basic_network: Basic Network Object

In jgockley62/igraphNetworkExpansion: Trace Subnetworks from an AD Necortical Network of Protein-Protein Interactions

Basic Network Object

Description

The basic Pathway Commons network. This is all SIF Pathway commons interactions loaded into a network. The CHEMI interactions are present. The igraph network object consisting of 30,910 genes and 1,902,605 interactions. basic_network$graph is a list of networks. Each network is every interaction in Pathway Commons consisting of a specific type of interaction.

Usage

basic_network

Format

A list object

igraph::V(basic_network)

Vertex names

igraph::E(basic_network)

Network edges

igraph::E(basic_network)$interaction

Type of interaction

igraph::E(basic_network)$Occurance

How many Pathway Commons databases record an interaction between to and from vertex

igraph::E(basic_network)$UniqCol

The Unique Code of the entire interaction

igraph::E(basic_network)$pathway

The Pathway(s) in Pathway commons this interaction is documented in as a list object

igraph::E(basic_network)$EdgeRep

How many interaction types are there between to and from vertacies

igraph::E(basic_network)$Edge

The to:from name desigantion of the edge

igraph::E(basic_network)$SumOccurancel

how many times is to vertex connected to from vertex across all pathway commons data bases and interaction types

igraph::E(basic_network)$Uniq_Brain

Edges with a PPI in Skinnider et.al 2021 that is unique to brain are denoted with a 1

igraph::E(basic_network)$Brain

Edges with a PPI in Skinnider et.al 2021 that in brain are denoted with a 1

igraph::E(basic_network)$Uniq_Heart

Edges with a PPI in Skinnider et.al 2021 that is unique to Heart are denoted with a 1

igraph::E(basic_network)$Heart

Edges with a PPI in Skinnider et.al 2021 that in Heart are denoted with a 1

igraph::E(basic_network)$Uniq_Kidney

Edges with a PPI in Skinnider et.al 2021 that is unique to Kidney are denoted with a 1

igraph::E(basic_network)$Kidney

Edges with a PPI in Skinnider et.al 2021 that in Kidney are denoted with a 1

igraph::E(basic_network)$Uniq_Liver

Edges with a PPI in Skinnider et.al 2021 that is unique to Liver are denoted with a 1

igraph::E(basic_network)$Liver

Edges with a PPI in Skinnider et.al 2021 that in Liver are denoted with a 1

igraph::E(basic_network)$Uniq_Lung

Edges with a PPI in Skinnider et.al 2021 that is unique to Lung are denoted with a 1

igraph::E(basic_network)$Lung

Edges with a PPI in Skinnider et.al 2021 that in Lung are denoted with a 1

igraph::E(basic_network)$Uniq_Muscle

Edges with a PPI in Skinnider et.al 2021 that is unique to Muscle are denoted with a 1

igraph::E(basic_network)$Muscle

Edges with a PPI in Skinnider et.al 2021 that in Muscle are denoted with a 1

igraph::E(basic_network)$Uniq_Thymus

Edges with a PPI in Skinnider et.al 2021 that is unique to Thymus are denoted with a 1

igraph::E(basic_network)$Thymus

Edges with a PPI in Skinnider et.al 2021 that in Thymus are denoted with a 1

igraph::E(basic_network)$all_nonbrain

Edges with a PPI in Skinnider et.al 2021 that is observed in any tissue except Braing are denoted with a 1

igraph::E(basic_network)$all_uniq_nonbrain

Edges with a PPI in Skinnider et.al 2021 that are observed uniquely in any tissue except Brain are denoted with a 1

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jgockley62/igraphNetworkExpansion documentation built on April 15, 2022, 12:14 a.m.