Proteome survey reveals modularity of the yeast cell machinery
- A. Gavin, P. Aloy, G. Superti-Furga
- BiologyNature
- 30 March 2006
This study reports the first genome-wide screen for complexes in an organism, budding yeast, using affinity purification and mass spectrometry and provides the largest collection of physically determined eukaryotic cellular machines so far and a platform for biological data integration and modelling.
Relation between amino acid composition and cellular location of proteins.
- J. Cedano, P. Aloy, J. Pérez-pons, E. Querol
- BiologyJournal of Molecular Biology
- 28 February 1997
A correlation analysis of the amino acid composition and the cellular location of a protein is presented and a program (ProtLock) to predict the cellular where a protein has been designed is designed.
A Proteome-Scale Map of the Human Interactome Network
- T. Rolland, M. Tasan, M. Vidal
- BiologyCell
- 20 November 2014
A reference map of the human binary protein interactome
- Katja Luck, Dae-Kyum Kim, M. Calderwood
- BiologyNature
- 23 February 2020
The utility of HuRI is demonstrated in identifying the specific subcellular roles of protein–protein interactions and in identifying potential molecular mechanisms that might underlie tissue-specific phenotypes of Mendelian diseases.
Interrogating protein interaction networks through structural biology
- P. Aloy, R. Russell
- BiologyProceedings of the National Academy of Sciences…
- 23 April 2002
A method to test putative interactions on complexes of known 3D structure is described and confirmation for several interactions is provided, in addition to suggesting molecular details of how they occur.
Interactome3D: adding structural details to protein networks
- Roberto Mosca, A. Céol, P. Aloy
- BiologyNature Methods
- 1 January 2013
The value of Interactome3D is illustrated through the structural annotation of the complement cascade pathway, rationalizing a potential common mechanism of action suggested for several disease-causing mutations.
Ten thousand interactions for the molecular biologist
- P. Aloy, R. Russell
- BiologyNature Biotechnology
- 1 October 2004
This work uses protein interaction data from different sources and three-dimensional structures to suggest that the total number of interaction types in nature is limited, and estimates that most interactions in nature will conform to one of about 10,000 types.
The relationship between sequence and interaction divergence in proteins.
- P. Aloy, H. Ceulemans, A. Stark, R. Russell
- BiologyJournal of Molecular Biology
- 3 October 2003
Structural systems biology: modelling protein interactions
- P. Aloy, R. Russell
- BiologyNature reviews. Molecular cell biology
- 1 March 2006
Structural details can ultimately turn abstract system representations into models that more accurately reflect biological reality and help to predict the behaviour of biological systems.
3did: a catalog of domain-based interactions of known three-dimensional structure
- Roberto Mosca, A. Céol, Amelie Stein, R. Olivella, P. Aloy
- BiologyNucleic Acids Res.
- 28 September 2013
The database of 3D interacting domains (3did), available online for browsing and bulk download at http://3did.irbbarcelona.org, is a reference source of information for the structural characterization of protein interaction networks.
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