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Items: 1 to 20 of 33

1.

Integrative network alignment reveals large regions of global network similarity in yeast and human.

Kuchaiev O, Przulj N.

Bioinformatics. 2011 May 15;27(10):1390-6. doi: 10.1093/bioinformatics/btr127. Epub 2011 Mar 16.

PMID:
21414992
2.

The function of communities in protein interaction networks at multiple scales.

Lewis AC, Jones NS, Porter MA, Deane CM.

BMC Syst Biol. 2010 Jul 22;4:100. doi: 10.1186/1752-0509-4-100.

3.

Note on the sampling error of the difference between correlated proportions or percentages.

McNEMAR Q.

Psychometrika. 1947 Jun;12(2):153-7. No abstract available.

PMID:
20254758
4.

Topological network alignment uncovers biological function and phylogeny.

Kuchaiev O, Milenkovic T, Memisevic V, Hayes W, Przulj N.

J R Soc Interface. 2010 Sep 6;7(50):1341-54. doi: 10.1098/rsif.2010.0063. Epub 2010 Mar 17.

5.

The IntAct molecular interaction database in 2010.

Aranda B, Achuthan P, Alam-Faruque Y, Armean I, Bridge A, Derow C, Feuermann M, Ghanbarian AT, Kerrien S, Khadake J, Kerssemakers J, Leroy C, Menden M, Michaut M, Montecchi-Palazzi L, Neuhauser SN, Orchard S, Perreau V, Roechert B, van Eijk K, Hermjakob H.

Nucleic Acids Res. 2010 Jan;38(Database issue):D525-31. doi: 10.1093/nar/gkp878. Epub 2009 Oct 22.

6.

Functionally guided alignment of protein interaction networks for module detection.

Ali W, Deane CM.

Bioinformatics. 2009 Dec 1;25(23):3166-73. doi: 10.1093/bioinformatics/btp569. Epub 2009 Oct 1.

7.

How and when should interactome-derived clusters be used to predict functional modules and protein function?

Song J, Singh M.

Bioinformatics. 2009 Dec 1;25(23):3143-50. doi: 10.1093/bioinformatics/btp551. Epub 2009 Sep 21.

8.

Automatic parameter learning for multiple local network alignment.

Flannick J, Novak A, Do CB, Srinivasan BS, Batzoglou S.

J Comput Biol. 2009 Aug;16(8):1001-22. doi: 10.1089/cmb.2009.0099.

9.

Protein structure prediction on the Web: a case study using the Phyre server.

Kelley LA, Sternberg MJ.

Nat Protoc. 2009;4(3):363-71. doi: 10.1038/nprot.2009.2.

PMID:
19247286
10.

Global alignment of multiple protein interaction networks with application to functional orthology detection.

Singh R, Xu J, Berger B.

Proc Natl Acad Sci U S A. 2008 Sep 2;105(35):12763-8. doi: 10.1073/pnas.0806627105. Epub 2008 Aug 25.

11.

CORUM: the comprehensive resource of mammalian protein complexes.

Ruepp A, Brauner B, Dunger-Kaltenbach I, Frishman G, Montrone C, Stransky M, Waegele B, Schmidt T, Doudieu ON, Stümpflen V, Mewes HW.

Nucleic Acids Res. 2008 Jan;36(Database issue):D646-50. Epub 2007 Oct 26.

12.

Comparing protein interaction networks via a graph match-and-split algorithm.

Narayanan M, Karp RM.

J Comput Biol. 2007 Sep;14(7):892-907.

PMID:
17803369
13.

Inferring function using patterns of native disorder in proteins.

Lobley A, Swindells MB, Orengo CA, Jones DT.

PLoS Comput Biol. 2007 Aug;3(8):e162. Epub 2007 Jul 3.

14.

The identification of similarities between biological networks: application to the metabolome and interactome.

Cootes AP, Muggleton SH, Sternberg MJ.

J Mol Biol. 2007 Jun 15;369(4):1126-39. Epub 2007 Mar 14.

PMID:
17466331
15.

Evaluation of clustering algorithms for protein-protein interaction networks.

Brohée S, van Helden J.

BMC Bioinformatics. 2006 Nov 6;7:488.

16.

Graemlin: general and robust alignment of multiple large interaction networks.

Flannick J, Novak A, Srinivasan BS, McAdams HH, Batzoglou S.

Genome Res. 2006 Sep;16(9):1169-81. Epub 2006 Aug 9.

17.

Cross-species analysis of biological networks by Bayesian alignment.

Berg J, Lässig M.

Proc Natl Acad Sci U S A. 2006 Jul 18;103(29):10967-72. Epub 2006 Jul 11.

18.

A new measure for functional similarity of gene products based on Gene Ontology.

Schlicker A, Domingues FS, Rahnenführer J, Lengauer T.

BMC Bioinformatics. 2006 Jun 15;7:302.

19.

Pairwise alignment of protein interaction networks.

Koyutürk M, Kim Y, Topkara U, Subramaniam S, Szpankowski W, Grama A.

J Comput Biol. 2006 Mar;13(2):182-99.

PMID:
16597234
20.

Systematic identification of functional orthologs based on protein network comparison.

Bandyopadhyay S, Sharan R, Ideker T.

Genome Res. 2006 Mar;16(3):428-35.

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