Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

Transcription profiling of human primary lymphomas of the central nervous system suggests PCNSL to be derived from a late germinal center B cell.

ABSTRACT: To characterize the molecular origin of primary lymphomas of the central nervous system (PCNSL), 21 PCNSL of immunocompetent patients were investigated by microarray-based gene expression profiling. Comparison of the transcriptional profile of PCNSL with various normal and neoplastic B cell subsets demonstrated PCNSL (i) to display gene expression patterns most closely related to late germinal center B cells, (ii) to display a gene expression profile similar to systemic diffuse large B cell lymphomas (DLBCL), and (iii) to be in part assigned to the activated B cell-like (ABC) or the germinal center B cell-like (GCB) subtype of DLBCL. Experiment Overall Design: Total RNA was extracted from tissue blocks containing > 80% tumor cells using the TRIzol reagent (Invitrogen, Carlsbad, CA) and purified using RNeasy Kit (Qiagen, Valencia, CA). Double-stranded cDNA (ds-cDNA) was generated from 5 Î¼g of total RNA using the SuperScript Double Stranded cDNA Synthesis Kit (Invitrogen) and a poly-dT oligonucleotide that contains T7 RNA polymerase initiation site (Sigma-Proligo, St. Louis, MO). The ds-cDNA was used as template to generate biotinylated cRNA by in vitro transcription using MEGA-script T7 High Yield Transcription Kit (Ambion, Austin, TX), biotin-11-CTP, and biotin-11-UTP (Perkin Elmer, Altham, MA). The biotinylated cRNA was purified by RNAeasy Kit (Qiagen) and fragmented according to the Affymetrix protocol. 15 Î¼g of fragmented cRNA was hybridized to HG-U95Av2 microarrays (Affymetrix, Santa Clara, CA). Gene expression values were determined by GCOS1.2 software (Affymetrix) using the global scaling option.

ORGANISM(S): Homo sapiens

SUBMITTER: Manuel Montesinos-Rongen

PROVIDER: E-GEOD-6047 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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Gene expression profiling suggests primary central nervous system lymphomas to be derived from a late germinal center B cell.

Montesinos-Rongen M M Brunn A A Bentink S S Basso K K Lim W K WK Klapper W W Schaller C C Reifenberger G G Rubenstein J J Wiestler O D OD Spang R R Dalla-Favera R R Siebert R R Deckert M M

Leukemia 20071108 2

To characterize the molecular origin of primary lymphomas of the central nervous system (PCNSL), 21 PCNSLs of immunocompetent patients were investigated by microarray-based gene expression profiling. Comparison of the transcriptional profile of PCNSL with various normal and neoplastic B-cell subsets demonstrated PCNSL (i) to display gene expression patterns most closely related to late germinal center B cells, (ii) to display a gene expression profile similar to systemic diffuse large B-cell lym ...[more]

PMID: 17989719

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Dataset Information

Transcription profiling of human primary lymphomas of the central nervous system suggests PCNSL to be derived from a late germinal center B cell.

Publications

Gene expression profiling suggests primary central nervous system lymphomas to be derived from a late germinal center B cell.

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