vignettes/tableOne.md
In VanAndelInstitute/bifurcatoR: Hunt for bumps in high-dimensional (or low-dimensional!) data
title: "Table One for COG merged MLL/NSD1 cohort slices"
author: "Timothy J. Triche, Jr. (on behalf of all authors)"
date: "2023-2-1"
output:
html_document:
fig_width: 8
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Covariates and outcomes for MLL and NSD1 fusion patients
Patient number 368 does not have an annotated sex or age in the COG CDEs.
Aggregate
Tabulate age group, sex, protocol, and outcome overall.
NA will be tabulated whenever present.
##
## Overall
## n 470
## AgeGroup (%)
## AYA 77 (16.4)
## Child 220 (46.8)
## Infant 172 (36.6)
## NA 1 ( 0.2)
## Sex (%)
## Female 211 (44.9)
## Male 258 (54.9)
## Unknown 1 ( 0.2)
## FAB (%)
## M0 10 ( 2.1)
## M1 27 ( 5.7)
## M2 33 ( 7.0)
## M4 129 (27.4)
## M5 112 (23.8)
## M6 2 ( 0.4)
## M7 10 ( 2.1)
## NA 147 (31.3)
## BlastPercent (mean (SD)) 61.31 (27.71)
## fusion (%)
## KMT2A-ABI1 2 ( 0.4)
## KMT2A-AFF1 4 ( 0.9)
## KMT2A-AFF3 1 ( 0.2)
## KMT2A-ARAP1 1 ( 0.2)
## KMT2A-ARHGAP26 1 ( 0.2)
## KMT2A-ARHGEF37 1 ( 0.2)
## KMT2A-C9orf72 1 ( 0.2)
## KMT2A-CCNJL 1 ( 0.2)
## KMT2A-DCP1A 1 ( 0.2)
## KMT2A-ELL 40 ( 8.5)
## KMT2A-EPS15 2 ( 0.4)
## KMT2A-FNBP1 2 ( 0.4)
## KMT2A-LASP1 4 ( 0.9)
## KMT2A-LYN 1 ( 0.2)
## KMT2A-MLLT1 19 ( 4.0)
## KMT2A-MLLT10 83 (17.7)
## KMT2A-MLLT11 7 ( 1.5)
## KMT2A-MLLT3 119 (25.3)
## KMT2A-MLLT3 2 ( 0.4)
## KMT2A-MLLT4 43 ( 9.1)
## KMT2A-MLLT6 2 ( 0.4)
## KMT2A-MYO1F 3 ( 0.6)
## KMT2A-MYOCD 1 ( 0.2)
## KMT2A-PALM2.AKAP2 1 ( 0.2)
## KMT2A-PICALM 1 ( 0.2)
## KMT2A-SARNP 1 ( 0.2)
## KMT2A-SEPT2 1 ( 0.2)
## KMT2A-SEPT6 12 ( 2.6)
## KMT2A-SEPT9 4 ( 0.9)
## KMT2A-USP2 1 ( 0.2)
## KMT2A-X 4 ( 0.9)
## MLLT10-KMT2A 1 ( 0.2)
## NUP98-KDM5A 0 ( 0.0)
## NUP98-NSD1 103 (21.9)
## FusionGroup = NSD1 (%) 103 (21.9)
## OS (mean (SD)) 1093.64 (851.56)
## OSI (mean (SD)) 0.51 (0.50)
## Protocol (%)
## AAML03P1 10 ( 2.1)
## AAML0531 134 (28.5)
## AAML1031 307 (65.3)
## CCG-2961 19 ( 4.0)
Per trial
Tabulate age group, sex, and outcome per trial
## Stratified by Protocol
## AAML03P1 AAML0531 AAML1031
## n 10 134 307
## AgeGroup (%)
## AYA 2 ( 20.0) 21 ( 15.7) 52 ( 16.9)
## Child 7 ( 70.0) 62 ( 46.3) 137 ( 44.6)
## Infant 1 ( 10.0) 51 ( 38.1) 117 ( 38.1)
## NA 0 ( 0.0) 0 ( 0.0) 1 ( 0.3)
## Sex (%)
## Female 5 ( 50.0) 65 ( 48.5) 138 ( 45.0)
## Male 5 ( 50.0) 69 ( 51.5) 168 ( 54.7)
## Unknown 0 ( 0.0) 0 ( 0.0) 1 ( 0.3)
## FAB (%)
## M0 0 ( 0.0) 3 ( 2.2) 7 ( 2.3)
## M1 1 ( 10.0) 9 ( 6.7) 15 ( 4.9)
## M2 2 ( 20.0) 9 ( 6.7) 14 ( 4.6)
## M4 6 ( 60.0) 90 ( 67.2) 24 ( 7.8)
## M5 0 ( 0.0) 0 ( 0.0) 112 ( 36.5)
## M6 0 ( 0.0) 2 ( 1.5) 0 ( 0.0)
## M7 0 ( 0.0) 3 ( 2.2) 7 ( 2.3)
## NA 1 ( 10.0) 18 ( 13.4) 128 ( 41.7)
## BlastPercent (mean (SD)) NaN (NA) NaN (NA) 61.31 (27.71)
## fusion (%)
## KMT2A-ABI1 0 ( 0.0) 1 ( 0.7) 1 ( 0.3)
## KMT2A-AFF1 0 ( 0.0) 3 ( 2.2) 1 ( 0.3)
## KMT2A-AFF3 0 ( 0.0) 0 ( 0.0) 1 ( 0.3)
## KMT2A-ARAP1 0 ( 0.0) 0 ( 0.0) 1 ( 0.3)
## KMT2A-ARHGAP26 0 ( 0.0) 1 ( 0.7) 0 ( 0.0)
## KMT2A-ARHGEF37 0 ( 0.0) 0 ( 0.0) 1 ( 0.3)
## KMT2A-C9orf72 0 ( 0.0) 0 ( 0.0) 1 ( 0.3)
## KMT2A-CCNJL 0 ( 0.0) 0 ( 0.0) 1 ( 0.3)
## KMT2A-DCP1A 0 ( 0.0) 0 ( 0.0) 1 ( 0.3)
## KMT2A-ELL 3 ( 30.0) 14 ( 10.4) 21 ( 6.8)
## KMT2A-EPS15 0 ( 0.0) 1 ( 0.7) 1 ( 0.3)
## KMT2A-FNBP1 0 ( 0.0) 1 ( 0.7) 1 ( 0.3)
## KMT2A-LASP1 0 ( 0.0) 1 ( 0.7) 3 ( 1.0)
## KMT2A-LYN 0 ( 0.0) 0 ( 0.0) 1 ( 0.3)
## KMT2A-MLLT1 0 ( 0.0) 4 ( 3.0) 14 ( 4.6)
## KMT2A-MLLT10 1 ( 10.0) 26 ( 19.4) 55 ( 17.9)
## KMT2A-MLLT11 0 ( 0.0) 1 ( 0.7) 6 ( 2.0)
## KMT2A-MLLT3 1 ( 10.0) 26 ( 19.4) 92 ( 30.0)
## KMT2A-MLLT3 0 ( 0.0) 2 ( 1.5) 0 ( 0.0)
## KMT2A-MLLT4 3 ( 30.0) 14 ( 10.4) 26 ( 8.5)
## KMT2A-MLLT6 0 ( 0.0) 1 ( 0.7) 1 ( 0.3)
## KMT2A-MYO1F 0 ( 0.0) 0 ( 0.0) 3 ( 1.0)
## KMT2A-MYOCD 0 ( 0.0) 0 ( 0.0) 1 ( 0.3)
## KMT2A-PALM2.AKAP2 0 ( 0.0) 0 ( 0.0) 1 ( 0.3)
## KMT2A-PICALM 0 ( 0.0) 0 ( 0.0) 1 ( 0.3)
## KMT2A-SARNP 0 ( 0.0) 1 ( 0.7) 0 ( 0.0)
## KMT2A-SEPT2 0 ( 0.0) 0 ( 0.0) 1 ( 0.3)
## KMT2A-SEPT6 0 ( 0.0) 4 ( 3.0) 8 ( 2.6)
## KMT2A-SEPT9 0 ( 0.0) 2 ( 1.5) 2 ( 0.7)
## KMT2A-USP2 0 ( 0.0) 0 ( 0.0) 1 ( 0.3)
## KMT2A-X 0 ( 0.0) 2 ( 1.5) 2 ( 0.7)
## MLLT10-KMT2A 0 ( 0.0) 1 ( 0.7) 0 ( 0.0)
## NUP98-KDM5A 0 ( 0.0) 0 ( 0.0) 0 ( 0.0)
## NUP98-NSD1 2 ( 20.0) 28 ( 20.9) 58 ( 18.9)
## FusionGroup = NSD1 (%) 2 ( 20.0) 28 ( 20.9) 58 ( 18.9)
## OS (mean (SD)) 1751.90 (1393.02) 1268.34 (1000.77) 1008.12 (717.31)
## OSI (mean (SD)) 0.50 (0.53) 0.52 (0.50) 0.49 (0.50)
## Protocol (%)
## AAML03P1 10 (100.0) 0 ( 0.0) 0 ( 0.0)
## AAML0531 0 ( 0.0) 134 (100.0) 0 ( 0.0)
## AAML1031 0 ( 0.0) 0 ( 0.0) 307 (100.0)
## CCG-2961 0 ( 0.0) 0 ( 0.0) 0 ( 0.0)
## Stratified by Protocol
## CCG-2961 p test
## n 19
## AgeGroup (%) 0.354
## AYA 2 ( 10.5)
## Child 14 ( 73.7)
## Infant 3 ( 15.8)
## NA 0 ( 0.0)
## Sex (%) 0.248
## Female 3 ( 15.8)
## Male 16 ( 84.2)
## Unknown 0 ( 0.0)
## FAB (%) <0.001
## M0 0 ( 0.0)
## M1 2 ( 10.5)
## M2 8 ( 42.1)
## M4 9 ( 47.4)
## M5 0 ( 0.0)
## M6 0 ( 0.0)
## M7 0 ( 0.0)
## NA 0 ( 0.0)
## BlastPercent (mean (SD)) NaN (NA) NA
## fusion (%) NaN
## KMT2A-ABI1 0 ( 0.0)
## KMT2A-AFF1 0 ( 0.0)
## KMT2A-AFF3 0 ( 0.0)
## KMT2A-ARAP1 0 ( 0.0)
## KMT2A-ARHGAP26 0 ( 0.0)
## KMT2A-ARHGEF37 0 ( 0.0)
## KMT2A-C9orf72 0 ( 0.0)
## KMT2A-CCNJL 0 ( 0.0)
## KMT2A-DCP1A 0 ( 0.0)
## KMT2A-ELL 2 ( 10.5)
## KMT2A-EPS15 0 ( 0.0)
## KMT2A-FNBP1 0 ( 0.0)
## KMT2A-LASP1 0 ( 0.0)
## KMT2A-LYN 0 ( 0.0)
## KMT2A-MLLT1 1 ( 5.3)
## KMT2A-MLLT10 1 ( 5.3)
## KMT2A-MLLT11 0 ( 0.0)
## KMT2A-MLLT3 0 ( 0.0)
## KMT2A-MLLT3 0 ( 0.0)
## KMT2A-MLLT4 0 ( 0.0)
## KMT2A-MLLT6 0 ( 0.0)
## KMT2A-MYO1F 0 ( 0.0)
## KMT2A-MYOCD 0 ( 0.0)
## KMT2A-PALM2.AKAP2 0 ( 0.0)
## KMT2A-PICALM 0 ( 0.0)
## KMT2A-SARNP 0 ( 0.0)
## KMT2A-SEPT2 0 ( 0.0)
## KMT2A-SEPT6 0 ( 0.0)
## KMT2A-SEPT9 0 ( 0.0)
## KMT2A-USP2 0 ( 0.0)
## KMT2A-X 0 ( 0.0)
## MLLT10-KMT2A 0 ( 0.0)
## NUP98-KDM5A 0 ( 0.0)
## NUP98-NSD1 15 ( 78.9)
## FusionGroup = NSD1 (%) 15 ( 78.9) <0.001
## OS (mean (SD)) 883.21 (1050.48) 0.001
## OSI (mean (SD)) 0.84 (0.37) 0.026
## Protocol (%) <0.001
## AAML03P1 0 ( 0.0)
## AAML0531 0 ( 0.0)
## AAML1031 0 ( 0.0)
## CCG-2961 19 (100.0)
By fusion
Tabulate age group, sex, protocol, and outcome by fusion group
## Stratified by FusionGroup
## MLL NSD1 p test
## n 367 103
## AgeGroup (%) <0.001
## AYA 56 (15.3) 21 ( 20.4)
## Child 144 (39.2) 76 ( 73.8)
## Infant 166 (45.2) 6 ( 5.8)
## NA 1 ( 0.3) 0 ( 0.0)
## Sex (%) 0.034
## Female 176 (48.0) 35 ( 34.0)
## Male 190 (51.8) 68 ( 66.0)
## Unknown 1 ( 0.3) 0 ( 0.0)
## FAB (%) <0.001
## M0 7 ( 1.9) 3 ( 2.9)
## M1 14 ( 3.8) 13 ( 12.6)
## M2 10 ( 2.7) 23 ( 22.3)
## M4 105 (28.6) 24 ( 23.3)
## M5 97 (26.4) 15 ( 14.6)
## M6 0 ( 0.0) 2 ( 1.9)
## M7 7 ( 1.9) 3 ( 2.9)
## NA 127 (34.6) 20 ( 19.4)
## BlastPercent (mean (SD)) 60.83 (28.74) 63.63 (22.31) 0.513
## fusion (%) NaN
## KMT2A-ABI1 2 ( 0.5) 0 ( 0.0)
## KMT2A-AFF1 4 ( 1.1) 0 ( 0.0)
## KMT2A-AFF3 1 ( 0.3) 0 ( 0.0)
## KMT2A-ARAP1 1 ( 0.3) 0 ( 0.0)
## KMT2A-ARHGAP26 1 ( 0.3) 0 ( 0.0)
## KMT2A-ARHGEF37 1 ( 0.3) 0 ( 0.0)
## KMT2A-C9orf72 1 ( 0.3) 0 ( 0.0)
## KMT2A-CCNJL 1 ( 0.3) 0 ( 0.0)
## KMT2A-DCP1A 1 ( 0.3) 0 ( 0.0)
## KMT2A-ELL 40 (10.9) 0 ( 0.0)
## KMT2A-EPS15 2 ( 0.5) 0 ( 0.0)
## KMT2A-FNBP1 2 ( 0.5) 0 ( 0.0)
## KMT2A-LASP1 4 ( 1.1) 0 ( 0.0)
## KMT2A-LYN 1 ( 0.3) 0 ( 0.0)
## KMT2A-MLLT1 19 ( 5.2) 0 ( 0.0)
## KMT2A-MLLT10 83 (22.6) 0 ( 0.0)
## KMT2A-MLLT11 7 ( 1.9) 0 ( 0.0)
## KMT2A-MLLT3 119 (32.4) 0 ( 0.0)
## KMT2A-MLLT3 2 ( 0.5) 0 ( 0.0)
## KMT2A-MLLT4 43 (11.7) 0 ( 0.0)
## KMT2A-MLLT6 2 ( 0.5) 0 ( 0.0)
## KMT2A-MYO1F 3 ( 0.8) 0 ( 0.0)
## KMT2A-MYOCD 1 ( 0.3) 0 ( 0.0)
## KMT2A-PALM2.AKAP2 1 ( 0.3) 0 ( 0.0)
## KMT2A-PICALM 1 ( 0.3) 0 ( 0.0)
## KMT2A-SARNP 1 ( 0.3) 0 ( 0.0)
## KMT2A-SEPT2 1 ( 0.3) 0 ( 0.0)
## KMT2A-SEPT6 12 ( 3.3) 0 ( 0.0)
## KMT2A-SEPT9 4 ( 1.1) 0 ( 0.0)
## KMT2A-USP2 1 ( 0.3) 0 ( 0.0)
## KMT2A-X 4 ( 1.1) 0 ( 0.0)
## MLLT10-KMT2A 1 ( 0.3) 0 ( 0.0)
## NUP98-KDM5A 0 ( 0.0) 0 ( 0.0)
## NUP98-NSD1 0 ( 0.0) 103 (100.0)
## FusionGroup = NSD1 (%) 0 ( 0.0) 103 (100.0) <0.001
## OS (mean (SD)) 1132.77 (852.67) 951.81 (836.42) 0.059
## OSI (mean (SD)) 0.49 (0.50) 0.59 (0.49) 0.061
## Protocol (%) <0.001
## AAML03P1 8 ( 2.2) 2 ( 1.9)
## AAML0531 106 (28.9) 28 ( 27.2)
## AAML1031 249 (67.8) 58 ( 56.3)
## CCG-2961 4 ( 1.1) 15 ( 14.6)
By fusion, by trial
Tabulate age group, sex, protocol, and outcome by fusion group and trial.
## Stratified by FusionGroup:Protocol
## MLL:AAML03P1 NSD1:AAML03P1 MLL:AAML0531
## n 8 2 106
## AgeGroup (%)
## AYA 2 ( 25.0) 0 ( 0.0) 16 ( 15.1)
## Child 5 ( 62.5) 2 (100.0) 40 ( 37.7)
## Infant 1 ( 12.5) 0 ( 0.0) 50 ( 47.2)
## NA 0 ( 0.0) 0 ( 0.0) 0 ( 0.0)
## Sex (%)
## Female 5 ( 62.5) 0 ( 0.0) 57 ( 53.8)
## Male 3 ( 37.5) 2 (100.0) 49 ( 46.2)
## Unknown 0 ( 0.0) 0 ( 0.0) 0 ( 0.0)
## FAB (%)
## M0 0 ( 0.0) 0 ( 0.0) 3 ( 2.8)
## M1 1 ( 12.5) 0 ( 0.0) 5 ( 4.7)
## M2 1 ( 12.5) 1 ( 50.0) 5 ( 4.7)
## M4 5 ( 62.5) 1 ( 50.0) 78 ( 73.6)
## M5 0 ( 0.0) 0 ( 0.0) 0 ( 0.0)
## M6 0 ( 0.0) 0 ( 0.0) 0 ( 0.0)
## M7 0 ( 0.0) 0 ( 0.0) 2 ( 1.9)
## NA 1 ( 12.5) 0 ( 0.0) 13 ( 12.3)
## BlastPercent (mean (SD)) NaN (NA) NaN (NA) NaN (NA)
## fusion (%)
## KMT2A-ABI1 0 ( 0.0) 0 ( 0.0) 1 ( 0.9)
## KMT2A-AFF1 0 ( 0.0) 0 ( 0.0) 3 ( 2.8)
## KMT2A-AFF3 0 ( 0.0) 0 ( 0.0) 0 ( 0.0)
## KMT2A-ARAP1 0 ( 0.0) 0 ( 0.0) 0 ( 0.0)
## KMT2A-ARHGAP26 0 ( 0.0) 0 ( 0.0) 1 ( 0.9)
## KMT2A-ARHGEF37 0 ( 0.0) 0 ( 0.0) 0 ( 0.0)
## KMT2A-C9orf72 0 ( 0.0) 0 ( 0.0) 0 ( 0.0)
## KMT2A-CCNJL 0 ( 0.0) 0 ( 0.0) 0 ( 0.0)
## KMT2A-DCP1A 0 ( 0.0) 0 ( 0.0) 0 ( 0.0)
## KMT2A-ELL 3 ( 37.5) 0 ( 0.0) 14 ( 13.2)
## KMT2A-EPS15 0 ( 0.0) 0 ( 0.0) 1 ( 0.9)
## KMT2A-FNBP1 0 ( 0.0) 0 ( 0.0) 1 ( 0.9)
## KMT2A-LASP1 0 ( 0.0) 0 ( 0.0) 1 ( 0.9)
## KMT2A-LYN 0 ( 0.0) 0 ( 0.0) 0 ( 0.0)
## KMT2A-MLLT1 0 ( 0.0) 0 ( 0.0) 4 ( 3.8)
## KMT2A-MLLT10 1 ( 12.5) 0 ( 0.0) 26 ( 24.5)
## KMT2A-MLLT11 0 ( 0.0) 0 ( 0.0) 1 ( 0.9)
## KMT2A-MLLT3 1 ( 12.5) 0 ( 0.0) 26 ( 24.5)
## KMT2A-MLLT3 0 ( 0.0) 0 ( 0.0) 2 ( 1.9)
## KMT2A-MLLT4 3 ( 37.5) 0 ( 0.0) 14 ( 13.2)
## KMT2A-MLLT6 0 ( 0.0) 0 ( 0.0) 1 ( 0.9)
## KMT2A-MYO1F 0 ( 0.0) 0 ( 0.0) 0 ( 0.0)
## KMT2A-MYOCD 0 ( 0.0) 0 ( 0.0) 0 ( 0.0)
## KMT2A-PALM2.AKAP2 0 ( 0.0) 0 ( 0.0) 0 ( 0.0)
## KMT2A-PICALM 0 ( 0.0) 0 ( 0.0) 0 ( 0.0)
## KMT2A-SARNP 0 ( 0.0) 0 ( 0.0) 1 ( 0.9)
## KMT2A-SEPT2 0 ( 0.0) 0 ( 0.0) 0 ( 0.0)
## KMT2A-SEPT6 0 ( 0.0) 0 ( 0.0) 4 ( 3.8)
## KMT2A-SEPT9 0 ( 0.0) 0 ( 0.0) 2 ( 1.9)
## KMT2A-USP2 0 ( 0.0) 0 ( 0.0) 0 ( 0.0)
## KMT2A-X 0 ( 0.0) 0 ( 0.0) 2 ( 1.9)
## MLLT10-KMT2A 0 ( 0.0) 0 ( 0.0) 1 ( 0.9)
## NUP98-KDM5A 0 ( 0.0) 0 ( 0.0) 0 ( 0.0)
## NUP98-NSD1 0 ( 0.0) 2 (100.0) 0 ( 0.0)
## FusionGroup = NSD1 (%) 0 ( 0.0) 2 (100.0) 0 ( 0.0)
## OS (mean (SD)) 1399.62 (1334.80) 3161.00 (169.71) 1325.12 (1017.87)
## OSI (mean (SD)) 0.62 (0.52) 0.00 (0.00) 0.51 (0.50)
## Protocol (%)
## AAML03P1 8 (100.0) 2 (100.0) 0 ( 0.0)
## AAML0531 0 ( 0.0) 0 ( 0.0) 106 (100.0)
## AAML1031 0 ( 0.0) 0 ( 0.0) 0 ( 0.0)
## CCG-2961 0 ( 0.0) 0 ( 0.0) 0 ( 0.0)
## Stratified by FusionGroup:Protocol
## NSD1:AAML0531 MLL:AAML1031 NSD1:AAML1031
## n 28 249 58
## AgeGroup (%)
## AYA 5 ( 17.9) 38 ( 15.3) 14 ( 24.1)
## Child 22 ( 78.6) 97 ( 39.0) 40 ( 69.0)
## Infant 1 ( 3.6) 113 ( 45.4) 4 ( 6.9)
## NA 0 ( 0.0) 1 ( 0.4) 0 ( 0.0)
## Sex (%)
## Female 8 ( 28.6) 111 ( 44.6) 27 ( 46.6)
## Male 20 ( 71.4) 137 ( 55.0) 31 ( 53.4)
## Unknown 0 ( 0.0) 1 ( 0.4) 0 ( 0.0)
## FAB (%)
## M0 0 ( 0.0) 4 ( 1.6) 3 ( 5.2)
## M1 4 ( 14.3) 8 ( 3.2) 7 ( 12.1)
## M2 4 ( 14.3) 4 ( 1.6) 10 ( 17.2)
## M4 12 ( 42.9) 18 ( 7.2) 6 ( 10.3)
## M5 0 ( 0.0) 97 ( 39.0) 15 ( 25.9)
## M6 2 ( 7.1) 0 ( 0.0) 0 ( 0.0)
## M7 1 ( 3.6) 5 ( 2.0) 2 ( 3.4)
## NA 5 ( 17.9) 113 ( 45.4) 15 ( 25.9)
## BlastPercent (mean (SD)) NaN (NA) 60.83 (28.74) 63.63 (22.31)
## fusion (%)
## KMT2A-ABI1 0 ( 0.0) 1 ( 0.4) 0 ( 0.0)
## KMT2A-AFF1 0 ( 0.0) 1 ( 0.4) 0 ( 0.0)
## KMT2A-AFF3 0 ( 0.0) 1 ( 0.4) 0 ( 0.0)
## KMT2A-ARAP1 0 ( 0.0) 1 ( 0.4) 0 ( 0.0)
## KMT2A-ARHGAP26 0 ( 0.0) 0 ( 0.0) 0 ( 0.0)
## KMT2A-ARHGEF37 0 ( 0.0) 1 ( 0.4) 0 ( 0.0)
## KMT2A-C9orf72 0 ( 0.0) 1 ( 0.4) 0 ( 0.0)
## KMT2A-CCNJL 0 ( 0.0) 1 ( 0.4) 0 ( 0.0)
## KMT2A-DCP1A 0 ( 0.0) 1 ( 0.4) 0 ( 0.0)
## KMT2A-ELL 0 ( 0.0) 21 ( 8.4) 0 ( 0.0)
## KMT2A-EPS15 0 ( 0.0) 1 ( 0.4) 0 ( 0.0)
## KMT2A-FNBP1 0 ( 0.0) 1 ( 0.4) 0 ( 0.0)
## KMT2A-LASP1 0 ( 0.0) 3 ( 1.2) 0 ( 0.0)
## KMT2A-LYN 0 ( 0.0) 1 ( 0.4) 0 ( 0.0)
## KMT2A-MLLT1 0 ( 0.0) 14 ( 5.6) 0 ( 0.0)
## KMT2A-MLLT10 0 ( 0.0) 55 ( 22.1) 0 ( 0.0)
## KMT2A-MLLT11 0 ( 0.0) 6 ( 2.4) 0 ( 0.0)
## KMT2A-MLLT3 0 ( 0.0) 92 ( 36.9) 0 ( 0.0)
## KMT2A-MLLT3 0 ( 0.0) 0 ( 0.0) 0 ( 0.0)
## KMT2A-MLLT4 0 ( 0.0) 26 ( 10.4) 0 ( 0.0)
## KMT2A-MLLT6 0 ( 0.0) 1 ( 0.4) 0 ( 0.0)
## KMT2A-MYO1F 0 ( 0.0) 3 ( 1.2) 0 ( 0.0)
## KMT2A-MYOCD 0 ( 0.0) 1 ( 0.4) 0 ( 0.0)
## KMT2A-PALM2.AKAP2 0 ( 0.0) 1 ( 0.4) 0 ( 0.0)
## KMT2A-PICALM 0 ( 0.0) 1 ( 0.4) 0 ( 0.0)
## KMT2A-SARNP 0 ( 0.0) 0 ( 0.0) 0 ( 0.0)
## KMT2A-SEPT2 0 ( 0.0) 1 ( 0.4) 0 ( 0.0)
## KMT2A-SEPT6 0 ( 0.0) 8 ( 3.2) 0 ( 0.0)
## KMT2A-SEPT9 0 ( 0.0) 2 ( 0.8) 0 ( 0.0)
## KMT2A-USP2 0 ( 0.0) 1 ( 0.4) 0 ( 0.0)
## KMT2A-X 0 ( 0.0) 2 ( 0.8) 0 ( 0.0)
## MLLT10-KMT2A 0 ( 0.0) 0 ( 0.0) 0 ( 0.0)
## NUP98-KDM5A 0 ( 0.0) 0 ( 0.0) 0 ( 0.0)
## NUP98-NSD1 28 (100.0) 0 ( 0.0) 58 (100.0)
## FusionGroup = NSD1 (%) 28 (100.0) 0 ( 0.0) 58 (100.0)
## OS (mean (SD)) 1053.39 (918.60) 1040.41 (732.52) 865.14 (631.97)
## OSI (mean (SD)) 0.57 (0.50) 0.47 (0.50) 0.55 (0.50)
## Protocol (%)
## AAML03P1 0 ( 0.0) 0 ( 0.0) 0 ( 0.0)
## AAML0531 28 (100.0) 0 ( 0.0) 0 ( 0.0)
## AAML1031 0 ( 0.0) 249 (100.0) 58 (100.0)
## CCG-2961 0 ( 0.0) 0 ( 0.0) 0 ( 0.0)
## Stratified by FusionGroup:Protocol
## MLL:CCG-2961 NSD1:CCG-2961 p test
## n 4 15
## AgeGroup (%) <0.001
## AYA 0 ( 0.0) 2 ( 13.3)
## Child 2 ( 50.0) 12 ( 80.0)
## Infant 2 ( 50.0) 1 ( 6.7)
## NA 0 ( 0.0) 0 ( 0.0)
## Sex (%) 0.050
## Female 3 ( 75.0) 0 ( 0.0)
## Male 1 ( 25.0) 15 (100.0)
## Unknown 0 ( 0.0) 0 ( 0.0)
## FAB (%) <0.001
## M0 0 ( 0.0) 0 ( 0.0)
## M1 0 ( 0.0) 2 ( 13.3)
## M2 0 ( 0.0) 8 ( 53.3)
## M4 4 (100.0) 5 ( 33.3)
## M5 0 ( 0.0) 0 ( 0.0)
## M6 0 ( 0.0) 0 ( 0.0)
## M7 0 ( 0.0) 0 ( 0.0)
## NA 0 ( 0.0) 0 ( 0.0)
## BlastPercent (mean (SD)) NaN (NA) NaN (NA) 0.513
## fusion (%) NaN
## KMT2A-ABI1 0 ( 0.0) 0 ( 0.0)
## KMT2A-AFF1 0 ( 0.0) 0 ( 0.0)
## KMT2A-AFF3 0 ( 0.0) 0 ( 0.0)
## KMT2A-ARAP1 0 ( 0.0) 0 ( 0.0)
## KMT2A-ARHGAP26 0 ( 0.0) 0 ( 0.0)
## KMT2A-ARHGEF37 0 ( 0.0) 0 ( 0.0)
## KMT2A-C9orf72 0 ( 0.0) 0 ( 0.0)
## KMT2A-CCNJL 0 ( 0.0) 0 ( 0.0)
## KMT2A-DCP1A 0 ( 0.0) 0 ( 0.0)
## KMT2A-ELL 2 ( 50.0) 0 ( 0.0)
## KMT2A-EPS15 0 ( 0.0) 0 ( 0.0)
## KMT2A-FNBP1 0 ( 0.0) 0 ( 0.0)
## KMT2A-LASP1 0 ( 0.0) 0 ( 0.0)
## KMT2A-LYN 0 ( 0.0) 0 ( 0.0)
## KMT2A-MLLT1 1 ( 25.0) 0 ( 0.0)
## KMT2A-MLLT10 1 ( 25.0) 0 ( 0.0)
## KMT2A-MLLT11 0 ( 0.0) 0 ( 0.0)
## KMT2A-MLLT3 0 ( 0.0) 0 ( 0.0)
## KMT2A-MLLT3 0 ( 0.0) 0 ( 0.0)
## KMT2A-MLLT4 0 ( 0.0) 0 ( 0.0)
## KMT2A-MLLT6 0 ( 0.0) 0 ( 0.0)
## KMT2A-MYO1F 0 ( 0.0) 0 ( 0.0)
## KMT2A-MYOCD 0 ( 0.0) 0 ( 0.0)
## KMT2A-PALM2.AKAP2 0 ( 0.0) 0 ( 0.0)
## KMT2A-PICALM 0 ( 0.0) 0 ( 0.0)
## KMT2A-SARNP 0 ( 0.0) 0 ( 0.0)
## KMT2A-SEPT2 0 ( 0.0) 0 ( 0.0)
## KMT2A-SEPT6 0 ( 0.0) 0 ( 0.0)
## KMT2A-SEPT9 0 ( 0.0) 0 ( 0.0)
## KMT2A-USP2 0 ( 0.0) 0 ( 0.0)
## KMT2A-X 0 ( 0.0) 0 ( 0.0)
## MLLT10-KMT2A 0 ( 0.0) 0 ( 0.0)
## NUP98-KDM5A 0 ( 0.0) 0 ( 0.0)
## NUP98-NSD1 0 ( 0.0) 15 (100.0)
## FusionGroup = NSD1 (%) 0 ( 0.0) 15 (100.0) <0.001
## OS (mean (SD)) 1228.25 (1282.76) 791.20 (1011.49) <0.001
## OSI (mean (SD)) 0.75 (0.50) 0.87 (0.35) 0.060
## Protocol (%) <0.001
## AAML03P1 0 ( 0.0) 0 ( 0.0)
## AAML0531 0 ( 0.0) 0 ( 0.0)
## AAML1031 0 ( 0.0) 0 ( 0.0)
## CCG-2961 4 (100.0) 15 (100.0)
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title: "Table One for COG merged MLL/NSD1 cohort slices" author: "Timothy J. Triche, Jr. (on behalf of all authors)" date: "2023-2-1" output: html_document: fig_width: 8 code_folding: hide highlight: tango toc: yes keep_md: true toc_float: collapsed: yes pdf_document: toc: yes toc_depth: 3
Covariates and outcomes for MLL and NSD1 fusion patients
Patient number 368 does not have an annotated sex or age in the COG CDEs.
Aggregate
Tabulate age group, sex, protocol, and outcome overall. NA will be tabulated whenever present.
##
## Overall
## n 470
## AgeGroup (%)
## AYA 77 (16.4)
## Child 220 (46.8)
## Infant 172 (36.6)
## NA 1 ( 0.2)
## Sex (%)
## Female 211 (44.9)
## Male 258 (54.9)
## Unknown 1 ( 0.2)
## FAB (%)
## M0 10 ( 2.1)
## M1 27 ( 5.7)
## M2 33 ( 7.0)
## M4 129 (27.4)
## M5 112 (23.8)
## M6 2 ( 0.4)
## M7 10 ( 2.1)
## NA 147 (31.3)
## BlastPercent (mean (SD)) 61.31 (27.71)
## fusion (%)
## KMT2A-ABI1 2 ( 0.4)
## KMT2A-AFF1 4 ( 0.9)
## KMT2A-AFF3 1 ( 0.2)
## KMT2A-ARAP1 1 ( 0.2)
## KMT2A-ARHGAP26 1 ( 0.2)
## KMT2A-ARHGEF37 1 ( 0.2)
## KMT2A-C9orf72 1 ( 0.2)
## KMT2A-CCNJL 1 ( 0.2)
## KMT2A-DCP1A 1 ( 0.2)
## KMT2A-ELL 40 ( 8.5)
## KMT2A-EPS15 2 ( 0.4)
## KMT2A-FNBP1 2 ( 0.4)
## KMT2A-LASP1 4 ( 0.9)
## KMT2A-LYN 1 ( 0.2)
## KMT2A-MLLT1 19 ( 4.0)
## KMT2A-MLLT10 83 (17.7)
## KMT2A-MLLT11 7 ( 1.5)
## KMT2A-MLLT3 119 (25.3)
## KMT2A-MLLT3 2 ( 0.4)
## KMT2A-MLLT4 43 ( 9.1)
## KMT2A-MLLT6 2 ( 0.4)
## KMT2A-MYO1F 3 ( 0.6)
## KMT2A-MYOCD 1 ( 0.2)
## KMT2A-PALM2.AKAP2 1 ( 0.2)
## KMT2A-PICALM 1 ( 0.2)
## KMT2A-SARNP 1 ( 0.2)
## KMT2A-SEPT2 1 ( 0.2)
## KMT2A-SEPT6 12 ( 2.6)
## KMT2A-SEPT9 4 ( 0.9)
## KMT2A-USP2 1 ( 0.2)
## KMT2A-X 4 ( 0.9)
## MLLT10-KMT2A 1 ( 0.2)
## NUP98-KDM5A 0 ( 0.0)
## NUP98-NSD1 103 (21.9)
## FusionGroup = NSD1 (%) 103 (21.9)
## OS (mean (SD)) 1093.64 (851.56)
## OSI (mean (SD)) 0.51 (0.50)
## Protocol (%)
## AAML03P1 10 ( 2.1)
## AAML0531 134 (28.5)
## AAML1031 307 (65.3)
## CCG-2961 19 ( 4.0)
Per trial
Tabulate age group, sex, and outcome per trial
## Stratified by Protocol
## AAML03P1 AAML0531 AAML1031
## n 10 134 307
## AgeGroup (%)
## AYA 2 ( 20.0) 21 ( 15.7) 52 ( 16.9)
## Child 7 ( 70.0) 62 ( 46.3) 137 ( 44.6)
## Infant 1 ( 10.0) 51 ( 38.1) 117 ( 38.1)
## NA 0 ( 0.0) 0 ( 0.0) 1 ( 0.3)
## Sex (%)
## Female 5 ( 50.0) 65 ( 48.5) 138 ( 45.0)
## Male 5 ( 50.0) 69 ( 51.5) 168 ( 54.7)
## Unknown 0 ( 0.0) 0 ( 0.0) 1 ( 0.3)
## FAB (%)
## M0 0 ( 0.0) 3 ( 2.2) 7 ( 2.3)
## M1 1 ( 10.0) 9 ( 6.7) 15 ( 4.9)
## M2 2 ( 20.0) 9 ( 6.7) 14 ( 4.6)
## M4 6 ( 60.0) 90 ( 67.2) 24 ( 7.8)
## M5 0 ( 0.0) 0 ( 0.0) 112 ( 36.5)
## M6 0 ( 0.0) 2 ( 1.5) 0 ( 0.0)
## M7 0 ( 0.0) 3 ( 2.2) 7 ( 2.3)
## NA 1 ( 10.0) 18 ( 13.4) 128 ( 41.7)
## BlastPercent (mean (SD)) NaN (NA) NaN (NA) 61.31 (27.71)
## fusion (%)
## KMT2A-ABI1 0 ( 0.0) 1 ( 0.7) 1 ( 0.3)
## KMT2A-AFF1 0 ( 0.0) 3 ( 2.2) 1 ( 0.3)
## KMT2A-AFF3 0 ( 0.0) 0 ( 0.0) 1 ( 0.3)
## KMT2A-ARAP1 0 ( 0.0) 0 ( 0.0) 1 ( 0.3)
## KMT2A-ARHGAP26 0 ( 0.0) 1 ( 0.7) 0 ( 0.0)
## KMT2A-ARHGEF37 0 ( 0.0) 0 ( 0.0) 1 ( 0.3)
## KMT2A-C9orf72 0 ( 0.0) 0 ( 0.0) 1 ( 0.3)
## KMT2A-CCNJL 0 ( 0.0) 0 ( 0.0) 1 ( 0.3)
## KMT2A-DCP1A 0 ( 0.0) 0 ( 0.0) 1 ( 0.3)
## KMT2A-ELL 3 ( 30.0) 14 ( 10.4) 21 ( 6.8)
## KMT2A-EPS15 0 ( 0.0) 1 ( 0.7) 1 ( 0.3)
## KMT2A-FNBP1 0 ( 0.0) 1 ( 0.7) 1 ( 0.3)
## KMT2A-LASP1 0 ( 0.0) 1 ( 0.7) 3 ( 1.0)
## KMT2A-LYN 0 ( 0.0) 0 ( 0.0) 1 ( 0.3)
## KMT2A-MLLT1 0 ( 0.0) 4 ( 3.0) 14 ( 4.6)
## KMT2A-MLLT10 1 ( 10.0) 26 ( 19.4) 55 ( 17.9)
## KMT2A-MLLT11 0 ( 0.0) 1 ( 0.7) 6 ( 2.0)
## KMT2A-MLLT3 1 ( 10.0) 26 ( 19.4) 92 ( 30.0)
## KMT2A-MLLT3 0 ( 0.0) 2 ( 1.5) 0 ( 0.0)
## KMT2A-MLLT4 3 ( 30.0) 14 ( 10.4) 26 ( 8.5)
## KMT2A-MLLT6 0 ( 0.0) 1 ( 0.7) 1 ( 0.3)
## KMT2A-MYO1F 0 ( 0.0) 0 ( 0.0) 3 ( 1.0)
## KMT2A-MYOCD 0 ( 0.0) 0 ( 0.0) 1 ( 0.3)
## KMT2A-PALM2.AKAP2 0 ( 0.0) 0 ( 0.0) 1 ( 0.3)
## KMT2A-PICALM 0 ( 0.0) 0 ( 0.0) 1 ( 0.3)
## KMT2A-SARNP 0 ( 0.0) 1 ( 0.7) 0 ( 0.0)
## KMT2A-SEPT2 0 ( 0.0) 0 ( 0.0) 1 ( 0.3)
## KMT2A-SEPT6 0 ( 0.0) 4 ( 3.0) 8 ( 2.6)
## KMT2A-SEPT9 0 ( 0.0) 2 ( 1.5) 2 ( 0.7)
## KMT2A-USP2 0 ( 0.0) 0 ( 0.0) 1 ( 0.3)
## KMT2A-X 0 ( 0.0) 2 ( 1.5) 2 ( 0.7)
## MLLT10-KMT2A 0 ( 0.0) 1 ( 0.7) 0 ( 0.0)
## NUP98-KDM5A 0 ( 0.0) 0 ( 0.0) 0 ( 0.0)
## NUP98-NSD1 2 ( 20.0) 28 ( 20.9) 58 ( 18.9)
## FusionGroup = NSD1 (%) 2 ( 20.0) 28 ( 20.9) 58 ( 18.9)
## OS (mean (SD)) 1751.90 (1393.02) 1268.34 (1000.77) 1008.12 (717.31)
## OSI (mean (SD)) 0.50 (0.53) 0.52 (0.50) 0.49 (0.50)
## Protocol (%)
## AAML03P1 10 (100.0) 0 ( 0.0) 0 ( 0.0)
## AAML0531 0 ( 0.0) 134 (100.0) 0 ( 0.0)
## AAML1031 0 ( 0.0) 0 ( 0.0) 307 (100.0)
## CCG-2961 0 ( 0.0) 0 ( 0.0) 0 ( 0.0)
## Stratified by Protocol
## CCG-2961 p test
## n 19
## AgeGroup (%) 0.354
## AYA 2 ( 10.5)
## Child 14 ( 73.7)
## Infant 3 ( 15.8)
## NA 0 ( 0.0)
## Sex (%) 0.248
## Female 3 ( 15.8)
## Male 16 ( 84.2)
## Unknown 0 ( 0.0)
## FAB (%) <0.001
## M0 0 ( 0.0)
## M1 2 ( 10.5)
## M2 8 ( 42.1)
## M4 9 ( 47.4)
## M5 0 ( 0.0)
## M6 0 ( 0.0)
## M7 0 ( 0.0)
## NA 0 ( 0.0)
## BlastPercent (mean (SD)) NaN (NA) NA
## fusion (%) NaN
## KMT2A-ABI1 0 ( 0.0)
## KMT2A-AFF1 0 ( 0.0)
## KMT2A-AFF3 0 ( 0.0)
## KMT2A-ARAP1 0 ( 0.0)
## KMT2A-ARHGAP26 0 ( 0.0)
## KMT2A-ARHGEF37 0 ( 0.0)
## KMT2A-C9orf72 0 ( 0.0)
## KMT2A-CCNJL 0 ( 0.0)
## KMT2A-DCP1A 0 ( 0.0)
## KMT2A-ELL 2 ( 10.5)
## KMT2A-EPS15 0 ( 0.0)
## KMT2A-FNBP1 0 ( 0.0)
## KMT2A-LASP1 0 ( 0.0)
## KMT2A-LYN 0 ( 0.0)
## KMT2A-MLLT1 1 ( 5.3)
## KMT2A-MLLT10 1 ( 5.3)
## KMT2A-MLLT11 0 ( 0.0)
## KMT2A-MLLT3 0 ( 0.0)
## KMT2A-MLLT3 0 ( 0.0)
## KMT2A-MLLT4 0 ( 0.0)
## KMT2A-MLLT6 0 ( 0.0)
## KMT2A-MYO1F 0 ( 0.0)
## KMT2A-MYOCD 0 ( 0.0)
## KMT2A-PALM2.AKAP2 0 ( 0.0)
## KMT2A-PICALM 0 ( 0.0)
## KMT2A-SARNP 0 ( 0.0)
## KMT2A-SEPT2 0 ( 0.0)
## KMT2A-SEPT6 0 ( 0.0)
## KMT2A-SEPT9 0 ( 0.0)
## KMT2A-USP2 0 ( 0.0)
## KMT2A-X 0 ( 0.0)
## MLLT10-KMT2A 0 ( 0.0)
## NUP98-KDM5A 0 ( 0.0)
## NUP98-NSD1 15 ( 78.9)
## FusionGroup = NSD1 (%) 15 ( 78.9) <0.001
## OS (mean (SD)) 883.21 (1050.48) 0.001
## OSI (mean (SD)) 0.84 (0.37) 0.026
## Protocol (%) <0.001
## AAML03P1 0 ( 0.0)
## AAML0531 0 ( 0.0)
## AAML1031 0 ( 0.0)
## CCG-2961 19 (100.0)
By fusion
Tabulate age group, sex, protocol, and outcome by fusion group
## Stratified by FusionGroup
## MLL NSD1 p test
## n 367 103
## AgeGroup (%) <0.001
## AYA 56 (15.3) 21 ( 20.4)
## Child 144 (39.2) 76 ( 73.8)
## Infant 166 (45.2) 6 ( 5.8)
## NA 1 ( 0.3) 0 ( 0.0)
## Sex (%) 0.034
## Female 176 (48.0) 35 ( 34.0)
## Male 190 (51.8) 68 ( 66.0)
## Unknown 1 ( 0.3) 0 ( 0.0)
## FAB (%) <0.001
## M0 7 ( 1.9) 3 ( 2.9)
## M1 14 ( 3.8) 13 ( 12.6)
## M2 10 ( 2.7) 23 ( 22.3)
## M4 105 (28.6) 24 ( 23.3)
## M5 97 (26.4) 15 ( 14.6)
## M6 0 ( 0.0) 2 ( 1.9)
## M7 7 ( 1.9) 3 ( 2.9)
## NA 127 (34.6) 20 ( 19.4)
## BlastPercent (mean (SD)) 60.83 (28.74) 63.63 (22.31) 0.513
## fusion (%) NaN
## KMT2A-ABI1 2 ( 0.5) 0 ( 0.0)
## KMT2A-AFF1 4 ( 1.1) 0 ( 0.0)
## KMT2A-AFF3 1 ( 0.3) 0 ( 0.0)
## KMT2A-ARAP1 1 ( 0.3) 0 ( 0.0)
## KMT2A-ARHGAP26 1 ( 0.3) 0 ( 0.0)
## KMT2A-ARHGEF37 1 ( 0.3) 0 ( 0.0)
## KMT2A-C9orf72 1 ( 0.3) 0 ( 0.0)
## KMT2A-CCNJL 1 ( 0.3) 0 ( 0.0)
## KMT2A-DCP1A 1 ( 0.3) 0 ( 0.0)
## KMT2A-ELL 40 (10.9) 0 ( 0.0)
## KMT2A-EPS15 2 ( 0.5) 0 ( 0.0)
## KMT2A-FNBP1 2 ( 0.5) 0 ( 0.0)
## KMT2A-LASP1 4 ( 1.1) 0 ( 0.0)
## KMT2A-LYN 1 ( 0.3) 0 ( 0.0)
## KMT2A-MLLT1 19 ( 5.2) 0 ( 0.0)
## KMT2A-MLLT10 83 (22.6) 0 ( 0.0)
## KMT2A-MLLT11 7 ( 1.9) 0 ( 0.0)
## KMT2A-MLLT3 119 (32.4) 0 ( 0.0)
## KMT2A-MLLT3 2 ( 0.5) 0 ( 0.0)
## KMT2A-MLLT4 43 (11.7) 0 ( 0.0)
## KMT2A-MLLT6 2 ( 0.5) 0 ( 0.0)
## KMT2A-MYO1F 3 ( 0.8) 0 ( 0.0)
## KMT2A-MYOCD 1 ( 0.3) 0 ( 0.0)
## KMT2A-PALM2.AKAP2 1 ( 0.3) 0 ( 0.0)
## KMT2A-PICALM 1 ( 0.3) 0 ( 0.0)
## KMT2A-SARNP 1 ( 0.3) 0 ( 0.0)
## KMT2A-SEPT2 1 ( 0.3) 0 ( 0.0)
## KMT2A-SEPT6 12 ( 3.3) 0 ( 0.0)
## KMT2A-SEPT9 4 ( 1.1) 0 ( 0.0)
## KMT2A-USP2 1 ( 0.3) 0 ( 0.0)
## KMT2A-X 4 ( 1.1) 0 ( 0.0)
## MLLT10-KMT2A 1 ( 0.3) 0 ( 0.0)
## NUP98-KDM5A 0 ( 0.0) 0 ( 0.0)
## NUP98-NSD1 0 ( 0.0) 103 (100.0)
## FusionGroup = NSD1 (%) 0 ( 0.0) 103 (100.0) <0.001
## OS (mean (SD)) 1132.77 (852.67) 951.81 (836.42) 0.059
## OSI (mean (SD)) 0.49 (0.50) 0.59 (0.49) 0.061
## Protocol (%) <0.001
## AAML03P1 8 ( 2.2) 2 ( 1.9)
## AAML0531 106 (28.9) 28 ( 27.2)
## AAML1031 249 (67.8) 58 ( 56.3)
## CCG-2961 4 ( 1.1) 15 ( 14.6)
By fusion, by trial
Tabulate age group, sex, protocol, and outcome by fusion group and trial.
## Stratified by FusionGroup:Protocol
## MLL:AAML03P1 NSD1:AAML03P1 MLL:AAML0531
## n 8 2 106
## AgeGroup (%)
## AYA 2 ( 25.0) 0 ( 0.0) 16 ( 15.1)
## Child 5 ( 62.5) 2 (100.0) 40 ( 37.7)
## Infant 1 ( 12.5) 0 ( 0.0) 50 ( 47.2)
## NA 0 ( 0.0) 0 ( 0.0) 0 ( 0.0)
## Sex (%)
## Female 5 ( 62.5) 0 ( 0.0) 57 ( 53.8)
## Male 3 ( 37.5) 2 (100.0) 49 ( 46.2)
## Unknown 0 ( 0.0) 0 ( 0.0) 0 ( 0.0)
## FAB (%)
## M0 0 ( 0.0) 0 ( 0.0) 3 ( 2.8)
## M1 1 ( 12.5) 0 ( 0.0) 5 ( 4.7)
## M2 1 ( 12.5) 1 ( 50.0) 5 ( 4.7)
## M4 5 ( 62.5) 1 ( 50.0) 78 ( 73.6)
## M5 0 ( 0.0) 0 ( 0.0) 0 ( 0.0)
## M6 0 ( 0.0) 0 ( 0.0) 0 ( 0.0)
## M7 0 ( 0.0) 0 ( 0.0) 2 ( 1.9)
## NA 1 ( 12.5) 0 ( 0.0) 13 ( 12.3)
## BlastPercent (mean (SD)) NaN (NA) NaN (NA) NaN (NA)
## fusion (%)
## KMT2A-ABI1 0 ( 0.0) 0 ( 0.0) 1 ( 0.9)
## KMT2A-AFF1 0 ( 0.0) 0 ( 0.0) 3 ( 2.8)
## KMT2A-AFF3 0 ( 0.0) 0 ( 0.0) 0 ( 0.0)
## KMT2A-ARAP1 0 ( 0.0) 0 ( 0.0) 0 ( 0.0)
## KMT2A-ARHGAP26 0 ( 0.0) 0 ( 0.0) 1 ( 0.9)
## KMT2A-ARHGEF37 0 ( 0.0) 0 ( 0.0) 0 ( 0.0)
## KMT2A-C9orf72 0 ( 0.0) 0 ( 0.0) 0 ( 0.0)
## KMT2A-CCNJL 0 ( 0.0) 0 ( 0.0) 0 ( 0.0)
## KMT2A-DCP1A 0 ( 0.0) 0 ( 0.0) 0 ( 0.0)
## KMT2A-ELL 3 ( 37.5) 0 ( 0.0) 14 ( 13.2)
## KMT2A-EPS15 0 ( 0.0) 0 ( 0.0) 1 ( 0.9)
## KMT2A-FNBP1 0 ( 0.0) 0 ( 0.0) 1 ( 0.9)
## KMT2A-LASP1 0 ( 0.0) 0 ( 0.0) 1 ( 0.9)
## KMT2A-LYN 0 ( 0.0) 0 ( 0.0) 0 ( 0.0)
## KMT2A-MLLT1 0 ( 0.0) 0 ( 0.0) 4 ( 3.8)
## KMT2A-MLLT10 1 ( 12.5) 0 ( 0.0) 26 ( 24.5)
## KMT2A-MLLT11 0 ( 0.0) 0 ( 0.0) 1 ( 0.9)
## KMT2A-MLLT3 1 ( 12.5) 0 ( 0.0) 26 ( 24.5)
## KMT2A-MLLT3 0 ( 0.0) 0 ( 0.0) 2 ( 1.9)
## KMT2A-MLLT4 3 ( 37.5) 0 ( 0.0) 14 ( 13.2)
## KMT2A-MLLT6 0 ( 0.0) 0 ( 0.0) 1 ( 0.9)
## KMT2A-MYO1F 0 ( 0.0) 0 ( 0.0) 0 ( 0.0)
## KMT2A-MYOCD 0 ( 0.0) 0 ( 0.0) 0 ( 0.0)
## KMT2A-PALM2.AKAP2 0 ( 0.0) 0 ( 0.0) 0 ( 0.0)
## KMT2A-PICALM 0 ( 0.0) 0 ( 0.0) 0 ( 0.0)
## KMT2A-SARNP 0 ( 0.0) 0 ( 0.0) 1 ( 0.9)
## KMT2A-SEPT2 0 ( 0.0) 0 ( 0.0) 0 ( 0.0)
## KMT2A-SEPT6 0 ( 0.0) 0 ( 0.0) 4 ( 3.8)
## KMT2A-SEPT9 0 ( 0.0) 0 ( 0.0) 2 ( 1.9)
## KMT2A-USP2 0 ( 0.0) 0 ( 0.0) 0 ( 0.0)
## KMT2A-X 0 ( 0.0) 0 ( 0.0) 2 ( 1.9)
## MLLT10-KMT2A 0 ( 0.0) 0 ( 0.0) 1 ( 0.9)
## NUP98-KDM5A 0 ( 0.0) 0 ( 0.0) 0 ( 0.0)
## NUP98-NSD1 0 ( 0.0) 2 (100.0) 0 ( 0.0)
## FusionGroup = NSD1 (%) 0 ( 0.0) 2 (100.0) 0 ( 0.0)
## OS (mean (SD)) 1399.62 (1334.80) 3161.00 (169.71) 1325.12 (1017.87)
## OSI (mean (SD)) 0.62 (0.52) 0.00 (0.00) 0.51 (0.50)
## Protocol (%)
## AAML03P1 8 (100.0) 2 (100.0) 0 ( 0.0)
## AAML0531 0 ( 0.0) 0 ( 0.0) 106 (100.0)
## AAML1031 0 ( 0.0) 0 ( 0.0) 0 ( 0.0)
## CCG-2961 0 ( 0.0) 0 ( 0.0) 0 ( 0.0)
## Stratified by FusionGroup:Protocol
## NSD1:AAML0531 MLL:AAML1031 NSD1:AAML1031
## n 28 249 58
## AgeGroup (%)
## AYA 5 ( 17.9) 38 ( 15.3) 14 ( 24.1)
## Child 22 ( 78.6) 97 ( 39.0) 40 ( 69.0)
## Infant 1 ( 3.6) 113 ( 45.4) 4 ( 6.9)
## NA 0 ( 0.0) 1 ( 0.4) 0 ( 0.0)
## Sex (%)
## Female 8 ( 28.6) 111 ( 44.6) 27 ( 46.6)
## Male 20 ( 71.4) 137 ( 55.0) 31 ( 53.4)
## Unknown 0 ( 0.0) 1 ( 0.4) 0 ( 0.0)
## FAB (%)
## M0 0 ( 0.0) 4 ( 1.6) 3 ( 5.2)
## M1 4 ( 14.3) 8 ( 3.2) 7 ( 12.1)
## M2 4 ( 14.3) 4 ( 1.6) 10 ( 17.2)
## M4 12 ( 42.9) 18 ( 7.2) 6 ( 10.3)
## M5 0 ( 0.0) 97 ( 39.0) 15 ( 25.9)
## M6 2 ( 7.1) 0 ( 0.0) 0 ( 0.0)
## M7 1 ( 3.6) 5 ( 2.0) 2 ( 3.4)
## NA 5 ( 17.9) 113 ( 45.4) 15 ( 25.9)
## BlastPercent (mean (SD)) NaN (NA) 60.83 (28.74) 63.63 (22.31)
## fusion (%)
## KMT2A-ABI1 0 ( 0.0) 1 ( 0.4) 0 ( 0.0)
## KMT2A-AFF1 0 ( 0.0) 1 ( 0.4) 0 ( 0.0)
## KMT2A-AFF3 0 ( 0.0) 1 ( 0.4) 0 ( 0.0)
## KMT2A-ARAP1 0 ( 0.0) 1 ( 0.4) 0 ( 0.0)
## KMT2A-ARHGAP26 0 ( 0.0) 0 ( 0.0) 0 ( 0.0)
## KMT2A-ARHGEF37 0 ( 0.0) 1 ( 0.4) 0 ( 0.0)
## KMT2A-C9orf72 0 ( 0.0) 1 ( 0.4) 0 ( 0.0)
## KMT2A-CCNJL 0 ( 0.0) 1 ( 0.4) 0 ( 0.0)
## KMT2A-DCP1A 0 ( 0.0) 1 ( 0.4) 0 ( 0.0)
## KMT2A-ELL 0 ( 0.0) 21 ( 8.4) 0 ( 0.0)
## KMT2A-EPS15 0 ( 0.0) 1 ( 0.4) 0 ( 0.0)
## KMT2A-FNBP1 0 ( 0.0) 1 ( 0.4) 0 ( 0.0)
## KMT2A-LASP1 0 ( 0.0) 3 ( 1.2) 0 ( 0.0)
## KMT2A-LYN 0 ( 0.0) 1 ( 0.4) 0 ( 0.0)
## KMT2A-MLLT1 0 ( 0.0) 14 ( 5.6) 0 ( 0.0)
## KMT2A-MLLT10 0 ( 0.0) 55 ( 22.1) 0 ( 0.0)
## KMT2A-MLLT11 0 ( 0.0) 6 ( 2.4) 0 ( 0.0)
## KMT2A-MLLT3 0 ( 0.0) 92 ( 36.9) 0 ( 0.0)
## KMT2A-MLLT3 0 ( 0.0) 0 ( 0.0) 0 ( 0.0)
## KMT2A-MLLT4 0 ( 0.0) 26 ( 10.4) 0 ( 0.0)
## KMT2A-MLLT6 0 ( 0.0) 1 ( 0.4) 0 ( 0.0)
## KMT2A-MYO1F 0 ( 0.0) 3 ( 1.2) 0 ( 0.0)
## KMT2A-MYOCD 0 ( 0.0) 1 ( 0.4) 0 ( 0.0)
## KMT2A-PALM2.AKAP2 0 ( 0.0) 1 ( 0.4) 0 ( 0.0)
## KMT2A-PICALM 0 ( 0.0) 1 ( 0.4) 0 ( 0.0)
## KMT2A-SARNP 0 ( 0.0) 0 ( 0.0) 0 ( 0.0)
## KMT2A-SEPT2 0 ( 0.0) 1 ( 0.4) 0 ( 0.0)
## KMT2A-SEPT6 0 ( 0.0) 8 ( 3.2) 0 ( 0.0)
## KMT2A-SEPT9 0 ( 0.0) 2 ( 0.8) 0 ( 0.0)
## KMT2A-USP2 0 ( 0.0) 1 ( 0.4) 0 ( 0.0)
## KMT2A-X 0 ( 0.0) 2 ( 0.8) 0 ( 0.0)
## MLLT10-KMT2A 0 ( 0.0) 0 ( 0.0) 0 ( 0.0)
## NUP98-KDM5A 0 ( 0.0) 0 ( 0.0) 0 ( 0.0)
## NUP98-NSD1 28 (100.0) 0 ( 0.0) 58 (100.0)
## FusionGroup = NSD1 (%) 28 (100.0) 0 ( 0.0) 58 (100.0)
## OS (mean (SD)) 1053.39 (918.60) 1040.41 (732.52) 865.14 (631.97)
## OSI (mean (SD)) 0.57 (0.50) 0.47 (0.50) 0.55 (0.50)
## Protocol (%)
## AAML03P1 0 ( 0.0) 0 ( 0.0) 0 ( 0.0)
## AAML0531 28 (100.0) 0 ( 0.0) 0 ( 0.0)
## AAML1031 0 ( 0.0) 249 (100.0) 58 (100.0)
## CCG-2961 0 ( 0.0) 0 ( 0.0) 0 ( 0.0)
## Stratified by FusionGroup:Protocol
## MLL:CCG-2961 NSD1:CCG-2961 p test
## n 4 15
## AgeGroup (%) <0.001
## AYA 0 ( 0.0) 2 ( 13.3)
## Child 2 ( 50.0) 12 ( 80.0)
## Infant 2 ( 50.0) 1 ( 6.7)
## NA 0 ( 0.0) 0 ( 0.0)
## Sex (%) 0.050
## Female 3 ( 75.0) 0 ( 0.0)
## Male 1 ( 25.0) 15 (100.0)
## Unknown 0 ( 0.0) 0 ( 0.0)
## FAB (%) <0.001
## M0 0 ( 0.0) 0 ( 0.0)
## M1 0 ( 0.0) 2 ( 13.3)
## M2 0 ( 0.0) 8 ( 53.3)
## M4 4 (100.0) 5 ( 33.3)
## M5 0 ( 0.0) 0 ( 0.0)
## M6 0 ( 0.0) 0 ( 0.0)
## M7 0 ( 0.0) 0 ( 0.0)
## NA 0 ( 0.0) 0 ( 0.0)
## BlastPercent (mean (SD)) NaN (NA) NaN (NA) 0.513
## fusion (%) NaN
## KMT2A-ABI1 0 ( 0.0) 0 ( 0.0)
## KMT2A-AFF1 0 ( 0.0) 0 ( 0.0)
## KMT2A-AFF3 0 ( 0.0) 0 ( 0.0)
## KMT2A-ARAP1 0 ( 0.0) 0 ( 0.0)
## KMT2A-ARHGAP26 0 ( 0.0) 0 ( 0.0)
## KMT2A-ARHGEF37 0 ( 0.0) 0 ( 0.0)
## KMT2A-C9orf72 0 ( 0.0) 0 ( 0.0)
## KMT2A-CCNJL 0 ( 0.0) 0 ( 0.0)
## KMT2A-DCP1A 0 ( 0.0) 0 ( 0.0)
## KMT2A-ELL 2 ( 50.0) 0 ( 0.0)
## KMT2A-EPS15 0 ( 0.0) 0 ( 0.0)
## KMT2A-FNBP1 0 ( 0.0) 0 ( 0.0)
## KMT2A-LASP1 0 ( 0.0) 0 ( 0.0)
## KMT2A-LYN 0 ( 0.0) 0 ( 0.0)
## KMT2A-MLLT1 1 ( 25.0) 0 ( 0.0)
## KMT2A-MLLT10 1 ( 25.0) 0 ( 0.0)
## KMT2A-MLLT11 0 ( 0.0) 0 ( 0.0)
## KMT2A-MLLT3 0 ( 0.0) 0 ( 0.0)
## KMT2A-MLLT3 0 ( 0.0) 0 ( 0.0)
## KMT2A-MLLT4 0 ( 0.0) 0 ( 0.0)
## KMT2A-MLLT6 0 ( 0.0) 0 ( 0.0)
## KMT2A-MYO1F 0 ( 0.0) 0 ( 0.0)
## KMT2A-MYOCD 0 ( 0.0) 0 ( 0.0)
## KMT2A-PALM2.AKAP2 0 ( 0.0) 0 ( 0.0)
## KMT2A-PICALM 0 ( 0.0) 0 ( 0.0)
## KMT2A-SARNP 0 ( 0.0) 0 ( 0.0)
## KMT2A-SEPT2 0 ( 0.0) 0 ( 0.0)
## KMT2A-SEPT6 0 ( 0.0) 0 ( 0.0)
## KMT2A-SEPT9 0 ( 0.0) 0 ( 0.0)
## KMT2A-USP2 0 ( 0.0) 0 ( 0.0)
## KMT2A-X 0 ( 0.0) 0 ( 0.0)
## MLLT10-KMT2A 0 ( 0.0) 0 ( 0.0)
## NUP98-KDM5A 0 ( 0.0) 0 ( 0.0)
## NUP98-NSD1 0 ( 0.0) 15 (100.0)
## FusionGroup = NSD1 (%) 0 ( 0.0) 15 (100.0) <0.001
## OS (mean (SD)) 1228.25 (1282.76) 791.20 (1011.49) <0.001
## OSI (mean (SD)) 0.75 (0.50) 0.87 (0.35) 0.060
## Protocol (%) <0.001
## AAML03P1 0 ( 0.0) 0 ( 0.0)
## AAML0531 0 ( 0.0) 0 ( 0.0)
## AAML1031 0 ( 0.0) 0 ( 0.0)
## CCG-2961 4 (100.0) 15 (100.0)
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