二蛋白质相互作用的生物信息学教材编辑.pptVIP

mRNA levels are systematically measured under a variety of different cellular conditions, and genes are grouped if they show a similar transcriptional response to these conditions. Two nonessential genes that cause lethality when mutated at the same time form a synthetic lethal interaction. Such genes are often functionally associated and their encoded proteins may also interact physically. This type of genetic interaction is currently being studied in an all-versus-all approach in yeast9 . Figure 1. BIND Interaction Viewer Java applet showing how molecules can be connected in the database from molecular complex to small molecule. Yellow, protein; purple, small molecule; white, molecular complex; red, a square is fixed in place and will not be moved by the graph layout algorithm. This session was seeded by the interaction between human LAT and Grb2 proteins involved in cell signaling in the T-cell. Figure?1.?Network cross-comparison.Pairs of proteins have been binned according to their shortest path in networks generated from Y2H and Co-IP data. The false-color map indicates bins with more (red) or fewer (blue) interactions than expected by chance. Bins enriched for true positives, false positives and true noninteractors are indicated. a, Map of protein–protein interactions. The largest cluster, which contains 78% of all proteins, is shown. The colour of a node signifies the phenotypic effect of removing the corresponding protein (red, lethal; green, non-lethal; orange, slow growth; yellow, unknown). 蛋白质相互作用的生物信息学 实验数据 蛋白质相互作用的知识来源于实验。 高通量地应用传统实验方法获取大量相互作用信息。 高通量的数据需要验证。 高通量实验方法 Curr Opin Struct Biol 2003,13:377 Yeast two-hybrid assay Benefits: in vivo. Don’t need pure proteins. Don’t need Ab. Drawbacks: only two proteins are tested at a time (no cooperative binding); it takes place in the nucleus, so many proteins are not in their native compartment; and it predicts possible interactions, but is unrelated to the physiological setting. Mass spectr