Identification of a novel eighteen-gene signature of recurrent metastasis neuroblastoma

Zhang, Shufan; Yang, Manqiu; Wang, Tao; Chen, Hui; Shi, Yifan; Liu, Wei; Huang, Moli

doi:10.1007/s00109-023-02299-3

J Mol Med

2023

DOI: 10.1007/s00109-023-02299-3

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Identification of a novel eighteen-gene signature of recurrent metastasis neuroblastoma

Shufan Zhang

Manqiu Yang

Tao Wang

et al.

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2024

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“…RNA-seq and copy number variation data for primary and recurrent tumors were compared. Survival analysis was utilized to identify prognostic biomarker genes 25 .…”

mentioning

confidence: 99%

A multi-omics approach for biomarker discovery in neuroblastoma: a network-based framework

Hussein,

Abou-Shanab,

Badr

2024

npj Syst Biol Appl

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Neuroblastoma (NB) is one of the leading causes of cancer-associated death in children. MYCN amplification is a prominent genetic marker for NB, and its targeting to halt NB progression is difficult to achieve. Therefore, an in-depth understanding of the molecular interactome of NB is needed to improve treatment outcomes. Analysis of NB multi-omics unravels valuable insight into the interplay between MYCN transcriptional and miRNA post-transcriptional modulation. Moreover, it aids in the identification of various miRNAs that participate in NB development and progression. This study proposes an integrated computational framework with three levels of high-throughput NB data (mRNA-seq, miRNA-seq, and methylation array). Similarity Network Fusion (SNF) and ranked SNF methods were utilized to identify essential genes and miRNAs. The specified genes included both miRNA-target genes and transcription factors (TFs). The interactions between TFs and miRNAs and between miRNAs and their target genes were retrieved where a regulatory network was developed. Finally, an interaction network-based analysis was performed to identify candidate biomarkers. The candidate biomarkers were further analyzed for their potential use in prognosis and diagnosis. The candidate biomarkers included three TFs and seven miRNAs. Four biomarkers have been previously studied and tested in NB, while the remaining identified biomarkers have known roles in other types of cancer. Although the specific molecular role is yet to be addressed, most identified biomarkers possess evidence of involvement in NB tumorigenesis. Analyzing cellular interactome to identify potential biomarkers is a promising approach that can contribute to optimizing efficient therapeutic regimens to target NB vulnerabilities.

show abstract

“…RNA-seq and copy number variation data for primary and recurrent tumors were compared. Survival analysis was utilized to identify prognostic biomarker genes 25 .…”

mentioning

confidence: 99%

A multi-omics approach for biomarker discovery in neuroblastoma: a network-based framework

Hussein,

Abou-Shanab,

Badr

2024

npj Syst Biol Appl

View full text Add to dashboard Cite

show abstract

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Identification of a novel eighteen-gene signature of recurrent metastasis neuroblastoma

Cited by 1 publication

References 52 publications

A multi-omics approach for biomarker discovery in neuroblastoma: a network-based framework

A multi-omics approach for biomarker discovery in neuroblastoma: a network-based framework

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