BL_genes.md
... ...
@@ -4,199 +4,203 @@
4 4
5 5
## Tier 1 BL genes
6 6
7
-| Gene | Tier | Relevant references |
8
-|:------------------:|:----:|:-------------------------------------------------------------:|
9
-| [ARID1A](ARID1A) | 1 | Love et al. 2012; Krysiak et al. 2017; Zhang et al. 2013 |
10
-| [BMP7](BMP7) | 1 | Panea et al. 2019 |
11
-| [CCND3](CCND3) | 1 | Morin et al. 2011; Richter et al. 2012 |
12
-| [CHD8](CHD8) | 1 | Grande et al. 2019; Reddy et al. 2017 |
13
-| [DDX3X](DDX3X) | 1 | Schmitz et al. 2012, 2018 |
14
-| [EIF4A1](EIF4A1) | 1 | Panea et al. 2019 |
15
-| [EPPK1](EPPK1) | 1 | Panea et al. 2019 |
16
-| [FBXO11](FBXO11) | 1 | Hübschmann et al. 2021; Richter et al. 2012 |
17
-| [FOXO1](FOXO1) | 1 | Schmitz et al. 2012; Morin et al. 2011 |
18
-| [GNA13](GNA13) | 1 | Love et al. 2012; Morin et al. 2011 |
19
-| [GNAI2](GNAI2) | 1 | Grande et al. 2019; Morin et al. 2013 |
20
-| [HNRNPU](HNRNPU) | 1a | Reddy et al. 2017; Panea et al. 2019 |
21
-| [ID3](ID3) | 1 | Schmitz et al. 2012; Richter et al. 2012 |
22
-| [KMT2D](KMT2D) | 1 | Morin et al. 2011; Grande et al. 2019 |
23
-| [MYC](MYC) | 1a | Johnston and Carroll 1992; L. Pasqualucci et al. 2001 |
24
-| [P2RY8](P2RY8) | 1 | Muppidi et al. 2014; Lohr et al. 2012 |
25
-| [PHF6](PHF6) | 1 | Reddy et al. 2017; Thomas et al. 2023 |
26
-| [PTEN](PTEN) | 1 | Love et al. 2012 |
27
-| [RFX7](RFX7) | 1 | Grande et al. 2019 |
28
-| [RHOA](RHOA) | 1 | Richter et al. 2012 |
29
-| [SIN3A](SIN3A) | 1 | Grande et al. 2019 |
30
-| [SMARCA4](SMARCA4) | 1 | Krysiak et al. 2017; Richter et al. 2012; Zhang et al. 2013 |
31
-| [TCF3](TCF3) | 1 | Schmitz et al. 2012 |
32
-| [TCL1A](TCL1A) | 1 | Grande et al. 2019 |
33
-| [TFAP4](TFAP4) | 1 | Grande et al. 2019 |
34
-| [TP53](TP53) | 1 | Morin et al. 2011; Wilda et al. 2004 |
35
-| [USP7](USP7) | 1 | Grande et al. 2019 |
36
-| [WNK1](WNK1) | 1 | Hübschmann et al. 2021; Thomas et al. 2023 |
7
+### *28 total*
8
+
9
+| Gene | Tier | Relevant references |
10
+|:------------------:|:-------:|:--------------------------------------------------------------------------------:|
11
+| [ARID1A](ARID1A) | 1 | Krysiak et al. 2017; Love et al. 2012; Zhang et al. 2013 |
12
+| [BMP7](BMP7) | 1 | Panea et al. 2019 |
13
+| [CCND3](CCND3) | 1 | Richter et al. 2012; Morin et al. 2011 |
14
+| [CHD8](CHD8) | 1 | Reddy et al. 2017; Grande et al. 2019 |
15
+| [DDX3X](DDX3X) | 1 | Schmitz et al. 2012, 2018 |
16
+| [EIF4A1](EIF4A1) | 1 | Panea et al. 2019 |
17
+| [EPPK1](EPPK1) | 1 | Panea et al. 2019 |
18
+| [FBXO11](FBXO11) | 1 | Hübschmann et al. 2021; Richter et al. 2012 |
19
+| [FOXO1](FOXO1) | 1 | Schmitz et al. 2012; Morin et al. 2011 |
20
+| [GNA13](GNA13) | 1 | Morin et al. 2011; Love et al. 2012 |
21
+| [GNAI2](GNAI2) | 1 | Morin et al. 2013; Grande et al. 2019 |
22
+| [HNRNPU](HNRNPU) | 1, aSHM | Panea et al. 2019; Reddy et al. 2017 |
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 |
25
+| [MYC](MYC) | 1, aSHM | Johnston and Carroll 1992; L. Pasqualucci et al. 2001 |
26
+| [P2RY8](P2RY8) | 1 | Lohr et al. 2012; Muppidi et al. 2014 |
27
+| [PHF6](PHF6) | 1 | Reddy et al. 2017; Thomas et al. 2023 |
28
+| [PTEN](PTEN) | 1 | Love et al. 2012 |
29
+| [RFX7](RFX7) | 1 | Grande et al. 2019 |
30
+| [RHOA](RHOA) | 1 | Richter et al. 2012 |
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 |
33
+| [TCF3](TCF3) | 1 | Schmitz et al. 2012 |
34
+| [TCL1A](TCL1A) | 1 | Grande et al. 2019 |
35
+| [TFAP4](TFAP4) | 1 | Grande et al. 2019 |
36
+| [TP53](TP53) | 1 | Morin et al. 2011; Wilda et al. 2004; Beà et al. 2013 |
37
+| [USP7](USP7) | 1 | Grande et al. 2019 |
38
+| [WNK1](WNK1) | 1 | Thomas et al. 2023; Hübschmann et al. 2021 |
37 39
38 40
## Tier 2 BL genes
39 41
40
-| Gene | Tier | Relevant references |
41
-|:----------------------:|:----:|:-------------------------------------------------------------------:|
42
-| [ACAD9](ACAD9) | 2 | Love et al. 2012 |
43
-| [ACE](ACE) | 2 | Love et al. 2012 |
44
-| [ADAMTS5](ADAMTS5) | 2 | Burkhardt et al. 2022 |
45
-| [ADNP](ADNP) | 2 | Burkhardt et al. 2022 |
46
-| [AGO4](AGO4) | 2 | Burkhardt et al. 2022 |
47
-| [ALPK2](ALPK2) | 2 | Panea et al. 2019 |
48
-| [ARHGEF1](ARHGEF1) | 2 | Muppidi et al. 2014 |
49
-| [ATP2C2](ATP2C2) | 2 | Love et al. 2012 |
50
-| [BACH2](BACH2) | 2a | Grande et al. 2019 |
51
-| [BCL2](BCL2) | 2a | Burkhardt et al. 2022; Morin et al. 2011; Tanaka et al. 1992 |
52
-| [BCL6](BCL6) | 2a | Love et al. 2012; Morin et al. 2011 |
53
-| [BCL7A](BCL7A) | 2a | Grande et al. 2019; Krysiak et al. 2017; Arthur et al. 2018 |
54
-| [BRAF](BRAF) | 2 | Love et al. 2012; Tiacci et al. 2011 |
55
-| [BRD4](BRD4) | 2 | Love et al. 2012 |
56
-| [BTG1](BTG1) | 2a | Morin et al. 2011; Burkhardt et al. 2022 |
57
-| [BTG2](BTG2) | 2a | Love et al. 2012; Morin et al. 2011 |
58
-| [C16orf48](C16orf48) | 2 | Schmitz et al. 2012 |
59
-| [C6orf27](C6orf27) | 2 | Love et al. 2012 |
60
-| [CAD](CAD) | 2 | Love et al. 2012 |
61
-| [CARD11](CARD11) | 2 | Lenz et al. 2008; Morin et al. 2011; Panea et al. 2019 |
62
-| [CARD4](CARD4) | 2 | Love et al. 2012 |
63
-| [CCNF](CCNF) | 2 | Abate et al. 2015 |
64
-| [CCT6B](CCT6B) | 2 | Love et al. 2012 |
65
-| [CD79A](CD79A) | 2 | Burkhardt et al. 2022 |
66
-| [CD79B](CD79B) | 2 | Morin et al. 2011; Panea et al. 2019 |
67
-| [CD83](CD83) | 2a | Morin et al. 2013; Panea et al. 2019; Russler-Germain et al. 2023 |
68
-| [CDC73](CDC73) | 2 | Reddy et al. 2017; Love et al. 2012 |
69
-| [CDH17](CDH17) | 2 | Love et al. 2012 |
70
-| [CDKN2A](CDKN2A) | 2 | Morin et al. 2013; Grande et al. 2019 |
71
-| [CDKN2C](CDKN2C) | 2 | Thomas et al. 2023 |
72
-| [CHD4](CHD4) | 2 | Burkhardt et al. 2022 |
73
-| [COL4A2](COL4A2) | 2 | Love et al. 2012 |
74
-| [CPXM2](CPXM2) | 2 | Burkhardt et al. 2022 |
75
-| [CREBBP](CREBBP) | 2 | Love et al. 2012; Laura Pasqualucci, Dominguez-Sola, et al. 2011 |
76
-| [CTCF](CTCF) | 2 | Panea et al. 2019 |
77
-| [CXCR4](CXCR4) | 2a | Krysiak et al. 2017; Khodabakhshi et al. 2012; Panea et al. 2019 |
78
-| [CYB5D1](CYB5D1) | 2 | Love et al. 2012 |
79
-| [CYP4F22](CYP4F22) | 2 | Love et al. 2012 |
80
-| [DHCR7](DHCR7) | 2 | Schmitz et al. 2012 |
81
-| [DLGAP1](DLGAP1) | 2 | Love et al. 2012 |
82
-| [DNMT1](DNMT1) | 2 | Panea et al. 2019 |
83
-| [DTX1](DTX1) | 2a | Panea et al. 2019; Schmitz et al. 2018 |
84
-| [E2F2](E2F2) | 2 | Burkhardt et al. 2022 |
85
-| [EBF1](EBF1) | 2a | Bohle et al. 2013; Thomas et al. 2023 |
86
-| [EDNRB](EDNRB) | 2 | Burkhardt et al. 2022 |
87
-| [EHD1](EHD1) | 2 | Thomas et al. 2023 |
88
-| [EIF2C4](EIF2C4) | 2 | Love et al. 2012 |
89
-| [ELP2](ELP2) | 2 | Schmitz et al. 2012 |
90
-| [EML2](EML2) | 2 | Love et al. 2012 |
91
-| [ENTPD3](ENTPD3) | 2 | Love et al. 2012 |
92
-| [EP300](EP300) | 2 | Laura Pasqualucci, Dominguez-Sola, et al. 2011; Panea et al. 2019 |
93
-| [EPHB2](EPHB2) | 2 | Love et al. 2012 |
94
-| [ERAP1](ERAP1) | 2 | Burkhardt et al. 2022 |
95
-| [ETS1](ETS1) | 2a | Panea et al. 2019; Morin et al. 2011 |
96
-| [EXOSC6](EXOSC6) | 2 | Schmitz et al. 2012 |
97
-| [EZH2](EZH2) | 2 | Morin et al. 2010; Love et al. 2012 |
98
-| [FAM129B](FAM129B) | 2 | Love et al. 2012 |
99
-| [FGFR3](FGFR3) | 2 | Love et al. 2012 |
100
-| [FLYWCH1](FLYWCH1) | 2 | Schmitz et al. 2012 |
101
-| [FTCD](FTCD) | 2 | Love et al. 2012 |
102
-| [FZD3](FZD3) | 2 | Panea et al. 2019 |
103
-| [GGTLA4](GGTLA4) | 2 | Love et al. 2012 |
104
-| [GRB2](GRB2) | 2 | Laura Pasqualucci, Trifonov, et al. 2011; Panea et al. 2019 |
105
-| [GRIK5](GRIK5) | 2 | Love et al. 2012 |
106
-| [GTSE1](GTSE1) | 2 | Schmitz et al. 2012 |
107
-| [HIST1H1C](HIST1H1C) | 2a | Panea et al. 2019; Morin et al. 2011 |
108
-| [HIST1H1E](HIST1H1E) | 2a | Morin et al. 2013; Grande et al. 2019; Krysiak et al. 2017 |
109
-| [HIST1H2AG](HIST1H2AG) | 2a | Morin et al. 2013; Krysiak et al. 2017; Panea et al. 2019 |
110
-| [HIST1H2AM](HIST1H2AM) | 2a | Panea et al. 2019; Krysiak et al. 2017 |
111
-| [HIST1H2BK](HIST1H2BK) | 2a | Panea et al. 2019 |
112
-| [HIST1H3D](HIST1H3D) | 2a | Panea et al. 2019 |
113
-| [HIST1H3H](HIST1H3H) | 2a | Panea et al. 2019 |
114
-| [HIST1H3I](HIST1H3I) | 2a | Panea et al. 2019; Krysiak et al. 2017 |
115
-| [HIST1H3J](HIST1H3J) | 2a | Panea et al. 2019 |
116
-| [HIST1H4J](HIST1H4J) | 2a | Panea et al. 2019 |
117
-| [HLA-A](HLA-A) | 2 | |
118
-| [HLA-B](HLA-B) | 2 | |
119
-| [HLA-DMB](HLA-DMB) | 2 | |
120
-| [HLA-DQB1](HLA-DQB1) | 2 | Burkhardt et al. 2022 |
121
-| [ICK](ICK) | 2 | Love et al. 2012 |
122
-| [IGLL5](IGLL5) | 2a | Russler-Germain et al. 2023; Panea et al. 2019 |
123
-| [IKZF3](IKZF3) | 2a | Panea et al. 2019; Morin et al. 2013 |
124
-| [IRF8](IRF8) | 2a | Panea et al. 2019; Morin et al. 2011 |
125
-| [ITPR3](ITPR3) | 2 | Love et al. 2012 |
126
-| [KANK2](KANK2) | 2 | Schmitz et al. 2012 |
127
-| [KCNK10](KCNK10) | 2 | Panea et al. 2019 |
128
-| [KIFC3](KIFC3) | 2 | Love et al. 2012 |
129
-| [KLHL26](KLHL26) | 2 | Burkhardt et al. 2022 |
130
-| [KLHL6](KLHL6) | 2a | Morin et al. 2011; Panea et al. 2019 |
131
-| [KMT2C](KMT2C) | 2 | Zhou et al. 2019; Zhang et al. 2013 |
132
-| [LTB](LTB) | 2a | Panea et al. 2019; Chapuy et al. 2018 |
133
-| [MAP3K6](MAP3K6) | 2 | Love et al. 2012 |
134
-| [MCL1](MCL1) | 2 | Panea et al. 2019; Reddy et al. 2017 |
135
-| [MIR142](MIR142) | 2a | Grande et al. 2019; Kwanhian et al. 2012 |
136
-| [MKI67](MKI67) | 2 | Russler-Germain et al. 2023; Schmitz et al. 2012 |
137
-| [MME](MME) | 2 | Panea et al. 2019 |
138
-| [MTOR](MTOR) | 2 | Zhang et al. 2013; Panea et al. 2019 |
139
-| [MYH10](MYH10) | 2 | Love et al. 2012 |
140
-| [MYO18A](MYO18A) | 2 | Schmitz et al. 2012 |
141
-| [NBEAL1](NBEAL1) | 2 | Love et al. 2012 |
142
-| [NCOR2](NCOR2) | 2 | Schmitz et al. 2012 |
143
-| [NOA1](NOA1) | 2 | Burkhardt et al. 2022 |
144
-| [NOTCH1](NOTCH1) | 2 | Laura Pasqualucci, Trifonov, et al. 2011; Love et al. 2012 |
145
-| [NOTCH2](NOTCH2) | 2 | Trøen et al. 2008; Panea et al. 2019 |
146
-| [NRXN2](NRXN2) | 2 | Love et al. 2012 |
147
-| [P2RY2](P2RY2) | 2 | Love et al. 2012 |
148
-| [PABPC4L](PABPC4L) | 2 | Panea et al. 2019 |
149
-| [PC](PC) | 2 | Love et al. 2012 |
150
-| [PCBP1](PCBP1) | 2 | Schmitz et al. 2012 |
151
-| [PCDHA11](PCDHA11) | 2 | Panea et al. 2019 |
152
-| [PDCD11](PDCD11) | 2 | Schmitz et al. 2012 |
153
-| [PDZRN3](PDZRN3) | 2 | Panea et al. 2019 |
154
-| [PIK3R1](PIK3R1) | 2 | Zhang et al. 2013; Panea et al. 2019 |
155
-| [PIM1](PIM1) | 2a | L. Pasqualucci et al. 2001; Burkhardt et al. 2022 |
156
-| [PLCG2](PLCG2) | 2 | Panea et al. 2019 |
157
-| [POLRMT](POLRMT) | 2 | Love et al. 2012 |
158
-| [POR](POR) | 2 | Love et al. 2012 |
159
-| [PPP6R2](PPP6R2) | 2 | Burkhardt et al. 2022 |
160
-| [PREX1](PREX1) | 2 | Burkhardt et al. 2022 |
161
-| [PRSS22](PRSS22) | 2 | Love et al. 2012 |
162
-| [PTPRN](PTPRN) | 2 | Love et al. 2012 |
163
-| [PXDNL](PXDNL) | 2 | Panea et al. 2019 |
164
-| [RAC2](RAC2) | 2 | Hübschmann et al. 2021; Panea et al. 2019 |
165
-| [RANBP6](RANBP6) | 2 | Love et al. 2012 |
166
-| [RBP3](RBP3) | 2 | Love et al. 2012 |
167
-| [RET](RET) | 2 | Love et al. 2012 |
168
-| [REV3L](REV3L) | 2 | Burkhardt et al. 2022 |
169
-| [RNF144B](RNF144B) | 2 | Panea et al. 2019 |
170
-| [RPL10](RPL10) | 2 | Burkhardt et al. 2022 |
171
-| [S1PR2](S1PR2) | 2a | Morin et al. 2011; Muppidi et al. 2014 |
172
-| [SAL3](SAL3) | 2 | Burkhardt et al. 2022 |
173
-| [SALL3](SALL3) | 2 | Love et al. 2012 |
174
-| [SAPS2](SAPS2) | 2 | Love et al. 2012 |
175
-| [SBF1](SBF1) | 2 | Love et al. 2012 |
176
-| [SF3B1](SF3B1) | 2 | Love et al. 2012 |
177
-| [SHANK1](SHANK1) | 2 | Love et al. 2012 |
178
-| [SLC29A2](SLC29A2) | 2 | Love et al. 2012 |
179
-| [SNTB2](SNTB2) | 2 | Panea et al. 2019 |
180
-| [SP3](SP3) | 2 | Panea et al. 2019 |
181
-| [SYNCRIP](SYNCRIP) | 2 | Panea et al. 2019 |
182
-| [SYNGAP1](SYNGAP1) | 2 | Love et al. 2012 |
183
-| [TBC1D9B](TBC1D9B) | 2 | Love et al. 2012 |
184
-| [TET2](TET2) | 2 | Albuquerque et al. 2017; Panea et al. 2019 |
185
-| [TIGD6](TIGD6) | 2 | Love et al. 2012 |
186
-| [TOP2A](TOP2A) | 2 | Schmitz et al. 2012 |
187
-| [TPST2](TPST2) | 2 | Love et al. 2012 |
188
-| [TTN](TTN) | 2 | Burkhardt et al. 2022 |
189
-| [VWA7](VWA7) | 2 | Burkhardt et al. 2022 |
190
-| [WDR7](WDR7) | 2 | Panea et al. 2019 |
191
-| [WDR90](WDR90) | 2 | Schmitz et al. 2012 |
192
-| [WHAMM](WHAMM) | 2 | Schmitz et al. 2012 |
193
-| [WNK2](WNK2) | 2 | Panea et al. 2019 |
194
-| [YY1AP1](YY1AP1) | 2 | Schmitz et al. 2012 |
195
-| [ZAN](ZAN) | 2 | Burkhardt et al. 2022 |
196
-| [ZBTB7A](ZBTB7A) | 2 | Burkhardt et al. 2022; Reddy et al. 2017 |
197
-| [ZFP36L1](ZFP36L1) | 2a | Morin et al. 2011; Panea et al. 2019 |
198
-| [ZNF229](ZNF229) | 2 | Love et al. 2012 |
199
-| [ZNF85](ZNF85) | 2 | Burkhardt et al. 2022 |
42
+### *158 total*
43
+
44
+| Gene | Tier | Relevant references |
45
+|:----------------------:|:-------:|:-----------------------------------------------------------------------------:|
46
+| [ACAD9](ACAD9) | 2 | Love et al. 2012 |
47
+| [ACE](ACE) | 2 | Love et al. 2012 |
48
+| [ADAMTS5](ADAMTS5) | 2 | Burkhardt et al. 2022 |
49
+| [ADNP](ADNP) | 2 | Burkhardt et al. 2022 |
50
+| [AGO4](AGO4) | 2 | Burkhardt et al. 2022 |
51
+| [ALPK2](ALPK2) | 2 | Panea et al. 2019 |
52
+| [ARHGEF1](ARHGEF1) | 2 | Muppidi et al. 2014 |
53
+| [ATP2C2](ATP2C2) | 2 | Love et al. 2012 |
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 |
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 |
59
+| [BRD4](BRD4) | 2 | Love et al. 2012 |
60
+| [BTG1](BTG1) | 2, aSHM | Burkhardt et al. 2022; Morin et al. 2011 |
61
+| [BTG2](BTG2) | 2, aSHM | Love et al. 2012; Morin et al. 2011 |
62
+| [C16orf48](C16orf48) | 2 | Schmitz et al. 2012 |
63
+| [C6orf27](C6orf27) | 2 | Love et al. 2012 |
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 |
66
+| [CARD4](CARD4) | 2 | Love et al. 2012 |
67
+| [CCNF](CCNF) | 2 | Abate et al. 2015 |
68
+| [CCT6B](CCT6B) | 2 | Love et al. 2012 |
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 |
72
+| [CDC73](CDC73) | 2 | Love et al. 2012; Reddy et al. 2017 |
73
+| [CDH17](CDH17) | 2 | Love et al. 2012 |
74
+| [CDKN2A](CDKN2A) | 2 | Morin et al. 2013; Grande et al. 2019 |
75
+| [CDKN2C](CDKN2C) | 2 | Thomas et al. 2023 |
76
+| [CHD4](CHD4) | 2 | Burkhardt et al. 2022 |
77
+| [COL4A2](COL4A2) | 2 | Love et al. 2012 |
78
+| [CPXM2](CPXM2) | 2 | Burkhardt et al. 2022 |
79
+| [CREBBP](CREBBP) | 2 | Love et al. 2012; Laura Pasqualucci, Dominguez-Sola, et al. 2011 |
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 |
82
+| [CYB5D1](CYB5D1) | 2 | Love et al. 2012 |
83
+| [CYP4F22](CYP4F22) | 2 | Love et al. 2012 |
84
+| [DHCR7](DHCR7) | 2 | Schmitz et al. 2012 |
85
+| [DLGAP1](DLGAP1) | 2 | Love et al. 2012 |
86
+| [DNMT1](DNMT1) | 2 | Panea et al. 2019 |
87
+| [DTX1](DTX1) | 2, aSHM | Schmitz et al. 2018; Panea et al. 2019 |
88
+| [E2F2](E2F2) | 2 | Burkhardt et al. 2022 |
89
+| [EBF1](EBF1) | 2, aSHM | Thomas et al. 2023; Bohle et al. 2013 |
90
+| [EDNRB](EDNRB) | 2 | Burkhardt et al. 2022 |
91
+| [EHD1](EHD1) | 2 | Thomas et al. 2023 |
92
+| [EIF2C4](EIF2C4) | 2 | Love et al. 2012 |
93
+| [ELP2](ELP2) | 2 | Schmitz et al. 2012 |
94
+| [EML2](EML2) | 2 | Love et al. 2012 |
95
+| [ENTPD3](ENTPD3) | 2 | Love et al. 2012 |
96
+| [EP300](EP300) | 2 | Laura Pasqualucci, Dominguez-Sola, et al. 2011; Panea et al. 2019 |
97
+| [EPHB2](EPHB2) | 2 | Love et al. 2012 |
98
+| [ERAP1](ERAP1) | 2 | Burkhardt et al. 2022 |
99
+| [ETS1](ETS1) | 2, aSHM | Panea et al. 2019; Morin et al. 2011 |
100
+| [EXOSC6](EXOSC6) | 2 | Schmitz et al. 2012 |
101
+| [EZH2](EZH2) | 2 | Love et al. 2012; Morin et al. 2010 |
102
+| [FAM129B](FAM129B) | 2 | Love et al. 2012 |
103
+| [FGFR3](FGFR3) | 2 | Love et al. 2012 |
104
+| [FLYWCH1](FLYWCH1) | 2 | Schmitz et al. 2012 |
105
+| [FTCD](FTCD) | 2 | Love et al. 2012 |
106
+| [FZD3](FZD3) | 2 | Panea et al. 2019 |
107
+| [GGTLA4](GGTLA4) | 2 | Love et al. 2012 |
108
+| [GRB2](GRB2) | 2 | Laura Pasqualucci, Trifonov, et al. 2011; Panea et al. 2019 |
109
+| [GRIK5](GRIK5) | 2 | Love et al. 2012 |
110
+| [GTSE1](GTSE1) | 2 | Schmitz et al. 2012 |
111
+| [HIST1H1C](HIST1H1C) | 2, aSHM | Panea et al. 2019; Morin et al. 2011 |
112
+| [HIST1H1E](HIST1H1E) | 2, aSHM | Morin et al. 2013; Grande et al. 2019; Krysiak et al. 2017 |
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 |
115
+| [HIST1H2BK](HIST1H2BK) | 2, aSHM | Panea et al. 2019 |
116
+| [HIST1H3D](HIST1H3D) | 2, aSHM | Panea et al. 2019 |
117
+| [HIST1H3H](HIST1H3H) | 2, aSHM | Panea et al. 2019 |
118
+| [HIST1H3I](HIST1H3I) | 2, aSHM | Panea et al. 2019; Krysiak et al. 2017 |
119
+| [HIST1H3J](HIST1H3J) | 2, aSHM | Panea et al. 2019 |
120
+| [HIST1H4J](HIST1H4J) | 2, aSHM | Panea et al. 2019 |
121
+| [HLA-A](HLA-A) | 2 | |
122
+| [HLA-B](HLA-B) | 2 | |
123
+| [HLA-DMB](HLA-DMB) | 2 | |
124
+| [HLA-DQB1](HLA-DQB1) | 2 | Burkhardt et al. 2022 |
125
+| [ICK](ICK) | 2 | Love et al. 2012 |
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 |
129
+| [ITPR3](ITPR3) | 2 | Love et al. 2012 |
130
+| [KANK2](KANK2) | 2 | Schmitz et al. 2012 |
131
+| [KCNK10](KCNK10) | 2 | Panea et al. 2019 |
132
+| [KIFC3](KIFC3) | 2 | Love et al. 2012 |
133
+| [KLHL26](KLHL26) | 2 | Burkhardt et al. 2022 |
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 |
137
+| [MAP3K6](MAP3K6) | 2 | Love et al. 2012 |
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 |
141
+| [MME](MME) | 2 | Panea et al. 2019 |
142
+| [MTOR](MTOR) | 2 | Zhang et al. 2013; Panea et al. 2019 |
143
+| [MYH10](MYH10) | 2 | Love et al. 2012 |
144
+| [MYO18A](MYO18A) | 2 | Schmitz et al. 2012 |
145
+| [NBEAL1](NBEAL1) | 2 | Love et al. 2012 |
146
+| [NCOR2](NCOR2) | 2 | Schmitz et al. 2012 |
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 |
150
+| [NRXN2](NRXN2) | 2 | Love et al. 2012 |
151
+| [P2RY2](P2RY2) | 2 | Love et al. 2012 |
152
+| [PABPC4L](PABPC4L) | 2 | Panea et al. 2019 |
153
+| [PC](PC) | 2 | Love et al. 2012 |
154
+| [PCBP1](PCBP1) | 2 | Schmitz et al. 2012 |
155
+| [PCDHA11](PCDHA11) | 2 | Panea et al. 2019 |
156
+| [PDCD11](PDCD11) | 2 | Schmitz et al. 2012 |
157
+| [PDZRN3](PDZRN3) | 2 | Panea et al. 2019 |
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 |
160
+| [PLCG2](PLCG2) | 2 | Panea et al. 2019 |
161
+| [POLRMT](POLRMT) | 2 | Love et al. 2012 |
162
+| [POR](POR) | 2 | Love et al. 2012 |
163
+| [PPP6R2](PPP6R2) | 2 | Burkhardt et al. 2022 |
164
+| [PREX1](PREX1) | 2 | Burkhardt et al. 2022 |
165
+| [PRSS22](PRSS22) | 2 | Love et al. 2012 |
166
+| [PTPRN](PTPRN) | 2 | Love et al. 2012 |
167
+| [PXDNL](PXDNL) | 2 | Panea et al. 2019 |
168
+| [RAC2](RAC2) | 2 | Hübschmann et al. 2021; Panea et al. 2019 |
169
+| [RANBP6](RANBP6) | 2 | Love et al. 2012 |
170
+| [RBP3](RBP3) | 2 | Love et al. 2012 |
171
+| [RET](RET) | 2 | Love et al. 2012 |
172
+| [REV3L](REV3L) | 2 | Burkhardt et al. 2022 |
173
+| [RNF144B](RNF144B) | 2 | Panea et al. 2019 |
174
+| [RPL10](RPL10) | 2 | Burkhardt et al. 2022 |
175
+| [S1PR2](S1PR2) | 2, aSHM | Morin et al. 2011; Muppidi et al. 2014 |
176
+| [SAL3](SAL3) | 2 | Burkhardt et al. 2022 |
177
+| [SALL3](SALL3) | 2 | Zhang et al. 2014; Love et al. 2012 |
178
+| [SAPS2](SAPS2) | 2 | Love et al. 2012 |
179
+| [SBF1](SBF1) | 2 | Love et al. 2012 |
180
+| [SF3B1](SF3B1) | 2 | Love et al. 2012 |
181
+| [SHANK1](SHANK1) | 2 | Love et al. 2012 |
182
+| [SLC29A2](SLC29A2) | 2 | Love et al. 2012 |
183
+| [SNTB2](SNTB2) | 2 | Panea et al. 2019 |
184
+| [SP3](SP3) | 2 | Panea et al. 2019 |
185
+| [SYNCRIP](SYNCRIP) | 2 | Panea et al. 2019 |
186
+| [SYNGAP1](SYNGAP1) | 2 | Love et al. 2012 |
187
+| [TBC1D9B](TBC1D9B) | 2 | Love et al. 2012 |
188
+| [TET2](TET2) | 2 | Panea et al. 2019; Albuquerque et al. 2017 |
189
+| [TIGD6](TIGD6) | 2 | Love et al. 2012 |
190
+| [TOP2A](TOP2A) | 2 | Schmitz et al. 2012 |
191
+| [TPST2](TPST2) | 2 | Love et al. 2012 |
192
+| [TTN](TTN) | 2 | Burkhardt et al. 2022 |
193
+| [VWA7](VWA7) | 2 | Burkhardt et al. 2022 |
194
+| [WDR7](WDR7) | 2 | Panea et al. 2019 |
195
+| [WDR90](WDR90) | 2 | Schmitz et al. 2012 |
196
+| [WHAMM](WHAMM) | 2 | Schmitz et al. 2012 |
197
+| [WNK2](WNK2) | 2 | Panea et al. 2019 |
198
+| [YY1AP1](YY1AP1) | 2 | Schmitz et al. 2012 |
199
+| [ZAN](ZAN) | 2 | Burkhardt et al. 2022 |
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 |
202
+| [ZNF229](ZNF229) | 2 | Love et al. 2012 |
203
+| [ZNF85](ZNF85) | 2 | Burkhardt et al. 2022 |
200 204
201 205
# References
202 206
... ...
@@ -232,6 +236,16 @@ class="nocase">B-cell</span> Lymphoma.” *Nature Communications* 9 1:
232 236
233 237
</div>
234 238
239
+<div id="ref-beaLandscapeSomaticMutations2013" class="csl-entry">
240
+
241
+Beà, Sílvia, Rafael Valdés-Mas, Alba Navarro, Itziar Salaverria, David
242
+Martín-Garcia, Pedro Jares, Eva Giné, et al. 2013. “Landscape of Somatic
243
+Mutations and Clonal Evolution in Mantle Cell Lymphoma.” *Proceedings of
244
+the National Academy of Sciences* 110 45: 18250–55.
245
+<https://doi.org/10.1073/pnas.1314608110>.
246
+
247
+</div>
248
+
235 249
<div id="ref-bohleRoleEarlyBcell2013" class="csl-entry">
236 250
237 251
Bohle, V., C. Döring, M.-L. Hansmann, and R. Küppers. 2013. “Role of
... ...
@@ -394,6 +408,16 @@ Germinal Center B Cell-Derived Lymphoma.” *Nature* 516: 254–58.
394 408
395 409
</div>
396 410
411
+<div id="ref-nadeuGenomicEpigenomicInsights2020b" class="csl-entry">
412
+
413
+Nadeu, F., D. Martín-García, G. Clot, A. Díaz-Navarro, M. Duran-Ferrer,
414
+A. Navarro, Roser Vilarrasa-Blasi, et al. 2020. “Genomic and Epigenomic
415
+Insights into the Origin, Pathogenesis and Clinical Behavior of Mantle
416
+Cell Lymphoma Subtypes.” *Blood*.
417
+<https://doi.org/10.1182/blood.2020005289>.
418
+
419
+</div>
420
+
397 421
<div id="ref-paneaWholeGenomeLandscape2019" class="csl-entry">
398 422
399 423
Panea, R., C. Love, Jennifer R. Shingleton, Anupama Reddy, J. Bailey, A.
... ...
@@ -531,6 +555,16 @@ Lymphoma in Children.” *Leukemia* 18 3: 584–88.
531 555
532 556
</div>
533 557
558
+<div id="ref-wuGeneticHeterogeneityPrimary2016" class="csl-entry">
559
+
560
+Wu, Chenglin, Noel Fcc de Miranda, Longyun Chen, Agata M. Wasik, Larry
561
+Mansouri, Wojciech Jurczak, Krystyna Galazka, et al. 2016. “Genetic
562
+Heterogeneity in Primary and Relapsed Mantle Cell Lymphomas: Impact of
563
+Recurrent CARD11 Mutations.” *Oncotarget* 7 25: 38180–90.
564
+<https://doi.org/10.18632/oncotarget.9500>.
565
+
566
+</div>
567
+
534 568
<div id="ref-zhangGeneticHeterogeneityDiffuse2013" class="csl-entry">
535 569
536 570
Zhang, Jenny, Vladimir Grubor, Cassandra L Love, Anjishnu Banerjee,
... ...
@@ -540,6 +574,16 @@ class="nocase">B-cell</span> Lymphoma.” January.
540 574
541 575
</div>
542 576
577
+<div id="ref-zhangGenomicLandscapeMantle2014" class="csl-entry">
578
+
579
+Zhang, Jenny, Dereje Jima, Andrea B. Moffitt, Qingquan Liu, Magdalena
580
+Czader, Eric D. Hsi, Yuri Fedoriw, et al. 2014. “The Genomic Landscape
581
+of Mantle Cell Lymphoma Is Related to the Epigenetically Determined
582
+Chromatin State of Normal B Cells.” *Blood* 123 19: 2988–96.
583
+<https://doi.org/10.1182/blood-2013-07-517177>.
584
+
585
+</div>
586
+
543 587
<div id="ref-zhouSporadicEndemicBurkitt2019" class="csl-entry">
544 588
545 589
Zhou, Peixun, Alex E. Blain, Alexander M. Newman, Masood Zaka, George
DLBCL_genes.md
... ...
@@ -4,42 +4,42 @@
4 4
5 5
## Tier 1 DLBCL genes
6 6
7
-### *141 total*
7
+### *140 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 | Zhang et al. 2013; Krysiak et al. 2017; Love et al. 2012 |
13
+| [ARID1A](ARID1A) | 1 | Krysiak et al. 2017; Zhang et al. 2013; Love et al. 2012 |
14 14
| [ATM](ATM) | 1 | Beà et al. 2013; Reddy et al. 2017 |
15 15
| [B2M](B2M) | 1 | Pararajalingam et al. 2020; Morin et al. 2011 |
16
-| [BCL10](BCL10) | 1 | Morin et al. 2011; Russler-Germain et al. 2023 |
17
-| [BCL2](BCL2) | 1, aSHM | Burkhardt et al. 2022; Morin et al. 2011; Tanaka et al. 1992 |
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 |
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 20
| [BCR](BCR) | 1 | |
21 21
| [BIRC6](BIRC6) | 1 | Reddy et al. 2017 |
22
-| [BRAF](BRAF) | 1 | Love et al. 2012; Tiacci et al. 2011 |
22
+| [BRAF](BRAF) | 1 | Tiacci et al. 2011; Love et al. 2012 |
23 23
| [BTG1](BTG1) | 1, aSHM | Burkhardt et al. 2022; Morin et al. 2011 |
24 24
| [BTG2](BTG2) | 1, aSHM | Love et al. 2012; Morin et al. 2011 |
25 25
| [BTK](BTK) | 1 | Krysiak et al. 2017; Albuquerque et al. 2017 |
26
-| [CARD11](CARD11) | 1 | Wu et al. 2016; Morin et al. 2011; Lenz et al. 2008; Panea et al. 2019 |
26
+| [CARD11](CARD11) | 1 | Morin et al. 2011; Lenz et al. 2008; Wu et al. 2016; Panea et al. 2019 |
27 27
| [CASP8](CASP8) | 1 | Reddy et al. 2017 |
28 28
| [CCND3](CCND3) | 1 | Morin et al. 2011; Richter et al. 2012 |
29 29
| [CD274](CD274) | 1 | Morin et al. 2011 |
30 30
| [CD36](CD36) | 1 | Laura Pasqualucci, Trifonov, et al. 2011 |
31 31
| [CD58](CD58) | 1 | Morin et al. 2011 |
32
-| [CD70](CD70) | 1 | Morin et al. 2011; Russler-Germain et al. 2023 |
33
-| [CD79B](CD79B) | 1 | Panea et al. 2019; Morin et al. 2011 |
34
-| [CD83](CD83) | 1, aSHM | Morin et al. 2013; Russler-Germain et al. 2023; Panea et al. 2019 |
35
-| [CDKN2A](CDKN2A) | 1 | Morin et al. 2013; Grande et al. 2019 |
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 |
36 36
| [CIITA](CIITA) | 1, aSHM | Morin et al. 2011 |
37 37
| [CREBBP](CREBBP) | 1 | Love et al. 2012; Laura Pasqualucci, Dominguez-Sola, et al. 2011 |
38
-| [CXCR4](CXCR4) | 1, aSHM | Panea et al. 2019; Khodabakhshi et al. 2012; Krysiak et al. 2017 |
38
+| [CXCR4](CXCR4) | 1, aSHM | Krysiak et al. 2017; Khodabakhshi et al. 2012; Panea et al. 2019 |
39 39
| [CXCR5](CXCR5) | 1 | Schmitz et al. 2018 |
40 40
| [DAZAP1](DAZAP1) | 1 | Pararajalingam et al. 2020 |
41 41
| [DDX3X](DDX3X) | 1 | Schmitz et al. 2012, 2018 |
42
-| [DTX1](DTX1) | 1, aSHM | Schmitz et al. 2018; Panea et al. 2019 |
42
+| [DTX1](DTX1) | 1, aSHM | Panea et al. 2019; Schmitz et al. 2018 |
43 43
| [DUSP2](DUSP2) | 1, aSHM | Morin et al. 2013 |
44 44
| [EBF1](EBF1) | 1, aSHM | Bohle et al. 2013; Thomas et al. 2023 |
45 45
| [EEF1A1](EEF1A1) | 1 | Hübschmann et al. 2021 |
... ...
@@ -50,10 +50,10 @@
50 50
| [FAS](FAS) | 1 | Scholl et al. 2007 |
51 51
| [FBXO11](FBXO11) | 1 | Hübschmann et al. 2021; Richter et al. 2012 |
52 52
| [FBXW7](FBXW7) | 1 | Zhang et al. 2013 |
53
-| [FOXO1](FOXO1) | 1 | Morin et al. 2011; Schmitz et al. 2012 |
54
-| [GNA13](GNA13) | 1 | Morin et al. 2011; Love et al. 2012 |
53
+| [FOXO1](FOXO1) | 1 | Schmitz et al. 2012; Morin et al. 2011 |
54
+| [GNA13](GNA13) | 1 | Love et al. 2012; Morin et al. 2011 |
55 55
| [GNAI2](GNAI2) | 1 | Grande et al. 2019; Morin et al. 2013 |
56
-| [GRB2](GRB2) | 1 | Panea et al. 2019; Laura Pasqualucci, Trifonov, et al. 2011 |
56
+| [GRB2](GRB2) | 1 | Laura Pasqualucci, Trifonov, et al. 2011; Panea et al. 2019 |
57 57
| [GRHPR](GRHPR) | 1, aSHM | Arthur et al. 2018 |
58 58
| [HIST1H1B](HIST1H1B) | 1, aSHM | Krysiak et al. 2017; Chapuy et al. 2018 |
59 59
| [HIST1H1C](HIST1H1C) | 1, aSHM | Panea et al. 2019; Morin et al. 2011 |
... ...
@@ -61,7 +61,7 @@
61 61
| [HIST1H1E](HIST1H1E) | 1, aSHM | Krysiak et al. 2017; Grande et al. 2019; Morin et al. 2013 |
62 62
| [HIST1H2AC](HIST1H2AC) | 1, aSHM | Morin et al. 2013; Krysiak et al. 2017 |
63 63
| [HIST1H2AM](HIST1H2AM) | 1, aSHM | Krysiak et al. 2017; Panea et al. 2019 |
64
-| [HIST1H2BC](HIST1H2BC) | 1, aSHM | Krysiak et al. 2017; Reddy et al. 2017 |
64
+| [HIST1H2BC](HIST1H2BC) | 1, aSHM | Reddy et al. 2017; Krysiak et al. 2017 |
65 65
| [HIST1H2BK](HIST1H2BK) | 1, aSHM | Panea et al. 2019 |
66 66
| [HIST1H3B](HIST1H3B) | 1, aSHM | Zhang et al. 2013 |
67 67
| [HIST2H2BE](HIST2H2BE) | 1, aSHM | Schmitz et al. 2018 |
... ...
@@ -74,46 +74,45 @@
74 74
| [IKZF3](IKZF3) | 1 | Morin et al. 2013; Panea et al. 2019 |
75 75
| [IL4R](IL4R) | 1, aSHM | Duns et al. 2021 |
76 76
| [IRF4](IRF4) | 1, aSHM | Morin et al. 2011 |
77
-| [IRF8](IRF8) | 1, aSHM | Panea et al. 2019; Morin et al. 2011 |
77
+| [IRF8](IRF8) | 1, aSHM | Morin et al. 2011; Panea et al. 2019 |
78 78
| [ITPKB](ITPKB) | 1, aSHM | Schmitz et al. 2018 |
79 79
| [JUNB](JUNB) | 1 | Reddy et al. 2017 |
80 80
| [KLF2](KLF2) | 1, aSHM | Laura Pasqualucci, Trifonov, et al. 2011 |
81 81
| [KLHL14](KLHL14) | 1 | Zhang et al. 2013 |
82
-| [KLHL6](KLHL6) | 1, aSHM | Panea et al. 2019; Morin et al. 2011 |
83
-| [KMT2C](KMT2C) | 1 | Zhang et al. 2013; Zhang et al. 2014; Zhou et al. 2019 |
84
-| [KMT2D](KMT2D) | 1 | Beà et al. 2013; Grande et al. 2019; Morin et al. 2011 |
82
+| [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 |
84
+| [KMT2D](KMT2D) | 1 | Grande et al. 2019; Beà et al. 2013; Morin et al. 2011 |
85 85
| [KRAS](KRAS) | 1 | Lohr et al. 2012 |
86 86
| [LCOR](LCOR) | 1 | Arthur et al. 2018 |
87 87
| [LTB](LTB) | 1, aSHM | Panea et al. 2019; Chapuy et al. 2018 |
88 88
| [MCL1](MCL1) | 1 | Reddy et al. 2017; Panea et al. 2019 |
89
-| [MEF2B](MEF2B) | 1, aSHM | Morin et al. 2011; Beà et al. 2013 |
89
+| [MEF2B](MEF2B) | 1, aSHM | Beà et al. 2013; Morin et al. 2011 |
90 90
| [MEF2C](MEF2C) | 1, aSHM | Arthur et al. 2018 |
91 91
| [MGA](MGA) | 1 | Zhang et al. 2013 |
92 92
| [MPEG1](MPEG1) | 1 | Morin et al. 2013 |
93 93
| [MS4A1](MS4A1) | 1, aSHM | Rushton et al. 2020 |
94
-| [MTOR](MTOR) | 1 | Panea et al. 2019; Zhang et al. 2013 |
95
-| [MYC](MYC) | 1, aSHM | L. Pasqualucci et al. 2001; Johnston and Carroll 1992 |
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 |
96 96
| [MYD88](MYD88) | 1 | Ngo et al. 2011 |
97 97
| [MYOM2](MYOM2) | 1 | Laura Pasqualucci, Trifonov, et al. 2011 |
98
-| [NFKBIA](NFKBIA) | 1 | Russler-Germain et al. 2023; Lake et al. 2009 |
98
+| [NFKBIA](NFKBIA) | 1 | Lake et al. 2009; Russler-Germain et al. 2023 |
99 99
| [NFKBIE](NFKBIE) | 1 | Morin et al. 2016; Pararajalingam et al. 2020 |
100 100
| [NFKBIZ](NFKBIZ) | 1, noncoding | Morin et al. 2016 |
101
-| [NLRC5](NLRC5) | 1 | |
102 101
| [NOL9](NOL9) | 1 | Schmitz et al. 2018 |
103
-| [NOTCH1](NOTCH1) | 1 | Love et al. 2012; Laura Pasqualucci, Trifonov, et al. 2011; Beà et al. 2013 |
104
-| [NOTCH2](NOTCH2) | 1 | Panea et al. 2019; Trøen et al. 2008; Beà et al. 2013 |
102
+| [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 |
105 104
| [OSBPL10](OSBPL10) | 1, aSHM | Arthur et al. 2018 |
106
-| [P2RY8](P2RY8) | 1 | Muppidi et al. 2014; Lohr et al. 2012 |
105
+| [P2RY8](P2RY8) | 1 | Lohr et al. 2012; Muppidi et al. 2014 |
107 106
| [PCBP1](PCBP1) | 1 | Schmitz et al. 2012 |
108
-| [PIM1](PIM1) | 1, aSHM | L. Pasqualucci et al. 2001; Burkhardt et al. 2022 |
107
+| [PIM1](PIM1) | 1, aSHM | Burkhardt et al. 2022; L. Pasqualucci et al. 2001 |
109 108
| [PIM2](PIM2) | 1, aSHM | Arthur et al. 2018 |
110 109
| [POU2AF1](POU2AF1) | 1, aSHM | Krysiak et al. 2017 |
111
-| [POU2F2](POU2F2) | 1 | Krysiak et al. 2017; Zhang et al. 2013 |
110
+| [POU2F2](POU2F2) | 1 | Zhang et al. 2013; Krysiak et al. 2017 |
112 111
| [PRDM1](PRDM1) | 1 | Laura Pasqualucci et al. 2006 |
113 112
| [PRKDC](PRKDC) | 1 | Hübschmann et al. 2021; Schmitz et al. 2018 |
114 113
| [PTEN](PTEN) | 1 | Love et al. 2012 |
115 114
| [PTPRD](PTPRD) | 1 | |
116
-| [RB1](RB1) | 1 | Morin et al. 2013; Zhang et al. 2014 |
115
+| [RB1](RB1) | 1 | Zhang et al. 2014; Morin et al. 2013 |
117 116
| [RFX7](RFX7) | 1 | Grande et al. 2019 |
118 117
| [RFXAP](RFXAP) | 1 | |
119 118
| [RHOA](RHOA) | 1 | Richter et al. 2012 |
... ...
@@ -123,20 +122,20 @@
123 122
| [SF3B1](SF3B1) | 1 | Love et al. 2012 |
124 123
| [SGK1](SGK1) | 1, aSHM | Morin et al. 2011 |
125 124
| [SIN3A](SIN3A) | 1 | Grande et al. 2019 |
126
-| [SMARCA4](SMARCA4) | 1 | Zhang et al. 2013; Krysiak et al. 2017; Richter et al. 2012; Nadeu et al. 2020 |
125
+| [SMARCA4](SMARCA4) | 1 | Zhang et al. 2013; Richter et al. 2012; Nadeu et al. 2020; Krysiak et al. 2017 |
127 126
| [SOCS1](SOCS1) | 1, aSHM | Morin et al. 2011 |
128 127
| [SPEN](SPEN) | 1 | Rossi et al. 2012 |
129 128
| [STAT3](STAT3) | 1 | Ohgami et al. 2014 |
130 129
| [STAT6](STAT6) | 1 | Yildiz et al. 2015 |
131 130
| [TAF1](TAF1) | 1 | Morin et al. 2013 |
132 131
| [TBL1XR1](TBL1XR1) | 1 | Mareschal et al. 2016 |
133
-| [TET2](TET2) | 1 | Panea et al. 2019; Albuquerque et al. 2017 |
132
+| [TET2](TET2) | 1 | Albuquerque et al. 2017; Panea et al. 2019 |
134 133
| [TMEM30A](TMEM30A) | 1 | Morin et al. 2011 |
135 134
| [TMSB4X](TMSB4X) | 1, aSHM | Albuquerque et al. 2017 |
136 135
| [TNFAIP3](TNFAIP3) | 1 | Compagno et al. 2009 |
137 136
| [TNFRSF14](TNFRSF14) | 1 | Cheung et al. 2010 |
138 137
| [TOX](TOX) | 1 | Reddy et al. 2017 |
139
-| [TP53](TP53) | 1 | Beà et al. 2013; Wilda et al. 2004; Morin et al. 2011 |
138
+| [TP53](TP53) | 1 | Wilda et al. 2004; Morin et al. 2011; Beà et al. 2013 |
140 139
| [TRIP12](TRIP12) | 1 | |
141 140
| [TRRAP](TRRAP) | 1 | Parry et al. 2013 |
142 141
| [UBE2A](UBE2A) | 1 | Reddy et al. 2017 |
... ...
@@ -146,13 +145,13 @@
146 145
| [WEE1](WEE1) | 1 | Schmitz et al. 2018 |
147 146
| [XPO1](XPO1) | 1 | Mareschal et al. 2016 |
148 147
| [ZC3H12A](ZC3H12A) | 1 | Arthur et al. 2018 |
149
-| [ZFP36L1](ZFP36L1) | 1, aSHM | Morin et al. 2011; Panea et al. 2019 |
148
+| [ZFP36L1](ZFP36L1) | 1, aSHM | Panea et al. 2019; Morin et al. 2011 |
150 149
| [ZNF292](ZNF292) | 1 | Zhang et al. 2013 |
151 150
| [ZNF608](ZNF608) | 1 | Zhang et al. 2013; Krysiak et al. 2017 |
152 151
153 152
## Tier 2 DLBCL genes
154 153
155
-### *185 total*
154
+### *186 total*
156 155
157 156
| Gene | Tier | Relevant references |
158 157
|:----------------------:|:------------:|:-----------------------------------------------------------:|
... ...
@@ -166,7 +165,7 @@
166 165
| [ATR](ATR) | 2 | Reddy et al. 2017 |
167 166
| [BCL11A](BCL11A) | 2, aSHM | |
168 167
| [BCOR](BCOR) | 2 | Nadeu et al. 2020 |
169
-| [BIRC3](BIRC3) | 2, aSHM | Arthur et al. 2018; Beà et al. 2013 |
168
+| [BIRC3](BIRC3) | 2, aSHM | Beà et al. 2013; Arthur et al. 2018 |
170 169
| [BLK](BLK) | 2, aSHM | |
171 170
| [BRINP3](BRINP3) | 2 | Reddy et al. 2017 |
172 171
| [BTBD3](BTBD3) | 2 | Reddy et al. 2017 |
... ...
@@ -176,10 +175,10 @@
176 175
| [CD22](CD22) | 2 | Reddy et al. 2017 |
177 176
| [CD44](CD44) | 2, aSHM | Arthur et al. 2018 |
178 177
| [CD74](CD74) | 2, aSHM | Arthur et al. 2018 |
179
-| [CDC73](CDC73) | 2 | Reddy et al. 2017; Love et al. 2012 |
178
+| [CDC73](CDC73) | 2 | Love et al. 2012; Reddy et al. 2017 |
180 179
| [CDH9](CDH9) | 2 | Morin et al. 2013 |
181 180
| [CHD1](CHD1) | 2 | Reddy et al. 2017 |
182
-| [CHD8](CHD8) | 2 | Reddy et al. 2017; Grande et al. 2019 |
181
+| [CHD8](CHD8) | 2 | Grande et al. 2019; Reddy et al. 2017 |
183 182
| [CHST2](CHST2) | 2 | Reddy et al. 2017 |
184 183
| [CNOT2](CNOT2) | 2 | Hübschmann et al. 2021 |
185 184
| [CNTNAP5](CNTNAP5) | 2 | Morin et al. 2013 |
... ...
@@ -214,14 +213,14 @@
214 213
| [GPC5](GPC5) | 2 | Schmitz et al. 2018 |
215 214
| [GSG2](GSG2) | 2 | Schmitz et al. 2018 |
216 215
| [HDAC7](HDAC7) | 2 | Morin et al. 2013 |
217
-| [HIST1H2AG](HIST1H2AG) | 2 | Panea et al. 2019; Krysiak et al. 2017; Morin et al. 2013 |
216
+| [HIST1H2AG](HIST1H2AG) | 2 | Krysiak et al. 2017; Morin et al. 2013; Panea et al. 2019 |
218 217
| [HLA-DMA](HLA-DMA) | 2 | |
219 218
| [HLA-DQA1](HLA-DQA1) | 2 | Hübschmann et al. 2021 |
220 219
| [HNF1B](HNF1B) | 2 | Laura Pasqualucci, Trifonov, et al. 2011 |
221 220
| [HNRNPD](HNRNPD) | 2 | |
222 221
| [HNRNPH1](HNRNPH1) | 2, noncoding | Pararajalingam et al. 2020 |
223 222
| [HRAS](HRAS) | 2 | Reddy et al. 2017 |
224
-| [ID3](ID3) | 2 | Schmitz et al. 2012; Richter et al. 2012 |
223
+| [ID3](ID3) | 2 | Richter et al. 2012; Schmitz et al. 2012 |
225 224
| [IER2](IER2) | 2 | Morin et al. 2013 |
226 225
| [IFNGR1](IFNGR1) | 2 | Morin et al. 2013 |
227 226
| [IGLL5](IGLL5) | 2, aSHM | Russler-Germain et al. 2023; Panea et al. 2019 |
... ...
@@ -245,7 +244,7 @@
245 244
| [LYN](LYN) | 2 | Chapuy et al. 2018 |
246 245
| [MAGT1](MAGT1) | 2 | Reddy et al. 2017 |
247 246
| [MALAT1](MALAT1) | 2, aSHM | Arthur et al. 2018 |
248
-| [MAP2K1](MAP2K1) | 2 | Louissaint et al. 2016; Shin et al. 2015 |
247
+| [MAP2K1](MAP2K1) | 2 | Shin et al. 2015; Louissaint et al. 2016 |
249 248
| [MAP4K4](MAP4K4) | 2 | Reddy et al. 2017 |
250 249
| [MARK1](MARK1) | 2 | Reddy et al. 2017 |
251 250
| [MECOM](MECOM) | 2 | Reddy et al. 2017 |
... ...
@@ -268,6 +267,7 @@
268 267
| [NF1](NF1) | 2 | Reddy et al. 2017 |
269 268
| [NFKB1](NFKB1) | 2 | |
270 269
| [NFKB2](NFKB2) | 2 | Reddy et al. 2017 |
270
+| [NLRC5](NLRC5) | 2 | |
271 271
| [NLRP5](NLRP5) | 2 | Morin et al. 2013 |
272 272
| [NLRP8](NLRP8) | 2 | Chapuy et al. 2018 |
273 273
| [ODZ3](ODZ3) | 2 | Morin et al. 2013 |
... ...
@@ -279,7 +279,7 @@
279 279
| [PCLO](PCLO) | 2 | Lohr et al. 2012 |
280 280
| [PDE4DIP](PDE4DIP) | 2 | Chapuy et al. 2018 |
281 281
| [PDS5B](PDS5B) | 2 | Morin et al. 2013; Hübschmann et al. 2021 |
282
-| [PHF6](PHF6) | 2 | Reddy et al. 2017; Thomas et al. 2023 |
282
+| [PHF6](PHF6) | 2 | Thomas et al. 2023; Reddy et al. 2017 |
283 283
| [PIK3CD](PIK3CD) | 2 | Reddy et al. 2017 |
284 284
| [PIK3R1](PIK3R1) | 2 | Zhang et al. 2013; Panea et al. 2019 |
285 285
| [PKD1](PKD1) | 2 | Morin et al. 2013 |
... ...
@@ -293,7 +293,7 @@
293 293
| [PTPN23](PTPN23) | 2 | Morin et al. 2013 |
294 294
| [PTPN6](PTPN6) | 2 | Reddy et al. 2017 |
295 295
| [PTPRK](PTPRK) | 2 | Reddy et al. 2017 |
296
-| [RAC2](RAC2) | 2 | Hübschmann et al. 2021; Panea et al. 2019 |
296
+| [RAC2](RAC2) | 2 | Panea et al. 2019; Hübschmann et al. 2021 |
297 297
| [RAD9A](RAD9A) | 2 | Chapuy et al. 2018 |
298 298
| [RARA](RARA) | 2 | Reddy et al. 2017 |
299 299
| [RCC](RCC) | 2, aSHM | |
... ...
@@ -322,11 +322,11 @@
322 322
| [TCL1A](TCL1A) | 2, aSHM | Grande et al. 2019 |
323 323
| [TGFBR2](TGFBR2) | 2 | Reddy et al. 2017 |
324 324
| [TIPARP](TIPARP) | 2 | Reddy et al. 2017 |
325
-| [TLR2](TLR2) | 2 | Beà et al. 2013; Chapuy et al. 2018 |
325
+| [TLR2](TLR2) | 2 | Chapuy et al. 2018; Beà et al. 2013 |
326 326
| [TRAF3](TRAF3) | 2 | Laura Pasqualucci, Trifonov, et al. 2011 |
327 327
| [TRAF6](TRAF6) | 2 | Hübschmann et al. 2021 |
328 328
| [UBE2J1](UBE2J1) | 2, aSHM | |
329
-| [UBR5](UBR5) | 2 | Pararajalingam et al. 2020; Zhang et al. 2013 |
329
+| [UBR5](UBR5) | 2 | Zhang et al. 2013; Pararajalingam et al. 2020 |
330 330
| [UNC5B](UNC5B) | 2 | Hübschmann et al. 2021 |
331 331
| [UNC5D](UNC5D) | 2 | |
332 332
| [WAC](WAC) | 2 | Reddy et al. 2017 |
... ...
@@ -334,7 +334,7 @@
334 334
| [WNK1](WNK1) | 2 | Thomas et al. 2023; Hübschmann et al. 2021 |
335 335
| [XBP1](XBP1) | 2, aSHM | |
336 336
| [YY1](YY1) | 2 | Reddy et al. 2017 |
337
-| [ZBTB7A](ZBTB7A) | 2 | Reddy et al. 2017; Burkhardt et al. 2022 |
337
+| [ZBTB7A](ZBTB7A) | 2 | Burkhardt et al. 2022; Reddy et al. 2017 |
338 338
| [ZCCHC7](ZCCHC7) | 2, aSHM | Arthur et al. 2018 |
339 339
| [ZEB2](ZEB2) | 2 | Zhang et al. 2013 |
340 340
| [ZFAT](ZFAT) | 2 | Reddy et al. 2017 |
FL_genes.md
... ...
@@ -0,0 +1,606 @@
1
+# FL genes
2
+
3
+## Origins of FL genes![sankey](FL_sankey-1.svg)
4
+
5
+## Tier 1 FL genes
6
+
7
+### *66 total*
8
+
9
+| Gene | Tier | Relevant references |
10
+|:----------------------:|:-------:|:--------------------------------------------------------------------------------:|
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 |
13
+| [ATP6AP1](ATP6AP1) | 1 | Okosun et al. 2016 |
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 |
17
+| [BCL6](BCL6) | 1, aSHM | Love et al. 2012; Morin et al. 2011 |
18
+| [BCL7A](BCL7A) | 1, aSHM | Krysiak et al. 2017; Grande et al. 2019; Arthur et al. 2018 |
19
+| [BIRC6](BIRC6) | 1 | Reddy et al. 2017 |
20
+| [BTG1](BTG1) | 1, aSHM | Morin et al. 2011; Burkhardt et al. 2022 |
21
+| [BTG2](BTG2) | 1, aSHM | Love et al. 2012; Morin et al. 2011 |
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 |
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 |
27
+| [CTSS](CTSS) | 1 | Bararia et al. 2020 |
28
+| [DTX1](DTX1) | 1, aSHM | Panea et al. 2019; Schmitz et al. 2018 |
29
+| [EBF1](EBF1) | 1, aSHM | Bohle et al. 2013; Thomas et al. 2023 |
30
+| [EEF1A1](EEF1A1) | 1 | Hübschmann et al. 2021 |
31
+| [EP300](EP300) | 1 | Laura Pasqualucci, Dominguez-Sola, et al. 2011; Panea et al. 2019 |
32
+| [EZH2](EZH2) | 1 | Morin et al. 2010; Love et al. 2012 |
33
+| [FAS](FAS) | 1 | Scholl et al. 2007 |
34
+| [FOXO1](FOXO1) | 1 | Morin et al. 2011; Schmitz et al. 2012 |
35
+| [GNA13](GNA13) | 1 | Love et al. 2012; Morin et al. 2011 |
36
+| [GNAI2](GNAI2) | 1 | Morin et al. 2013; Grande et al. 2019 |
37
+| [HIST1H1B](HIST1H1B) | 1, aSHM | Chapuy et al. 2018; Krysiak et al. 2017 |
38
+| [HIST1H1C](HIST1H1C) | 1, aSHM | Morin et al. 2011; Panea et al. 2019 |
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 |
42
+| [HIST1H2AG](HIST1H2AG) | 1, aSHM | Morin et al. 2013; Panea et al. 2019; Krysiak et al. 2017 |
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 |
45
+| [HIST1H2BD](HIST1H2BD) | 1, aSHM | Krysiak et al. 2017 |
46
+| [HIST1H2BG](HIST1H2BG) | 1, aSHM | Krysiak et al. 2017 |
47
+| [HIST1H3B](HIST1H3B) | 1, aSHM | Zhang et al. 2013 |
48
+| [HIST1H3G](HIST1H3G) | 1, aSHM | Krysiak et al. 2017 |
49
+| [HVCN1](HVCN1) | 1 | Krysiak et al. 2017 |
50
+| [IRF4](IRF4) | 1, aSHM | Morin et al. 2011 |
51
+| [IRF8](IRF8) | 1, aSHM | Morin et al. 2011; Panea et al. 2019 |
52
+| [ITPKB](ITPKB) | 1 | Schmitz et al. 2018 |
53
+| [KLF2](KLF2) | 1, aSHM | Laura Pasqualucci, Trifonov, et al. 2011 |
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 |
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 |
58
+| [MEF2B](MEF2B) | 1, aSHM | Beà et al. 2013; Morin et al. 2011 |
59
+| [MEF2C](MEF2C) | 1, aSHM | Arthur et al. 2018 |
60
+| [PCLO](PCLO) | 1 | Lohr et al. 2012 |
61
+| [PIM1](PIM1) | 1, aSHM | Burkhardt et al. 2022; L. Pasqualucci et al. 2001 |
62
+| [POU2AF1](POU2AF1) | 1 | Krysiak et al. 2017 |
63
+| [POU2F2](POU2F2) | 1 | Zhang et al. 2013; Krysiak et al. 2017 |
64
+| [PTPRD](PTPRD) | 1 | |
65
+| [RRAGC](RRAGC) | 1 | Okosun et al. 2016 |
66
+| [S1PR2](S1PR2) | 1, aSHM | Morin et al. 2011; Muppidi et al. 2014 |
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 |
69
+| [SOCS1](SOCS1) | 1, aSHM | Morin et al. 2011 |
70
+| [STAT6](STAT6) | 1 | Yildiz et al. 2015 |
71
+| [TBL1XR1](TBL1XR1) | 1 | Mareschal et al. 2016 |
72
+| [TMSB4X](TMSB4X) | 1, aSHM | Albuquerque et al. 2017 |
73
+| [TNFAIP3](TNFAIP3) | 1 | Compagno et al. 2009 |
74
+| [TNFRSF14](TNFRSF14) | 1 | Cheung et al. 2010 |
75
+| [TP53](TP53) | 1 | Beà et al. 2013; Wilda et al. 2004; Morin et al. 2011 |
76
+| [VMA21](VMA21) | 1 | Hübschmann et al. 2021 |
77
+
78
+## Tier 2 FL genes
79
+
80
+### *50 total*
81
+
82
+| Gene | Tier | Relevant references |
83
+|:----------------------:|:-------:|:------------------------------------------------------------------:|
84
+| [ABL2](ABL2) | 2 | Russler-Germain et al. 2023 |
85
+| [ACTG1](ACTG1) | 2, aSHM | Hübschmann et al. 2021 |
86
+| [ATP6V1A](ATP6V1A) | 2 | Hübschmann et al. 2021 |
87
+| [BCL10](BCL10) | 2 | Russler-Germain et al. 2023; Morin et al. 2011 |
88
+| [CCDC42BPB](CCDC42BPB) | 2 | Hübschmann et al. 2021 |
89
+| [CD70](CD70) | 2 | Morin et al. 2011; Russler-Germain et al. 2023 |
90
+| [CD79B](CD79B) | 2 | Panea et al. 2019; Morin et al. 2011 |
91
+| [CILP](CILP) | 2 | Russler-Germain et al. 2023 |
92
+| [CPNE8](CPNE8) | 2 | Hübschmann et al. 2021 |
93
+| [CXCR4](CXCR4) | 2, aSHM | Panea et al. 2019; Khodabakhshi et al. 2012; Krysiak et al. 2017 |
94
+| [CYP2A6](CYP2A6) | 2 | Russler-Germain et al. 2023 |
95
+| [DDX3X](DDX3X) | 2 | Schmitz et al. 2012, 2018 |
96
+| [DHX15](DHX15) | 2 | Hübschmann et al. 2021 |
97
+| [DUSP2](DUSP2) | 2, aSHM | Morin et al. 2013 |
98
+| [EGR1](EGR1) | 2 | Krysiak et al. 2017 |
99
+| [FZR1](FZR1) | 2 | Hübschmann et al. 2021 |
100
+| [GBP7](GBP7) | 2 | Russler-Germain et al. 2023 |
101
+| [GRM6](GRM6) | 2 | Russler-Germain et al. 2023 |
102
+| [HIST1H2BM](HIST1H2BM) | 2, aSHM | Krysiak et al. 2017 |
103
+| [HIST1H3I](HIST1H3I) | 2, aSHM | Krysiak et al. 2017; Panea et al. 2019 |
104
+| [HLA-B](HLA-B) | 2 | |
105
+| [HNRNPD](HNRNPD) | 2 | |
106
+| [IGLL5](IGLL5) | 2, aSHM | Panea et al. 2019; Russler-Germain et al. 2023 |
107
+| [JUP](JUP) | 2 | Hübschmann et al. 2021 |
108
+| [KIR3DL1](KIR3DL1) | 2 | Russler-Germain et al. 2023 |
109
+| [LAPTM5](LAPTM5) | 2 | Hübschmann et al. 2021 |
110
+| [MAGEC1](MAGEC1) | 2 | Russler-Germain et al. 2023 |
111
+| [MAP7D1](MAP7D1) | 2 | Russler-Germain et al. 2023 |
112
+| [MGEA5](MGEA5) | 2 | Hübschmann et al. 2021 |
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 |
115
+| [MYCBP2](MYCBP2) | 2 | Hübschmann et al. 2021 |
116
+| [MYD88](MYD88) | 2 | Ngo et al. 2011 |
117
+| [NFKBIA](NFKBIA) | 2 | Lake et al. 2009; Russler-Germain et al. 2023 |
118
+| [OR8H2](OR8H2) | 2 | Russler-Germain et al. 2023 |
119
+| [P2RY8](P2RY8) | 2 | Muppidi et al. 2014; Lohr et al. 2012 |
120
+| [PDS5B](PDS5B) | 2 | Hübschmann et al. 2021; Morin et al. 2013 |
121
+| [PPP4C](PPP4C) | 2 | Hübschmann et al. 2021 |
122
+| [PRKDC](PRKDC) | 2 | Schmitz et al. 2018; Hübschmann et al. 2021 |
123
+| [PZP](PZP) | 2 | Russler-Germain et al. 2023 |
124
+| [RBM6](RBM6) | 2 | Hübschmann et al. 2021 |
125
+| [SESN1](SESN1) | 2 | Oricchio et al. 2017 |
126
+| [SHROOM3](SHROOM3) | 2 | Russler-Germain et al. 2023 |
127
+| [SRRM2](SRRM2) | 2 | Morin et al. 2013; Russler-Germain et al. 2023 |
128
+| [STAB2](STAB2) | 2 | Russler-Germain et al. 2023 |
129
+| [TMEM30A](TMEM30A) | 2 | Morin et al. 2011 |
130
+| [TPP1](TPP1) | 2 | Hübschmann et al. 2021 |
131
+| [XIRP2](XIRP2) | 2 | Russler-Germain et al. 2023 |
132
+| [ZC3H12A](ZC3H12A) | 2 | Arthur et al. 2018 |
133
+| [ZNF608](ZNF608) | 2 | Zhang et al. 2013; Krysiak et al. 2017 |
134
+
135
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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 | Beà et al. 2013; Arthur et al. 2018 |
13
-| [CARD11](CARD11) | 1 | Lenz et al. 2008; Morin et al. 2011; Wu et al. 2016; Panea et al. 2019 |
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 |
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
-| [KMT2D](KMT2D) | 1 | Morin et al. 2011; Grande et al. 2019; Beà et al. 2013 |
19
-| [MEF2B](MEF2B) | 1 | Morin et al. 2011; Beà et al. 2013 |
20
-| [NFKBIE](NFKBIE) | 1 | Pararajalingam et al. 2020; Morin et al. 2016 |
21
-| [NOTCH1](NOTCH1) | 1 | Beà et al. 2013; Pasqualucci et al. 2011; Love et al. 2012 |
18
+| [KMT2D](KMT2D) | 1 | Morin et al. 2011; Beà et al. 2013; Grande et al. 2019 |
19
+| [MEF2B](MEF2B) | 1 | Beà et al. 2013; Morin et al. 2011 |
20
+| [NFKBIE](NFKBIE) | 1 | Morin et al. 2016; Pararajalingam et al. 2020 |
21
+| [NOTCH1](NOTCH1) | 1 | Pasqualucci et al. 2011; Love et al. 2012; Beà et al. 2013 |
22 22
| [NOTCH2](NOTCH2) | 1 | Panea et al. 2019; Trøen et al. 2008; Beà et al. 2013 |
23 23
| [NSD2](NSD2) | 1 | Beà et al. 2013 |
24 24
| [POT1](POT1) | 1 | Zhang et al. 2014 |
25
-| [RB1](RB1) | 1 | Zhang et al. 2014; Morin et al. 2013 |
25
+| [RB1](RB1) | 1 | Morin et al. 2013; Zhang et al. 2014 |
26 26
| [S1PR1](S1PR1) | 1 | Pararajalingam et al. 2020 |
27 27
| [SMARCA4](SMARCA4) | 1 | Nadeu et al. 2020; Richter et al. 2012; Krysiak et al. 2017; Zhang et al. 2013 |
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 31
| [TLR2](TLR2) | 1 | Chapuy et al. 2018; Beà et al. 2013 |
32
-| [TP53](TP53) | 1 | Morin et al. 2011; Beà et al. 2013; Wilda et al. 2004 |
32
+| [TP53](TP53) | 1 | Wilda et al. 2004; Morin et al. 2011; Beà et al. 2013 |
33 33
| [UBR5](UBR5) | 1 | Zhang et al. 2013; Pararajalingam et al. 2020 |
34 34
35 35
## Tier 2 MCL genes
... ...
@@ -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 | Zhou et al. 2019; Zhang et al. 2014; Zhang et al. 2013 |
66
+| [KMT2C](KMT2C) | 2 | Zhang et al. 2013; Zhang et al. 2014; 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 |