E-GEOD-15808 - Transcription profiling of mouse lymphoid neoplasia shows changes in processing of 3 prime-UTR characterize clinically distinct tumor types

Submitted on 24 April 2009, released on 16 October 2009, last updated on 10 June 2011
Mus musculus
Samples (29)
Array (1)
Protocols (4)
We used a novel probe-level microarray analysis, revealing connections between mRNA processing and lymphoid neoplasia, in a mouse leukemia model. Characteristic differences in mRNA processing, primarily in the 3’-untranslated region, distinguished histologically similar tumor subtypes with different survival characteristics. Gene sets with specific processing in each tumor subtype defined signatures useful for tumor subclassification, as demonstrated by internal cross-validation with up to 80% discrimination accuracy. A combination of mRNA expression and sequence analysis suggested that differences in isoform abundance likely arose from both alternative polyadenylation and differential degradation. Experiment Overall Design: 5 types of samples were analyzed with multiple biological replicates. Progenitor B-cells, mature B-cells were the control. LPC, APC, APN were the tumor cells. LPC (Lig4/P53 deficient cells developed pro-B lymphoma with c-myc amplification), APC (Artemis/P53 deficient cells developed pro-B lymphoma with c-myc amplification), APN (Artemis/P53 deficient cells developed pro-B lymphoma with N-myc amplification)
Experiment types
transcription profiling by array, unknown experiment type
Investigation descriptionE-GEOD-15808.idf.txt
Sample and data relationshipE-GEOD-15808.sdrf.txt
Raw data (1)E-GEOD-15808.raw.1.zip
Processed data (1)E-GEOD-15808.processed.1.zip
Array designA-AFFY-45.adf.txt
R ExpressionSetE-GEOD-15808.eSet.r