Emerging long noncoding RNA polymorphisms as novel predictors of survival in cancer

Abdi, Esmat; Latifi‐Navid, Saeid

doi:10.1016/j.prp.2022.154165

Cited by 10 publications

(4 citation statements)

References 83 publications

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“…Emerging literature advocates that lncRNAs and SNPs occurring in their functional region influence the pathophysiology of esophageal oncogenesis [13,35]. Yet, the results obtained so far have been controversial, inconclusive, or limited by small sample-sizes [36].…”

Section: Discussionmentioning

confidence: 99%

Genetic Impact of HOTAIR, LINC00951, POLR2E and HULC Polymorphisms in Histopathological and Laboratory Prognostic Factors in Esophageal Cancer in the West: A Case-Control Study

Baili,

Gazouli,

Lazaris

et al. 2024

Cancers

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Long non-coding RNAs’ HOTAIR rs920778, LINC00951 rs11752942, POLR2E rs3787016, and HULC rs7763881 are progressively reported having a close genetic affinity with esophageal carcinogenesis in the East. Nonetheless, their correlation with variables already endorsed as significant prognostic factors in terms of staging, guiding treatment and predicting recurrence, metastasis, and survival have yet to be explored. Herein, we investigated their prognostic value by correlating them with clinicopathological and laboratory prognostic markers in esophageal cancer in the West. Formalin-fixed paraffin-embedded tissue specimens from 95 consecutive patients operated on for esophageal cancer between 2014 and 2018 were compared with 121 healthy community controls. HULC was not detected differently in any of the cancer prognostic subgroups. LINC00951 was underrepresented in Ca19.9 elevated subgroup. HOTAIR was more frequent in both worse differentiation grade and positive Signet-Ring-Cell and Ca19.9 subgroups. POLR2E was identified less frequently in Adenocarcinoma, Signet-Ring-Cell, and Diffuse histologies, as well as in Perineural, Lymphovascular, and Perivascular Invasion positive, while it was overrepresented in CEA positive subgroup. These lncRNAs polymorphisms may hold great potential not only as future therapeutic agents but also as novel markers for predictive analysis of esophageal cancer risk, clinical outcome, and survival. Clinical implications of these findings need to be validated with prospective larger sample-size studies.

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Section: Discussionmentioning

confidence: 99%

Genetic Impact of HOTAIR, LINC00951, POLR2E and HULC Polymorphisms in Histopathological and Laboratory Prognostic Factors in Esophageal Cancer in the West: A Case-Control Study

Baili,

Gazouli,

Lazaris

et al. 2024

Cancers

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“…Lately, research employing targeted gene methods has demonstrated a genetic link between single-nucleotide polymorphisms (SNPs) of LINC00312 and various aspects of NPC prognosis. Specifically, LINC00312 variants, rs15734 and rs164966, were associated with a decrease in the risks of developing NPC, as patients with rs12497104 polymorphisms showed a poorer overall survival 21 , 22 . In addition, association of rs12497104 and rs15734 with chemoradiotherapy-induced hematotoxicity in NPC was recently reported 23 .…”

Section: Introductionmentioning

confidence: 99%

Impact of LINC00312 gene polymorphism coupled with habitual risks on buccal mucosa cancer

Hsu,

Lu,

Chen

et al. 2024

J. Cancer

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Oral squamous cell carcinoma (OSCC) is a prevalent and lethal malignancy with a diverse etiology. LINC00312 is a long intergenic non-coding RNA that functions as a signal hub to regulate the progression and treatment of head and neck cancer. The aim of this study was to evaluate the effect of LINC00312 single nucleotide polymorphisms (SNPs) on the development of oral cancer. Two LINC00312 SNPs, namely rs12497104 and rs164966, were investigated among 469 male patients with cancer of buccal mucosa and 1194 gender- and age-matched controls. No significant correlation was observed between these two SNPs and the occurrence of OSCC in the case and control groups. While assessing the clinicopathological features, carriers of at least one minor allele of rs164966 (GA and GG) were less prone to develop lymph node metastasis (adjusted odds ratio [AOR], 0.666; 95% confidence interval [CI], 0.447-0.991; p =0.045) in comparison with homozygous carriers of the major allele (AA). Subsequent stratifying surveys revealed that this genetic association with nodal spread was seen only in cases who habitually chewed betel quid (AOR, 0.616; 95% CI, 0.386-0.985; p =0.042) or smoked cigarettes (AOR, 0.612; 95% CI, 0.393-0.953; p =0.029), but undetected in cases free of these main behavioral risks. Our results indicate an interactivity of LINC00312 rs164966 with lifestyle-related risks on modulating OSCC progression.

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“…With advances in biotechnology and next generation sequencing technologies, huge strides have been made in genomics studies revealing that the transcriptome of an organism is much larger than expected. In eukaryotes spanning from yeast to human, many non-coding RNAs (ncRNAs) have been detected and linked to diseases ranging from cancers to neurological disorders and are now actively studied for their potential as novel therapeutic and diagnostic agents 30 . Over the past few years, ncRNAs been recognized as key regulators of chromatin states and gene expression 31 – 33 .…”

Section: Introductionmentioning

confidence: 99%

“…Deposition of Xist on the X-chromosome recruits histone-modifying enzymes that place repressive histone marks, such as H3K9 and H3K27 methylation, leading to gene silencing and the formation of heterochromatin. Two other lncRNAs, the HOX transcript antisense (HOTAIR) and the antisense lncRNA in the INK4 locus (ANRIL), have also been shown to interact with multiprotein Polycomb PRotein Complexes (PRC1 and PRC2) to catalyze histone marks and silence gene expression 30 . Similarly, long telomeric repeat-containing lncRNAs (TERRA) have been recently identified as a major component of telomeric heterochromatin 41 , 42 .With thousands of lncRNAs transcribed in mammalian cells we are only starting to grasp their role in regulating major biological processes.…”

Section: Introductionmentioning

confidence: 99%

Novel insights into the role of long non-coding RNA in the human malaria parasite, Plasmodium falciparum

Batugedara,

Lu,

Hristov

et al. 2023

Nat Commun

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The complex life cycle of Plasmodium falciparum requires coordinated gene expression regulation to allow host cell invasion, transmission, and immune evasion. Increasing evidence now suggests a major role for epigenetic mechanisms in gene expression in the parasite. In eukaryotes, many lncRNAs have been identified to be pivotal regulators of genome structure and gene expression. To investigate the regulatory roles of lncRNAs in P. falciparum we explore the intergenic lncRNA distribution in nuclear and cytoplasmic subcellular locations. Using nascent RNA expression profiles, we identify a total of 1768 lncRNAs, of which 718 (~41%) are novels in P. falciparum. The subcellular localization and stage-specific expression of several putative lncRNAs are validated using RNA-FISH. Additionally, the genome-wide occupancy of several candidate nuclear lncRNAs is explored using ChIRP. The results reveal that lncRNA occupancy sites are focal and sequence-specific with a particular enrichment for several parasite-specific gene families, including those involved in pathogenesis and sexual differentiation. Genomic and phenotypic analysis of one specific lncRNA demonstrate its importance in sexual differentiation and reproduction. Our findings bring a new level of insight into the role of lncRNAs in pathogenicity, gene regulation and sexual differentiation, opening new avenues for targeted therapeutic strategies against the deadly malaria parasite.

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Emerging long noncoding RNA polymorphisms as novel predictors of survival in cancer

Cited by 10 publications

References 83 publications

Genetic Impact of HOTAIR, LINC00951, POLR2E and HULC Polymorphisms in Histopathological and Laboratory Prognostic Factors in Esophageal Cancer in the West: A Case-Control Study

Genetic Impact of HOTAIR, LINC00951, POLR2E and HULC Polymorphisms in Histopathological and Laboratory Prognostic Factors in Esophageal Cancer in the West: A Case-Control Study

Impact of LINC00312 gene polymorphism coupled with habitual risks on buccal mucosa cancer

Novel insights into the role of long non-coding RNA in the human malaria parasite, Plasmodium falciparum

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