Reddy et al. (2017)

Summary of novel genes

Entity Total Tier 1 Tier 2 Tier 2 Pass Tier 2 Fail Fail rate
DLBCL 60 8 52 23 29 44%
--- config: sankey: showValues: true linkColor: target width: 600 height: 300 nodeAlignment: right prefix: '(' suffix: ' genes)' --- sankey-beta New to this study, DLBCL Tier 1, 8 New to this study, DLBCL Tier 2, 52 DLBCL Tier 2, Pass QC, 23 DLBCL Tier 2, Fail QC, 29

Novel genes reported in this study

Tier 1

Novel gene DLBCL tier Average variant quality
ATM 1 ★ ★ ★ ☆ ☆
BIRC6 1 ★ ★ ★ ☆ ☆
HIST1H2BC 1 ★ ★ ★ ★ ☆
HNRNPU 1 ★ ★ ★ ☆ ☆
SETD1B 1 ★ ★ ☆ ☆ ☆
TOX 1 ★ ★ ★ ☆ ☆
UBE2A 1 ★ ★ ★ ☆ ☆
CASP8 1 ★ ★ ★ ☆ ☆

Tier 2

Novel gene DLBCL tier Average variant quality QC outcome
ARID5B 2 ★ ★ ★ ★ ☆ Pass
BTBD3 2 ★ ★ ★ ★ ☆ Pass
SETD5 2 ★ ★ ★ ☆ ☆ Pass
ATR 2 ★ ★ ★ ☆ ☆ Pass
BRINP3 2 ★ ★ ★ ☆ ☆ Pass
TGFBR2 2 ★ ★ ★ ☆ ☆ Pass
TIPARP 2 ★ ★ ★ ☆ ☆ Pass
CD22 2 ★ ★ ★ ☆ ☆ Pass
NF1 2 ★ ★ ★ ☆ ☆ Pass
IKBKB 2 ★ ★ ★ ☆ ☆ Pass
JUNB 2 ★ ★ ★ ☆ ☆ Pass
KCMF1 2 ★ ★ ★ ☆ ☆ Pass
MAGT1 2 ★ ★ ★ ☆ ☆ Pass
MECOM 2 ★ ★ ★ ☆ ☆ Pass
PTPN6 2 ★ ★ ★ ☆ ☆ Pass
MET 2 ★ ★ ★ ☆ ☆ Pass
ZFX 2 ★ ★ ★ ☆ ☆ Pass
YY1 2 ★ ★ ★ ☆ ☆ Pass
FOXP1 2 ★ ★ ★ ☆ ☆ Pass
FUBP1 2 ★ ★ ★ ☆ ☆ Pass
GOLGA5 2 ★ ★ ★ ☆ ☆ Pass
MSH6 2 ★ ★ ★ ☆ ☆ Pass
MCL1 2 ★ ★ ★ ☆ ☆ Pass
ANKRD17 2 ★ ★ ★ ☆ ☆ Fail
CDC73 2 ★ ★ ☆ ☆ ☆ Fail
CHD1 2 ★ ★ ☆ ☆ ☆ Fail
CHD8 2 ★ ★ ☆ ☆ ☆ Fail
CHST2 2 ★ ★ ☆ ☆ ☆ Fail
DCAF6 2 ★ ★ ☆ ☆ ☆ Fail
DDX10 2 ★ ★ ☆ ☆ ☆ Fail
DICER1 2 ★ ★ ☆ ☆ ☆ Fail
HRAS 2 ★ ★ ☆ ☆ ☆ Fail
LIN54 2 ★ ★ ☆ ☆ ☆ Fail
MAP4K4 2 ★ ★ ☆ ☆ ☆ Fail
MSH2 2 ★ ★ ☆ ☆ ☆ Fail
GNAS 2 ★ ★ ☆ ☆ ☆ Fail
MYB 2 ★ ★ ☆ ☆ ☆ Fail
NCOR1 2 ★ ★ ☆ ☆ ☆ Fail
NFKB2 2 ★ ★ ☆ ☆ ☆ Fail
PHF6 2 ★ ★ ☆ ☆ ☆ Fail
PIK3CD 2 ★ ★ ☆ ☆ ☆ Fail
PTPRK 2 ★ ★ ☆ ☆ ☆ Fail
ZFAT 2 ★ ★ ☆ ☆ ☆ Fail
ARID1B 2 ★ ★ ☆ ☆ ☆ Fail
RUNX1 2 ★ ★ ☆ ☆ ☆ Fail
CBLB 2 ★ ★ ☆ ☆ ☆ Fail
SYK 2 ★ ★ ☆ ☆ ☆ Fail
WAC 2 ★ ★ ☆ ☆ ☆ Fail
ZBTB7A 2 ★ ☆ ☆ ☆ ☆ Fail
RARA 2 ★ ☆ ☆ ☆ ☆ Fail
DNMT3A 2 ★ ☆ ☆ ☆ ☆ Fail
MARK1 2 ★ ☆ ☆ ☆ ☆ Fail

See Also

The primary data supporting each of the mutations reported in this study can be viewed in IGV reports along with mutations unique to the GAMBL re-analysis.(Dreval et al. 2023)

References

Dreval, Kostiantyn, Manuela Cruz, Christopher Rushton, Nina Liuta, Houman Layegh Mirhosseini, Callum Brown, Ryan D. Morin, and the GAMBL Consortium. 2023. “Revisiting Reddy: A DLBCL Do-over.” November 22, 2023. https://doi.org/10.1101/2023.11.21.567983.
Reddy, Anupama, Jenny Zhang, Nicholas S Davis, Andrea B Moffitt, Cassandra L Love, Alexander Waldrop, Sirpa Leppa, et al. 2017. “Genetic and Functional Drivers of Diffuse Large B Cell Lymphoma.” Cell 171 (2): 481–494.e15.

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