GEO series

Gene expression profiles of pretreatment biopsies from dose-dense-docetaxel-treated breast cancers

GSE28796 Homo sapiens (human) Expression microarray 24 samples Submitted 2011/04/22 Platform GPL570

At a glance

Expression microarray · human · 24 samples

What it is: Expression microarrayGene activity read on a chip (the older technology that RNA-seq replaced).
Organism: Homo sapiens (human)
Samples: 24 samples
Data you can get: A processed expression table (series matrix) and the array files, from NCBI.

Summary (written by the submitters)

The purpose of this study was to identify molecular markers of pathologic response to neoadjuvant dose-dense docetaxel treatment using gene expression profiling on pretreatment biopsies. Patients with high-risk, operable breast cancer were treated with 75 mg/m2 IV of docetaxel on day 1 of each cycle every 2 weeks x 4 cycles . Tumor tissue from pretreatment biopsies was obtained from 12 patients enrolled in the study.

Read the full summary ↓

Gene expression profiling were done on serial sections of the biopsies from patients that achieved a pathologic complete response (pCR) and compared to those with residual disease, non-pCR (NR).

This dataset

Open GSE28796 in finder → Find more human microarray datasets →

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 (GSE28796_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 PRJNA138815. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗ Paper (PMID 21633166) ↗

Samples in this study

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

+ 24 more — browse all 24 samples with per-sample file links →

Datasets on a similar topic

GSE243375 HER2 heterogeneity and treatment response-associated profiles in HER2-positive breast cancer in the NCT02326974 clinical trial 287 samples shares profiles, breast
GSE281797 Transcriptomic profiles of liver biopsies in obese patients with metabolic dysfunction-associated steatotic liver disease 94 samples shares profiles, biopsies
GSE237728 miRNA-seq and RNA-seq profiles of breast cancer cell lines 79 samples shares profiles, breast
GSE328024 A multi-omic dataset of cellular and microRNA profiles in human breast milk across a spectrum of gestational ages 14 samples shares profiles, breast
GSE297652 Single-cell transcriptomic profiles of metastatic lesion biopsies and PBMCs from M1-stage prostate cancer patients 12 samples shares profiles, biopsies
GSE33000 Gene expression profiles of human prefrontal cortex brain tissues 624 samples shares profiles
GSE22098 Whole blood transcriptional profiles of patients with active tuberculosis (TB) and other inflammatory and infectious diseases 274 samples shares profiles
GSE6764 Genome-wide molecular profiles of HCV-induced dysplasia and hepatocellular carcinoma 75 samples shares profiles

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.