BL_genes.md
... ...
@@ -10,32 +10,32 @@
10 10
|:------------------:|:-------:|:--------------------------------------------------------------------------------:|
11 11
| [ARID1A](ARID1A) | 1 | Krysiak et al. 2017; Love et al. 2012; Zhang et al. 2013 |
12 12
| [BMP7](BMP7) | 1 | Panea et al. 2019 |
13
-| [CCND3](CCND3) | 1 | Richter et al. 2012; Morin et al. 2011 |
13
+| [CCND3](CCND3) | 1 | Morin et al. 2011; Richter et al. 2012 |
14 14
| [CHD8](CHD8) | 1 | Reddy et al. 2017; Grande et al. 2019 |
15 15
| [DDX3X](DDX3X) | 1 | Schmitz et al. 2012, 2018 |
16 16
| [EIF4A1](EIF4A1) | 1 | Panea et al. 2019 |
17 17
| [EPPK1](EPPK1) | 1 | Panea et al. 2019 |
18
-| [FBXO11](FBXO11) | 1 | Hübschmann et al. 2021; Richter et al. 2012 |
18
+| [FBXO11](FBXO11) | 1 | Richter et al. 2012; Hübschmann et al. 2021 |
19 19
| [FOXO1](FOXO1) | 1 | Schmitz et al. 2012; Morin et al. 2011 |
20 20
| [GNA13](GNA13) | 1 | Morin et al. 2011; Love et al. 2012 |
21
-| [GNAI2](GNAI2) | 1 | Morin et al. 2013; Grande et al. 2019 |
21
+| [GNAI2](GNAI2) | 1 | Grande et al. 2019; Morin et al. 2013 |
22 22
| [HNRNPU](HNRNPU) | 1, aSHM | Panea et al. 2019; Reddy et al. 2017 |
23 23
| [ID3](ID3) | 1 | Schmitz et al. 2012; Richter et al. 2012 |
24
-| [KMT2D](KMT2D) | 1 | Morin et al. 2011; Beà et al. 2013; Grande et al. 2019 |
24
+| [KMT2D](KMT2D) | 1 | Grande et al. 2019; Beà et al. 2013; Morin et al. 2011 |
25 25
| [MYC](MYC) | 1, aSHM | Johnston and Carroll 1992; L. Pasqualucci et al. 2001 |
26 26
| [P2RY8](P2RY8) | 1 | Lohr et al. 2012; Muppidi et al. 2014 |
27
-| [PHF6](PHF6) | 1 | Reddy et al. 2017; Thomas et al. 2023 |
27
+| [PHF6](PHF6) | 1 | Thomas et al. 2023; Reddy et al. 2017 |
28 28
| [PTEN](PTEN) | 1 | Love et al. 2012 |
29 29
| [RFX7](RFX7) | 1 | Grande et al. 2019 |
30 30
| [RHOA](RHOA) | 1 | Richter et al. 2012 |
31 31
| [SIN3A](SIN3A) | 1 | Grande et al. 2019 |
32
-| [SMARCA4](SMARCA4) | 1 | Zhang et al. 2013; Krysiak et al. 2017; Richter et al. 2012; Nadeu et al. 2020 |
32
+| [SMARCA4](SMARCA4) | 1 | Zhang et al. 2013; Nadeu et al. 2020; Krysiak et al. 2017; Richter et al. 2012 |
33 33
| [TCF3](TCF3) | 1 | Schmitz et al. 2012 |
34 34
| [TCL1A](TCL1A) | 1 | Grande et al. 2019 |
35 35
| [TFAP4](TFAP4) | 1 | Grande et al. 2019 |
36
-| [TP53](TP53) | 1 | Morin et al. 2011; Wilda et al. 2004; Beà et al. 2013 |
36
+| [TP53](TP53) | 1 | Beà et al. 2013; Morin et al. 2011; Wilda et al. 2004 |
37 37
| [USP7](USP7) | 1 | Grande et al. 2019 |
38
-| [WNK1](WNK1) | 1 | Thomas et al. 2023; Hübschmann et al. 2021 |
38
+| [WNK1](WNK1) | 1 | Hübschmann et al. 2021; Thomas et al. 2023 |
39 39
40 40
## Tier 2 BL genes
41 41
... ...
@@ -52,33 +52,33 @@
52 52
| [ARHGEF1](ARHGEF1) | 2 | Muppidi et al. 2014 |
53 53
| [ATP2C2](ATP2C2) | 2 | Love et al. 2012 |
54 54
| [BACH2](BACH2) | 2, aSHM | Grande et al. 2019 |
55
-| [BCL2](BCL2) | 2, aSHM | Morin et al. 2011; Tanaka et al. 1992; Burkhardt et al. 2022 |
56
-| [BCL6](BCL6) | 2, aSHM | Morin et al. 2011; Love et al. 2012 |
55
+| [BCL2](BCL2) | 2, aSHM | Tanaka et al. 1992; Morin et al. 2011; Burkhardt et al. 2022 |
56
+| [BCL6](BCL6) | 2, aSHM | Love et al. 2012; Morin et al. 2011 |
57 57
| [BCL7A](BCL7A) | 2, aSHM | Grande et al. 2019; Krysiak et al. 2017; Arthur et al. 2018 |
58
-| [BRAF](BRAF) | 2 | Love et al. 2012; Tiacci et al. 2011 |
58
+| [BRAF](BRAF) | 2 | Tiacci et al. 2011; Love et al. 2012 |
59 59
| [BRD4](BRD4) | 2 | Love et al. 2012 |
60 60
| [BTG1](BTG1) | 2, aSHM | Burkhardt et al. 2022; Morin et al. 2011 |
61 61
| [BTG2](BTG2) | 2, aSHM | Love et al. 2012; Morin et al. 2011 |
62 62
| [C16orf48](C16orf48) | 2 | Schmitz et al. 2012 |
63 63
| [C6orf27](C6orf27) | 2 | Love et al. 2012 |
64 64
| [CAD](CAD) | 2 | Love et al. 2012 |
65
-| [CARD11](CARD11) | 2 | Morin et al. 2011; Panea et al. 2019; Wu et al. 2016; Lenz et al. 2008 |
65
+| [CARD11](CARD11) | 2 | Wu et al. 2016; Morin et al. 2011; Lenz et al. 2008; Panea et al. 2019 |
66 66
| [CARD4](CARD4) | 2 | Love et al. 2012 |
67 67
| [CCNF](CCNF) | 2 | Abate et al. 2015 |
68 68
| [CCT6B](CCT6B) | 2 | Love et al. 2012 |
69 69
| [CD79A](CD79A) | 2 | Burkhardt et al. 2022 |
70
-| [CD79B](CD79B) | 2 | Panea et al. 2019; Morin et al. 2011 |
71
-| [CD83](CD83) | 2, aSHM | Panea et al. 2019; Morin et al. 2013; Russler-Germain et al. 2023 |
70
+| [CD79B](CD79B) | 2 | Morin et al. 2011; Panea et al. 2019 |
71
+| [CD83](CD83) | 2, aSHM | Russler-Germain et al. 2023; Panea et al. 2019; Morin et al. 2013 |
72 72
| [CDC73](CDC73) | 2 | Love et al. 2012; Reddy et al. 2017 |
73 73
| [CDH17](CDH17) | 2 | Love et al. 2012 |
74
-| [CDKN2A](CDKN2A) | 2 | Morin et al. 2013; Grande et al. 2019 |
74
+| [CDKN2A](CDKN2A) | 2 | Grande et al. 2019; Morin et al. 2013 |
75 75
| [CDKN2C](CDKN2C) | 2 | Thomas et al. 2023 |
76 76
| [CHD4](CHD4) | 2 | Burkhardt et al. 2022 |
77 77
| [COL4A2](COL4A2) | 2 | Love et al. 2012 |
78 78
| [CPXM2](CPXM2) | 2 | Burkhardt et al. 2022 |
79
-| [CREBBP](CREBBP) | 2 | Love et al. 2012; Laura Pasqualucci, Dominguez-Sola, et al. 2011 |
79
+| [CREBBP](CREBBP) | 2 | Laura Pasqualucci, Dominguez-Sola, et al. 2011; Love et al. 2012 |
80 80
| [CTCF](CTCF) | 2 | Panea et al. 2019 |
81
-| [CXCR4](CXCR4) | 2, aSHM | Panea et al. 2019; Khodabakhshi et al. 2012; Krysiak et al. 2017 |
81
+| [CXCR4](CXCR4) | 2, aSHM | Krysiak et al. 2017; Khodabakhshi et al. 2012; Panea et al. 2019 |
82 82
| [CYB5D1](CYB5D1) | 2 | Love et al. 2012 |
83 83
| [CYP4F22](CYP4F22) | 2 | Love et al. 2012 |
84 84
| [DHCR7](DHCR7) | 2 | Schmitz et al. 2012 |
... ...
@@ -86,7 +86,7 @@
86 86
| [DNMT1](DNMT1) | 2 | Panea et al. 2019 |
87 87
| [DTX1](DTX1) | 2, aSHM | Schmitz et al. 2018; Panea et al. 2019 |
88 88
| [E2F2](E2F2) | 2 | Burkhardt et al. 2022 |
89
-| [EBF1](EBF1) | 2, aSHM | Thomas et al. 2023; Bohle et al. 2013 |
89
+| [EBF1](EBF1) | 2, aSHM | Bohle et al. 2013; Thomas et al. 2023 |
90 90
| [EDNRB](EDNRB) | 2 | Burkhardt et al. 2022 |
91 91
| [EHD1](EHD1) | 2 | Thomas et al. 2023 |
92 92
| [EIF2C4](EIF2C4) | 2 | Love et al. 2012 |
... ...
@@ -96,26 +96,26 @@
96 96
| [EP300](EP300) | 2 | Laura Pasqualucci, Dominguez-Sola, et al. 2011; Panea et al. 2019 |
97 97
| [EPHB2](EPHB2) | 2 | Love et al. 2012 |
98 98
| [ERAP1](ERAP1) | 2 | Burkhardt et al. 2022 |
99
-| [ETS1](ETS1) | 2, aSHM | Panea et al. 2019; Morin et al. 2011 |
99
+| [ETS1](ETS1) | 2, aSHM | Morin et al. 2011; Panea et al. 2019 |
100 100
| [EXOSC6](EXOSC6) | 2 | Schmitz et al. 2012 |
101
-| [EZH2](EZH2) | 2 | Love et al. 2012; Morin et al. 2010 |
101
+| [EZH2](EZH2) | 2 | Morin et al. 2010; Love et al. 2012 |
102 102
| [FAM129B](FAM129B) | 2 | Love et al. 2012 |
103 103
| [FGFR3](FGFR3) | 2 | Love et al. 2012 |
104 104
| [FLYWCH1](FLYWCH1) | 2 | Schmitz et al. 2012 |
105 105
| [FTCD](FTCD) | 2 | Love et al. 2012 |
106 106
| [FZD3](FZD3) | 2 | Panea et al. 2019 |
107 107
| [GGTLA4](GGTLA4) | 2 | Love et al. 2012 |
108
-| [GRB2](GRB2) | 2 | Laura Pasqualucci, Trifonov, et al. 2011; Panea et al. 2019 |
108
+| [GRB2](GRB2) | 2 | Panea et al. 2019; Laura Pasqualucci, Trifonov, et al. 2011 |
109 109
| [GRIK5](GRIK5) | 2 | Love et al. 2012 |
110 110
| [GTSE1](GTSE1) | 2 | Schmitz et al. 2012 |
111
-| [HIST1H1C](HIST1H1C) | 2, aSHM | Panea et al. 2019; Morin et al. 2011 |
111
+| [HIST1H1C](HIST1H1C) | 2, aSHM | Morin et al. 2011; Panea et al. 2019 |
112 112
| [HIST1H1E](HIST1H1E) | 2, aSHM | Morin et al. 2013; Grande et al. 2019; Krysiak et al. 2017 |
113 113
| [HIST1H2AG](HIST1H2AG) | 2, aSHM | Krysiak et al. 2017; Morin et al. 2013; Panea et al. 2019 |
114
-| [HIST1H2AM](HIST1H2AM) | 2, aSHM | Panea et al. 2019; Krysiak et al. 2017 |
114
+| [HIST1H2AM](HIST1H2AM) | 2, aSHM | Krysiak et al. 2017; Panea et al. 2019 |
115 115
| [HIST1H2BK](HIST1H2BK) | 2, aSHM | Panea et al. 2019 |
116 116
| [HIST1H3D](HIST1H3D) | 2, aSHM | Panea et al. 2019 |
117 117
| [HIST1H3H](HIST1H3H) | 2, aSHM | Panea et al. 2019 |
118
-| [HIST1H3I](HIST1H3I) | 2, aSHM | Panea et al. 2019; Krysiak et al. 2017 |
118
+| [HIST1H3I](HIST1H3I) | 2, aSHM | Krysiak et al. 2017; Panea et al. 2019 |
119 119
| [HIST1H3J](HIST1H3J) | 2, aSHM | Panea et al. 2019 |
120 120
| [HIST1H4J](HIST1H4J) | 2, aSHM | Panea et al. 2019 |
121 121
| [HLA-A](HLA-A) | 2 | |
... ...
@@ -124,20 +124,20 @@
124 124
| [HLA-DQB1](HLA-DQB1) | 2 | Burkhardt et al. 2022 |
125 125
| [ICK](ICK) | 2 | Love et al. 2012 |
126 126
| [IGLL5](IGLL5) | 2, aSHM | Russler-Germain et al. 2023; Panea et al. 2019 |
127
-| [IKZF3](IKZF3) | 2, aSHM | Morin et al. 2013; Panea et al. 2019 |
128
-| [IRF8](IRF8) | 2, aSHM | Morin et al. 2011; Panea et al. 2019 |
127
+| [IKZF3](IKZF3) | 2, aSHM | Panea et al. 2019; Morin et al. 2013 |
128
+| [IRF8](IRF8) | 2, aSHM | Panea et al. 2019; Morin et al. 2011 |
129 129
| [ITPR3](ITPR3) | 2 | Love et al. 2012 |
130 130
| [KANK2](KANK2) | 2 | Schmitz et al. 2012 |
131 131
| [KCNK10](KCNK10) | 2 | Panea et al. 2019 |
132 132
| [KIFC3](KIFC3) | 2 | Love et al. 2012 |
133 133
| [KLHL26](KLHL26) | 2 | Burkhardt et al. 2022 |
134 134
| [KLHL6](KLHL6) | 2, aSHM | Morin et al. 2011; Panea et al. 2019 |
135
-| [KMT2C](KMT2C) | 2 | Zhang et al. 2013; Zhang et al. 2014; Zhou et al. 2019 |
136
-| [LTB](LTB) | 2, aSHM | Panea et al. 2019; Chapuy et al. 2018 |
135
+| [KMT2C](KMT2C) | 2 | Zhang et al. 2014; Zhang et al. 2013; Zhou et al. 2019 |
136
+| [LTB](LTB) | 2, aSHM | Chapuy et al. 2018; Panea et al. 2019 |
137 137
| [MAP3K6](MAP3K6) | 2 | Love et al. 2012 |
138 138
| [MCL1](MCL1) | 2 | Reddy et al. 2017; Panea et al. 2019 |
139
-| [MIR142](MIR142) | 2, aSHM | Grande et al. 2019; Kwanhian et al. 2012 |
140
-| [MKI67](MKI67) | 2 | Russler-Germain et al. 2023; Schmitz et al. 2012 |
139
+| [MIR142](MIR142) | 2, aSHM | Kwanhian et al. 2012; Grande et al. 2019 |
140
+| [MKI67](MKI67) | 2 | Schmitz et al. 2012; Russler-Germain et al. 2023 |
141 141
| [MME](MME) | 2 | Panea et al. 2019 |
142 142
| [MTOR](MTOR) | 2 | Zhang et al. 2013; Panea et al. 2019 |
143 143
| [MYH10](MYH10) | 2 | Love et al. 2012 |
... ...
@@ -145,8 +145,8 @@
145 145
| [NBEAL1](NBEAL1) | 2 | Love et al. 2012 |
146 146
| [NCOR2](NCOR2) | 2 | Schmitz et al. 2012 |
147 147
| [NOA1](NOA1) | 2 | Burkhardt et al. 2022 |
148
-| [NOTCH1](NOTCH1) | 2 | Laura Pasqualucci, Trifonov, et al. 2011; Love et al. 2012; Beà et al. 2013 |
149
-| [NOTCH2](NOTCH2) | 2 | Panea et al. 2019; Trøen et al. 2008; Beà et al. 2013 |
148
+| [NOTCH1](NOTCH1) | 2 | Beà et al. 2013; Laura Pasqualucci, Trifonov, et al. 2011; Love et al. 2012 |
149
+| [NOTCH2](NOTCH2) | 2 | Beà et al. 2013; Panea et al. 2019; Trøen et al. 2008 |
150 150
| [NRXN2](NRXN2) | 2 | Love et al. 2012 |
151 151
| [P2RY2](P2RY2) | 2 | Love et al. 2012 |
152 152
| [PABPC4L](PABPC4L) | 2 | Panea et al. 2019 |
... ...
@@ -156,7 +156,7 @@
156 156
| [PDCD11](PDCD11) | 2 | Schmitz et al. 2012 |
157 157
| [PDZRN3](PDZRN3) | 2 | Panea et al. 2019 |
158 158
| [PIK3R1](PIK3R1) | 2 | Panea et al. 2019; Zhang et al. 2013 |
159
-| [PIM1](PIM1) | 2, aSHM | L. Pasqualucci et al. 2001; Burkhardt et al. 2022 |
159
+| [PIM1](PIM1) | 2, aSHM | Burkhardt et al. 2022; L. Pasqualucci et al. 2001 |
160 160
| [PLCG2](PLCG2) | 2 | Panea et al. 2019 |
161 161
| [POLRMT](POLRMT) | 2 | Love et al. 2012 |
162 162
| [POR](POR) | 2 | Love et al. 2012 |
... ...
@@ -172,9 +172,9 @@
172 172
| [REV3L](REV3L) | 2 | Burkhardt et al. 2022 |
173 173
| [RNF144B](RNF144B) | 2 | Panea et al. 2019 |
174 174
| [RPL10](RPL10) | 2 | Burkhardt et al. 2022 |
175
-| [S1PR2](S1PR2) | 2, aSHM | Morin et al. 2011; Muppidi et al. 2014 |
175
+| [S1PR2](S1PR2) | 2, aSHM | Muppidi et al. 2014; Morin et al. 2011 |
176 176
| [SAL3](SAL3) | 2 | Burkhardt et al. 2022 |
177
-| [SALL3](SALL3) | 2 | Zhang et al. 2014; Love et al. 2012 |
177
+| [SALL3](SALL3) | 2 | Love et al. 2012; Zhang et al. 2014 |
178 178
| [SAPS2](SAPS2) | 2 | Love et al. 2012 |
179 179
| [SBF1](SBF1) | 2 | Love et al. 2012 |
180 180
| [SF3B1](SF3B1) | 2 | Love et al. 2012 |
... ...
@@ -198,7 +198,7 @@
198 198
| [YY1AP1](YY1AP1) | 2 | Schmitz et al. 2012 |
199 199
| [ZAN](ZAN) | 2 | Burkhardt et al. 2022 |
200 200
| [ZBTB7A](ZBTB7A) | 2 | Burkhardt et al. 2022; Reddy et al. 2017 |
201
-| [ZFP36L1](ZFP36L1) | 2, aSHM | Morin et al. 2011; Panea et al. 2019 |
201
+| [ZFP36L1](ZFP36L1) | 2, aSHM | Panea et al. 2019; Morin et al. 2011 |
202 202
| [ZNF229](ZNF229) | 2 | Love et al. 2012 |
203 203
| [ZNF85](ZNF85) | 2 | Burkhardt et al. 2022 |
204 204
DLBCL_genes.md
... ...
@@ -4,42 +4,38 @@
4 4
5 5
## Tier 1 DLBCL genes
6 6
7
-### *140 total*
7
+### *131 total*
8 8
9 9
| Gene | Tier | Relevant references |
10 10
|:----------------------:|:------------:|:--------------------------------------------------------------------------------:|
11 11
| [ACTB](ACTB) | 1, aSHM | Lohr et al. 2012 |
12 12
| [ACTG1](ACTG1) | 1, aSHM | Hübschmann et al. 2021 |
13
-| [ARID1A](ARID1A) | 1 | Krysiak et al. 2017; Zhang et al. 2013; Love et al. 2012 |
13
+| [ARID1A](ARID1A) | 1 | Zhang et al. 2013; Love et al. 2012; Krysiak et al. 2017 |
14 14
| [ATM](ATM) | 1 | Beà et al. 2013; Reddy et al. 2017 |
15
-| [B2M](B2M) | 1 | Pararajalingam et al. 2020; Morin et al. 2011 |
16
-| [BCL10](BCL10) | 1 | Russler-Germain et al. 2023; Morin et al. 2011 |
17
-| [BCL2](BCL2) | 1, aSHM | Morin et al. 2011; Burkhardt et al. 2022; Tanaka et al. 1992 |
15
+| [B2M](B2M) | 1 | Morin et al. 2011; Pararajalingam et al. 2020 |
16
+| [BCL10](BCL10) | 1 | Morin et al. 2011; Russler-Germain et al. 2023 |
17
+| [BCL2](BCL2) | 1, aSHM | Tanaka et al. 1992; Morin et al. 2011; Burkhardt et al. 2022 |
18 18
| [BCL6](BCL6) | 1, aSHM | Morin et al. 2011; Love et al. 2012 |
19 19
| [BCL7A](BCL7A) | 1, aSHM | Arthur et al. 2018; Grande et al. 2019; Krysiak et al. 2017 |
20
-| [BCR](BCR) | 1 | |
21 20
| [BIRC6](BIRC6) | 1 | Reddy et al. 2017 |
22
-| [BRAF](BRAF) | 1 | Tiacci et al. 2011; Love et al. 2012 |
23
-| [BTG1](BTG1) | 1, aSHM | Burkhardt et al. 2022; Morin et al. 2011 |
24
-| [BTG2](BTG2) | 1, aSHM | Love et al. 2012; Morin et al. 2011 |
21
+| [BRAF](BRAF) | 1 | Love et al. 2012; Tiacci et al. 2011 |
22
+| [BTG1](BTG1) | 1, aSHM | Morin et al. 2011; Burkhardt et al. 2022 |
23
+| [BTG2](BTG2) | 1, aSHM | Morin et al. 2011; Love et al. 2012 |
25 24
| [BTK](BTK) | 1 | Krysiak et al. 2017; Albuquerque et al. 2017 |
26
-| [CARD11](CARD11) | 1 | Morin et al. 2011; Lenz et al. 2008; Wu et al. 2016; Panea et al. 2019 |
25
+| [CARD11](CARD11) | 1 | Panea et al. 2019; Lenz et al. 2008; Morin et al. 2011; Wu et al. 2016 |
27 26
| [CASP8](CASP8) | 1 | Reddy et al. 2017 |
28 27
| [CCND3](CCND3) | 1 | Morin et al. 2011; Richter et al. 2012 |
29
-| [CD274](CD274) | 1 | Morin et al. 2011 |
30
-| [CD36](CD36) | 1 | Laura Pasqualucci, Trifonov, et al. 2011 |
31 28
| [CD58](CD58) | 1 | Morin et al. 2011 |
32
-| [CD70](CD70) | 1 | Russler-Germain et al. 2023; Morin et al. 2011 |
33
-| [CD79B](CD79B) | 1 | Morin et al. 2011; Panea et al. 2019 |
34
-| [CD83](CD83) | 1, aSHM | Panea et al. 2019; Morin et al. 2013; Russler-Germain et al. 2023 |
35
-| [CDKN2A](CDKN2A) | 1 | Grande et al. 2019; Morin et al. 2013 |
29
+| [CD70](CD70) | 1 | Morin et al. 2011; Russler-Germain et al. 2023 |
30
+| [CD79B](CD79B) | 1 | Panea et al. 2019; Morin et al. 2011 |
31
+| [CD83](CD83) | 1, aSHM | Morin et al. 2013; Panea et al. 2019; Russler-Germain et al. 2023 |
32
+| [CDKN2A](CDKN2A) | 1 | Morin et al. 2013; Grande et al. 2019 |
36 33
| [CIITA](CIITA) | 1, aSHM | Morin et al. 2011 |
37 34
| [CREBBP](CREBBP) | 1 | Love et al. 2012; Laura Pasqualucci, Dominguez-Sola, et al. 2011 |
38
-| [CXCR4](CXCR4) | 1, aSHM | Krysiak et al. 2017; Khodabakhshi et al. 2012; Panea et al. 2019 |
35
+| [CXCR4](CXCR4) | 1, aSHM | Krysiak et al. 2017; Panea et al. 2019; Khodabakhshi et al. 2012 |
39 36
| [CXCR5](CXCR5) | 1 | Schmitz et al. 2018 |
40
-| [DAZAP1](DAZAP1) | 1 | Pararajalingam et al. 2020 |
41
-| [DDX3X](DDX3X) | 1 | Schmitz et al. 2012, 2018 |
42
-| [DTX1](DTX1) | 1, aSHM | Panea et al. 2019; Schmitz et al. 2018 |
37
+| [DDX3X](DDX3X) | 1 | Schmitz et al. 2018, 2012 |
38
+| [DTX1](DTX1) | 1, aSHM | Schmitz et al. 2018; Panea et al. 2019 |
43 39
| [DUSP2](DUSP2) | 1, aSHM | Morin et al. 2013 |
44 40
| [EBF1](EBF1) | 1, aSHM | Bohle et al. 2013; Thomas et al. 2023 |
45 41
| [EEF1A1](EEF1A1) | 1 | Hübschmann et al. 2021 |
... ...
@@ -48,19 +44,19 @@
48 44
| [ETV6](ETV6) | 1, aSHM | Arthur et al. 2018 |
49 45
| [EZH2](EZH2) | 1 | Love et al. 2012; Morin et al. 2010 |
50 46
| [FAS](FAS) | 1 | Scholl et al. 2007 |
51
-| [FBXO11](FBXO11) | 1 | Hübschmann et al. 2021; Richter et al. 2012 |
47
+| [FBXO11](FBXO11) | 1 | Richter et al. 2012; Hübschmann et al. 2021 |
52 48
| [FBXW7](FBXW7) | 1 | Zhang et al. 2013 |
53 49
| [FOXO1](FOXO1) | 1 | Schmitz et al. 2012; Morin et al. 2011 |
54 50
| [GNA13](GNA13) | 1 | Love et al. 2012; Morin et al. 2011 |
55 51
| [GNAI2](GNAI2) | 1 | Grande et al. 2019; Morin et al. 2013 |
56
-| [GRB2](GRB2) | 1 | Laura Pasqualucci, Trifonov, et al. 2011; Panea et al. 2019 |
52
+| [GRB2](GRB2) | 1 | Panea et al. 2019; Laura Pasqualucci, Trifonov, et al. 2011 |
57 53
| [GRHPR](GRHPR) | 1, aSHM | Arthur et al. 2018 |
58
-| [HIST1H1B](HIST1H1B) | 1, aSHM | Krysiak et al. 2017; Chapuy et al. 2018 |
54
+| [HIST1H1B](HIST1H1B) | 1, aSHM | Chapuy et al. 2018; Krysiak et al. 2017 |
59 55
| [HIST1H1C](HIST1H1C) | 1, aSHM | Panea et al. 2019; Morin et al. 2011 |
60 56
| [HIST1H1D](HIST1H1D) | 1, aSHM | Morin et al. 2013; Krysiak et al. 2017 |
61
-| [HIST1H1E](HIST1H1E) | 1, aSHM | Krysiak et al. 2017; Grande et al. 2019; Morin et al. 2013 |
62
-| [HIST1H2AC](HIST1H2AC) | 1, aSHM | Morin et al. 2013; Krysiak et al. 2017 |
63
-| [HIST1H2AM](HIST1H2AM) | 1, aSHM | Krysiak et al. 2017; Panea et al. 2019 |
57
+| [HIST1H1E](HIST1H1E) | 1, aSHM | Grande et al. 2019; Krysiak et al. 2017; Morin et al. 2013 |
58
+| [HIST1H2AC](HIST1H2AC) | 1, aSHM | Krysiak et al. 2017; Morin et al. 2013 |
59
+| [HIST1H2AM](HIST1H2AM) | 1, aSHM | Panea et al. 2019; Krysiak et al. 2017 |
64 60
| [HIST1H2BC](HIST1H2BC) | 1, aSHM | Reddy et al. 2017; Krysiak et al. 2017 |
65 61
| [HIST1H2BK](HIST1H2BK) | 1, aSHM | Panea et al. 2019 |
66 62
| [HIST1H3B](HIST1H3B) | 1, aSHM | Zhang et al. 2013 |
... ...
@@ -69,52 +65,48 @@
69 65
| [HLA-B](HLA-B) | 1 | |
70 66
| [HLA-C](HLA-C) | 1 | |
71 67
| [HLA-DMB](HLA-DMB) | 1 | |
72
-| [HNRNPU](HNRNPU) | 1, aSHM | Panea et al. 2019; Reddy et al. 2017 |
68
+| [HNRNPU](HNRNPU) | 1, aSHM | Reddy et al. 2017; Panea et al. 2019 |
73 69
| [HVCN1](HVCN1) | 1 | Krysiak et al. 2017 |
74
-| [IKZF3](IKZF3) | 1 | Morin et al. 2013; Panea et al. 2019 |
70
+| [IKZF3](IKZF3) | 1 | Panea et al. 2019; Morin et al. 2013 |
75 71
| [IL4R](IL4R) | 1, aSHM | Duns et al. 2021 |
76 72
| [IRF4](IRF4) | 1, aSHM | Morin et al. 2011 |
77 73
| [IRF8](IRF8) | 1, aSHM | Morin et al. 2011; Panea et al. 2019 |
78 74
| [ITPKB](ITPKB) | 1, aSHM | Schmitz et al. 2018 |
79
-| [JUNB](JUNB) | 1 | Reddy et al. 2017 |
80 75
| [KLF2](KLF2) | 1, aSHM | Laura Pasqualucci, Trifonov, et al. 2011 |
81 76
| [KLHL14](KLHL14) | 1 | Zhang et al. 2013 |
82 77
| [KLHL6](KLHL6) | 1, aSHM | Morin et al. 2011; Panea et al. 2019 |
83
-| [KMT2C](KMT2C) | 1 | Zhou et al. 2019; Zhang et al. 2014; Zhang et al. 2013 |
78
+| [KMT2C](KMT2C) | 1 | Zhang et al. 2014; Zhang et al. 2013; Zhou et al. 2019 |
84 79
| [KMT2D](KMT2D) | 1 | Grande et al. 2019; Beà et al. 2013; Morin et al. 2011 |
85 80
| [KRAS](KRAS) | 1 | Lohr et al. 2012 |
86 81
| [LCOR](LCOR) | 1 | Arthur et al. 2018 |
87
-| [LTB](LTB) | 1, aSHM | Panea et al. 2019; Chapuy et al. 2018 |
88
-| [MCL1](MCL1) | 1 | Reddy et al. 2017; Panea et al. 2019 |
82
+| [LTB](LTB) | 1, aSHM | Chapuy et al. 2018; Panea et al. 2019 |
89 83
| [MEF2B](MEF2B) | 1, aSHM | Beà et al. 2013; Morin et al. 2011 |
90 84
| [MEF2C](MEF2C) | 1, aSHM | Arthur et al. 2018 |
91 85
| [MGA](MGA) | 1 | Zhang et al. 2013 |
92 86
| [MPEG1](MPEG1) | 1 | Morin et al. 2013 |
93 87
| [MS4A1](MS4A1) | 1, aSHM | Rushton et al. 2020 |
94
-| [MTOR](MTOR) | 1 | Zhang et al. 2013; Panea et al. 2019 |
95
-| [MYC](MYC) | 1, aSHM | Johnston and Carroll 1992; L. Pasqualucci et al. 2001 |
88
+| [MTOR](MTOR) | 1 | Panea et al. 2019; Zhang et al. 2013 |
89
+| [MYC](MYC) | 1, aSHM | L. Pasqualucci et al. 2001; Johnston and Carroll 1992 |
96 90
| [MYD88](MYD88) | 1 | Ngo et al. 2011 |
97 91
| [MYOM2](MYOM2) | 1 | Laura Pasqualucci, Trifonov, et al. 2011 |
98
-| [NFKBIA](NFKBIA) | 1 | Lake et al. 2009; Russler-Germain et al. 2023 |
99
-| [NFKBIE](NFKBIE) | 1 | Morin et al. 2016; Pararajalingam et al. 2020 |
92
+| [NFKBIA](NFKBIA) | 1 | Russler-Germain et al. 2023; Lake et al. 2009 |
93
+| [NFKBIE](NFKBIE) | 1 | Pararajalingam et al. 2020; Morin et al. 2016 |
100 94
| [NFKBIZ](NFKBIZ) | 1, noncoding | Morin et al. 2016 |
101 95
| [NOL9](NOL9) | 1 | Schmitz et al. 2018 |
102 96
| [NOTCH1](NOTCH1) | 1 | Laura Pasqualucci, Trifonov, et al. 2011; Love et al. 2012; Beà et al. 2013 |
103
-| [NOTCH2](NOTCH2) | 1 | Beà et al. 2013; Panea et al. 2019; Trøen et al. 2008 |
97
+| [NOTCH2](NOTCH2) | 1 | Trøen et al. 2008; Panea et al. 2019; Beà et al. 2013 |
104 98
| [OSBPL10](OSBPL10) | 1, aSHM | Arthur et al. 2018 |
105 99
| [P2RY8](P2RY8) | 1 | Lohr et al. 2012; Muppidi et al. 2014 |
106 100
| [PCBP1](PCBP1) | 1 | Schmitz et al. 2012 |
107 101
| [PIM1](PIM1) | 1, aSHM | Burkhardt et al. 2022; L. Pasqualucci et al. 2001 |
108 102
| [PIM2](PIM2) | 1, aSHM | Arthur et al. 2018 |
109 103
| [POU2AF1](POU2AF1) | 1, aSHM | Krysiak et al. 2017 |
110
-| [POU2F2](POU2F2) | 1 | Zhang et al. 2013; Krysiak et al. 2017 |
104
+| [POU2F2](POU2F2) | 1 | Krysiak et al. 2017; Zhang et al. 2013 |
111 105
| [PRDM1](PRDM1) | 1 | Laura Pasqualucci et al. 2006 |
112
-| [PRKDC](PRKDC) | 1 | Hübschmann et al. 2021; Schmitz et al. 2018 |
113 106
| [PTEN](PTEN) | 1 | Love et al. 2012 |
114 107
| [PTPRD](PTPRD) | 1 | |
115
-| [RB1](RB1) | 1 | Zhang et al. 2014; Morin et al. 2013 |
108
+| [RB1](RB1) | 1 | Morin et al. 2013; Zhang et al. 2014 |
116 109
| [RFX7](RFX7) | 1 | Grande et al. 2019 |
117
-| [RFXAP](RFXAP) | 1 | |
118 110
| [RHOA](RHOA) | 1 | Richter et al. 2012 |
119 111
| [RRAGC](RRAGC) | 1 | Okosun et al. 2016 |
120 112
| [S1PR2](S1PR2) | 1, aSHM | Muppidi et al. 2014; Morin et al. 2011 |
... ...
@@ -122,7 +114,7 @@
122 114
| [SF3B1](SF3B1) | 1 | Love et al. 2012 |
123 115
| [SGK1](SGK1) | 1, aSHM | Morin et al. 2011 |
124 116
| [SIN3A](SIN3A) | 1 | Grande et al. 2019 |
125
-| [SMARCA4](SMARCA4) | 1 | Zhang et al. 2013; Richter et al. 2012; Nadeu et al. 2020; Krysiak et al. 2017 |
117
+| [SMARCA4](SMARCA4) | 1 | Zhang et al. 2013; Nadeu et al. 2020; Richter et al. 2012; Krysiak et al. 2017 |
126 118
| [SOCS1](SOCS1) | 1, aSHM | Morin et al. 2011 |
127 119
| [SPEN](SPEN) | 1 | Rossi et al. 2012 |
128 120
| [STAT3](STAT3) | 1 | Ohgami et al. 2014 |
... ...
@@ -136,7 +128,6 @@
136 128
| [TNFRSF14](TNFRSF14) | 1 | Cheung et al. 2010 |
137 129
| [TOX](TOX) | 1 | Reddy et al. 2017 |
138 130
| [TP53](TP53) | 1 | Wilda et al. 2004; Morin et al. 2011; Beà et al. 2013 |
139
-| [TRIP12](TRIP12) | 1 | |
140 131
| [TRRAP](TRRAP) | 1 | Parry et al. 2013 |
141 132
| [UBE2A](UBE2A) | 1 | Reddy et al. 2017 |
142 133
| [UNC5C](UNC5C) | 1 | |
... ...
@@ -147,11 +138,11 @@
147 138
| [ZC3H12A](ZC3H12A) | 1 | Arthur et al. 2018 |
148 139
| [ZFP36L1](ZFP36L1) | 1, aSHM | Panea et al. 2019; Morin et al. 2011 |
149 140
| [ZNF292](ZNF292) | 1 | Zhang et al. 2013 |
150
-| [ZNF608](ZNF608) | 1 | Zhang et al. 2013; Krysiak et al. 2017 |
141
+| [ZNF608](ZNF608) | 1 | Krysiak et al. 2017; Zhang et al. 2013 |
151 142
152 143
## Tier 2 DLBCL genes
153 144
154
-### *186 total*
145
+### *195 total*
155 146
156 147
| Gene | Tier | Relevant references |
157 148
|:----------------------:|:------------:|:-----------------------------------------------------------:|
... ...
@@ -165,6 +156,7 @@
165 156
| [ATR](ATR) | 2 | Reddy et al. 2017 |
166 157
| [BCL11A](BCL11A) | 2, aSHM | |
167 158
| [BCOR](BCOR) | 2 | Nadeu et al. 2020 |
159
+| [BCR](BCR) | 2 | |
168 160
| [BIRC3](BIRC3) | 2, aSHM | Beà et al. 2013; Arthur et al. 2018 |
169 161
| [BLK](BLK) | 2, aSHM | |
170 162
| [BRINP3](BRINP3) | 2 | Reddy et al. 2017 |
... ...
@@ -173,9 +165,11 @@
173 165
| [CBLB](CBLB) | 2 | Reddy et al. 2017 |
174 166
| [CCL4](CCL4) | 2 | Chapuy et al. 2018 |
175 167
| [CD22](CD22) | 2 | Reddy et al. 2017 |
168
+| [CD274](CD274) | 2 | Morin et al. 2011 |
169
+| [CD36](CD36) | 2 | Laura Pasqualucci, Trifonov, et al. 2011 |
176 170
| [CD44](CD44) | 2, aSHM | Arthur et al. 2018 |
177 171
| [CD74](CD74) | 2, aSHM | Arthur et al. 2018 |
178
-| [CDC73](CDC73) | 2 | Love et al. 2012; Reddy et al. 2017 |
172
+| [CDC73](CDC73) | 2 | Reddy et al. 2017; Love et al. 2012 |
179 173
| [CDH9](CDH9) | 2 | Morin et al. 2013 |
180 174
| [CHD1](CHD1) | 2 | Reddy et al. 2017 |
181 175
| [CHD8](CHD8) | 2 | Grande et al. 2019; Reddy et al. 2017 |
... ...
@@ -184,6 +178,7 @@
184 178
| [CNTNAP5](CNTNAP5) | 2 | Morin et al. 2013 |
185 179
| [COQ7](COQ7) | 2 | Chapuy et al. 2018 |
186 180
| [CRIP1](CRIP1) | 2 | Chapuy et al. 2018 |
181
+| [DAZAP1](DAZAP1) | 2 | Pararajalingam et al. 2020 |
187 182
| [DCAF6](DCAF6) | 2 | Reddy et al. 2017 |
188 183
| [DDX10](DDX10) | 2 | Reddy et al. 2017 |
189 184
| [DHX16](DHX16) | 2 | Hübschmann et al. 2021 |
... ...
@@ -198,7 +193,7 @@
198 193
| [FAM102A](FAM102A) | 2, aSHM | |
199 194
| [FAM38B](FAM38B) | 2 | Morin et al. 2013 |
200 195
| [FANK1](FANK1) | 2, aSHM | |
201
-| [FAT4](FAT4) | 2 | Zhang et al. 2014; Morin et al. 2013 |
196
+| [FAT4](FAT4) | 2 | Morin et al. 2013; Zhang et al. 2014 |
202 197
| [FCRL3](FCRL3) | 2, aSHM | |
203 198
| [FNBP1](FNBP1) | 2, aSHM | |
204 199
| [FNDC1](FNDC1) | 2 | Morin et al. 2013 |
... ...
@@ -220,7 +215,7 @@
220 215
| [HNRNPD](HNRNPD) | 2 | |
221 216
| [HNRNPH1](HNRNPH1) | 2, noncoding | Pararajalingam et al. 2020 |
222 217
| [HRAS](HRAS) | 2 | Reddy et al. 2017 |
223
-| [ID3](ID3) | 2 | Richter et al. 2012; Schmitz et al. 2012 |
218
+| [ID3](ID3) | 2 | Schmitz et al. 2012; Richter et al. 2012 |
224 219
| [IER2](IER2) | 2 | Morin et al. 2013 |
225 220
| [IFNGR1](IFNGR1) | 2 | Morin et al. 2013 |
226 221
| [IGLL5](IGLL5) | 2, aSHM | Russler-Germain et al. 2023; Panea et al. 2019 |
... ...
@@ -233,6 +228,7 @@
233 228
| [IRF1](IRF1) | 2, aSHM | Hübschmann et al. 2021 |
234 229
| [JAK1](JAK1) | 2 | Zhang et al. 2013 |
235 230
| [JAK3](JAK3) | 2 | Zhang et al. 2013 |
231
+| [JUNB](JUNB) | 2 | Reddy et al. 2017 |
236 232
| [KCMF1](KCMF1) | 2 | Reddy et al. 2017 |
237 233
| [KLHL21](KLHL21) | 2 | Schmitz et al. 2018 |
238 234
| [LAMA5](LAMA5) | 2 | Schmitz et al. 2018 |
... ...
@@ -244,12 +240,13 @@
244 240
| [LYN](LYN) | 2 | Chapuy et al. 2018 |
245 241
| [MAGT1](MAGT1) | 2 | Reddy et al. 2017 |
246 242
| [MALAT1](MALAT1) | 2, aSHM | Arthur et al. 2018 |
247
-| [MAP2K1](MAP2K1) | 2 | Shin et al. 2015; Louissaint et al. 2016 |
243
+| [MAP2K1](MAP2K1) | 2 | Louissaint et al. 2016; Shin et al. 2015 |
248 244
| [MAP4K4](MAP4K4) | 2 | Reddy et al. 2017 |
249 245
| [MARK1](MARK1) | 2 | Reddy et al. 2017 |
246
+| [MCL1](MCL1) | 2 | Reddy et al. 2017; Panea et al. 2019 |
250 247
| [MECOM](MECOM) | 2 | Reddy et al. 2017 |
251 248
| [MET](MET) | 2 | Reddy et al. 2017 |
252
-| [MIR142](MIR142) | 2, aSHM | Kwanhian et al. 2012; Grande et al. 2019 |
249
+| [MIR142](MIR142) | 2, aSHM | Grande et al. 2019; Kwanhian et al. 2012 |
253 250
| [MIR155HG](MIR155HG) | 2, aSHM | |
254 251
| [MPDZ](MPDZ) | 2 | Morin et al. 2013 |
255 252
| [MSH2](MSH2) | 2 | Reddy et al. 2017 |
... ...
@@ -287,6 +284,7 @@
287 284
| [POGZ](POGZ) | 2 | Morin et al. 2013 |
288 285
| [PPP1R9B](PPP1R9B) | 2 | |
289 286
| [PRKCB](PRKCB) | 2 | Morin et al. 2013 |
287
+| [PRKDC](PRKDC) | 2 | Hübschmann et al. 2021; Schmitz et al. 2018 |
290 288
| [PRPS1](PRPS1) | 2 | Chapuy et al. 2018 |
291 289
| [PTMA](PTMA) | 2, aSHM | |
292 290
| [PTPN1](PTPN1) | 2, aSHM | |
... ...
@@ -298,6 +296,7 @@
298 296
| [RARA](RARA) | 2 | Reddy et al. 2017 |
299 297
| [RCC](RCC) | 2, aSHM | |
300 298
| [RFTN1](RFTN1) | 2, aSHM | Arthur et al. 2018 |
299
+| [RFXAP](RFXAP) | 2 | |
301 300
| [RHEX](RHEX) | 2, aSHM | |
302 301
| [RHOH](RHOH) | 2, aSHM | L. Pasqualucci et al. 2001 |
303 302
| [RUBCNL](RUBCNL) | 2, aSHM | |
... ...
@@ -312,7 +311,7 @@
312 311
| [SIAH2](SIAH2) | 2 | Hübschmann et al. 2021 |
313 312
| [SLC34A2](SLC34A2) | 2 | Hübschmann et al. 2021 |
314 313
| [SMEK1](SMEK1) | 2 | Chapuy et al. 2018 |
315
-| [SRRM2](SRRM2) | 2 | Morin et al. 2013; Russler-Germain et al. 2023 |
314
+| [SRRM2](SRRM2) | 2 | Russler-Germain et al. 2023; Morin et al. 2013 |
316 315
| [ST6GAL1](ST6GAL1) | 2, aSHM | Arthur et al. 2018 |
317 316
| [STAT5B](STAT5B) | 2 | Zhang et al. 2013 |
318 317
| [SYK](SYK) | 2 | Reddy et al. 2017 |
... ...
@@ -325,13 +324,14 @@
325 324
| [TLR2](TLR2) | 2 | Chapuy et al. 2018; Beà et al. 2013 |
326 325
| [TRAF3](TRAF3) | 2 | Laura Pasqualucci, Trifonov, et al. 2011 |
327 326
| [TRAF6](TRAF6) | 2 | Hübschmann et al. 2021 |
327
+| [TRIP12](TRIP12) | 2 | |
328 328
| [UBE2J1](UBE2J1) | 2, aSHM | |
329
-| [UBR5](UBR5) | 2 | Zhang et al. 2013; Pararajalingam et al. 2020 |
329
+| [UBR5](UBR5) | 2 | Pararajalingam et al. 2020; Zhang et al. 2013 |
330 330
| [UNC5B](UNC5B) | 2 | Hübschmann et al. 2021 |
331 331
| [UNC5D](UNC5D) | 2 | |
332 332
| [WAC](WAC) | 2 | Reddy et al. 2017 |
333 333
| [WDFY3](WDFY3) | 2 | Morin et al. 2013 |
334
-| [WNK1](WNK1) | 2 | Thomas et al. 2023; Hübschmann et al. 2021 |
334
+| [WNK1](WNK1) | 2 | Hübschmann et al. 2021; Thomas et al. 2023 |
335 335
| [XBP1](XBP1) | 2, aSHM | |
336 336
| [YY1](YY1) | 2 | Reddy et al. 2017 |
337 337
| [ZBTB7A](ZBTB7A) | 2 | Burkhardt et al. 2022; Reddy et al. 2017 |
FL_genes.md
... ...
@@ -9,52 +9,52 @@
9 9
| Gene | Tier | Relevant references |
10 10
|:----------------------:|:-------:|:--------------------------------------------------------------------------------:|
11 11
| [ACTB](ACTB) | 1, aSHM | Lohr et al. 2012 |
12
-| [ARID1A](ARID1A) | 1 | Love et al. 2012; Zhang et al. 2013; Krysiak et al. 2017 |
12
+| [ARID1A](ARID1A) | 1 | Zhang et al. 2013; Love et al. 2012; Krysiak et al. 2017 |
13 13
| [ATP6AP1](ATP6AP1) | 1 | Okosun et al. 2016 |
14 14
| [ATP6V1B2](ATP6V1B2) | 1 | Okosun et al. 2016 |
15
-| [B2M](B2M) | 1 | Pararajalingam et al. 2020; Morin et al. 2011 |
16
-| [BCL2](BCL2) | 1, aSHM | Tanaka et al. 1992; Burkhardt et al. 2022; Morin et al. 2011 |
15
+| [B2M](B2M) | 1 | Morin et al. 2011; Pararajalingam et al. 2020 |
16
+| [BCL2](BCL2) | 1, aSHM | Morin et al. 2011; Tanaka et al. 1992; Burkhardt et al. 2022 |
17 17
| [BCL6](BCL6) | 1, aSHM | Love et al. 2012; Morin et al. 2011 |
18 18
| [BCL7A](BCL7A) | 1, aSHM | Krysiak et al. 2017; Grande et al. 2019; Arthur et al. 2018 |
19 19
| [BIRC6](BIRC6) | 1 | Reddy et al. 2017 |
20 20
| [BTG1](BTG1) | 1, aSHM | Morin et al. 2011; Burkhardt et al. 2022 |
21 21
| [BTG2](BTG2) | 1, aSHM | Love et al. 2012; Morin et al. 2011 |
22 22
| [BTK](BTK) | 1 | Albuquerque et al. 2017; Krysiak et al. 2017 |
23
-| [CARD11](CARD11) | 1 | Morin et al. 2011; Panea et al. 2019; Lenz et al. 2008; Wu et al. 2016 |
23
+| [CARD11](CARD11) | 1 | Panea et al. 2019; Morin et al. 2011; Wu et al. 2016; Lenz et al. 2008 |
24 24
| [CCND3](CCND3) | 1 | Morin et al. 2011; Richter et al. 2012 |
25
-| [CD83](CD83) | 1, aSHM | Russler-Germain et al. 2023; Morin et al. 2013; Panea et al. 2019 |
26
-| [CREBBP](CREBBP) | 1 | Love et al. 2012; Laura Pasqualucci, Dominguez-Sola, et al. 2011 |
25
+| [CD83](CD83) | 1, aSHM | Morin et al. 2013; Panea et al. 2019; Russler-Germain et al. 2023 |
26
+| [CREBBP](CREBBP) | 1 | Laura Pasqualucci, Dominguez-Sola, et al. 2011; Love et al. 2012 |
27 27
| [CTSS](CTSS) | 1 | Bararia et al. 2020 |
28
-| [DTX1](DTX1) | 1, aSHM | Panea et al. 2019; Schmitz et al. 2018 |
28
+| [DTX1](DTX1) | 1, aSHM | Schmitz et al. 2018; Panea et al. 2019 |
29 29
| [EBF1](EBF1) | 1, aSHM | Bohle et al. 2013; Thomas et al. 2023 |
30 30
| [EEF1A1](EEF1A1) | 1 | Hübschmann et al. 2021 |
31 31
| [EP300](EP300) | 1 | Laura Pasqualucci, Dominguez-Sola, et al. 2011; Panea et al. 2019 |
32 32
| [EZH2](EZH2) | 1 | Morin et al. 2010; Love et al. 2012 |
33 33
| [FAS](FAS) | 1 | Scholl et al. 2007 |
34
-| [FOXO1](FOXO1) | 1 | Morin et al. 2011; Schmitz et al. 2012 |
34
+| [FOXO1](FOXO1) | 1 | Schmitz et al. 2012; Morin et al. 2011 |
35 35
| [GNA13](GNA13) | 1 | Love et al. 2012; Morin et al. 2011 |
36 36
| [GNAI2](GNAI2) | 1 | Morin et al. 2013; Grande et al. 2019 |
37 37
| [HIST1H1B](HIST1H1B) | 1, aSHM | Chapuy et al. 2018; Krysiak et al. 2017 |
38 38
| [HIST1H1C](HIST1H1C) | 1, aSHM | Morin et al. 2011; Panea et al. 2019 |
39 39
| [HIST1H1D](HIST1H1D) | 1, aSHM | Morin et al. 2013; Krysiak et al. 2017 |
40
-| [HIST1H1E](HIST1H1E) | 1, aSHM | Morin et al. 2013; Grande et al. 2019; Krysiak et al. 2017 |
41
-| [HIST1H2AC](HIST1H2AC) | 1, aSHM | Morin et al. 2013; Krysiak et al. 2017 |
40
+| [HIST1H1E](HIST1H1E) | 1, aSHM | Grande et al. 2019; Krysiak et al. 2017; Morin et al. 2013 |
41
+| [HIST1H2AC](HIST1H2AC) | 1, aSHM | Krysiak et al. 2017; Morin et al. 2013 |
42 42
| [HIST1H2AG](HIST1H2AG) | 1, aSHM | Morin et al. 2013; Panea et al. 2019; Krysiak et al. 2017 |
43 43
| [HIST1H2AM](HIST1H2AM) | 1, aSHM | Panea et al. 2019; Krysiak et al. 2017 |
44
-| [HIST1H2BC](HIST1H2BC) | 1, aSHM | Reddy et al. 2017; Krysiak et al. 2017 |
44
+| [HIST1H2BC](HIST1H2BC) | 1, aSHM | Krysiak et al. 2017; Reddy et al. 2017 |
45 45
| [HIST1H2BD](HIST1H2BD) | 1, aSHM | Krysiak et al. 2017 |
46 46
| [HIST1H2BG](HIST1H2BG) | 1, aSHM | Krysiak et al. 2017 |
47 47
| [HIST1H3B](HIST1H3B) | 1, aSHM | Zhang et al. 2013 |
48 48
| [HIST1H3G](HIST1H3G) | 1, aSHM | Krysiak et al. 2017 |
49 49
| [HVCN1](HVCN1) | 1 | Krysiak et al. 2017 |
50 50
| [IRF4](IRF4) | 1, aSHM | Morin et al. 2011 |
51
-| [IRF8](IRF8) | 1, aSHM | Morin et al. 2011; Panea et al. 2019 |
51
+| [IRF8](IRF8) | 1, aSHM | Panea et al. 2019; Morin et al. 2011 |
52 52
| [ITPKB](ITPKB) | 1 | Schmitz et al. 2018 |
53 53
| [KLF2](KLF2) | 1, aSHM | Laura Pasqualucci, Trifonov, et al. 2011 |
54 54
| [KLHL6](KLHL6) | 1, aSHM | Morin et al. 2011; Panea et al. 2019 |
55
-| [KMT2D](KMT2D) | 1 | Grande et al. 2019; Beà et al. 2013; Morin et al. 2011 |
55
+| [KMT2D](KMT2D) | 1 | Grande et al. 2019; Morin et al. 2011; Beà et al. 2013 |
56 56
| [LTB](LTB) | 1, aSHM | Chapuy et al. 2018; Panea et al. 2019 |
57
-| [MAP2K1](MAP2K1) | 1 | Shin et al. 2015; Louissaint et al. 2016 |
57
+| [MAP2K1](MAP2K1) | 1 | Louissaint et al. 2016; Shin et al. 2015 |
58 58
| [MEF2B](MEF2B) | 1, aSHM | Beà et al. 2013; Morin et al. 2011 |
59 59
| [MEF2C](MEF2C) | 1, aSHM | Arthur et al. 2018 |
60 60
| [PCLO](PCLO) | 1 | Lohr et al. 2012 |
... ...
@@ -63,16 +63,16 @@
63 63
| [POU2F2](POU2F2) | 1 | Zhang et al. 2013; Krysiak et al. 2017 |
64 64
| [PTPRD](PTPRD) | 1 | |
65 65
| [RRAGC](RRAGC) | 1 | Okosun et al. 2016 |
66
-| [S1PR2](S1PR2) | 1, aSHM | Morin et al. 2011; Muppidi et al. 2014 |
66
+| [S1PR2](S1PR2) | 1, aSHM | Muppidi et al. 2014; Morin et al. 2011 |
67 67
| [SGK1](SGK1) | 1, aSHM | Morin et al. 2011 |
68
-| [SMARCA4](SMARCA4) | 1 | Krysiak et al. 2017; Nadeu et al. 2020; Richter et al. 2012; Zhang et al. 2013 |
68
+| [SMARCA4](SMARCA4) | 1 | Nadeu et al. 2020; Zhang et al. 2013; Richter et al. 2012; Krysiak et al. 2017 |
69 69
| [SOCS1](SOCS1) | 1, aSHM | Morin et al. 2011 |
70 70
| [STAT6](STAT6) | 1 | Yildiz et al. 2015 |
71 71
| [TBL1XR1](TBL1XR1) | 1 | Mareschal et al. 2016 |
72 72
| [TMSB4X](TMSB4X) | 1, aSHM | Albuquerque et al. 2017 |
73 73
| [TNFAIP3](TNFAIP3) | 1 | Compagno et al. 2009 |
74 74
| [TNFRSF14](TNFRSF14) | 1 | Cheung et al. 2010 |
75
-| [TP53](TP53) | 1 | Beà et al. 2013; Wilda et al. 2004; Morin et al. 2011 |
75
+| [TP53](TP53) | 1 | Wilda et al. 2004; Beà et al. 2013; Morin et al. 2011 |
76 76
| [VMA21](VMA21) | 1 | Hübschmann et al. 2021 |
77 77
78 78
## Tier 2 FL genes
... ...
@@ -92,7 +92,7 @@
92 92
| [CPNE8](CPNE8) | 2 | Hübschmann et al. 2021 |
93 93
| [CXCR4](CXCR4) | 2, aSHM | Panea et al. 2019; Khodabakhshi et al. 2012; Krysiak et al. 2017 |
94 94
| [CYP2A6](CYP2A6) | 2 | Russler-Germain et al. 2023 |
95
-| [DDX3X](DDX3X) | 2 | Schmitz et al. 2012, 2018 |
95
+| [DDX3X](DDX3X) | 2 | Schmitz et al. 2018, 2012 |
96 96
| [DHX15](DHX15) | 2 | Hübschmann et al. 2021 |
97 97
| [DUSP2](DUSP2) | 2, aSHM | Morin et al. 2013 |
98 98
| [EGR1](EGR1) | 2 | Krysiak et al. 2017 |
... ...
@@ -100,7 +100,7 @@
100 100
| [GBP7](GBP7) | 2 | Russler-Germain et al. 2023 |
101 101
| [GRM6](GRM6) | 2 | Russler-Germain et al. 2023 |
102 102
| [HIST1H2BM](HIST1H2BM) | 2, aSHM | Krysiak et al. 2017 |
103
-| [HIST1H3I](HIST1H3I) | 2, aSHM | Krysiak et al. 2017; Panea et al. 2019 |
103
+| [HIST1H3I](HIST1H3I) | 2, aSHM | Panea et al. 2019; Krysiak et al. 2017 |
104 104
| [HLA-B](HLA-B) | 2 | |
105 105
| [HNRNPD](HNRNPD) | 2 | |
106 106
| [IGLL5](IGLL5) | 2, aSHM | Panea et al. 2019; Russler-Germain et al. 2023 |
... ...
@@ -111,20 +111,20 @@
111 111
| [MAP7D1](MAP7D1) | 2 | Russler-Germain et al. 2023 |
112 112
| [MGEA5](MGEA5) | 2 | Hübschmann et al. 2021 |
113 113
| [MKI67](MKI67) | 2 | Russler-Germain et al. 2023; Schmitz et al. 2012 |
114
-| [MYC](MYC) | 2, aSHM | L. Pasqualucci et al. 2001; Johnston and Carroll 1992 |
114
+| [MYC](MYC) | 2, aSHM | Johnston and Carroll 1992; L. Pasqualucci et al. 2001 |
115 115
| [MYCBP2](MYCBP2) | 2 | Hübschmann et al. 2021 |
116 116
| [MYD88](MYD88) | 2 | Ngo et al. 2011 |
117 117
| [NFKBIA](NFKBIA) | 2 | Lake et al. 2009; Russler-Germain et al. 2023 |
118 118
| [OR8H2](OR8H2) | 2 | Russler-Germain et al. 2023 |
119 119
| [P2RY8](P2RY8) | 2 | Muppidi et al. 2014; Lohr et al. 2012 |
120
-| [PDS5B](PDS5B) | 2 | Hübschmann et al. 2021; Morin et al. 2013 |
120
+| [PDS5B](PDS5B) | 2 | Morin et al. 2013; Hübschmann et al. 2021 |
121 121
| [PPP4C](PPP4C) | 2 | Hübschmann et al. 2021 |
122
-| [PRKDC](PRKDC) | 2 | Schmitz et al. 2018; Hübschmann et al. 2021 |
122
+| [PRKDC](PRKDC) | 2 | Hübschmann et al. 2021; Schmitz et al. 2018 |
123 123
| [PZP](PZP) | 2 | Russler-Germain et al. 2023 |
124 124
| [RBM6](RBM6) | 2 | Hübschmann et al. 2021 |
125 125
| [SESN1](SESN1) | 2 | Oricchio et al. 2017 |
126 126
| [SHROOM3](SHROOM3) | 2 | Russler-Germain et al. 2023 |
127
-| [SRRM2](SRRM2) | 2 | Morin et al. 2013; Russler-Germain et al. 2023 |
127
+| [SRRM2](SRRM2) | 2 | Russler-Germain et al. 2023; Morin et al. 2013 |
128 128
| [STAB2](STAB2) | 2 | Russler-Germain et al. 2023 |
129 129
| [TMEM30A](TMEM30A) | 2 | Morin et al. 2011 |
130 130
| [TPP1](TPP1) | 2 | Hübschmann et al. 2021 |
MCL_genes.md
... ...
@@ -9,27 +9,27 @@
9 9
| Gene | Tier | Relevant references |
10 10
|:------------------:|:------------:|:--------------------------------------------------------------------------------:|
11 11
| [ATM](ATM) | 1 | Beà et al. 2013; Reddy et al. 2017 |
12
-| [BIRC3](BIRC3) | 1 | Arthur et al. 2018; Beà et al. 2013 |
13
-| [CARD11](CARD11) | 1 | Panea et al. 2019; Lenz et al. 2008; Wu et al. 2016; Morin et al. 2011 |
12
+| [BIRC3](BIRC3) | 1 | Beà et al. 2013; Arthur et al. 2018 |
13
+| [CARD11](CARD11) | 1 | Panea et al. 2019; Lenz et al. 2008; Morin et al. 2011; Wu et al. 2016 |
14 14
| [CCND1](CCND1) | 1, aSHM | Beà et al. 2013 |
15 15
| [DAZAP1](DAZAP1) | 1 | Pararajalingam et al. 2020 |
16 16
| [EWSR1](EWSR1) | 1 | Pararajalingam et al. 2020 |
17 17
| [HNRNPH1](HNRNPH1) | 1, noncoding | Pararajalingam et al. 2020 |
18 18
| [KMT2D](KMT2D) | 1 | Morin et al. 2011; Beà et al. 2013; Grande et al. 2019 |
19 19
| [MEF2B](MEF2B) | 1 | Beà et al. 2013; Morin et al. 2011 |
20
-| [NFKBIE](NFKBIE) | 1 | Morin et al. 2016; Pararajalingam et al. 2020 |
20
+| [NFKBIE](NFKBIE) | 1 | Pararajalingam et al. 2020; Morin et al. 2016 |
21 21
| [NOTCH1](NOTCH1) | 1 | Pasqualucci et al. 2011; Love et al. 2012; Beà et al. 2013 |
22
-| [NOTCH2](NOTCH2) | 1 | Panea et al. 2019; Trøen et al. 2008; Beà et al. 2013 |
22
+| [NOTCH2](NOTCH2) | 1 | Beà et al. 2013; Panea et al. 2019; Trøen et al. 2008 |
23 23
| [NSD2](NSD2) | 1 | Beà et al. 2013 |
24 24
| [POT1](POT1) | 1 | Zhang et al. 2014 |
25
-| [RB1](RB1) | 1 | Morin et al. 2013; Zhang et al. 2014 |
25
+| [RB1](RB1) | 1 | Zhang et al. 2014; Morin et al. 2013 |
26 26
| [S1PR1](S1PR1) | 1 | Pararajalingam et al. 2020 |
27
-| [SMARCA4](SMARCA4) | 1 | Nadeu et al. 2020; Richter et al. 2012; Krysiak et al. 2017; Zhang et al. 2013 |
27
+| [SMARCA4](SMARCA4) | 1 | Richter et al. 2012; Krysiak et al. 2017; Zhang et al. 2013; Nadeu et al. 2020 |
28 28
| [SP140](SP140) | 1 | Beà et al. 2013 |
29 29
| [SYNE1](SYNE1) | 1 | Nadeu et al. 2020 |
30 30
| [TERT](TERT) | 1, noncoding | Nadeu et al. 2020 |
31
-| [TLR2](TLR2) | 1 | Chapuy et al. 2018; Beà et al. 2013 |
32
-| [TP53](TP53) | 1 | Wilda et al. 2004; Morin et al. 2011; Beà et al. 2013 |
31
+| [TLR2](TLR2) | 1 | Beà et al. 2013; Chapuy et al. 2018 |
32
+| [TP53](TP53) | 1 | Morin et al. 2011; Beà et al. 2013; Wilda et al. 2004 |
33 33
| [UBR5](UBR5) | 1 | Zhang et al. 2013; Pararajalingam et al. 2020 |
34 34
35 35
## Tier 2 MCL genes
... ...
@@ -43,7 +43,7 @@
43 43
| [ANK2](ANK2) | 2 | Zhang et al. 2014 |
44 44
| [ARID1B](ARID1B) | 2 | Reddy et al. 2017 |
45 45
| [ATP11C](ATP11C) | 2 | Zhang et al. 2014 |
46
-| [B2M](B2M) | 2 | Morin et al. 2011; Pararajalingam et al. 2020 |
46
+| [B2M](B2M) | 2 | Pararajalingam et al. 2020; Morin et al. 2011 |
47 47
| [BCOR](BCOR) | 2 | Nadeu et al. 2020 |
48 48
| [CDH8](CDH8) | 2 | Zhang et al. 2014 |
49 49
| [CHMP4C](CHMP4C) | 2 | Beà et al. 2013 |
... ...
@@ -63,7 +63,7 @@
63 63
| [HEPH](HEPH) | 2 | Zhang et al. 2014 |
64 64
| [KCNC2](KCNC2) | 2 | Beà et al. 2013 |
65 65
| [KIAA1671](KIAA1671) | 2 | Beà et al. 2013 |
66
-| [KMT2C](KMT2C) | 2 | Zhang et al. 2013; Zhang et al. 2014; Zhou et al. 2019 |
66
+| [KMT2C](KMT2C) | 2 | Zhang et al. 2014; Zhang et al. 2013; Zhou et al. 2019 |
67 67
| [LUZP4](LUZP4) | 2 | Beà et al. 2013 |
68 68
| [MRGPRF](MRGPRF) | 2 | Zhang et al. 2014 |
69 69
| [NIN](NIN) | 2 | Zhang et al. 2014 |