Large-scale screening for novel low-affinity extracellular protein interactions

@article{citeulike:2416050, abstract = {Extracellular proteinprotein interactions are essential for both intercellular communication and cohesion within multicellular organisms. Approximately a fifth of human genes encode membrane-tethered or secreted proteins, but they are largely absent from recent large-scale protein interaction datasets, making current interaction networks biased and incomplete. This discrepancy is due to the unsuitability of popular high-throughput methods to detect extracellular interactions because of the biochemical intractability of membrane proteins and their interactions. For example, cell surface proteins contain insoluble hydrophobic transmembrane regions, and their extracellular interactions are often highly transient, having half-lives of less than a second. To detect transient extracellular interactions on a large scale, we developed AVEXIS (avidity-based extracellular interaction screen), a high-throughput assay that overcomes these technical issues and can detect very transient interactions (half-lives [\≤] 0.1 sec) with a low false-positive rate. We used it to systematically screen for receptorligand pairs within the zebrafish immunoglobulin superfamily and identified novel ligands for both well-known and orphan receptors. Genes encoding receptorligand pairs were often clustered phylogenetically and expressed in the same or adjacent tissues, immediately implying their involvement in similar biological processes. Using AVEXIS, we have determined the first systematic lowaffinity extracellular protein interaction network, supported by independent biological data. This technique will now allow large-scale extracellular protein interaction mapping in a broad range of experimental contexts. 10.1101/gr.7187808}, author = {Bushell, Mark K. and Sollner, Christian and Schuster-Boeckler, Benjamin and Bateman, Alex and Wright, Gavin J. }, citeulike-article-id = {2416050}, doi = {10.1101/gr.7187808}, journal = {Genome Res.}, keywords = {protein-interaction, protein-network, protein-protein}, month = {February}, pages = {gr.7187808+}, posted-at = {2008-04-29 08:55:36}, priority = {2}, title = {Large-scale screening for novel low-affinity extracellular protein interactions}, url = {http://dx.doi.org/10.1101/gr.7187808}, year = {2008} }

TY - JOUR ID - citeulike:2416050 L3 - citeulike-article-id:2416050 TI - Large-scale screening for novel low-affinity extracellular protein interactions JF - Genome Res. SP - gr.7187808 N2 - Extracellular proteinprotein interactions are essential for both intercellular communication and cohesion within multicellular organisms. Approximately a fifth of human genes encode membrane-tethered or secreted proteins, but they are largely absent from recent large-scale protein interaction datasets, making current interaction networks biased and incomplete. This discrepancy is due to the unsuitability of popular high-throughput methods to detect extracellular interactions because of the biochemical intractability of membrane proteins and their interactions. For example, cell surface proteins contain insoluble hydrophobic transmembrane regions, and their extracellular interactions are often highly transient, having half-lives of less than a second. To detect transient extracellular interactions on a large scale, we developed AVEXIS (avidity-based extracellular interaction screen), a high-throughput assay that overcomes these technical issues and can detect very transient interactions (half-lives [≤] 0.1 sec) with a low false-positive rate. We used it to systematically screen for receptorligand pairs within the zebrafish immunoglobulin superfamily and identified novel ligands for both well-known and orphan receptors. Genes encoding receptorligand pairs were often clustered phylogenetically and expressed in the same or adjacent tissues, immediately implying their involvement in similar biological processes. Using AVEXIS, we have determined the first systematic lowaffinity extracellular protein interaction network, supported by independent biological data. This technique will now allow large-scale extracellular protein interaction mapping in a broad range of experimental contexts. 10.1101/gr.7187808 KW - protein-interaction KW - protein-network KW - protein-protein AU - Bushell, Mark AU - Sollner, Christian AU - Schuster-Boeckler, Benjamin AU - Bateman, Alex AU - Wright, Gavin PY - 2008/02/22/ UR - http://dx.doi.org/10.1101/gr.7187808 ER -