Construction of Condition-Specific Gene Regulatory Network Using Kernel Canonical Correlation Analysis

Construction of Condition-Specific Gene Regulatory Network Using Kernel Canonical Correlation Analysis

Gene expression profile or transcriptome can represent cellular states, thus understanding gene regulation mechanisms can help understand how cells respond to external stress. Interaction between transcription factor (TF) and target gene (TG) is one of the representative regulatory mechanisms in cel...

Full description

Bibliographic Details
Main Authors:	Dabin Jeong, Sangsoo Lim, Sangseon Lee, Minsik Oh, Changyun Cho, Hyeju Seong, Woosuk Jung, Sun Kim
Format:	Article
Language:	English
Published:	Frontiers Media S.A. 2021-05-01
Series:	Frontiers in Genetics
Subjects:	kernel canonical correlation analysis gene regulatory network network dynamics transcription factor TF cooperation condition specific network
Online Access:	https://www.frontiersin.org/articles/10.3389/fgene.2021.652623/full

Similar Items

A translatome-transcriptome multi-omics gene regulatory network reveals the complicated functional landscape of maize
by: Wanchao Zhu, et al.
Published: (2023-03-01)

Transcription factor regulatory modules provide the molecular mechanisms for functional redundancy observed among transcription factors in yeast
by: Tzu-Hsien Yang
Published: (2019-12-01)

Computational biology approaches for mapping transcriptional regulatory networks
by: Violaine Saint-André
Published: (2021-01-01)

Kernel functional canonical correlation analysis
by: Mirosław Krzyśko, et al.
Published: (2016-12-01)

PropaNet: Time-Varying Condition-Specific Transcriptional Network Construction by Network Propagation
by: Hongryul Ahn, et al.
Published: (2019-06-01)

Transcriptome Analysis of Apricot Kernel Pistils Reveals the Mechanisms Underlying ROS-Mediated Freezing Resistance
by: Xiaojuan Liu, et al.
Published: (2022-10-01)

V-SKP: Vectorized Kernel-Based Structured Kernel Pruning for Accelerating Deep Convolutional Neural Networks
by: Kwanghyun Koo, et al.
Published: (2023-01-01)

Identification of microRNA–mRNA–TF regulatory networks in periodontitis by bioinformatics analysis
by: Xiaoli Gao, et al.
Published: (2022-04-01)

Handshakes and Fights: The Regulatory Interplay of RNA-Binding Proteins
by: Erik Dassi
Published: (2017-09-01)

Virulence-related regulatory network of Pseudomonas syringae
by: Jiadai Huang, et al.
Published: (2022-01-01)

Inferring Gene Regulatory Networks from RNA-seq Data Using Kernel Classification
by: Amira Al-Aamri, et al.
Published: (2023-03-01)

Learning Cell-Type-Specific Gene Regulation Mechanisms by Multi-Attention Based Deep Learning With Regulatory Latent Space
by: Minji Kang, et al.
Published: (2020-09-01)

Transcriptional Regulatory Network Analysis of MYB Transcription Factor Family Genes in Rice
by: Shuchi eSmita, et al.
Published: (2015-12-01)

Identification and Validation of miRNA-TF-mRNA Regulatory Networks in Uterine Fibroids
by: Xiaotong Peng, et al.
Published: (2022-03-01)

Homology-based reconstruction of regulatory networks for bacterial and archaeal genomes
by: Luis Romero, et al.
Published: (2022-07-01)

A semi-automatic cell type annotation method for single-cell RNA sequencing dataset
by: Wan Kim, et al.
Published: (2020-09-01)

Exploring chemical space for lead identification by propagating on chemical similarity network
by: Jungseob Yi, et al.
Published: (2023-01-01)

Functional and topological characterization of transcriptional cooperativity in yeast
by: Aguilar Daniel, et al.
Published: (2012-05-01)

Dose and Time Dependencies in Stress Pathway Responses during Chemical Exposure: Novel Insights from Gene Regulatory Networks
by: Terezinha M. Souza, et al.
Published: (2017-10-01)

Comparative physiological, transcriptomic, and WGCNA analyses reveal the key genes and regulatory pathways associated with drought tolerance in Tartary buckwheat
by: Heng-Ling Meng, et al.
Published: (2022-10-01)

How to interpret and integrate multi-omics data at systems level
by: Gun Tae Jung, et al.
Published: (2020-01-01)

The gene regulatory network of Staphylococcus aureus ST239-SCCmecIII strain Bmb9393 and assessment of genes associated with the biofilm in diverse backgrounds
by: Maiana de Oliveira Cerqueira e Costa, et al.
Published: (2023-01-01)

Unsupervised Blur Kernel Estimation and Correction for Blind Super-Resolution
by: Youngsoo Kim, et al.
Published: (2022-01-01)

Co-regulatory Network of Transcription Factors and miRNAs in Colorectal Cancer Pathogenesis
by: Mohammad Hasan Soheilifar, et al.
Published: (2020-09-01)

Network-based analysis identifies key regulatory transcription factors involved in skin aging
by: Xiao-Ming Wang, et al.
Published: (2023-07-01)

Dissecting the regulatory network of transcription factors in T cell phenotype/functioning during GVHD and GVT
by: Rebecca Harris, et al.
Published: (2023-06-01)

The interacting brain: Dynamic functional connectivity among canonical brain networks dissociates cooperative from competitive social interactions
by: D.J. Shaw, et al.
Published: (2023-04-01)

TFNetPropX: A Web-Based Comprehensive Analysis Tool for Exploring Condition-Specific RNA-Seq Data Using Transcription Factor Network Propagation
by: Ji Hwan Moon, et al.
Published: (2023-10-01)

Network Analysis Identifies Gene Regulatory Network Indicating the Role of RUNX1 in Human Intervertebral Disc Degeneration
by: Nazir M. Khan, et al.
Published: (2020-07-01)

Construction of a Hierarchical Gene Regulatory Network to Reveal the Drought Tolerance Mechanism of Shanxin Poplar
by: Pengyu Wang, et al.
Published: (2022-12-01)

Transcriptional Regulatory Network of Plant Cadmium Stress Response
by: Yakun Li, et al.
Published: (2023-02-01)

GEO dataset mining analysis reveals novel Staphylococcus aureus virulence gene regulatory networks and diagnostic targets in mice
by: Guangyu Xu, et al.
Published: (2024-03-01)

Specific Emitter Identification through Multi-Domain Mixed Kernel Canonical Correlation Analysis
by: Jian Chen, et al.
Published: (2024-03-01)

Conservation of dynamic characteristics of transcriptional regulatory elements in periodic biological processes
by: Francis C. Motta, et al.
Published: (2022-03-01)

Reconstruction of gene regulatory network related to photosynthesis in Arabidopsis thaliana
by: Xianbin eYu, et al.
Published: (2014-06-01)

Collection and Curation of Transcriptional Regulatory Interactions in Aspergillus nidulans and Neurospora crassa Reveal Structural and Evolutionary Features of the Regulatory Networks
by: Yibo Hu, et al.
Published: (2018-01-01)

Corrigendum: Collection and Curation of Transcriptional Regulatory Interactions in Aspergillus nidulans and Neurospora crassa Reveal Structural and Evolutionary Features of the Regulatory Networks
by: Yibo Hu, et al.
Published: (2018-11-01)

Mechanisms of robustness in gene regulatory networks involved in neural development
by: Camila D. Arcuschin, et al.
Published: (2023-02-01)

Detection of Network Motif Based on a Novel Graph Canonization Algorithm from Transcriptional Regulation Networks
by: Jialu Hu, et al.
Published: (2017-12-01)

Modelling regulatory cascades using Artificial Neural Networks: the case of transcriptional regulatory networks shaped during the yeast stress response
by: Maria E. Manioudaki, et al.
Published: (2013-06-01)