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Items: 1 to 20 of 101

1.

Evolving protein-protein interaction networks: A model based on duplication and mutation at different rates.

Sun JT, Ao B, Zhang S, Bing Z, Yang L.

J Theor Biol. 2014 Jun 7;350:32-6. doi: 10.1016/j.jtbi.2014.01.034. Epub 2014 Jan 31.

PMID:
24491255
2.

Geometric evolutionary dynamics of protein interaction networks.

Przulj N, Kuchaiev O, Stevanović A, Hayes W.

Pac Symp Biocomput. 2010:178-89.

3.
4.

The evolutionary dynamics of the Saccharomyces cerevisiae protein interaction network after duplication.

Presser A, Elowitz MB, Kellis M, Kishony R.

Proc Natl Acad Sci U S A. 2008 Jan 22;105(3):950-4. doi: 10.1073/pnas.0707293105. Epub 2008 Jan 16.

5.

Not all scale-free networks are born equal: the role of the seed graph in PPI network evolution.

Hormozdiari F, Berenbrink P, Przulj N, Sahinalp SC.

PLoS Comput Biol. 2007 Jul;3(7):e118.

6.

Model the evolution of protein interaction network assisted with protein age.

Luo J, Song D, Liang C, Li G.

J Theor Biol. 2013 Sep 21;333:10-7. doi: 10.1016/j.jtbi.2013.05.006. Epub 2013 May 17.

PMID:
23688824
7.

Characterization of degree frequency distribution in protein interaction networks.

Romano SA, Eguia MC.

Phys Rev E Stat Nonlin Soft Matter Phys. 2005 Mar;71(3 Pt 1):031901. Epub 2005 Mar 3.

PMID:
15903453
8.

Evolving protein interaction networks through gene duplication.

Pastor-Satorras R, Smith E, Solé RV.

J Theor Biol. 2003 May 21;222(2):199-210.

PMID:
12727455
10.
11.
12.

Limitations of gene duplication models: evolution of modules in protein interaction networks.

Emmert-Streib F.

PLoS One. 2012;7(4):e35531. doi: 10.1371/journal.pone.0035531. Epub 2012 Apr 18. Erratum in: PLoS One. 2012;7(6). doi:10.1371/annotation/4f3cfa51-aac6-4ffe-80f1-5ec467921edd.

13.

The importance of age and high degree, in protein-protein interaction networks.

Rito T, Deane CM, Reinert G.

J Comput Biol. 2012 Jun;19(6):785-95. doi: 10.1089/cmb.2012.0054.

PMID:
22697248
14.
15.

Simulated evolution of protein-protein interaction networks with realistic topology.

Peterson GJ, Pressé S, Peterson KS, Dill KA.

PLoS One. 2012;7(6):e39052. doi: 10.1371/journal.pone.0039052. Epub 2012 Jun 29.

16.

Transcriptional divergence plays a role in the rewiring of protein interaction networks after gene duplication.

Gagnon-Arsenault I, Marois Blanchet FC, Rochette S, Diss G, Dubé AK, Landry CR.

J Proteomics. 2013 Apr 9;81:112-25. doi: 10.1016/j.jprot.2012.09.038. Epub 2012 Oct 12.

PMID:
23063722
17.

The genetic landscape of a cell.

Costanzo M, Baryshnikova A, Bellay J, Kim Y, Spear ED, Sevier CS, Ding H, Koh JL, Toufighi K, Mostafavi S, Prinz J, St Onge RP, VanderSluis B, Makhnevych T, Vizeacoumar FJ, Alizadeh S, Bahr S, Brost RL, Chen Y, Cokol M, Deshpande R, Li Z, Lin ZY, Liang W, Marback M, Paw J, San Luis BJ, Shuteriqi E, Tong AH, van Dyk N, Wallace IM, Whitney JA, Weirauch MT, Zhong G, Zhu H, Houry WA, Brudno M, Ragibizadeh S, Papp B, Pál C, Roth FP, Giaever G, Nislow C, Troyanskaya OG, Bussey H, Bader GD, Gingras AC, Morris QD, Kim PM, Kaiser CA, Myers CL, Andrews BJ, Boone C.

Science. 2010 Jan 22;327(5964):425-31. doi: 10.1126/science.1180823.

18.

Preferential duplication of intermodular hub genes: an evolutionary signature in eukaryotes genome networks.

Ferreira RM, Rybarczyk-Filho JL, Dalmolin RJ, Castro MA, Moreira JC, Brunnet LG, de Almeida RM.

PLoS One. 2013;8(2):e56579. doi: 10.1371/journal.pone.0056579. Epub 2013 Feb 26. Erratum in: PLoS One. 2015;10(3):e0118425.

19.

Proof and evolutionary analysis of ancient genome duplication in the yeast Saccharomyces cerevisiae.

Kellis M, Birren BW, Lander ES.

Nature. 2004 Apr 8;428(6983):617-24. Epub 2004 Mar 7.

20.

Very low gene duplication rate in the yeast genome.

Gao LZ, Innan H.

Science. 2004 Nov 19;306(5700):1367-70.

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