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Items: 1 to 20 of 193

1.

Inferring modules of functionally interacting proteins using the Bond Energy Algorithm.

Watanabe RL, Morett E, Vallejo EE.

BMC Bioinformatics. 2008 Jun 17;9:285. doi: 10.1186/1471-2105-9-285.

2.

Text mining biomedical literature for discovering gene-to-gene relationships: a comparative study of algorithms.

Liu Y, Navathe SB, Civera J, Dasigi V, Ram A, Ciliax BJ, Dingledine R.

IEEE/ACM Trans Comput Biol Bioinform. 2005 Jan-Mar;2(1):62-76.

PMID:
17044165
3.

Prediction of protein interaction based on similarity of phylogenetic trees.

Pazos F, Juan D, Izarzugaza JM, Leon E, Valencia A.

Methods Mol Biol. 2008;484:523-35. doi: 10.1007/978-1-59745-398-1_31.

PMID:
18592199
4.

Effect of reference genome selection on the performance of computational methods for genome-wide protein-protein interaction prediction.

Muley VY, Ranjan A.

PLoS One. 2012;7(7):e42057. doi: 10.1371/journal.pone.0042057. Epub 2012 Jul 26.

6.

CLUSS: clustering of protein sequences based on a new similarity measure.

Kelil A, Wang S, Brzezinski R, Fleury A.

BMC Bioinformatics. 2007 Aug 4;8:286.

7.

The comparative genomics of protein interactions.

Peregrín-Alvarez JM, Ouzounis CA.

Genome Inform. 2007;19:131-41.

PMID:
18546511
8.

Refined phylogenetic profiles method for predicting protein-protein interactions.

Sun J, Xu J, Liu Z, Liu Q, Zhao A, Shi T, Li Y.

Bioinformatics. 2005 Aug 15;21(16):3409-15. Epub 2005 Jun 9.

PMID:
15947018
9.

On the quality of tree-based protein classification.

Lazareva-Ulitsky B, Diemer K, Thomas PD.

Bioinformatics. 2005 May 1;21(9):1876-90. Epub 2005 Jan 12.

PMID:
15647305
10.

Gene Cluster Profile Vectors: a method to infer functionally related gene sets by grouping proximity-based gene clusters.

Pejaver VR, Kim S.

BMC Genomics. 2011;12 Suppl 2:S2. doi: 10.1186/1471-2164-12-S2-S2. Epub 2011 Jul 27.

11.

Clustering algorithms for detecting functional modules in protein interaction networks.

Gao L, Sun PG, Song J.

J Bioinform Comput Biol. 2009 Feb;7(1):217-42.

PMID:
19226668
12.

An improved method for identifying functionally linked proteins using phylogenetic profiles.

Cokus S, Mizutani S, Pellegrini M.

BMC Bioinformatics. 2007 May 22;8 Suppl 4:S7.

13.

Detection of functional modules from protein interaction networks with an enhanced random walk based algorithm.

Cai B, Wang H, Zheng H, Wang H.

Int J Comput Biol Drug Des. 2011;4(3):290-306. doi: 10.1504/IJCBDD.2011.041416. Epub 2011 Jul 21.

PMID:
21778561
14.
15.

Predicting protein function by frequent functional association pattern mining in protein interaction networks.

Cho YR, Zhang A.

IEEE Trans Inf Technol Biomed. 2010 Jan;14(1):30-6. doi: 10.1109/TITB.2009.2028234. Epub 2009 Sep 1.

PMID:
19726271
16.

Efficient and accurate Greedy Search Methods for mining functional modules in protein interaction networks.

He J, Li C, Ye B, Zhong W.

BMC Bioinformatics. 2012 Jun 25;13 Suppl 10:S19. doi: 10.1186/1471-2105-13-S10-S19.

17.

Utilizing logical relationships in genomic data to decipher cellular processes.

Bowers PM, O'Connor BD, Cokus SJ, Sprinzak E, Yeates TO, Eisenberg D.

FEBS J. 2005 Oct;272(20):5110-8. Review.

19.

Identification of functional hubs and modules by converting interactome networks into hierarchical ordering of proteins.

Cho YR, Zhang A.

BMC Bioinformatics. 2010 Apr 29;11 Suppl 3:S3. doi: 10.1186/1471-2105-11-S3-S3.

20.

hF-measure: A new measurement for evaluating clusters in protein-protein interaction networks.

Li M, Wu X, Pan Y, Wang J.

Proteomics. 2013 Jan;13(2):291-300. doi: 10.1002/pmic.201200436. Epub 2013 Jan 3.

PMID:
23193073

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