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| Status |
Public on Sep 26, 2016 |
| Title |
Relapsed diffuse large B-cell lymphoma present different genomic patterns of alterations between early and late relapses |
| Organism |
Homo sapiens |
| Experiment type |
Genome variation profiling by SNP array
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| Summary |
Despite major advances in first-line treatment, a significant proportion of patients with diffuse large B-cell lymphoma (DLBCL) will experience treatment failure. Time of relapse is a major prognostic parameter in this context, with a particularly poor prognosis for early relapse. Our purpose was to determine genomic alterations associated with early-relapsed (ER) and late-relapsed (LR) DLBCLs, using high resolution array-based comparative genomic hybridization and integrating structural abnormalities and gene expression of 39 samples from the Collaborative Trial in Relapsed Aggressive Lymphoma (CORAL) study. ER and LR DLBCLs present a similar landscape of large copy number variations (CNVs), with an average 14.89 and 16.11 CNVs per sample, respectively (p=0.81). Deletions of CDKN2A/B (28%) and IBTK (23%) were frequent events in relapsed DLBCLs. We identified 56 protein-coding genes and 25 long non-coding RNAs with significantly differential CNVs distribution between ER and LR DLBCLs with a false discovery rate < 0.05. In ER DLBCLs, genetic abnormalities were related to regulation of transcription, cell cycle and apoptosis, with duplications of histone H1T (31%), deletions of DIABLO (26%), PTMS (21%) and CK2B (15%). In LR DLBCLs, genetic aberrations were related to immune response, with alterations of IgHV (40%), IgKV (15%), and deletions of B2M (20%) and CD58 (10%), regulation of cell proliferation, with duplications of HES1 and DVL3 (25% and 20%, respectively) and regulation of transcription, with MTERF4 deletions (20%). This study provides new insights into the genetic abnormalities in relapsed DLBCLs. Dysregulation of cell cycle, apoptosis and gene transcription may indicate targeted therapy.
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| Overall design |
Comparative study of CNVs in 19 early- and 20 late-relapsed DLBCLs
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| Contributor(s) |
Broséus J, Hergalant S, Ramstein G, Gisselbrecht C, Thieblemont C, Houlgatte R |
| Citation(s) |
27276707 |
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| Submission date |
Oct 06, 2015 |
| Last update date |
Nov 27, 2018 |
| Contact name |
Sebastien Hergalant |
| Organization name |
INSERM
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| Department |
Bioinformatics
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| Lab |
NGERE
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| Street address |
Faculté de Médecine. 9 avenue de la forêt de Haye
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| City |
Vandoeuvre-lès-Nancy |
| ZIP/Postal code |
54505 |
| Country |
France |
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| Platforms (1) |
| GPL6801 |
[GenomeWideSNP_6] Affymetrix Genome-Wide Human SNP 6.0 Array |
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| Samples (39)
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| Relations |
| BioProject |
PRJNA297892 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE73791_Chromosome_1.txt.gz |
30.7 Mb |
(ftp)(http) |
TXT |
| GSE73791_Chromosome_10.txt.gz |
19.6 Mb |
(ftp)(http) |
TXT |
| GSE73791_Chromosome_11.txt.gz |
18.8 Mb |
(ftp)(http) |
TXT |
| GSE73791_Chromosome_12.txt.gz |
18.3 Mb |
(ftp)(http) |
TXT |
| GSE73791_Chromosome_13.txt.gz |
13.9 Mb |
(ftp)(http) |
TXT |
| GSE73791_Chromosome_14.txt.gz |
12.0 Mb |
(ftp)(http) |
TXT |
| GSE73791_Chromosome_15.txt.gz |
11.2 Mb |
(ftp)(http) |
TXT |
| GSE73791_Chromosome_16.txt.gz |
11.3 Mb |
(ftp)(http) |
TXT |
| GSE73791_Chromosome_17.txt.gz |
9.8 Mb |
(ftp)(http) |
TXT |
| GSE73791_Chromosome_18.txt.gz |
11.0 Mb |
(ftp)(http) |
TXT |
| GSE73791_Chromosome_19.txt.gz |
6.4 Mb |
(ftp)(http) |
TXT |
| GSE73791_Chromosome_2.txt.gz |
32.2 Mb |
(ftp)(http) |
TXT |
| GSE73791_Chromosome_20.txt.gz |
9.1 Mb |
(ftp)(http) |
TXT |
| GSE73791_Chromosome_21.txt.gz |
5.2 Mb |
(ftp)(http) |
TXT |
| GSE73791_Chromosome_22.txt.gz |
5.1 Mb |
(ftp)(http) |
TXT |
| GSE73791_Chromosome_3.txt.gz |
26.8 Mb |
(ftp)(http) |
TXT |
| GSE73791_Chromosome_4.txt.gz |
25.3 Mb |
(ftp)(http) |
TXT |
| GSE73791_Chromosome_5.txt.gz |
24.3 Mb |
(ftp)(http) |
TXT |
| GSE73791_Chromosome_6.txt.gz |
23.8 Mb |
(ftp)(http) |
TXT |
| GSE73791_Chromosome_7.txt.gz |
21.1 Mb |
(ftp)(http) |
TXT |
| GSE73791_Chromosome_8.txt.gz |
20.6 Mb |
(ftp)(http) |
TXT |
| GSE73791_Chromosome_9.txt.gz |
17.2 Mb |
(ftp)(http) |
TXT |
| GSE73791_RAW.tar |
995.9 Mb |
(http)(custom) |
TAR (of CEL) |
| Processed data are available on Series record |
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