Literature DB >> 33406145

Backbone: An R package for extracting the backbone of bipartite projections.

Rachel Domagalski1, Zachary P Neal2, Bruce Sagan1.   

Abstract

Bipartite projections are used in a wide range of network contexts including politics (bill co-sponsorship), genetics (gene co-expression), economics (executive board co-membership), and innovation (patent co-authorship). However, because bipartite projections are always weighted graphs, which are inherently challenging to analyze and visualize, it is often useful to examine the 'backbone,' an unweighted subgraph containing only the most significant edges. In this paper, we introduce the R package backbone for extracting the backbone of weighted bipartite projections, and use bill sponsorship data from the 114th session of the United States Senate to demonstrate its functionality.

Entities:  

Mesh:

Year:  2021        PMID: 33406145      PMCID: PMC7787471          DOI: 10.1371/journal.pone.0244363

Source DB:  PubMed          Journal:  PLoS One        ISSN: 1932-6203            Impact factor:   3.240


  15 in total

1.  Scientific collaboration networks. I. Network construction and fundamental results.

Authors:  M E Newman
Journal:  Phys Rev E Stat Nonlin Soft Matter Phys       Date:  2001-06-28

2.  A general framework for weighted gene co-expression network analysis.

Authors:  Bin Zhang; Steve Horvath
Journal:  Stat Appl Genet Mol Biol       Date:  2005-08-12

3.  Extracting the multiscale backbone of complex weighted networks.

Authors:  M Angeles Serrano; Marián Boguñá; Alessandro Vespignani
Journal:  Proc Natl Acad Sci U S A       Date:  2009-04-08       Impact factor: 11.205

4.  Proof of uniform sampling of binary matrices with fixed row sums and column sums for the fast Curveball algorithm.

Authors:  C J Carstens
Journal:  Phys Rev E Stat Nonlin Soft Matter Phys       Date:  2015-04-29

Review 5.  Network analysis: an integrative approach to the structure of psychopathology.

Authors:  Denny Borsboom; Angélique O J Cramer
Journal:  Annu Rev Clin Psychol       Date:  2013       Impact factor: 18.561

6.  A fast and unbiased procedure to randomize ecological binary matrices with fixed row and column totals.

Authors:  Giovanni Strona; Domenico Nappo; Francesco Boccacci; Simone Fattorini; Jesus San-Miguel-Ayanz
Journal:  Nat Commun       Date:  2014-06-11       Impact factor: 14.919

7.  Detecting coalitions by optimally partitioning signed networks of political collaboration.

Authors:  Samin Aref; Zachary Neal
Journal:  Sci Rep       Date:  2020-01-30       Impact factor: 4.379

8.  Bi-dimensional null model analysis of presence-absence binary matrices.

Authors:  Giovanni Strona; Werner Ulrich; Nicholas J Gotelli
Journal:  Ecology       Date:  2017-11-20       Impact factor: 5.499

9.  Statistically validated networks in bipartite complex systems.

Authors:  Michele Tumminello; Salvatore Miccichè; Fabrizio Lillo; Jyrki Piilo; Rosario N Mantegna
Journal:  PLoS One       Date:  2011-03-31       Impact factor: 3.240

10.  The rise of partisanship and super-cooperators in the U.S. House of Representatives.

Authors:  Clio Andris; David Lee; Marcus J Hamilton; Mauro Martino; Christian E Gunning; John Armistead Selden
Journal:  PLoS One       Date:  2015-04-21       Impact factor: 3.240

View more
  3 in total

1.  Identifying hidden coalitions in the US House of Representatives by optimally partitioning signed networks based on generalized balance.

Authors:  Samin Aref; Zachary P Neal
Journal:  Sci Rep       Date:  2021-10-07       Impact factor: 4.379

2.  Comparing alternatives to the fixed degree sequence model for extracting the backbone of bipartite projections.

Authors:  Zachary P Neal; Rachel Domagalski; Bruce Sagan
Journal:  Sci Rep       Date:  2021-12-14       Impact factor: 4.379

3.  GeneTonic: an R/Bioconductor package for streamlining the interpretation of RNA-seq data.

Authors:  Federico Marini; Annekathrin Ludt; Jan Linke; Konstantin Strauch
Journal:  BMC Bioinformatics       Date:  2021-12-23       Impact factor: 3.169

  3 in total

北京卡尤迪生物科技股份有限公司 © 2022-2023.