This lab generates high-throughput data on sensory neurons and spinal cord microglia. Here are some of our latest results:

Lopes et al, 2017: RNA-seq on MACS-sorted male and female nociceptors in naive and injury states: click here to download

Lopes et al, 2017(2): RNA-seq on pure trigeminal neurons compared to pure DRG neurons: click here to download

Denk et al, 2016: RNA-seq on spinal cord microglia (Percoll-isolated) after spinal nerve ligation: click here to download

Denk et al, 2016: ChIP-seq on spinal cord microglia (H3k4me1) after spinal nerve ligation:

Thakur et al, 2014: RNA-seq of nociceptive sensory neurons after magnetically activated cell sorting: click here to download

Check out other researchers' data - an enormous amount of exciting, cell-type specific expression datasets have been generated over the past few years. There are many dedicated websites (see table) & ways to access data on GEO (see how-to-guide & video below). 

If these resources end up being of help in your own work, make sure to quote the original research papers associated with them. It helps fund more of these projects for the community :)





A browser that allows you to visualize and extract sequencing data deposited via GEO and SRA. All data have been re-aligned with standard settings by the authors.

Astrocyte RNA-Seq Browser

A browser to visualize astrocyte-specific RNA-seq in mice with or without spinal cord injury. No expression level cutoff is provided, so make sure to compare the FPKM level of your favourite gene to one that you know to be absent or lowly expressed

Allen Brain Atlas

A large collection of brain atlases, initially based on in situ data in mouse, but now encompassing human data and data derived from a variety of techniques (e.g. virus injections, transgenic mice, calcium imaging)

Barres Brain RNA-seq

A platform created by Ben Barres & his team at Stanford, where gene names can be used to search RNA-seq data on sorted human and mouse cortical cell types


A gene expression portal collating microarray and annotation data


A beautiful new tool based on ARCHS4 that allows you to re-analyse RNA-seq data deposited on GEO, as well as analyse your own experiments using a standardised pipeline


A heroic initiative designed to decode the entire human haematopoietic epigenome and transcriptome using stringently purified cell types (


RNA-seq of 16 individual human tissues, accessible via a simple gene search function

DRG TXome Database

Easily searchable RNA-seq data of whole sensory ganglia (DRG) from both human & mouse, integrated across several studies & allowing for comparison to other tissue types


The Encyclopedia of DNA Elements. Set up in 2003, an initiative designed to map all regulatory and functional elements of the genome. It has generated vast amounts of data available on standard genome browsers and spawned many auxiliary projects, such as Blueprint & PsychENCODE

Gene Expression Omnibus

The most commonly used data repository for sequencing data


New tools by bioinformaticians for biologists are regularly becoming available and can usually be found most quickly via Google


The website of the Gene-Tissue Expression project, which collects genotype and tissue specific RNA-seq data for the generation of expression quantitative trait loci (eQTLs)

Human Protein Atlas

An atlas of human protein expression based on antibody staining and other evidence such as RNA-seq


The Immunological Genome Project was originally designed to collate microarray datasets, but now also has a lot of cell-type specific RNA-seq. Check their 'Data Browsers' tab for many great tools

Mouse Single Cell Atlas

An excellent resource provided by the Linnarsson Lab at Karolinska University which beautifully summarizes the scRNA-seq data they have generated over the years


A database which compiles single cell RNA-seq data from human and mouse for the community to explore, e.g. using a simple gene search function


A new effort focused on generating cell-type specific maps of regulatory elements using post-mortem tissue from schizophrenic, bipolar and autistic patients. The first set of data were released in January 2016 (!Synapse:syn4921369/wiki/235539), but currently still require slightly more advanced knowledge to access.

Tabula Muris

An exciting new database with metadata from single cell transcriptomic data from 100,000 cells from 20 organs and tissues

UCSC genome browser

A great genome browser to visualise raw sequencing data. You can upload the bigwig files of other authors, your own sequencing files or display data provided by ENCODE

Any published dataset should also be accessible on the Gene Expression Omnibus website. This how-to-guide and screenshot video will show you how to get the files - it takes 5 minutes tops!