TY  - JOUR
A1  - Xin, Xiaofeng
A1  - Rual, Jean-François
A1  - Hirozane-Kishikawa, Tomoko
A1  - Hill, David E.
A1  - Vidal, Marc
A1  - Boone, Charles
A1  - Thierry-Mieg, Nicolas
T1  - Shifted Transversal Design smart-pooling for high coverage interactome mapping
Y1  - 2009/07/01 
JF  - Genome Research 
JO  - Genome Research 
SP  - 1262 
EP  - 1269 
DO  - 10.1101/gr.090019.108 
VL  - 19 
IS  - 7 
UR  - http://genome.cshlp.org/content/19/7/1262.abstract 
N2  - “Smart-pooling,” in which test reagents are multiplexed in a highly redundant manner, is a promising strategy for achieving high efficiency, sensitivity, and specificity in systems-level projects. However, previous applications relied on low redundancy designs that do not leverage the full potential of smart-pooling, and more powerful theoretical constructions, such as the Shifted Transversal Design (STD), lack experimental validation. Here we evaluate STD smart-pooling in yeast two-hybrid (Y2H) interactome mapping. We employed two STD designs and two established methods to perform ORFeome-wide Y2H screens with 12 baits. We found that STD pooling achieves similar levels of sensitivity and specificity as one-on-one array-based Y2H, while the costs and workloads are divided by three. The screening-sequencing approach is the most cost- and labor-efficient, yet STD identifies about twofold more interactions. Screening-sequencing remains an appropriate method for quickly producing low-coverage interactomes, while STD pooling appears as the method of choice for obtaining maps with higher coverage. 
ER  -