Dataset Information

The Network Zoo: a multilingual package for the inference and analysis of gene regulatory networks.

ABSTRACT: Inference and analysis of gene regulatory networks (GRNs) require software that integrates multi-omic data from various sources. The Network Zoo (netZoo; netzoo.github.io) is a collection of open-source methods to infer GRNs, conduct differential network analyses, estimate community structure, and explore the transitions between biological states. The netZoo builds on our ongoing development of network methods, harmonizing the implementations in various computing languages and between methods to allow better integration of these tools into analytical pipelines. We demonstrate the utility using multi-omic data from the Cancer Cell Line Encyclopedia. We will continue to expand the netZoo to incorporate additional methods.

SUBMITTER: Ben Guebila M

PROVIDER: S-EPMC9999668 | biostudies-literature | 2023 Mar

REPOSITORIES: biostudies-literature

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Publications

The Network Zoo: a multilingual package for the inference and analysis of gene regulatory networks.

Ben Guebila Marouen M Wang Tian T Lopes-Ramos Camila M CM Fanfani Viola V Weighill Des D Burkholz Rebekka R Schlauch Daniel D Paulson Joseph N JN Altenbuchinger Michael M Shutta Katherine H KH Sonawane Abhijeet R AR Lim James J Calderer Genis G van IJzendoorn David G P DGP Morgan Daniel D Marin Alessandro A Chen Cho-Yi CY Song Qi Q Saha Enakshi E DeMeo Dawn L DL Padi Megha M Platig John J Kuijjer Marieke L ML Glass Kimberly K Quackenbush John J

Genome biology 20230309 1

Inference and analysis of gene regulatory networks (GRNs) require software that integrates multi-omic data from various sources. The Network Zoo (netZoo; netzoo.github.io) is a collection of open-source methods to infer GRNs, conduct differential network analyses, estimate community structure, and explore the transitions between biological states. The netZoo builds on our ongoing development of network methods, harmonizing the implementations in various computing languages and between methods to ...[more]

PMID: 36894939

Dataset Information

The Network Zoo: a multilingual package for the inference and analysis of gene regulatory networks.

Publications

The Network Zoo: a multilingual package for the inference and analysis of gene regulatory networks.

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