DLBCL_genes_with_bib.md
... ...
@@ -1,19 +1,13 @@
1 1
# DLBCL genes
2 2
3
-| Gene | Tier | DLBCL Relevant references |
3
+## Tier 1 DLBCL genes
4
+
5
+| Gene | Tier | Relevant references |
4 6
|:---------:|:----:|:------------------------------------------------:|
5
-| ABI3BP | 2 | (Morin et al. 2013) |
6 7
| ACTB | 1 | (Lohr et al. 2012) |
7 8
| ACTG1 | 1 | (Hübschmann et al. 2021) |
8
-| ADAMTS1 | 2 | (Hübschmann et al. 2021) |
9
-| AICDA | 2 | (Arthur et al. 2018) |
10
-| ANKRD12 | 2 | (Hübschmann et al. 2021) |
11
-| ANKRD17 | 2 | (Reddy et al. 2017) |
12 9
| ARID1A | 1 | (Zhang et al. 2013; Krysiak et al. 2017) |
13
-| ARID1B | 2 | (Reddy et al. 2017) |
14
-| ARID5B | 2 | (Reddy et al. 2017) |
15 10
| ATM | 1 | (Reddy et al. 2017) |
16
-| ATR | 2 | (Reddy et al. 2017) |
17 11
| B2M | 1 | (Morin et al. 2011) |
18 12
| BCL10 | 1 | (Morin et al. 2011; Russler-Germain et al. 2023) |
19 13
| BCL11A | 1 | |
... ...
@@ -22,97 +16,49 @@
22 16
| BCL7A | 1 | (Arthur et al. 2018; Krysiak et al. 2017) |
23 17
| BCOR | 1 | |
24 18
| BCR | 1 | |
25
-| BIRC3 | 2 | (Arthur et al. 2018) |
26 19
| BIRC6 | 1 | (Reddy et al. 2017) |
27
-| BLK | 2 | |
28 20
| BRAF | 1 | (Tiacci et al. 2011) |
29
-| BRINP3 | 2 | (Reddy et al. 2017) |
30
-| BTBD3 | 2 | (Reddy et al. 2017) |
31 21
| BTG1 | 1 | (Morin et al. 2011) |
32 22
| BTG2 | 1 | (Morin et al. 2011) |
33 23
| BTK | 1 | (Albuquerque et al. 2017; Krysiak et al. 2017) |
34
-| CADPS2 | 2 | (Hübschmann et al. 2021) |
35 24
| CARD11 | 1 | (Lenz et al. 2008; Morin et al. 2011) |
36 25
| CASP8 | 1 | (Reddy et al. 2017) |
37
-| CBLB | 2 | (Reddy et al. 2017) |
38
-| CCL4 | 2 | (Chapuy et al. 2018) |
39 26
| CCND3 | 1 | (Morin et al. 2011) |
40
-| CD22 | 2 | (Reddy et al. 2017) |
41 27
| CD274 | 1 | (Morin et al. 2011) |
42 28
| CD36 | 1 | (Laura Pasqualucci, Trifonov, et al. 2011) |
43
-| CD44 | 2 | (Arthur et al. 2018) |
44 29
| CD58 | 1 | (Morin et al. 2011) |
45 30
| CD70 | 1 | (Morin et al. 2011; Russler-Germain et al. 2023) |
46
-| CD74 | 2 | (Arthur et al. 2018) |
47 31
| CD79B | 1 | (Morin et al. 2011) |
48 32
| CD83 | 1 | (Morin et al. 2013; Russler-Germain et al. 2023) |
49
-| CDC73 | 2 | (Reddy et al. 2017) |
50
-| CDH9 | 2 | (Morin et al. 2013) |
51 33
| CDKN2A | 1 | (Morin et al. 2013) |
52
-| CHD1 | 2 | (Reddy et al. 2017) |
53
-| CHD8 | 2 | (Reddy et al. 2017) |
54
-| CHST2 | 2 | (Reddy et al. 2017) |
55 34
| CIITA | 1 | (Morin et al. 2011) |
56
-| CNOT2 | 2 | (Hübschmann et al. 2021) |
57
-| CNTNAP5 | 2 | (Morin et al. 2013) |
58
-| COQ7 | 2 | (Chapuy et al. 2018) |
59 35
| CREBBP | 1 | (Laura Pasqualucci, Dominguez-Sola, et al. 2011) |
60
-| CRIP1 | 2 | (Chapuy et al. 2018) |
61 36
| CXCR4 | 1 | (Khodabakhshi et al. 2012; Krysiak et al. 2017) |
62 37
| CXCR5 | 1 | (Schmitz et al. 2018) |
63 38
| DAZAP1 | 1 | (Pararajalingam et al. 2020) |
64
-| DCAF6 | 2 | (Reddy et al. 2017) |
65
-| DDX10 | 2 | (Reddy et al. 2017) |
66 39
| DDX3X | 1 | (Schmitz et al. 2018) |
67
-| DHX16 | 2 | (Hübschmann et al. 2021) |
68
-| DICER1 | 2 | (Reddy et al. 2017) |
69
-| DNAH5 | 2 | (Morin et al. 2013) |
70
-| DNM2 | 2 | (Hübschmann et al. 2021) |
71
-| DNMT3A | 2 | (Reddy et al. 2017) |
72
-| DOCK1 | 2 | (Chapuy et al. 2018) |
73
-| DSG4 | 2 | (Morin et al. 2013) |
74 40
| DTX1 | 1 | (Schmitz et al. 2018) |
75 41
| DUSP2 | 1 | (Morin et al. 2013) |
76 42
| EBF1 | 1 | (Bohle et al. 2013) |
77 43
| EEF1A1 | 1 | (Hübschmann et al. 2021) |
78
-| EIF2AK3 | 2 | |
79 44
| EP300 | 1 | (Laura Pasqualucci, Dominguez-Sola, et al. 2011) |
80 45
| ETS1 | 1 | (Morin et al. 2011) |
81 46
| ETV6 | 1 | (Arthur et al. 2018) |
82 47
| EZH2 | 1 | (Morin et al. 2010) |
83
-| EZR | 2 | |
84
-| FAM102A | 2 | |
85
-| FAM38B | 2 | (Morin et al. 2013) |
86
-| FANK1 | 2 | |
87 48
| FAS | 1 | (Scholl et al. 2007) |
88
-| FAT4 | 2 | (Morin et al. 2013) |
89 49
| FBXO11 | 1 | (Hübschmann et al. 2021) |
90 50
| FBXW7 | 1 | (Zhang et al. 2013) |
91
-| FCRL3 | 2 | |
92
-| FNBP1 | 2 | |
93
-| FNDC1 | 2 | (Morin et al. 2013) |
94 51
| FOXC1 | 1 | (Schmitz et al. 2018) |
95 52
| FOXO1 | 1 | (Morin et al. 2011) |
96
-| FOXP1 | 2 | (Reddy et al. 2017) |
97
-| FUBP1 | 2 | (Reddy et al. 2017) |
98
-| FUT5 | 2 | (Chapuy et al. 2018) |
99
-| GABRA2 | 2 | (Chapuy et al. 2018) |
100
-| GAK | 2 | (Hübschmann et al. 2021) |
101 53
| GNA13 | 1 | (Morin et al. 2011) |
102 54
| GNAI2 | 1 | (Morin et al. 2013) |
103
-| GNAS | 2 | (Reddy et al. 2017) |
104
-| GOLGA5 | 2 | (Reddy et al. 2017) |
105
-| GPC5 | 2 | (Schmitz et al. 2018) |
106 55
| GRB2 | 1 | (Laura Pasqualucci, Trifonov, et al. 2011) |
107 56
| GRHPR | 1 | (Arthur et al. 2018) |
108
-| GSG2 | 2 | (Schmitz et al. 2018) |
109
-| HDAC7 | 2 | (Morin et al. 2013) |
110 57
| HIST1H1B | 1 | (Chapuy et al. 2018; Krysiak et al. 2017) |
111 58
| HIST1H1C | 1 | (Morin et al. 2011) |
112 59
| HIST1H1D | 1 | (Morin et al. 2013; Krysiak et al. 2017) |
113 60
| HIST1H1E | 1 | (Morin et al. 2013; Krysiak et al. 2017) |
114 61
| HIST1H2AC | 1 | (Morin et al. 2013; Krysiak et al. 2017) |
115
-| HIST1H2AG | 2 | (Morin et al. 2013; Krysiak et al. 2017) |
116 62
| HIST1H2AM | 1 | (Krysiak et al. 2017) |
117 63
| HIST1H2BC | 1 | (Reddy et al. 2017; Krysiak et al. 2017) |
118 64
| HIST1H2BK | 1 | |
... ...
@@ -124,100 +70,205 @@
124 70
| HLA-DMA | 1 | |
125 71
| HLA-DMB | 1 | |
126 72
| HLA-DQA1 | 1 | (Hübschmann et al. 2021) |
127
-| HNF1B | 2 | (Laura Pasqualucci, Trifonov, et al. 2011) |
128 73
| HNRNPD | 1 | |
129 74
| HNRNPH1 | 1 | (Pararajalingam et al. 2020) |
130 75
| HNRNPU | 1 | (Reddy et al. 2017) |
131
-| HRAS | 2 | (Reddy et al. 2017) |
132 76
| HVCN1 | 1 | (Krysiak et al. 2017) |
77
+| IKZF3 | 1 | (Morin et al. 2013) |
78
+| IL16 | 1 | |
79
+| IL4R | 1 | (Duns et al. 2021) |
80
+| IRF4 | 1 | (Morin et al. 2011) |
81
+| IRF8 | 1 | (Morin et al. 2011) |
82
+| ITPKB | 1 | (Schmitz et al. 2018) |
83
+| JUNB | 1 | (Reddy et al. 2017) |
84
+| KLF2 | 1 | (Laura Pasqualucci, Trifonov, et al. 2011) |
85
+| KLHL14 | 1 | (Zhang et al. 2013) |
86
+| KLHL6 | 1 | (Morin et al. 2011) |
87
+| KMT2C | 1 | (Zhang et al. 2013) |
88
+| KMT2D | 1 | (Morin et al. 2011) |
89
+| KRAS | 1 | (Lohr et al. 2012) |
90
+| LCOR | 1 | (Arthur et al. 2018) |
91
+| LTB | 1 | (Chapuy et al. 2018) |
92
+| LYN | 1 | (Chapuy et al. 2018) |
93
+| MCL1 | 1 | (Reddy et al. 2017) |
94
+| MEF2B | 1 | (Morin et al. 2011) |
95
+| MEF2C | 1 | (Arthur et al. 2018) |
96
+| MGA | 1 | (Zhang et al. 2013) |
97
+| MPEG1 | 1 | (Morin et al. 2013) |
98
+| MS4A1 | 1 | (Rushton et al. 2020) |
99
+| MTOR | 1 | (Zhang et al. 2013) |
100
+| MYC | 1 | (L. Pasqualucci et al. 2001) |
101
+| MYD88 | 1 | (Ngo et al. 2011) |
102
+| MYOM2 | 1 | (Laura Pasqualucci, Trifonov, et al. 2011) |
103
+| NCOR2 | 1 | |
104
+| NFKB1 | 1 | |
105
+| NFKBIA | 1 | (Lake et al. 2009; Russler-Germain et al. 2023) |
106
+| NFKBIE | 1 | (Morin et al. 2016) |
107
+| NFKBIZ | 1 | (Morin et al. 2016) |
108
+| NLRC5 | 1 | |
109
+| NOL9 | 1 | (Schmitz et al. 2018) |
110
+| NOTCH1 | 1 | (Laura Pasqualucci, Trifonov, et al. 2011) |
111
+| NOTCH2 | 1 | (Trøen et al. 2008) |
112
+| OSBPL10 | 1 | (Arthur et al. 2018) |
113
+| P2RY8 | 1 | (Lohr et al. 2012) |
114
+| PCBP1 | 1 | |
115
+| PIM1 | 1 | (L. Pasqualucci et al. 2001) |
116
+| PIM2 | 1 | (Arthur et al. 2018) |
117
+| POU2AF1 | 1 | (Krysiak et al. 2017) |
118
+| POU2F2 | 1 | (Zhang et al. 2013; Krysiak et al. 2017) |
119
+| PRDM1 | 1 | (**pasqualucciInactivationPRDM1BLIMP12006?**) |
120
+| PRKDC | 1 | (Schmitz et al. 2018; Hübschmann et al. 2021) |
121
+| PTEN | 1 | |
122
+| PTPRD | 1 | |
123
+| RB1 | 1 | (Morin et al. 2013) |
124
+| RFX7 | 1 | |
125
+| RFXAP | 1 | |
126
+| RHOA | 1 | (L. Pasqualucci et al. 2001) |
127
+| RRAGC | 1 | (Okosun et al. 2016) |
128
+| S1PR2 | 1 | (Morin et al. 2011) |
129
+| SETD1B | 1 | (Reddy et al. 2017) |
130
+| SF3B1 | 1 | |
131
+| SGK1 | 1 | (Morin et al. 2011) |
132
+| SIN3A | 1 | |
133
+| SMARCA4 | 1 | (Zhang et al. 2013; Krysiak et al. 2017) |
134
+| SOCS1 | 1 | (Morin et al. 2011) |
135
+| SPEN | 1 | (Rossi et al. 2012) |
136
+| STAT3 | 1 | (Ohgami et al. 2014) |
137
+| STAT6 | 1 | (Yildiz et al. 2015) |
138
+| TAF1 | 1 | (Morin et al. 2013) |
139
+| TBL1XR1 | 1 | (Mareschal et al. 2016) |
140
+| TET2 | 1 | (Albuquerque et al. 2017) |
141
+| TMEM30A | 1 | (Morin et al. 2011) |
142
+| TMSB4X | 1 | (Albuquerque et al. 2017) |
143
+| TNFAIP3 | 1 | (Compagno et al. 2009) |
144
+| TNFRSF14 | 1 | (Cheung et al. 2010) |
145
+| TOX | 1 | (Reddy et al. 2017) |
146
+| TP53 | 1 | (Morin et al. 2011) |
147
+| TRIP12 | 1 | |
148
+| TRRAP | 1 | (Parry et al. 2013) |
149
+| UBE2A | 1 | (Reddy et al. 2017) |
150
+| UNC5C | 1 | |
151
+| USP7 | 1 | |
152
+| VPS13B | 1 | |
153
+| WEE1 | 1 | (Schmitz et al. 2018) |
154
+| XPO1 | 1 | (Mareschal et al. 2016) |
155
+| ZC3H12A | 1 | (Arthur et al. 2018) |
156
+| ZFP36L1 | 1 | (Morin et al. 2011) |
157
+| ZNF292 | 1 | (Zhang et al. 2013) |
158
+| ZNF608 | 1 | (Zhang et al. 2013; Krysiak et al. 2017) |
159
+
160
+## Tier 2 DLBCL genes
161
+
162
+| Gene | Tier | Relevant references |
163
+|:---------:|:----:|:------------------------------------------------:|
164
+| ABI3BP | 2 | (Morin et al. 2013) |
165
+| ADAMTS1 | 2 | (Hübschmann et al. 2021) |
166
+| AICDA | 2 | (Arthur et al. 2018) |
167
+| ANKRD12 | 2 | (Hübschmann et al. 2021) |
168
+| ANKRD17 | 2 | (Reddy et al. 2017) |
169
+| ARID1B | 2 | (Reddy et al. 2017) |
170
+| ARID5B | 2 | (Reddy et al. 2017) |
171
+| ATR | 2 | (Reddy et al. 2017) |
172
+| BIRC3 | 2 | (Arthur et al. 2018) |
173
+| BLK | 2 | |
174
+| BRINP3 | 2 | (Reddy et al. 2017) |
175
+| BTBD3 | 2 | (Reddy et al. 2017) |
176
+| CADPS2 | 2 | (Hübschmann et al. 2021) |
177
+| CBLB | 2 | (Reddy et al. 2017) |
178
+| CCL4 | 2 | (Chapuy et al. 2018) |
179
+| CD22 | 2 | (Reddy et al. 2017) |
180
+| CD44 | 2 | (Arthur et al. 2018) |
181
+| CD74 | 2 | (Arthur et al. 2018) |
182
+| CDC73 | 2 | (Reddy et al. 2017) |
183
+| CDH9 | 2 | (Morin et al. 2013) |
184
+| CHD1 | 2 | (Reddy et al. 2017) |
185
+| CHD8 | 2 | (Reddy et al. 2017) |
186
+| CHST2 | 2 | (Reddy et al. 2017) |
187
+| CNOT2 | 2 | (Hübschmann et al. 2021) |
188
+| CNTNAP5 | 2 | (Morin et al. 2013) |
189
+| COQ7 | 2 | (Chapuy et al. 2018) |
190
+| CRIP1 | 2 | (Chapuy et al. 2018) |
191
+| DCAF6 | 2 | (Reddy et al. 2017) |
192
+| DDX10 | 2 | (Reddy et al. 2017) |
193
+| DHX16 | 2 | (Hübschmann et al. 2021) |
194
+| DICER1 | 2 | (Reddy et al. 2017) |
195
+| DNAH5 | 2 | (Morin et al. 2013) |
196
+| DNM2 | 2 | (Hübschmann et al. 2021) |
197
+| DNMT3A | 2 | (Reddy et al. 2017) |
198
+| DOCK1 | 2 | (Chapuy et al. 2018) |
199
+| DSG4 | 2 | (Morin et al. 2013) |
200
+| EIF2AK3 | 2 | |
201
+| EZR | 2 | |
202
+| FAM102A | 2 | |
203
+| FAM38B | 2 | (Morin et al. 2013) |
204
+| FANK1 | 2 | |
205
+| FAT4 | 2 | (Morin et al. 2013) |
206
+| FCRL3 | 2 | |
207
+| FNBP1 | 2 | |
208
+| FNDC1 | 2 | (Morin et al. 2013) |
209
+| FOXP1 | 2 | (Reddy et al. 2017) |
210
+| FUBP1 | 2 | (Reddy et al. 2017) |
211
+| FUT5 | 2 | (Chapuy et al. 2018) |
212
+| GABRA2 | 2 | (Chapuy et al. 2018) |
213
+| GAK | 2 | (Hübschmann et al. 2021) |
214
+| GNAS | 2 | (Reddy et al. 2017) |
215
+| GOLGA5 | 2 | (Reddy et al. 2017) |
216
+| GPC5 | 2 | (Schmitz et al. 2018) |
217
+| GSG2 | 2 | (Schmitz et al. 2018) |
218
+| HDAC7 | 2 | (Morin et al. 2013) |
219
+| HIST1H2AG | 2 | (Morin et al. 2013; Krysiak et al. 2017) |
220
+| HNF1B | 2 | (Laura Pasqualucci, Trifonov, et al. 2011) |
221
+| HRAS | 2 | (Reddy et al. 2017) |
133 222
| ID3 | 2 | (Schmitz et al. 2012) |
134 223
| IER2 | 2 | (Morin et al. 2013) |
135 224
| IFNGR1 | 2 | (Morin et al. 2013) |
136 225
| IGLL5 | 2 | (Russler-Germain et al. 2023) |
137 226
| IKBKB | 2 | (Reddy et al. 2017) |
138 227
| IKBKE | 2 | (Hübschmann et al. 2021) |
139
-| IKZF3 | 1 | (Morin et al. 2013) |
140
-| IL16 | 1 | |
141
-| IL4R | 1 | (Duns et al. 2021) |
142 228
| IL6 | 2 | (Chapuy et al. 2018) |
143 229
| INO80 | 2 | (Zhang et al. 2013) |
144 230
| IRAG2 | 2 | |
145 231
| IRF1 | 2 | (Hübschmann et al. 2021) |
146
-| IRF4 | 1 | (Morin et al. 2011) |
147
-| IRF8 | 1 | (Morin et al. 2011) |
148
-| ITPKB | 1 | (Schmitz et al. 2018) |
149 232
| JAK1 | 2 | (Zhang et al. 2013) |
150 233
| JAK3 | 2 | (Zhang et al. 2013) |
151
-| JUNB | 1 | (Reddy et al. 2017) |
152 234
| KCMF1 | 2 | (Reddy et al. 2017) |
153
-| KLF2 | 1 | (Laura Pasqualucci, Trifonov, et al. 2011) |
154
-| KLHL14 | 1 | (Zhang et al. 2013) |
155 235
| KLHL21 | 2 | (Schmitz et al. 2018) |
156
-| KLHL6 | 1 | (Morin et al. 2011) |
157
-| KMT2C | 1 | (Zhang et al. 2013) |
158
-| KMT2D | 1 | (Morin et al. 2011) |
159
-| KRAS | 1 | (Lohr et al. 2012) |
160 236
| LAMA5 | 2 | (Schmitz et al. 2018) |
161 237
| LAPTM5 | 2 | (Hübschmann et al. 2021) |
162
-| LCOR | 1 | (Arthur et al. 2018) |
163 238
| LIN54 | 2 | (Reddy et al. 2017) |
164 239
| LPP | 2 | (Arthur et al. 2018) |
165 240
| LRP12 | 2 | (Hübschmann et al. 2021) |
166 241
| LRRN3 | 2 | (Morin et al. 2013) |
167
-| LTB | 1 | (Chapuy et al. 2018) |
168
-| LYN | 1 | (Chapuy et al. 2018) |
169 242
| MAGT1 | 2 | (Reddy et al. 2017) |
170 243
| MALAT1 | 2 | (Arthur et al. 2018) |
171 244
| MAP2K1 | 2 | (Shin et al. 2015; Louissaint et al. 2016) |
172 245
| MAP4K4 | 2 | (Reddy et al. 2017) |
173 246
| MARK1 | 2 | (Reddy et al. 2017) |
174
-| MCL1 | 1 | (Reddy et al. 2017) |
175 247
| MECOM | 2 | (Reddy et al. 2017) |
176
-| MEF2B | 1 | (Morin et al. 2011) |
177
-| MEF2C | 1 | (Arthur et al. 2018) |
178 248
| MET | 2 | (Reddy et al. 2017) |
179
-| MGA | 1 | (Zhang et al. 2013) |
180 249
| MIR142 | 2 | (Kwanhian et al. 2012) |
181 250
| MIR155HG | 2 | |
182 251
| MPDZ | 2 | (Morin et al. 2013) |
183
-| MPEG1 | 1 | (Morin et al. 2013) |
184
-| MS4A1 | 1 | (Rushton et al. 2020) |
185 252
| MSH2 | 2 | (Reddy et al. 2017) |
186 253
| MSH6 | 2 | (Reddy et al. 2017) |
187
-| MTOR | 1 | (Zhang et al. 2013) |
188 254
| MYB | 2 | (Reddy et al. 2017) |
189 255
| MYBPC2 | 2 | (Schmitz et al. 2018) |
190
-| MYC | 1 | (L. Pasqualucci et al. 2001) |
191
-| MYD88 | 1 | (Ngo et al. 2011) |
192 256
| MYO1E | 2 | |
193
-| MYOM2 | 1 | (Laura Pasqualucci, Trifonov, et al. 2011) |
194 257
| N2RF2 | 2 | (Hübschmann et al. 2021) |
195 258
| NANOG | 2 | (Chapuy et al. 2018) |
196 259
| NAV1 | 2 | (Chapuy et al. 2018) |
197 260
| NCOA3 | 2 | |
198 261
| NCOR1 | 2 | (Reddy et al. 2017) |
199
-| NCOR2 | 1 | |
200 262
| NEAT1 | 2 | (Arthur et al. 2018) |
201 263
| NF1 | 2 | (Reddy et al. 2017) |
202
-| NFKB1 | 1 | |
203 264
| NFKB2 | 2 | (Reddy et al. 2017) |
204
-| NFKBIA | 1 | (Lake et al. 2009; Russler-Germain et al. 2023) |
205
-| NFKBIE | 1 | (Morin et al. 2016) |
206
-| NFKBIZ | 1 | (Morin et al. 2016) |
207
-| NLRC5 | 1 | |
208 265
| NLRP5 | 2 | (Morin et al. 2013) |
209 266
| NLRP8 | 2 | (Chapuy et al. 2018) |
210
-| NOL9 | 1 | (Schmitz et al. 2018) |
211
-| NOTCH1 | 1 | (Laura Pasqualucci, Trifonov, et al. 2011) |
212
-| NOTCH2 | 1 | (Trøen et al. 2008) |
213 267
| ODZ3 | 2 | (Morin et al. 2013) |
214
-| OSBPL10 | 1 | (Arthur et al. 2018) |
215 268
| P2RX5 | 2 | (Morin et al. 2013) |
216
-| P2RY8 | 1 | (Lohr et al. 2012) |
217 269
| PAPOLG | 2 | (Schmitz et al. 2018) |
218 270
| PASK | 2 | (Morin et al. 2013) |
219 271
| PAX5 | 2 | (L. Pasqualucci et al. 2001) |
220
-| PCBP1 | 1 | |
221 272
| PCDHB11 | 2 | (Morin et al. 2013) |
222 273
| PCLO | 2 | (Lohr et al. 2012) |
223 274
| PDE4DIP | 2 | (Chapuy et al. 2018) |
... ...
@@ -225,109 +276,65 @@
225 276
| PHF6 | 2 | (Reddy et al. 2017) |
226 277
| PIK3CD | 2 | (Reddy et al. 2017) |
227 278
| PIK3R1 | 2 | (Zhang et al. 2013) |
228
-| PIM1 | 1 | (L. Pasqualucci et al. 2001) |
229
-| PIM2 | 1 | (Arthur et al. 2018) |
230 279
| PKD1 | 2 | (Morin et al. 2013) |
231 280
| PNPO | 2 | (Hübschmann et al. 2021) |
232 281
| POGZ | 2 | (Morin et al. 2013) |
233
-| POU2AF1 | 1 | (Krysiak et al. 2017) |
234
-| POU2F2 | 1 | (Zhang et al. 2013; Krysiak et al. 2017) |
235 282
| PPP1R9B | 2 | |
236
-| PRDM1 | 1 | (**pasqualucciInactivationPRDM1BLIMP12006?**) |
237 283
| PRKCB | 2 | (Morin et al. 2013) |
238
-| PRKDC | 1 | (Schmitz et al. 2018; Hübschmann et al. 2021) |
239 284
| PRPS1 | 2 | (Chapuy et al. 2018) |
240
-| PTEN | 1 | |
241 285
| PTMA | 2 | |
242 286
| PTPN1 | 2 | |
243 287
| PTPN23 | 2 | (Morin et al. 2013) |
244 288
| PTPN6 | 2 | (Reddy et al. 2017) |
245
-| PTPRD | 1 | |
246 289
| PTPRK | 2 | (Reddy et al. 2017) |
247 290
| RAC2 | 2 | (Hübschmann et al. 2021) |
248 291
| RAD9A | 2 | (Chapuy et al. 2018) |
249 292
| RARA | 2 | (Reddy et al. 2017) |
250
-| RB1 | 1 | (Morin et al. 2013) |
251 293
| RCC | 2 | |
252 294
| RFTN1 | 2 | (Arthur et al. 2018) |
253
-| RFX7 | 1 | |
254
-| RFXAP | 1 | |
255 295
| RHEX | 2 | |
256
-| RHOA | 1 | (L. Pasqualucci et al. 2001) |
257 296
| RHOH | 2 | |
258
-| RRAGC | 1 | (Okosun et al. 2016) |
259 297
| RUBCNL | 2 | |
260 298
| RUNX1 | 2 | (Reddy et al. 2017) |
261
-| S1PR2 | 1 | (Morin et al. 2011) |
262 299
| SAMD9L | 2 | (Morin et al. 2013) |
263 300
| SARM1 | 2 | (Morin et al. 2013) |
264 301
| SEL1L3 | 2 | |
265 302
| SEPTIN9 | 2 | |
266 303
| SERPINA9 | 2 | (Arthur et al. 2018) |
267
-| SETD1B | 1 | (Reddy et al. 2017) |
268 304
| SETD2 | 2 | (Zhang et al. 2013) |
269 305
| SETD5 | 2 | (Reddy et al. 2017) |
270
-| SF3B1 | 1 | |
271
-| SGK1 | 1 | (Morin et al. 2011) |
272 306
| SIAH2 | 2 | (Hübschmann et al. 2021) |
273
-| SIN3A | 1 | |
274 307
| SLC34A2 | 2 | (Hübschmann et al. 2021) |
275
-| SMARCA4 | 1 | (Zhang et al. 2013; Krysiak et al. 2017) |
276 308
| SMEK1 | 2 | (Chapuy et al. 2018) |
277
-| SOCS1 | 1 | (Morin et al. 2011) |
278
-| SPEN | 1 | (Rossi et al. 2012) |
279 309
| SRRM2 | 2 | (Morin et al. 2013; Russler-Germain et al. 2023) |
280 310
| ST6GAL1 | 2 | (Arthur et al. 2018) |
281
-| STAT3 | 1 | (Ohgami et al. 2014) |
282 311
| STAT5B | 2 | (Zhang et al. 2013) |
283
-| STAT6 | 1 | (Yildiz et al. 2015) |
284 312
| SYK | 2 | (Reddy et al. 2017) |
285 313
| SYPL1 | 2 | (Morin et al. 2013) |
286
-| TAF1 | 1 | (Morin et al. 2013) |
287 314
| TAP1 | 2 | (Schmitz et al. 2018) |
288 315
| TBC1D4 | 2 | (Arthur et al. 2018) |
289
-| TBL1XR1 | 1 | (Mareschal et al. 2016) |
290 316
| TCL1A | 2 | |
291
-| TET2 | 1 | (Albuquerque et al. 2017) |
292 317
| TGFBR2 | 2 | (Reddy et al. 2017) |
293 318
| TIPARP | 2 | (Reddy et al. 2017) |
294 319
| TLR2 | 2 | (Chapuy et al. 2018) |
295
-| TMEM30A | 1 | (Morin et al. 2011) |
296
-| TMSB4X | 1 | (Albuquerque et al. 2017) |
297
-| TNFAIP3 | 1 | (Compagno et al. 2009) |
298
-| TNFRSF14 | 1 | (Cheung et al. 2010) |
299
-| TOX | 1 | (Reddy et al. 2017) |
300
-| TP53 | 1 | (Morin et al. 2011) |
301 320
| TRAF3 | 2 | (Laura Pasqualucci, Trifonov, et al. 2011) |
302 321
| TRAF6 | 2 | (Hübschmann et al. 2021) |
303
-| TRIP12 | 1 | |
304
-| TRRAP | 1 | (Parry et al. 2013) |
305
-| UBE2A | 1 | (Reddy et al. 2017) |
306 322
| UBE2J1 | 2 | |
307 323
| UBR5 | 2 | (Zhang et al. 2013) |
308 324
| UNC5B | 2 | (Hübschmann et al. 2021) |
309
-| UNC5C | 1 | |
310 325
| UNC5D | 2 | |
311
-| USP7 | 1 | |
312
-| VPS13B | 1 | |
313 326
| WAC | 2 | (Reddy et al. 2017) |
314 327
| WDFY3 | 2 | (Morin et al. 2013) |
315
-| WEE1 | 1 | (Schmitz et al. 2018) |
316 328
| WNK1 | 2 | (Hübschmann et al. 2021) |
317 329
| XBP1 | 2 | |
318
-| XPO1 | 1 | (Mareschal et al. 2016) |
319 330
| YY1 | 2 | (Reddy et al. 2017) |
320 331
| ZBTB7A | 2 | (Reddy et al. 2017) |
321
-| ZC3H12A | 1 | (Arthur et al. 2018) |
322 332
| ZCCHC7 | 2 | (Arthur et al. 2018) |
323 333
| ZEB2 | 2 | (Zhang et al. 2013) |
324 334
| ZFAT | 2 | (Reddy et al. 2017) |
325
-| ZFP36L1 | 1 | (Morin et al. 2011) |
326 335
| ZFX | 2 | (Reddy et al. 2017) |
327 336
| ZNF217 | 2 | (Hübschmann et al. 2021) |
328
-| ZNF292 | 1 | (Zhang et al. 2013) |
329 337
| ZNF423 | 2 | (Chapuy et al. 2018) |
330
-| ZNF608 | 1 | (Zhang et al. 2013; Krysiak et al. 2017) |
331 338
332 339
# References
333 340
FL_genes_with_bib.md
... ...
@@ -1,16 +1,14 @@
1 1
# FL genes
2 2
3
-| Gene | Tier | FL Relevant references |
3
+## Tier 1 FL genes
4
+
5
+| Gene | Tier | Relevant references |
4 6
|:---------:|:----:|:------------------------------------------------:|
5
-| ABL2 | 2 | (Russler-Germain et al. 2023) |
6 7
| ACTB | 1 | (Lohr et al. 2012) |
7
-| ACTG1 | 2 | (Hübschmann et al. 2021) |
8 8
| ARID1A | 1 | (Krysiak et al. 2017; Zhang et al. 2013) |
9 9
| ATP6AP1 | 1 | (Okosun et al. 2016) |
10
-| ATP6V1A | 2 | (Hübschmann et al. 2021) |
11 10
| ATP6V1B2 | 1 | (Okosun et al. 2016) |
12 11
| B2M | 1 | (Morin et al. 2011) |
13
-| BCL10 | 2 | (Russler-Germain et al. 2023; Morin et al. 2011) |
14 12
| BCL2 | 1 | (Morin et al. 2011; Tanaka et al. 1992) |
15 13
| BCL6 | 1 | (Morin et al. 2011) |
16 14
| BCL7A | 1 | (Krysiak et al. 2017; Arthur et al. 2018) |
... ...
@@ -19,33 +17,19 @@
19 17
| BTG2 | 1 | (Morin et al. 2011) |
20 18
| BTK | 1 | (Krysiak et al. 2017; Albuquerque et al. 2017) |
21 19
| CARD11 | 1 | (Morin et al. 2011; Lenz et al. 2008) |
22
-| CCDC42BPB | 2 | (Hübschmann et al. 2021) |
23 20
| CCND3 | 1 | (Morin et al. 2011) |
24
-| CD70 | 2 | (Russler-Germain et al. 2023; Morin et al. 2011) |
25
-| CD79B | 2 | (Morin et al. 2011) |
26 21
| CD83 | 1 | (Russler-Germain et al. 2023; Morin et al. 2013) |
27
-| CILP | 2 | (Russler-Germain et al. 2023) |
28
-| CPNE8 | 2 | (Hübschmann et al. 2021) |
29 22
| CREBBP | 1 | (Laura Pasqualucci, Dominguez-Sola, et al. 2011) |
30 23
| CTSS | 1 | (Bararia et al. 2020) |
31
-| CXCR4 | 2 | (Krysiak et al. 2017; Khodabakhshi et al. 2012) |
32
-| CYP2A6 | 2 | (Russler-Germain et al. 2023) |
33
-| DDX3X | 2 | (Schmitz et al. 2018) |
34
-| DHX15 | 2 | (Hübschmann et al. 2021) |
35 24
| DTX1 | 1 | (Schmitz et al. 2018) |
36
-| DUSP2 | 2 | (Morin et al. 2013) |
37 25
| EBF1 | 1 | (Bohle et al. 2013) |
38 26
| EEF1A1 | 1 | (Hübschmann et al. 2021) |
39
-| EGR1 | 2 | (Krysiak et al. 2017) |
40 27
| EP300 | 1 | (Laura Pasqualucci, Dominguez-Sola, et al. 2011) |
41 28
| EZH2 | 1 | (Morin et al. 2010) |
42 29
| FAS | 1 | (Scholl et al. 2007) |
43 30
| FOXO1 | 1 | (Morin et al. 2011) |
44
-| FZR1 | 2 | (Hübschmann et al. 2021) |
45
-| GBP7 | 2 | (Russler-Germain et al. 2023) |
46 31
| GNA13 | 1 | (Morin et al. 2011) |
47 32
| GNAI2 | 1 | (Morin et al. 2013) |
48
-| GRM6 | 2 | (Russler-Germain et al. 2023) |
49 33
| HIST1H1B | 1 | (Krysiak et al. 2017; Chapuy et al. 2018) |
50 34
| HIST1H1C | 1 | (Morin et al. 2011) |
51 35
| HIST1H1D | 1 | (Krysiak et al. 2017; Morin et al. 2013) |
... ...
@@ -56,29 +40,69 @@
56 40
| HIST1H2BC | 1 | (Krysiak et al. 2017; Reddy et al. 2017) |
57 41
| HIST1H2BD | 1 | (Krysiak et al. 2017) |
58 42
| HIST1H2BG | 1 | (Krysiak et al. 2017) |
59
-| HIST1H2BM | 2 | (Krysiak et al. 2017) |
60 43
| HIST1H3B | 1 | (Zhang et al. 2013) |
61 44
| HIST1H3G | 1 | (Krysiak et al. 2017) |
62
-| HIST1H3I | 2 | (Krysiak et al. 2017) |
63
-| HLA-B | 2 | |
64
-| HNRNPD | 2 | |
65 45
| HVCN1 | 1 | (Krysiak et al. 2017) |
66
-| IGLL5 | 2 | (Russler-Germain et al. 2023) |
67 46
| IRF4 | 1 | (Morin et al. 2011) |
68 47
| IRF8 | 1 | (Morin et al. 2011) |
69 48
| ITPKB | 1 | (Schmitz et al. 2018) |
70
-| JUP | 2 | (Hübschmann et al. 2021) |
71
-| KIR3DL1 | 2 | (Russler-Germain et al. 2023) |
72 49
| KLF2 | 1 | (Laura Pasqualucci, Trifonov, et al. 2011) |
73 50
| KLHL6 | 1 | (Morin et al. 2011) |
74 51
| KMT2D | 1 | (Morin et al. 2011) |
75
-| LAPTM5 | 2 | (Hübschmann et al. 2021) |
76 52
| LTB | 1 | (Chapuy et al. 2018) |
77
-| MAGEC1 | 2 | (Russler-Germain et al. 2023) |
78 53
| MAP2K1 | 1 | (Louissaint et al. 2016; Shin et al. 2015) |
79
-| MAP7D1 | 2 | (Russler-Germain et al. 2023) |
80 54
| MEF2B | 1 | (Morin et al. 2011) |
81 55
| MEF2C | 1 | (Arthur et al. 2018) |
56
+| PCLO | 1 | (Lohr et al. 2012) |
57
+| PIM1 | 1 | (L. Pasqualucci et al. 2001) |
58
+| POU2AF1 | 1 | (Krysiak et al. 2017) |
59
+| POU2F2 | 1 | (Krysiak et al. 2017; Zhang et al. 2013) |
60
+| PTPRD | 1 | |
61
+| RRAGC | 1 | (Okosun et al. 2016) |
62
+| S1PR2 | 1 | (Morin et al. 2011) |
63
+| SGK1 | 1 | (Morin et al. 2011) |
64
+| SMARCA4 | 1 | (Krysiak et al. 2017; Zhang et al. 2013) |
65
+| SOCS1 | 1 | (Morin et al. 2011) |
66
+| STAT6 | 1 | (Yildiz et al. 2015) |
67
+| TBL1XR1 | 1 | (Mareschal et al. 2016) |
68
+| TMSB4X | 1 | (Albuquerque et al. 2017) |
69
+| TNFAIP3 | 1 | (Compagno et al. 2009) |
70
+| TNFRSF14 | 1 | (Cheung et al. 2010) |
71
+| TP53 | 1 | (Morin et al. 2011) |
72
+| VMA21 | 1 | (Hübschmann et al. 2021) |
73
+
74
+## Tier 2 FL genes
75
+
76
+| Gene | Tier | Relevant references |
77
+|:---------:|:----:|:------------------------------------------------:|
78
+| ABL2 | 2 | (Russler-Germain et al. 2023) |
79
+| ACTG1 | 2 | (Hübschmann et al. 2021) |
80
+| ATP6V1A | 2 | (Hübschmann et al. 2021) |
81
+| BCL10 | 2 | (Russler-Germain et al. 2023; Morin et al. 2011) |
82
+| CCDC42BPB | 2 | (Hübschmann et al. 2021) |
83
+| CD70 | 2 | (Russler-Germain et al. 2023; Morin et al. 2011) |
84
+| CD79B | 2 | (Morin et al. 2011) |
85
+| CILP | 2 | (Russler-Germain et al. 2023) |
86
+| CPNE8 | 2 | (Hübschmann et al. 2021) |
87
+| CXCR4 | 2 | (Krysiak et al. 2017; Khodabakhshi et al. 2012) |
88
+| CYP2A6 | 2 | (Russler-Germain et al. 2023) |
89
+| DDX3X | 2 | (Schmitz et al. 2018) |
90
+| DHX15 | 2 | (Hübschmann et al. 2021) |
91
+| DUSP2 | 2 | (Morin et al. 2013) |
92
+| EGR1 | 2 | (Krysiak et al. 2017) |
93
+| FZR1 | 2 | (Hübschmann et al. 2021) |
94
+| GBP7 | 2 | (Russler-Germain et al. 2023) |
95
+| GRM6 | 2 | (Russler-Germain et al. 2023) |
96
+| HIST1H2BM | 2 | (Krysiak et al. 2017) |
97
+| HIST1H3I | 2 | (Krysiak et al. 2017) |
98
+| HLA-B | 2 | |
99
+| HNRNPD | 2 | |
100
+| IGLL5 | 2 | (Russler-Germain et al. 2023) |
101
+| JUP | 2 | (Hübschmann et al. 2021) |
102
+| KIR3DL1 | 2 | (Russler-Germain et al. 2023) |
103
+| LAPTM5 | 2 | (Hübschmann et al. 2021) |
104
+| MAGEC1 | 2 | (Russler-Germain et al. 2023) |
105
+| MAP7D1 | 2 | (Russler-Germain et al. 2023) |
82 106
| MGEA5 | 2 | (Hübschmann et al. 2021) |
83 107
| MKI67 | 2 | (Russler-Germain et al. 2023) |
84 108
| MYC | 2 | (L. Pasqualucci et al. 2001) |
... ...
@@ -87,34 +111,17 @@
87 111
| NFKBIA | 2 | (Russler-Germain et al. 2023; Lake et al. 2009) |
88 112
| OR8H2 | 2 | (Russler-Germain et al. 2023) |
89 113
| P2RY8 | 2 | (Lohr et al. 2012) |
90
-| PCLO | 1 | (Lohr et al. 2012) |
91 114
| PDS5B | 2 | (Hübschmann et al. 2021; Morin et al. 2013) |
92
-| PIM1 | 1 | (L. Pasqualucci et al. 2001) |
93
-| POU2AF1 | 1 | (Krysiak et al. 2017) |
94
-| POU2F2 | 1 | (Krysiak et al. 2017; Zhang et al. 2013) |
95 115
| PPP4C | 2 | (Hübschmann et al. 2021) |
96 116
| PRKDC | 2 | (Hübschmann et al. 2021; Schmitz et al. 2018) |
97
-| PTPRD | 1 | |
98 117
| PZP | 2 | (Russler-Germain et al. 2023) |
99 118
| RBM6 | 2 | (Hübschmann et al. 2021) |
100
-| RRAGC | 1 | (Okosun et al. 2016) |
101
-| S1PR2 | 1 | (Morin et al. 2011) |
102 119
| SESN1 | 2 | (Oricchio et al. 2017) |
103
-| SGK1 | 1 | (Morin et al. 2011) |
104 120
| SHROOM3 | 2 | (Russler-Germain et al. 2023) |
105
-| SMARCA4 | 1 | (Krysiak et al. 2017; Zhang et al. 2013) |
106
-| SOCS1 | 1 | (Morin et al. 2011) |
107 121
| SRRM2 | 2 | (Russler-Germain et al. 2023; Morin et al. 2013) |
108 122
| STAB2 | 2 | (Russler-Germain et al. 2023) |
109
-| STAT6 | 1 | (Yildiz et al. 2015) |
110
-| TBL1XR1 | 1 | (Mareschal et al. 2016) |
111 123
| TMEM30A | 2 | (Morin et al. 2011) |
112
-| TMSB4X | 1 | (Albuquerque et al. 2017) |
113
-| TNFAIP3 | 1 | (Compagno et al. 2009) |
114
-| TNFRSF14 | 1 | (Cheung et al. 2010) |
115
-| TP53 | 1 | (Morin et al. 2011) |
116 124
| TPP1 | 2 | (Hübschmann et al. 2021) |
117
-| VMA21 | 1 | (Hübschmann et al. 2021) |
118 125
| XIRP2 | 2 | (Russler-Germain et al. 2023) |
119 126
| ZC3H12A | 2 | (Arthur et al. 2018) |
120 127
| ZNF608 | 2 | (Krysiak et al. 2017; Zhang et al. 2013) |