Alignment-free protein interaction network comparison.

Alignment-free protein interaction network comparison.

MOTIVATION: Biological network comparison software largely relies on the concept of alignment where close matches between the nodes of two or more networks are sought. These node matches are based on sequence similarity and/or interaction patterns. However, because of the incomplete and error-prone...

Bibliográfalaš dieđut
Váldodahkkit:	Ali, W, Rito, T, Reinert, G, Sun, F, Deane, C
Materiálatiipa:	Journal article
Giella:	English
Almmustuhtton:	Oxford University Press 2014

Geahča maid

The importance of age and high degree, in protein-protein interaction networks.
Dahkki: Rito, T, et al.
Almmustuhtton: (2012)

Protein Interaction Networks and Their Statistical Analysis
Dahkki: Ali, W, et al.
Almmustuhtton: (2011)

Functionally guided alignment of protein interaction networks for module detection.
Dahkki: Ali, W, et al.
Almmustuhtton: (2009)

How threshold behaviour affects the use of subgraphs for network comparison.
Dahkki: Rito, T, et al.
Almmustuhtton: (2010)

How threshold behaviour affects the use of subgraphs for network comparison
Dahkki: Rito, T, et al.
Almmustuhtton: (2010)

Multiple alignment-free sequence comparison.
Dahkki: Ren, J, et al.
Almmustuhtton: (2013)

Evolutionary analysis reveals low coverage as the major challenge for protein interaction network alignment.
Dahkki: Ali, W, et al.
Almmustuhtton: (2010)

Alignment-free sequence comparison (I): statistics and power.
Dahkki: Reinert, G, et al.
Almmustuhtton: (2009)

Alignment-free sequence comparison (II): theoretical power of comparison statistics.
Dahkki: Wan, L, et al.
Almmustuhtton: (2010)

Predicting and validating protein interactions using network structure
Dahkki: Chen, P, et al.
Almmustuhtton: (2008)

Measuring rank robustness in scored protein interaction networks
Dahkki: Bozhilova, L, et al.
Almmustuhtton: (2019)

New developments of alignment-free sequence comparison: measures, statistics and next-generation sequencing.
Dahkki: Song, K, et al.
Almmustuhtton: (2014)

New powerful statistics for alignment-free sequence comparison under a pattern transfer model.
Dahkki: Liu, X, et al.
Almmustuhtton: (2011)

Functional module detection through integration of single-cell RNA sequencing data with protein–protein interaction networks
Dahkki: Klimm, F, et al.
Almmustuhtton: (2020)

Alignment-free sequence analysis and applications
Dahkki: Ren, J, et al.
Almmustuhtton: (2018)

Comparison of large networks with sub-sampling strategies
Dahkki: Ali, W, et al.
Almmustuhtton: (2016)

Comparison of large networks with sub-sampling strategies
Dahkki: Reinert, G, et al.
Almmustuhtton: (2016)

Local network patterns in protein-protein interfaces
Dahkki: Luo, Q, et al.
Almmustuhtton: (2013)

Unified Alignment of Protein-Protein Interaction Networks
Dahkki: Noël Malod-Dognin, et al.
Almmustuhtton: (2017-04-01)

A statistical approach using network structure in the prediction of protein characteristics.
Dahkki: Chen, P, et al.
Almmustuhtton: (2007)

A statistical approach using network structure in the prediction of protein characteristics
Dahkki: Chen, P, et al.
Almmustuhtton: (2007)

Assessment of model fit via network comparison methods based on subgraph counts
Dahkki: Ospina-Forero, L, et al.
Almmustuhtton: (2018)

Optimizing a global alignment of protein interaction networks
Dahkki: Ma, C.-Y., et al.
Almmustuhtton: (2013)

MP-T: improving membrane protein alignment for structure prediction.
Dahkki: Hill, JR, et al.
Almmustuhtton: (2013)

Modelling and comparing protein interaction networks using subgraph counts
Dahkki: Chegancas Rito, TM
Almmustuhtton: (2012)

Simple Ligand–Receptor Interaction Descriptor (SILIRID) for alignment-free binding site comparison
Dahkki: Vladimir Chupakhin, et al.
Almmustuhtton: (2014-06-01)

Environment specific substitution tables improve membrane protein alignment.
Dahkki: Hill, JR, et al.
Almmustuhtton: (2011)

Global Alignment of Pairwise Protein Interaction Networks for Maximal Common Conserved Patterns
Dahkki: Wenhong Tian, et al.
Almmustuhtton: (2013-01-01)

Alignment of biological networks by integer linear programming: virus-host protein-protein interaction networks
Dahkki: Mercè Llabrés, et al.
Almmustuhtton: (2020-11-01)

The function of communities in protein interaction networks at multiple scales
Dahkki: Lewis, A, et al.
Almmustuhtton: (2010)

The function of communities in protein interaction networks at multiple scales
Dahkki: Lewis, A, et al.
Almmustuhtton: (2010)

Alignment-free sequence comparison: benefits, applications, and tools
Dahkki: Andrzej Zielezinski, et al.
Almmustuhtton: (2017-10-01)

Alignment of non-covalent interactions at protein-protein interfaces.
Dahkki: Hongbo Zhu, et al.
Almmustuhtton: (2008-01-01)

Mutual information and variants for protein domain-domain contact prediction.
Dahkki: Gomes, M, et al.
Almmustuhtton: (2012)

Afann: bias adjustment for alignment-free sequence comparison based on sequencing data using neural network regression
Dahkki: Kujin Tang, et al.
Almmustuhtton: (2019-12-01)

Protein protein interactions, evolutionary rate, abundance and age
Dahkki: Saeed, R, et al.
Almmustuhtton: (2006)

Protein protein interactions, evolutionary rate, abundance and age.
Dahkki: Saeed, R, et al.
Almmustuhtton: (2006)

Comparison of protein structures by growing neighborhood alignments
Dahkki: Bhattacharyya Chiranjib, et al.
Almmustuhtton: (2007-03-01)

Predicting protein-protein interactions in the context of protein evolution.
Dahkki: Lewis, A, et al.
Almmustuhtton: (2010)

Deciphering chemotaxis pathways using cross species comparisons
Dahkki: Hamer, R, et al.
Almmustuhtton: (2010)