DOAJ Open Access 2023

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

Marouen Ben Guebila Tian Wang Camila M. Lopes-Ramos Viola Fanfani Des Weighill +20 lainnya

Abstrak

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.

Topik & Kata Kunci

Biology (General) Genetics

Penulis (25)

Marouen Ben Guebila

Tian Wang

Camila M. Lopes-Ramos

Viola Fanfani

Des Weighill

Rebekka Burkholz

Daniel Schlauch

Joseph N. Paulson

Michael Altenbuchinger

Katherine H. Shutta

Abhijeet R. Sonawane

James Lim

Genis Calderer

David G.P. van IJzendoorn

Daniel Morgan

Alessandro Marin

Cho-Yi Chen

Qi Song

Enakshi Saha

Dawn L. DeMeo

Megha Padi

John Platig

Marieke L. Kuijjer

Kimberly Glass

John Quackenbush

Format Sitasi

APA MLA BibTeX

Guebila, M.B., Wang, T., Lopes-Ramos, C.M., Fanfani, V., Weighill, D., Burkholz, R. et al. (2023). The Network Zoo: a multilingual package for the inference and analysis of gene regulatory networks. https://doi.org/10.1186/s13059-023-02877-1

Akses Cepat

PDF tidak tersedia langsung

Cek di sumber asli →

Lihat di Sumber doi.org/10.1186/s13059-023-02877-1

Informasi Jurnal

Tahun Terbit: 2023
Sumber Database: DOAJ
DOI: 10.1186/s13059-023-02877-1
Akses: Open Access ✓