Question: Where can I find public Single Cell RNA-seq data?
6
gravatar for 309772486
2.9 years ago by
30977248660
European Union
30977248660 wrote:

Hi everyone,

I am trying to find some public RNAseq data from single cells. Do you know any of them? Thanks for the help!

sequencing rna-seq • 5.6k views
ADD COMMENTlink modified 4 months ago by Friederike4.5k • written 2.9 years ago by 30977248660
2

We developed BioTuring Browser, a modern application for free accessing to published sequencing data, focusing on single-cell transcriptomics. Many brain single-cell datasets have been indexed, including DropViz, which has more than 690,000 cells.

You can download it here: https://bioturing.com/product/bbrowser.

Some screen-shots

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ADD REPLYlink written 9 months ago by tan20

Try http://www.cellatlassearch.com/ if you are looking for human scRNA-seq samples.

ADD REPLYlink written 11 months ago by arup1.5k
3
gravatar for Cumol
2.9 years ago by
Cumol40
Cumol40 wrote:

Here you will find one: http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE59739

It is from this publication: Usoskin, D. et al. Unbiased classification of sensory neuron types by large-scale single-cell RNA sequencing. Nat Neurosci 18, 145–153 (2015).

ADD COMMENTlink written 2.9 years ago by Cumol40
5
gravatar for fusion.slope
2.9 years ago by
fusion.slope200
fusion.slope200 wrote:

Check the last Work of Jeff Leek:

https://jhubiostatistics.shinyapps.io/recount/

and type "Single Cells" you will find a lot of Public available RNA-seq data-sets that you can download with SRA Toolkiit

ADD COMMENTlink written 2.9 years ago by fusion.slope200
3
gravatar for Daniel Swan
2.9 years ago by
Daniel Swan13k
Aberdeen, UK
Daniel Swan13k wrote:

There's a few datasets from the 10X Genomics platform here:

http://support.10xgenomics.com/single-cell/datasets

ADD COMMENTlink written 2.9 years ago by Daniel Swan13k
1
gravatar for Mike
11 months ago by
Mike1.3k
UK
Mike1.3k wrote:

There is one more database for single cell RNAseq: scRNASeqDB

scRNASeqDB a database for gene expression profiling in human single cell by RNA-seq

https://bioinfo.uth.edu/scrnaseqdb/

ADD COMMENTlink written 11 months ago by Mike1.3k
1
gravatar for Friederike
4 months ago by
Friederike4.5k
United States
Friederike4.5k wrote:

The Broad's Single Cell Portal currently houses 70 single cell data sets which can be perused. They also offer neat functions like showing you the expression of your favorite gene in all those publicly available data sets that they host etc.

ADD COMMENTlink written 4 months ago by Friederike4.5k
0
gravatar for of
11 months ago by
of20
Stockholm
of20 wrote:

Another one that could be useful:

https://panglaodb.se/

ADD COMMENTlink modified 11 months ago • written 11 months ago by of20
0
gravatar for Denise - Open Targets
11 months ago by
UK, Hinxton, EMBL-EBI
Denise - Open Targets5.0k wrote:

In Single Cell Expression Atlas.

If there are studies you would like them to include, get in touch with their Support team. Their major requirement for inclusion is to have access to the raw data.

ADD COMMENTlink written 11 months ago by Denise - Open Targets5.0k
0
gravatar for hannah.johnson
11 months ago by
hannah.johnson0 wrote:

Interesting data just published by Dolomite Bio here

ADD COMMENTlink modified 11 months ago • written 11 months ago by hannah.johnson0
0
gravatar for Minstein
4 months ago by
Minstein100
Minstein100 wrote:

More than 20 human and mouse scRNA-seq datasets are collected by the Hemberg Group: https://hemberg-lab.github.io/scRNA.seq.datasets/

ADD COMMENTlink written 4 months ago by Minstein100
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