Download Bacterial Molecular Networks: Methods and Protocols by Jacques van Helden, Ariane Toussaint, Denis Thieffry PDF

By Jacques van Helden, Ariane Toussaint, Denis Thieffry

Network-based representations became pervasive in so much fields in biology. Bacterial Molecular Networks: tools and Protocols presents authoritative descriptions of varied experimental and computational tools permitting the characterization and research of molecular interplay networks, with a spotlight on micro organism. Divided into 3 handy sections, this quantity offers large insurance of varied experimental and in silico ways aiming on the characterization of community parts, addresses the presentation of computational techniques to investigate the topology of molecular networks, and additional introduces various equipment and instruments permitting scientists to generate qualitative or quantitative dynamical versions of molecular techniques in micro organism. Written within the hugely profitable Methods in Molecular Biology™ sequence structure, chapters contain introductions to their respective themes, lists of the required fabrics and reagents, step by step, comfortably reproducible protocols, and notes on troubleshooting and heading off identified pitfalls.

Authoritative and obtainable, Bacterial Molecular Networks: equipment and Protocols is meant basically for post-graduate scholars and researchers operating within the box of experimental and computational microbiology and offers a mixture of up to date studies besides specified protocols written by way of the builders of bioinformatics assets, comparable to databases and software program tools.

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1991) The two-hybrid system: a method to identify and clone genes for proteins that interact with a protein of interest. Proc Natl Acad Sci USA, 88: 9578–9582. 4. Fields S, Song O. (1989) A novel genetic system to detect protein–protein interactions. Nature, 340:245–246. 5. Walhout AJ, Vidal M. (2001) High-throughput yeast two-hybrid assays for large-scale protein interaction mapping. Methods, 24:297–306. 6. Sanchez C, Lachaize C, Janody F, Bellon B, Roder L, Euzenat J, Rechenmann F, Jacq B. (1999) Grasping at molecular interactions and genetic networks in Drosophila melanogaster using FlyNets, an Internet database.

Databases Interactions identified with high-throughput methods constitute large datasets, which are compiled within interaction databases. Besides general databases such as IntAct (58) or MINT (59) that contain protein–protein interactions detected in all types of species including bacteria (and for which a detailed protocol has been described in ref. 60), two databases are especially dedicated to bacterial protein–protein interactions (Table 2). org/bacteriome/) only collects results of systematic proteomic studies on E.

Ca (55)). Due to the large number of identified interactions and the high coverage of the E. ) 1,280 Rain et al. (32) Escherichia coli K12 DY330 TAPTAG 4,236 648 1,369 5,254 Butland et al. (15) Escherichia coli K12 W3110 HisTAG 4,236 2,667 2,012 11,511 Arifuzzaman et al. (57) Escherichia coli K12 W3110 TAPTAG 4,236 1,241 1,316 5,997 Hu et al. (55) Mycoplasma pneumoniae M129 TAPTAG 689 212 411 1,058 K€ uhner et al. (19) Campylobacter jejuni NCTC11168 Y2H 1,654 637 1,248 11,687 Parrish et al. (33) Synechocystis PCC6803 Y2H 3,569 1,037 1,352 3,236 Sato et al.

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