Databases and computational methods for the identification of piRNA-related molecules: A survey

Guo, Chang; Wang, Xiaoli; Ren, Han

doi:10.1016/j.csbj.2024.01.011

Cited by 3 publications

(3 citation statements)

References 149 publications

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“…, WGCNA)[ 22 ]. Despite the promising performance, these computational methods have several issues that need to be addressed, such as standardising piRNA nomenclature, developing a gold standard for bioinformatics analysis pipeline and improving the quality and quantity of data in the current piRNA databases (especially regarding the data on healthy controls)[ 23 ]. Nevertheless, more and more studies show the involvement of piRNAs in the development and progression of pathological diseases in humans.…”

Section: Discussionmentioning

confidence: 99%

New challenges in hepatocellular carcinoma: A role for PIWI-interacting RNAs?

Tierno,

Grassi,

Scaggiante

2024

World J Gastroenterol

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Hepatocellular carcinoma (HCC) is the most common and deadliest subtype of liver cancer worldwide and, therefore, poses an enormous threat to global health. Understanding the molecular mechanisms underlying the development and progression of HCC is central to improving our clinical approaches. PIWI-interacting RNAs (piRNAs) are a class of small non-coding RNAs that bind to PIWI family proteins to regulate gene expression at transcriptional and post-transcriptional levels. A growing body of work shows that the dysregulation of piRNAs plays a crucial role in the progression of various human cancers. In this editorial, we report on the current knowledge of HCC-associated piRNAs and their potential clinical utility. Based on the editorial by Papadopoulos and Trifylli, on the role and clinical evaluation of exosomal circular RNAs in HCC, we highlight this other emerging class of non-coding RNAs.

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Section: Discussionmentioning

confidence: 99%

New challenges in hepatocellular carcinoma: A role for PIWI-interacting RNAs?

Tierno,

Grassi,

Scaggiante

2024

World J Gastroenterol

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“…The naming conventions employed by piRBase and piRNAdb typically comprise the prefix ‘piR’ representing piRNAs, followed by a species‐specific abbreviation. 50 , 51 piRNA is a relatively new biological regulator, and establishing a unified naming system will help to promote the research of piRNA. At present, various piRNA online databases have been established, which provide researchers with a wealth of piRNA sequence, biological characteristics, expression patterns and target information.…”

Section: Pirna Functions and Related Mechanismsmentioning

confidence: 99%

Recent advances of PIWI‐interacting RNA in cardiovascular diseases

Li,

Wang,

Cheng

et al. 2024

Clinical & Translational Med

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BackgroundThe relationship between noncoding RNAs (ncRNAs) and human diseases has been a hot topic of research, but the study of ncRNAs in cardiovascular diseases (CVDs) is still in its infancy. PIWI‐interacting RNA (piRNA), a small ncRNA that binds to the PIWI protein to maintain genome stability by silencing transposons, was widely studied in germ lines and stem cells. In recent years, piRNA has been shown to be involved in key events of multiple CVDs through various epigenetic modifications, revealing the potential value of piRNA as a new biomarker or therapeutic target.ConclusionThis review explores origin, degradation, function, mechanism and important role of piRNA in CVDs, and the promising therapeutic targets of piRNA were summarized. This review provide a new strategy for the treatment of CVDs and lay a theoretical foundation for future research.Key points piRNA can be used as a potential therapeutic target and biomaker in CVDs. piRNA influences apoptosis, inflammation and angiogenesis by regulating epigenetic modificaions. Critical knowledge gaps remain in the unifying piRNA nomenclature and PIWI‐independent function.

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“…Multiple databases have been established to comprehensively collect and annotate piRNA data [ 83 ]. Databases such as piRBase [ 9 ], piRNAdb [ 84 ], and piRNABank [ 85 ] not only house piRNA sequences but also include information on their biogenesis, functions, target predictions, and disease associations.…”

Section: Introductionmentioning

confidence: 99%

piRNA associates with immune diseases

Jiang,

Hong,

Gao

et al. 2024

Cell Commun Signal

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PIWI-interacting RNA (piRNA) is the most abundant small non-coding RNA in animal cells, typically 26–31 nucleotides in length and it binds with PIWI proteins, a subfamily of Argonaute proteins. Initially discovered in germ cells, piRNA is well known for its role in silencing transposons and maintaining genome integrity. However, piRNA is also present in somatic cells as well as in extracellular vesicles and exosomes. While piRNA has been extensively studied in various diseases, particular cancer, its function in immune diseases remains unclear. In this review, we summarize current research on piRNA in immune diseases. We first introduce the basic characteristics, biogenesis and functions of piRNA. Then, we review the association of piRNA with different types of immune diseases, including autoimmune diseases, immunodeficiency diseases, infectious diseases, and other immune-related diseases. piRNA is considered a promising biomarker for diseases, highlighting the need for further research into its potential mechanisms in disease pathogenesis.

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Databases and computational methods for the identification of piRNA-related molecules: A survey

Cited by 3 publications

References 149 publications

New challenges in hepatocellular carcinoma: A role for PIWI-interacting RNAs?

New challenges in hepatocellular carcinoma: A role for PIWI-interacting RNAs?

Recent advances of PIWI‐interacting RNA in cardiovascular diseases

piRNA associates with immune diseases

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