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Related Concept Videos

lncRNA - Long Non-coding RNAs02:39

lncRNA - Long Non-coding RNAs

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In humans, more than 80% of the genome gets transcribed. However, only around 2% of the genome codes for proteins. The remaining part produces non-coding RNAs which includes ribosomal RNAs, transfer RNAs, telomerase RNAs, and regulatory RNAs, among other types. A large number of regulatory non-coding RNAs have been classified into two groups depending upon their length – small non-coding RNAs, such as microRNA, which are less than 200 nucleotides in length, and long non-coding RNA...
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RNA sequencing, or RNA-Seq, is a high-throughput sequencing technology used to study the transcriptome of a cell. Transcriptomics helps to interpret the functional elements of a genome and identify the molecular constituents of an organism. Additionally, it also helps in understanding the development of an organism and the occurrence of diseases. 
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MicroRNA (miRNA) are short, regulatory RNA transcribed from introns—non-coding regions of a gene—or intergenic regions—stretches of DNA present between genes. Several processing steps are required to form biologically active, mature miRNA. The initial transcript, called primary miRNA (pri-mRNA), base-pairs with itself forming a stem-loop structure. Within the nucleus, an endonuclease enzyme, called Drosha, shortens the stem-loop structure into hairpin-shaped pre-miRNA. After...
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Updated: Sep 17, 2025

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Dysregulated Long Non-Coding RNAs in Colorectal Cancer: Identification and Validation Using RNA-seq and Real-Time

Reyhaneh Dehghanzad1, Roghayeh Rahbar Parvaneh2, Mohammad Keramatipour3

  • 1Department of Medical Genetics, School of Medicine, Tehran University of Medical Sciences, Tehran, Iran.

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|July 2, 2025
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Summary

This study identified four long non-coding RNAs (lncRNAs) that are significantly upregulated in colorectal cancer (CRC) tissues. These lncRNAs show potential as biomarkers for CRC diagnosis and therapy.

Keywords:
Colorectal CancerLong Non-coding RNAsRNA Sequencing AnalysisReal-Time Reverse Transcription Polymerase Chain Reaction

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Area of Science:

  • Oncology
  • Molecular Biology
  • Genomics

Background:

  • Colorectal cancer (CRC) is a major global health concern, ranking third in incidence and second in cancer-related mortality.
  • Long non-coding RNAs (lncRNAs) are increasingly recognized for their critical roles in the development and progression of various cancers, including CRC.
  • Advancements in high-throughput technologies like RNA sequencing (RNA-seq) offer powerful tools for analyzing cancer omics data and uncovering novel molecular mechanisms.

Purpose of the Study:

  • To identify and validate novel long non-coding RNAs (lncRNAs) implicated in the pathogenesis of colorectal cancer (CRC).
  • To explore the potential of identified lncRNAs as diagnostic biomarkers or therapeutic targets for CRC.

Main Methods:

  • RNA sequencing (RNA-seq) was performed on The Cancer Genome Atlas (TCGA) data, analyzing 481 CRC samples and 41 healthy controls.
  • The Boruta feature selection algorithm identified statistically significant differentially expressed lncRNAs.
  • Four candidate lncRNAs (LINC01730, LINC02487, LINC01836, and LINC01594) were selected for validation using real-time reverse transcription polymerase chain reaction (RT-PCR) on 10 CRC and 9 normal tissue samples.
  • Bioinformatic analyses were conducted to investigate the molecular pathways associated with the identified lncRNAs in CRC.

Main Results:

  • RNA-seq analysis revealed 388 differentially expressed lncRNAs between CRC and healthy tissues.
  • Real-time RT-PCR validated the significant upregulation of four lncRNAs: LINC01730, LINC02487, LINC01836, and LINC01594 in CRC tissues.
  • Bioinformatic analyses indicated that these upregulated lncRNAs are potentially involved in key molecular pathways regulating tumor growth and metastasis.

Conclusions:

  • Four significantly upregulated lncRNAs (LINC01730, LINC02487, LINC01836, and LINC01594) were identified and validated in colorectal cancer (CRC) tissues.
  • These lncRNAs demonstrate potential as promising candidates for the development of novel biomarkers and therapeutic strategies for CRC.
  • Further research into the functional roles of these lncRNAs could advance our understanding and treatment of colorectal cancer.