Interactive navigation of the sub-cellular proteome

Searching for your proteins of interest and critically assessing the reliability of the localisation information.

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Proteome-wide interactive spatial maps

We provide on-line browseable proteome-wide spatial maps at your fingertips. This resource offers direct access to the data and visualisation software of the state-of-the-art pRoloc suite of Bioconductor packages. Choose from a set of datasets, and navigate and search the sub-cellular proteomics map using interactive interfaces.

I you want full control, have a look at our software section. Want to contribute your own data, get in touch.

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Software infrastructure


Managing and processing quantitative proteomics data and its meta-data.


All the machine learning you need to analyse and comprehend your spatial proteomics data.


Interactive visualisation and exploration of spatial proteomics data.


All the data readily formatted, ready to be analysed and visualised.

Infrastructure references

Gatto L, Breckels LM, Naake T and Gibb S Visualisation of proteomics data using R and Bioconductor Proteomics. 2015 Apr;15(8):1375-89.

Gatto L, Breckels LM, Burger T, Nightingale DJ, Groen AJ, Campbell C, Nikolovski N, Mulvey CM, Christoforou A, Ferro M, Lilley KS A foundation for reliable spatial proteomics data analysis, Mol Cell Proteomics. 2014 Aug;13(8):1937-52.

Gatto L, Breckels LM, Burger T, Wieczorek S and Lilley KS Mass-spectrometry based spatial proteomics data analysis using pRoloc and pRolocdata, Bioinformatics, 2014.

Breckels LM, Gatto L, Christoforou A, Groen AJ, Lilley KS and Trotter MWB The Effect of Organelle Discovery upon Sub-Cellular Protein Localisation, Journal of Proteomics, 2013.

Gatto L and Lilley KS MSnbase - an R/Bioconductor package for isobaric tagged mass spectrometry data visualisation, processing and quantitation, Bioinformatics, 28(2), 288-289, 2012.

Data references

Christoforou A, Mulvey CM, Breckels LM, Geladaki A, Hurrell T, Hayward P, Naake T, Gatto L, Viner R, Martinez Arias A, and Lilley KS. A draft map of the mouse pluripotent stem cell spatial proteome, Nature Communications, In press.

Tan DJ, Dvinge H, Christoforou A, Bertone P, Martinez Arias A, Lilley KS. Mapping organelle proteins and protein complexes in Drosophila melanogaster. J Proteome Res. 2009 Jun;8(6):2667-78.

Dunkley TP, Hester S, Shadforth IP, Runions J, Weimar T, Hanton SL, Griffin JL, Bessant C, Brandizzi F, Hawes C, Watson RB, Dupree P, Lilley KS. Mapping the Arabidopsis organelle proteome. Proc Natl Acad Sci U S A. 2006 Apr 25;103(17):6518-23.


The work was supported by the generous support of


Prime-XS project FP7

Let's Get In Touch!

Any questions about this infrastructure or the data? Do you want to get involved, contribute data? That's great! Send us an email and we will get back to you as soon as possible!

This resource stems from research performed in the Computational Proteomics Unit and the Cambridge Centre for Proteomics at the University of Cambridge.