GEO series

Gene expression in cultured bovine ovarian granulosa

GSE42535 Bos taurus Expression microarray 15 samples Submitted 2014/05/20 Platform GPL2112

At a glance

Expression microarray · Bos taurus · 15 samples

What it is: Expression microarrayGene activity read on a chip (the older technology that RNA-seq replaced).
Organism: Bos taurus
Samples: 15 samples
Data you can get: A processed expression table (series matrix) and the array files, from NCBI.

Summary (written by the submitters)

The growth of the mammalian ovarian follicle requires the formation of a fluid filled antrum, and maturation and differentiation of the ovarian granulosa cells, largely under the control of Follicle Stimulating Hormone (FSH). Many follicles will regress and die by a process called atresia at this early antral stage. We therefore decided to analyse the gene expression profiles of granulosa cells cultured in the presence or absence of FSH and Tumour Necrosis Factor-alpha (TNFα), an apoptotic factor, to simulate the key influences.

Read the full summary ↓

Different concentratons of FSH and TNFa in granulosa culture were used to determine effective conditions via estradiol and progesterone production, and cell number. RNA for the array experiments and quantitative real time PCR was extracted from cells cultured with FSH added at 0.33 and TNFα at 50 ng/ml.

This dataset

Open GSE42535 in finder → Find more 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 (GSE42535_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 PRJNA182222. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗ Paper (PMID 24467805) ↗

Samples in this study

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

+ 15 more — browse all 15 samples with per-sample file links →

Datasets on a similar topic

GSE36605 Transcriptional profiling of cumulus cells differentiation throughout oocyte competence acquisition in the bovine ovarian follicles. 17 samples shares ovarian, bovine
GSE11495 Regulation of granulosa and theca cell transcriptomes during ovarian antral follicle development. 12 samples shares granulosa, ovarian
GSE50854 Transcriptome analysis of Bovine granulosa cells of preovulatory follicles at 30, 60, 90 and 120 days postpartum 9 samples shares granulosa, bovine
GSE52480 Maternal age related changes in transcriptome of bovine granulosa cells of the dominant follicle at the time of selection 6 samples shares granulosa, bovine
GSE128697 Persistent effects on bovine granulosa cell transcriptome after resolution of uterine disease 16 samples shares granulosa, bovine
GSE309598 Transcriptomic analysis of the transition from preantral to early antral bovine ovarian follicles 8 samples shares ovarian, bovine
GSE79760 Cumulus cell gene expression associated with pre-ovulatory acquisition of developmental competence in bovine oocytes 18 samples shares bovine
GSE31361 Gene expression profiling of in vitro matured bovine oocytes cultivated with or without cumulus cells. 8 samples shares bovine

Search all 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.