Mutation Analysis of the Marginal Zone Lymphomas
| Case . | Sequence . | Germline VH Gene (reference) . | % Identity . | N . | Obs R/S . | Exp R CDR . | Exp R FR . | p CDR . | p FR . | Germline DH Gene . | Germline JH Gene . | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|
| CDR . | FR . | |||||||||||
| 1 | VH4 | DP 79* | 97.70 | 5 | 2/0 | 1/2 | 1.3 | 2.6 | .273 | .134 | Dxp′1 | JH4 |
| 2 | VH4 | DP 71 (42) | 93.10 | 15 | 0/2 | 3/10 | 3.6 | 7.9 | .018 | .007 | D1 | JH4 |
| 3 | VH1 | DP 25 (42) | 96.40 | 8 | 4/0 | 3/1 | 1.9 | 4.4 | .075 | .075 | Dxp′1 | JH6 |
| 4 | VH3 | DP 77* | 97.80 | 6 | 1/2 | 2/1 | 2.7 | 1.2 | .401 | .401 | DN1 | JH5 |
| 5 | VH4 | DP 66 (42) | 93.20 | 9 | 0/3 | 4/2 | 2.1 | 5.2 | .073 | .234 | Dxp 4 | JH6 |
| 6 | VH4 | DP 65 (42) | 92.70 | 19 | 2/2 | 8/7 | 4.9 | 9.3 | .100 | .154 | Dxp 1/D21/Dxp 4 | JH6 |
| 7 | VH4 | DP 63 (42) | 97.30 | 6 | 2/0 | 2/2 | 1.5 | 3.2 | .299 | .203 | NI | JH6 |
| 8 | VH1 | DP 10 (42) | 96.50 | 8 | 1/2 | 1/4 | 1.9 | 4.4 | .276 | .276 | D21-9/D21-7 | JH6 |
| 9 | VH3 | V4-34 (43) | 96.76 | 7 | 4/0 | 1/2 | 1.8 | 3.6 | .060 | .047 | NI | JH4 |
| 10 | VH4 | DP 49 (44) | 96.80 | 7 | 2/1 | 3/1 | 1.7 | 3.8 | .310 | .240 | NI | JH4 |
| 11 | VH3 | COS 16* | 92.44 | 17 | 9/0 | 5/3 | 3.9 | 9.3 | .006 | .031 | NI | JH4 |
| 12 | VH4 | DP 79* | 92.80 | 16 | 5/1 | 7/3 | 4.1 | 8.2 | .62 | .16 | NI | JH4 |
| 13 | VH4 | DP 65 (42) | 100 | 0 | 0/0 | 0/0 | .0 | .0 | 1,000 | 1,000 | DN4 | JH6 |
| 14 | VH4 | DP 79* | 93.20 | 15 | 5/0 | 5/5 | 3.9 | 7.7 | .180 | .082 | NP | JH4 |
| Case . | Sequence . | Germline VH Gene (reference) . | % Identity . | N . | Obs R/S . | Exp R CDR . | Exp R FR . | p CDR . | p FR . | Germline DH Gene . | Germline JH Gene . | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|
| CDR . | FR . | |||||||||||
| 1 | VH4 | DP 79* | 97.70 | 5 | 2/0 | 1/2 | 1.3 | 2.6 | .273 | .134 | Dxp′1 | JH4 |
| 2 | VH4 | DP 71 (42) | 93.10 | 15 | 0/2 | 3/10 | 3.6 | 7.9 | .018 | .007 | D1 | JH4 |
| 3 | VH1 | DP 25 (42) | 96.40 | 8 | 4/0 | 3/1 | 1.9 | 4.4 | .075 | .075 | Dxp′1 | JH6 |
| 4 | VH3 | DP 77* | 97.80 | 6 | 1/2 | 2/1 | 2.7 | 1.2 | .401 | .401 | DN1 | JH5 |
| 5 | VH4 | DP 66 (42) | 93.20 | 9 | 0/3 | 4/2 | 2.1 | 5.2 | .073 | .234 | Dxp 4 | JH6 |
| 6 | VH4 | DP 65 (42) | 92.70 | 19 | 2/2 | 8/7 | 4.9 | 9.3 | .100 | .154 | Dxp 1/D21/Dxp 4 | JH6 |
| 7 | VH4 | DP 63 (42) | 97.30 | 6 | 2/0 | 2/2 | 1.5 | 3.2 | .299 | .203 | NI | JH6 |
| 8 | VH1 | DP 10 (42) | 96.50 | 8 | 1/2 | 1/4 | 1.9 | 4.4 | .276 | .276 | D21-9/D21-7 | JH6 |
| 9 | VH3 | V4-34 (43) | 96.76 | 7 | 4/0 | 1/2 | 1.8 | 3.6 | .060 | .047 | NI | JH4 |
| 10 | VH4 | DP 49 (44) | 96.80 | 7 | 2/1 | 3/1 | 1.7 | 3.8 | .310 | .240 | NI | JH4 |
| 11 | VH3 | COS 16* | 92.44 | 17 | 9/0 | 5/3 | 3.9 | 9.3 | .006 | .031 | NI | JH4 |
| 12 | VH4 | DP 79* | 92.80 | 16 | 5/1 | 7/3 | 4.1 | 8.2 | .62 | .16 | NI | JH4 |
| 13 | VH4 | DP 65 (42) | 100 | 0 | 0/0 | 0/0 | .0 | .0 | 1,000 | 1,000 | DN4 | JH6 |
| 14 | VH4 | DP 79* | 93.20 | 15 | 5/0 | 5/5 | 3.9 | 7.7 | .180 | .082 | NP | JH4 |
GenBank accession numbers of the sequences, respectively: U86364,U86367, U86370, U86371, U86363, U86366, U86369, U86372, AF004938,AF004937, AF004935, AF004940, AF004936, AF004939.
Abbreviations: VH gene, IgH variable gene; DHgene, IgH diversity gene; JH gene, IgH junction gene; N, total number of mutations observed; R, replacement mutations; S, silent mutations; CDR, complementarity determining region; FR, framework region; p CDR, probability that excess or scarcity of the R mutations in the VH gene CDRs resulted from chance only; p FR, probability that excess or scarcity of the R mutations in the VH gene FRs resulted from chance only; NI, no gene identified with certainty; NP, no gene present.
These germline sequences have not been published but are included in the V BASE sequence directory; all other abbreviations refer to the codes of the previously published germline genes.