Identification of long noncoding RNAs biomarkers for diagnosis and prognosis in patients with colon adenocarcinoma

Long noncoding RNAs (lncRNAs) are a class of important regulators participating in various pathological processes. Until now, the role of lncRNAs in the occurrence and development of intrahepatic cholestasis of pregnancy (ICP) has rarely been investigated. The data from microarray screening revealed 58 upregulated and 85 downregulated lncRNAs and 47 upregulated and 71 downregulated mRNAs in ICP patients compared to healthy controls. Bioinformatics analysis revealed biological processes focused on lipid metabolism, apoptosis, cell cycle, cell differentiation, and oxidative stress. Furthermore, the expressions of three lncRNAs (ENST00000505175.1, ASO3480, and ENST00000449605.1) chosen for verification were significantly decreased and showed the diagnostic and prognostic value for ICP based on ROC analysis. This is the first study to report the specific role of lncRNAs in ICP, which may be helpful for the diagnosis and prognosis of ICP clinically.

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Integrative Analysis Reveals Potentially Functional N6-Methylandenosine-Related Long Noncoding RNAs in Colon Adenocarcinoma

Frontiers in Genetics ◽

10.3389/fgene.2021.739344 ◽

2021 ◽

Vol 12 ◽

Author(s):

Xinjie Tan ◽

Qian Li ◽

Qinya Zhang ◽

Gang Fan ◽

Zhuo Liu ◽

...

Keyword(s):

Energy Metabolism ◽

Noncoding Rnas ◽

Colon Adenocarcinoma ◽

Long Noncoding Rnas ◽

Metabolic Reprogramming ◽

Rna Modifications ◽

Protein Levels ◽

Non Coding Rna ◽

Functional Inference ◽

Subtype 3

N6-methyladenosine (m6A) is one of the most prevalent RNA modifications in mRNA and non-coding RNA. In this study, we identified 10 upregulated m6A regulators at both mRNA and protein levels, and 2,479 m6A-related lncRNAs. Moreover, the m6A-related long noncoding RNAs (lncRNAs) could clearly stratify the colon adenocarcinoma (COAD) samples into three subtypes. The subtype 2 had nearly 40% of samples with microsatellite instability (MSI), significantly higher than the two other subtypes. In accordance with this finding, the inflammatory response-related pathways were highly activated in this subtype. The subtype-3 had a shorter overall survival and a higher proportion of patients with advanced stage than subtypes 1 and 2 (p-value < 0.05). Pathway analysis suggested that the energy metabolism-related pathways might be aberrantly activated in subtype 3. In addition, we observed that most of the m6A readers and m6A-related lncRNAs were upregulated in subtype 3, suggesting that the m6A readers and the m6A-related lncRNAs might be associated with metabolic reprogramming and unfavorable outcome in COAD. Among the m6A-related lncRNAs in subtype 3, four were predicted as prognostically relevant. Functional inference suggested that CTD-3184A7.4, RP11-458F8.4, and RP11-108L7.15 were positively correlated with the energy metabolism-related pathways, further suggesting that these lncRNAs might be involved in energy metabolism-related pathways. In summary, we conducted a systematic data analysis to identify the key m6A regulators and m6A-related lncRNAs, and evaluated their clinical and functional importance in COAD, which may provide important evidences for further m6A-related researches.

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Long Noncoding RNAs as Biomarkers in Cancer

Disease Markers ◽

10.1155/2017/7243968 ◽

2017 ◽

Vol 2017 ◽

pp. 1-14 ◽

Cited By ~ 142

Author(s):

Luka Bolha ◽

Metka Ravnik-Glavač ◽

Damjan Glavač

Keyword(s):

Cancer Patients ◽

Cancer Diagnosis ◽

Noncoding Rna ◽

Expression Profiles ◽

Noncoding Rnas ◽

Body Fluids ◽

Long Noncoding Rnas ◽

Diagnosis And Prognosis ◽

Cell Processes ◽

Cancer Diagnosis And Prognosis

Long noncoding RNAs (lncRNAs) are a relatively well-characterized class of noncoding RNA (ncRNA) molecules, involved in the regulation of various cell processes, including transcription, intracellular trafficking, and chromosome remodeling. Their deregulation has been associated with the development and progression of various cancer types, the fact which makes them suitable as biomarkers for cancer diagnosis and prognosis. In recent years, detection of cancer-associated lncRNAs in body fluids of cancer patients has proven itself as an especially valuable method to effectively diagnose cancer. Cancer diagnosis and prognosis employing circulating lncRNAs are preferential when compared to classical biopsies of tumor tissues, especially due to their noninvasiveness, and have great potential for routine usage in clinical practice. Thus, this review focuses on summarizing the perspectives of lncRNAs as biomarkers in cancer, based on evaluating their expression profiles determined in body fluids of cancer patients.

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MicroRNAs or Long Noncoding RNAs in Diagnosis and Prognosis of Coronary Artery Disease

Aging and Disease ◽

10.14336/ad.2018.0617 ◽

2019 ◽

Vol 10 (2) ◽

pp. 353 ◽

Cited By ~ 17

Author(s):

Yuan Zhang ◽

Lei Zhang ◽

Yu Wang ◽

Han Ding ◽

Sheng Xue ◽

...

Keyword(s):

Coronary Artery Disease ◽

Coronary Artery ◽

Noncoding Rnas ◽

Long Noncoding Rnas ◽

Diagnosis And Prognosis ◽

Artery Disease

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Long Noncoding RNAs Act as Novel Biomarkers for Hepatocellular Carcinoma: Progress and Prospects

BioMed Research International ◽

10.1155/2017/6049480 ◽

2017 ◽

Vol 2017 ◽

pp. 1-8 ◽

Cited By ~ 8

Author(s):

Han Bao ◽

Hongying Su

Keyword(s):

Hepatocellular Carcinoma ◽

Early Diagnosis ◽

Poor Prognosis ◽

Noncoding Rnas ◽

Long Noncoding Rnas ◽

Cancer Development ◽

Noncancerous Tissue ◽

Diagnosis And Prognosis ◽

Circulating Nucleic Acids ◽

Novel Biomarkers

Hepatocellular carcinoma (HCC) is one of the most common cancers worldwide and confers a poor prognosis. Novel diagnostic or prognostic biomarkers and effective therapeutic targets for HCCs are urgently needed. Currently, dozens of long noncoding RNAs (lncRNAs) have been identified as playing critical roles in cancer development and progression. Advanced studies have shown that several well-known lncRNAs are dysregulated in HCC tissue as compared to adjacent noncancerous tissue. Furthermore, highly stable cell-free circulating nucleic acids (cfCNAs), including lncRNAs, aberrantly expressed in the plasma of HCC patients, have been detected. In this review, we focus on the most extensively investigated lncRNAs in HCC and discuss the potential of HCC-related lncRNAs as novel biomarkers for early diagnosis and prognosis.

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Identification of long noncoding RNAs as potential novel diagnosis and prognosis biomarkers in colorectal cancer

Journal of Cancer Research and Clinical Oncology ◽

10.1007/s00432-016-2238-9 ◽

2016 ◽

Vol 142 (11) ◽

pp. 2291-2301 ◽

Cited By ~ 37

Author(s):

Rui Wang ◽

Lutao Du ◽

Xiaoyun Yang ◽

Xiumei Jiang ◽

Weili Duan ◽

...

Keyword(s):

Colorectal Cancer ◽

Noncoding Rnas ◽

Long Noncoding Rnas ◽

Diagnosis And Prognosis

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A preliminary analysis of LncRNA biomarkers for schizophrenia

Epigenomics ◽

10.2217/epi-2021-0223 ◽

2021 ◽

Author(s):

Jiao Jia ◽

Xiaofei Liu ◽

Lina Ma ◽

Yong Xu ◽

Yan Ren

Keyword(s):

Predictive Value ◽

Preliminary Analysis ◽

Noncoding Rnas ◽

Therapeutic Targets ◽

Long Noncoding Rnas ◽

Antipsychotic Treatment ◽

Treatment Results ◽

Diagnosis And Prognosis ◽

Before And After ◽

Novel Biomarkers

Aim: The aim of this study was to identify the long noncoding RNAs (lncRNAs) associated with schizophrenia (SZ) and the relationships among their expression, antipsychotic efficacy and SZ severity. Method: The diagnostic and predictive value of nine lncRNAs, Gomafu, DISC2, PSZA11, AK096174, AK123097, DB340248, uc011dma.1, ENST00000509804-1 and ENST00000509804-2, was investigated in 48 patients with SZ before and after antipsychotic treatment. Results: Gomafu, AK096174, AK123097, DB340248, uc011dma.1, ENST00000509804-1 and ENST00000509804-2 were individually and collectively associated with, and predictive of, SZ pathogenesis. Moreover, increased expression of plasma AK123097, uc011dma.1 and ENST00000509804-1 levels was reversed after 12 weeks of antipsychotic treatment, which was associated with SZ severity. Conclusion: Seven lncRNAs serve as novel biomarkers for SZ diagnosis and prognosis and three lncRNAs are potential therapeutic targets.

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Roles and Mechanisms of the Long Noncoding RNAs in Cervical Cancer

International Journal of Molecular Sciences ◽

10.3390/ijms21249742 ◽

2020 ◽

Vol 21 (24) ◽

pp. 9742

Author(s):

Miguel Ángel Cáceres-Durán ◽

Ândrea Ribeiro-dos-Santos ◽

Amanda Ferreira Vidal

Keyword(s):

Cervical Cancer ◽

Noncoding Rna ◽

Noncoding Rnas ◽

Long Noncoding Rnas ◽

Regulation Of Transcription ◽

Cyclin Dependent Kinase ◽

Epigenetic Factors ◽

Stem Cell Maintenance ◽

Diagnosis And Prognosis ◽

Papillomavirus Infection

Cervical cancer (CC) continues to be one of the leading causes of death for women across the world. Although it has been determined that papillomavirus infection is one of the main causes of the etiology of the disease, genetic and epigenetic factors are also required for its progression. Among the epigenetic factors are included the long noncoding RNAs (lncRNAs), transcripts of more than 200 nucleotides (nt) that generally do not code for proteins and have been associated with diverse functions such as the regulation of transcription, translation, RNA metabolism, as well as stem cell maintenance and differentiation, cell autophagy and apoptosis. Recently, studies have begun to characterize the aberrant regulation of lncRNAs in CC cells and tissues, including Homeobox transcript antisense RNA (HOTAIR), H19, Metastasis-associated lung adenocarcinoma transcript 1 (MALAT1), Cervical Carcinoma High-Expressed 1 (CCHE1), Antisense noncoding RNA in the inhibitors of cyclin-dependent kinase 4 (ANRIL), Growth arrest special 5 (GAS5) and Plasmacytoma variant translocation 1 (PVT1). They have been associated with several disease-related processes such as cell growth, cell proliferation, cell survival, metastasis and invasion as well as therapeutic resistance, and are novel potential biomarkers for diagnosis and prognosis in CC. In this review, we summarize the current literature regarding the knowledge we have about the roles and mechanisms of the lncRNAs in cervical neoplasia.

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