The Human Protein Atlas.
Fredrik Ponten. Rudbeck Laboratory, Uppsala University, Sweden
Background: In 2005, the first version of the Human Protein Atlas (www.proteinatlas.org) was released to provide a map of protein expression patterns. The underlying effort is an antibody-based proteomics strategy, applied to combine high-throughput generation of mono-specific antibodies with protein profiling on tissue and cell microarrays containing normal human tissues (144 individuals), cancer tissues (216 patients) and 50 cell lines. Additionally, subcellular protein expression patterns are determined in 3 human cancer cell lines using immunofluorescence.
Design: The current database includes protein profiling data and high-resolution images for over 11.000 antibodies. Each histology image has been manually annotated by a certified pathologist to provide a knowledge base for functional studies and to allow searches for protein profiles in normal and cancer tissue. The subcellular location for each protein target is reported based on manual annotation of immunofluorescent signals in analyzed cells. In November 2010 a new version 7 will be released to include knowledge-based protein expression data and images representing 10.000 unique proteins corresponding to 50% of the human genome.
Results: The systematic exploration of the human proteome has provided a new insight into global protein expression patterns and also created opportunities to identify various types of biomarkers with in silico based methods. To examine protein expression levels in tumors from larger patient cohorts specially designed tissue microarrays including clinical data associated with the corresponding patients are generated and immunostained with antibodies against selected targets, to allow for clinical validation of new cancer biomarkers.
Conclusions: The Human Protein Atlas represents a resource containing protein expression data with high-resolution images of human normal and cancer cells. This resource can be used for further analyses of cell type-specific expression patterns, including searches for potential cancer biomarkers. The mission is to create a map of the expression and localization of a majority of all human proteins, in both normal and cancer tissues, within a time frame of 5 years. References Uhlen M. & Ponten F. Antibody-based proteomics for human tissue profiling. Mol Cell Proteomics 4, 384-93. (2005) Berglund L. et al. A gene-centric human protein atlas for expression profiles based on antibodies. Mol Cell Proteomics 7, 2019-27 (2008). Ponten F, Jirstrom K and Uhlen M. A Human Protein Atlas: A Tool For Pathology. J Pathology. 216, 387-93 (2008). Ponten F. et al. A global view of protein expression in human cells, tissues and organs. Mol Sys Biol. 5: 337 (2009)
Category: Special Category - Pan-genomic/Pan-proteomic approaches to Cancer
Monday, February 28, 2011 1:00 PM
Poster Session II # 251, Monday Afternoon