466_469delinsACGC

p.(Ala156_Ala157delinsThrPro)

14.6

Missense

SOCS1

c.37G > C

p.(Val13Leu)

12.7

Missense

SOCS1

c.363_364delinsAC

p.(Gly122Arg)

16.2

Missense

SOCS1

c.528_531delinsCCTA

p.(Gly176Asp)

15.7

Missense

SOCS1

c.454G > A

p.(Glu152Lys)

13

Missense

SOCS1

c.574G > A

p.(Ala192Thr)

11.4

Missense

SOCS1

c.374G > A

p.(Ser125Asn)

11.5

Missense

SOCS1

c.484C > A

p.(Ser162Met)

15.5

Missense

SOCS1

c.46_49delinsACAC

p.(Ala16_Ala17delinsThrPro)

13.4

Missense

SOCS1

c.429C > G

p.(Ser143Arg)

9

Missense

SOCS1

c.614_617delinsATTA

p.(Ser205_206delinsAsnTyr)

6.5

Missense

SOCS1

c.541C > T

p.(Arg181Cys)

1.7

Missense

SOCS1

c.622C > T

p.(Pro208Ser)

5.8

Missense

47

DLBCL

PIM1

c.72G > C

p.(Lys24Asn)

11.1

Missense

PIM1

c.61C > T

p.(His21Tyr)

30.1

Missense

PIM1

c.4C > G

p.(Leu2Val)

30.1

Missense

CCND3

c.568dupC

p.(Arg190Profs*)

30.5

Frameshift

FOXO1

c.290C > G

p.(Ala97Gly)

6.2

Missense

KMT2D

c.14782C > A

p.(Pro4928Thr)

49.1

50.9

Missense

MYD88

c.818T > C

p.(Leu273Pro)

32.8

Missense