GEO series

caArray_golub-00095: Diffuse large B-cell lymphoma outcome prediction

GSE68895 Homo sapiens (human) Expression microarray 77 samples Submitted 2015/05/15 Platform GPL80

At a glance

Expression microarray · human · 77 samples

What it is: Expression microarrayGene activity read on a chip (the older technology that RNA-seq replaced).
Organism: Homo sapiens (human)
Topic: Diffuse large B-cell lymphomaThis series is part of our curated briefing on it.
Samples: 77 samples
Data you can get: A processed expression table (series matrix) and the array files, from NCBI.

Summary (written by the submitters)

Diffuse large B-cell lymphoma (DLBCL), the most common lymphoid malignancy in adults, is curable in less than 50% of patients. Prognostic models based on pre-treatment characteristics, such as the International Prognostic Index (IPI), are currently used to predict outcome in DLBCL. However, clinical outcome models identify neither the molecular basis of clinical heterogeneity, nor specific therapeutic targets.

Read the full summary ↓

We analyzed the expression of 6,817 genes in diagnostic tumor specimens from DLBCL patients who received cyclophosphamide, adriamycin, vincristine and prednisone (CHOP)-based chemotherapy, and applied a supervised learning prediction method to identify cured versus fatal or refractory disease. The algorithm classified two categories of patients with very different five-year overall survival rates (70% versus 12%). The model also effectively delineated patients within specific IPI risk categories who were likely to be cured or to die of their disease. Genes implicated in DLBCL outcome included some that regulate responses to B-cell-receptor signaling, critical serine/threonine phosphorylation pathways and apoptosis. Our data indicate that supervised learning classification techniques can predict outcome in DLBCL and identify rational targets for intervention.

This dataset

Open GSE68895 in finder → Find more human microarray datasets → Diffuse large B-cell lymphoma landscape →

Download · which file do I need?

Direct links to NCBI, no account and no request form. Pick by what you want to do: take the small processed table to look, the supplementary files to re-analyse, or the original raw data to start over.

1 · Just have a look

Processed table

The series matrix: one table of values per sample as the submitters processed it. The smallest download, and it opens in Excel or R. Start here to see what the data look like.

Series matrix ↓

2 · Re-analyse it

Supplementary files

The count tables and other files the authors uploaded. Take only the samples you need.

All supplementary files ↗

3 · The original raw files

Whole study · RAW.tar

Everything the authors deposited as one archive (GSE68895_RAW.tar), including the raw array or instrument files. Can be large; the picker in step 2 takes just the samples you need.

Whole study · RAW.tar ↓

What the files usually look like: For arrays the series matrix is normally the normalised expression table you want; the raw array files (CEL and similar) are in the RAW.tar.

Also filed as BioProject PRJNA283985. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗ Paper (PMID 11786909) ↗

Samples in this study

The sample list for this study is not cached yet. Press Load samples and it will be fetched from NCBI.

+ 77 more — browse all 77 samples with per-sample file links →

More Diffuse large B-cell lymphoma datasets

GSE10846 Prediction of survival in diffuse large B cell lymphoma treated with chemotherapy plus Rituximab 420 samples same disease briefing · shares prediction, lymphoma, diffuse, large
GSE15127 Genomic profiles of diffuse large B-cell lymphomas 167 samples same disease briefing · shares lymphoma, diffuse, b-cell, large
GSE230396 Selective Enhancer Dependencies in MYC-Intact and MYC-Rearranged Germinal Center B-cell Diffuse Large B-cell Lymphoma 132 samples same disease briefing · shares lymphoma, diffuse, b-cell, large
GSE262621 Gene expression profiling of HIV-associated diffuse large B-cell lymphomas from Malawi 70 samples same disease briefing · shares lymphoma, diffuse, b-cell, large
GSE267097 Pre-Treatment peripheral Immune composition can accurately predict CAR-T outcomes in patients with Large B-Cell Lymphoma 49 samples same disease briefing · shares lymphoma, outcome, b-cell, large
GSE213555 Molecular and pathological characterisation of diffuse large B-cell lymphomas in children with Nijmegen breakage syndrome 41 samples same disease briefing · shares lymphoma, diffuse, b-cell, large
GSE139185 KDM4A/KDM4C lysine demethylases sustain an oncogenic transcriptional program in diffuse large B-cell lymphoma 40 samples same disease briefing · shares lymphoma, diffuse, b-cell, large
GSE139022 KDM4A/KDM4C lysine demethylases sustain an oncogenic transcriptional program in diffuse large B-cell lymphoma [ChIP-Seq] 31 samples same disease briefing · shares lymphoma, diffuse, b-cell, large

Search all human microarray datasets in GEO →

Share this dataset

Metadata from NCBI GEO, cached and refreshed periodically — the NCBI page above is authoritative. Downloads link straight to NCBI/ENA; nothing is proxied through BioTransfer.