Metsada Pasmanik-Chor, TAU Bioinforamtics Unit 1 PNAS 101 2981, 2004 Predicting Complex Biological Networks.

Metsada Pasmanik-Chor, TAU Bioinforamtics Unit

1PNAS 101 2981, 2004http://www.pnas.org/cgi/reprint/0308661100v1

Predicting Complex Biological Networks Studying networks represent a move from a fairly static, model of life (genome sequence) to a more dynamic, processes-oriented approach to life.

Metsada Pasmanik-Chor, TAU Bioinforamtics Unit

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http://www.cs.tau.ac.il/~spike/

Superposition of Gene Expression Data on Signaling Networks

Metsada Pasmanik-Chor, TAU Bioinforamtics Unit

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http://genomics.energy.gov/gallery/b2b/gallery-02.html

Networks and Simulations

Metsada Pasmanik-Chor, TAU Bioinforamtics Unit

4Andrade et al., In Silico Biol. 6, 495 (2006; Figure 2) http://www.bioinfo.de/isb/2006060046/

Input data

33,869 protein sequences

15,000 protein sequences

300 protein sequences

15,186,996BlastP searches

6,805,323BlastP searches

126,318BlastP searches

Analysis using hardware platform

For relatively small input data sizes (300 protein sequences), a local cluster and a single CPU surpass the Grid solution.

1,304 hrs

22 hrs

Large Scale Computations-Overcome the Bottleneck

Metsada Pasmanik-Chor, TAU Bioinforamtics Unit

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Are We Done ?“Now this is not the end.

It is not even the beginning of the end.

But it is perhaps, the end of the beginning”.

Winston Churchill, 1942

(3 years into WW2)

http://www.globecartoon.com/neweconomy/10.html 5

Metsada Pasmanik-Chor, TAU Bioinforamtics Unit

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[email protected]

tel: 03 640 6992

Goal: Make bioinformatics tools readily available to experimentalists

http://www.tau.ac.il/lifesci/bioinfo/