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Series GSE73791 Query DataSets for GSE73791
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
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.
Overall design Comparative study of CNVs in 19 early- and 20 late-relapsed DLBCLs
Contributor(s) Broséus J, Hergalant S, Ramstein G, Gisselbrecht C, Thieblemont C, Houlgatte R
Citation(s) 27276707
Submission date Oct 06, 2015
Last update date Nov 27, 2018
Contact name Sebastien Hergalant
Organization name INSERM
Department Bioinformatics
Street address Faculté de Médecine. 9 avenue de la forêt de Haye
City Vandoeuvre-lès-Nancy
ZIP/Postal code 54505
Country France
Platforms (1)
GPL6801 [GenomeWideSNP_6] Affymetrix Genome-Wide Human SNP 6.0 Array
Samples (39)
GSM1902766 Late_relapse_GEP_UN_18396
GSM1902767 Late_relapse_GEP_UN_18430
GSM1902768 Early_relapse_ABC_18709
BioProject PRJNA297892

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

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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