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Blood, Vol. 113, Issue 11, 2488-2497, March 12, 2009
New insights into the biology and origin of mature aggressive B-cell lymphomas by combined epigenomic, genomic, and transcriptional profiling
Blood Martín-Subero et al.
113: 2488
Supplemental materials for: Martin-Subero et al
Files in this Data Supplement:
- Document 1. Members of the Network Project of the Deutsche Krebshilfe “Molecular Mechanisms in Malignant Lymphomas” (alphabetical order) (PDF, 16.8 KB)
- Document 2. Group definition according to DNA methylation profiling (PDF, 32.4 KB)
- Document 3. Analysis of infinium methylation 27K array (PDF, 14.7 KB)
- Table S1. Table providing the beta-values along with relevant information about 1,505 CpG loci and their corresponding genes, obtained from 106 individual samples in this study (XLS, 10.3 MB)
- Table S2. Detailed characterization of sample material obtained from 83 patients previously published by Hummel et al., 2006 and used in this study (XLS, 181 KB)
- Table S3 (XLS, 19.5 KB)
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(A) Cell lines used in the present study for DNA methylation analyses. (B) DNA samples used as controls in the present study. (C) Stem and progenitor cells samples used in the present study for DNA methylation analyses.
- Table S4. Primers used in the present study (XLS, 21 KB)
- Table S5. GEO IDs, GSE, GEO titles and corresponding references of the sample material used in this study (XLS, 62.5 KB)
- Table S6. Additional gene expression data and values in different tissues and methylation groups corresponding to the data presented in Figures 3 and S11 (XLS, 22.5 KB)
- Table S7. List of genes (XLS, 111 KB)
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Genes to be identified as Globally unmethylated genes (unmethylated in lymphomas and controls), Globally methylated genes (methylated in lymphomas and controls), Hypermethylated genes (methylated in lymphomas and unmethylated in controls), Hypomethylated genes (unmethylated in lymphomas and methylated in controls), Differentially methylated genes between lymphoma subgroups (and unmethylated in controls) or Differentially methylated genes between lymphoma subgroups (and methylated in controls) including gene symbols, information about putative polycomb targets according to Bracken et al. (2006) or Lee et al. (2006), and IDs Gene expression tags (Affymetrix U133A and U95A).
- Table S8. Enrichment of biological processes in the individual methylation groups (XLS, 47.5 KB)
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GO-IDs, GO-terms (biological processes), p-values, GOCounts, intCounts and OddsRatio are provided.
- Figure S1. Reproducibility of BeadArray methylation analysis and bimodal distribution of global DNA methylation data per case in 100 samples (JPG, 170 KB)
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- Figure S2. Correlation of bisulphite sequencing and pyrosequencing with beta values generated by the Bead array platform (JPG, 62.7 KB)
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- Figure S3. Comparison results obtained by the BeadArray platform and MSP (JPG, 107 KB)
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- Figure S4. Correlation of results obtained by the BeadArray platform and bisulphite sequencing (JPG, 152 KB)
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- Figure S5. Correlation of results obtained by the BeadArray platform and pyrosequencing (JPG, 196 KB)
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- Figure S6. Gender-specific methylation of X-chromosomal CpG loci (JPG, 134 KB)
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