Expanding the understanding of the heterogeneous nature of melanoma with bioinformatics and disorder-based proteomics

Djulbegovic, Mak; Uversky, Vladimir N.

doi:10.1016/j.ijbiomac.2019.10.139

Cited by 7 publications

(2 citation statements)

References 94 publications

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“…At the molecular level, melanoma comprises a heterogeneous group of disorders that harbour distinct aberrations in diverse cellular processes [1][2][3]. Such heterogeneity suggests that multiple mechanisms are involved in disease aetiology, and this is reflected in the contribution of both different mutations and differential gene and protein expression associated with melanoma transformation and progression [4].…”

Section: Introductionmentioning

confidence: 99%

SFPQ promotes an oncogenic transcriptomic state in melanoma

Anene

Nsengimana

et al. 2021

Oncogene

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The multifunctional protein, splicing factor, proline- and glutamine-rich (SFPQ) has been implicated in numerous cancers often due to interaction with coding and non-coding RNAs, however, its role in melanoma remains unclear. We report that knockdown of SFPQ expression in melanoma cells decelerates several cancer-associated cell phenotypes, including cell growth, migration, epithelial to mesenchymal transition, apoptosis, and glycolysis. RIP-seq analysis revealed that the SFPQ-RNA interactome is reprogrammed in melanoma cells and specifically enriched with key melanoma-associated coding and long non-coding transcripts, including SOX10, AMIGO2 and LINC00511 and in most cases SFPQ is required for the efficient expression of these genes. Functional analysis of two SFPQ-enriched lncRNA, LINC00511 and LINC01234, demonstrated that these genes independently contribute to the melanoma phenotype and a more detailed analysis of LINC00511 indicated that this occurs in part via modulation of the miR-625-5p/PKM2 axis. Importantly, analysis of a large clinical cohort revealed that elevated expression of SFPQ in primary melanoma tumours may have utility as a prognostic biomarker. Together, these data suggest that SFPQ is an important driver of melanoma, likely due to SFPQ–RNA interactions promoting the expression of numerous oncogenic transcripts.

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Section: Introductionmentioning

confidence: 99%

SFPQ promotes an oncogenic transcriptomic state in melanoma

Anene

Nsengimana

et al. 2021

Oncogene

View full text Add to dashboard Cite

show abstract

“…In today's era of "big data" and personalized medicine, bioinformatics has been shown to help increase our understanding of CM heterogeneous nature (21). In this study, we analyzed the molecular subtypes of CM based on PANoptosis-associated genes (PAGs) and further analyzed the correlation between different molecular subtypes and immune microenvironments and immunotherapy reactivity.…”

Section: Introductionmentioning

confidence: 99%