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Related Concept Videos

lncRNA - Long Non-coding RNAs02:39

lncRNA - Long Non-coding RNAs

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 (lncRNA)...
Epigenetic Regulation01:37

Epigenetic Regulation

Epigenetic changes alter the physical structure of the DNA without changing the genetic sequence and often regulate whether genes are turned on or off. This regulation ensures that each cell produces only proteins necessary for its function. For example, proteins that promote bone growth are not produced in muscle cells. Epigenetic mechanisms play an essential role in healthy development. Conversely, precisely regulated epigenetic mechanisms are disrupted in diseases like cancer.
X-chromosome...
Epigenetic Regulation01:46

Epigenetic Regulation

Epigenetic mechanisms play an essential role in healthy development. Conversely, precisely regulated epigenetic mechanisms are disrupted in diseases like cancer.
Adaptive Mechanisms in Cancer Cells02:53

Adaptive Mechanisms in Cancer Cells

Cancer cells accumulate genetic changes at an abnormally rapid rate due to the defects in the DNA repair mechanisms. From an evolutionary perspective, such genetic instability is advantageous for cancer development. Mutant cell lines accumulate a series of beneficial mutations that contribute to their progression into cancer.
Some of the advantages that cancer cells have on normal cells include - enhanced ability to divide without terminally differentiating, induce new blood vessel formation,...
Adaptive Mechanisms in Cancer Cells02:53

Adaptive Mechanisms in Cancer Cells

Cancer cells accumulate genetic changes at an abnormally rapid rate due to the defects in the DNA repair mechanisms. From an evolutionary perspective, such genetic instability is advantageous for cancer development. Mutant cell lines accumulate a series of beneficial mutations that contribute to their progression into cancer.
Some of the advantages that cancer cells have on normal cells include - enhanced ability to divide without terminally differentiating, induce new blood vessel formation,...
Regulation of Expression at Multiple Steps01:23

Regulation of Expression at Multiple Steps

The gene expression in cells is regulated at different stages: (i) transcription, (ii) RNA processing, (iii) RNA localization, and (iv) translation. Transcriptional regulation is mediated by regulatory proteins such as transcription factors, activators, or repressors—these control gene expression by initiating or inhibiting the transcription of genes. Once a precursor or pre-mRNA is produced, it undergoes post-transcriptional modification, including 5' capping, splicing, and the addition of a...

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Related Experiment Video

Updated: May 21, 2026

An Integrated Platform for Genome-wide Mapping of Chromatin States Using High-throughput ChIP-sequencing in Tumor Tissues
10:41

An Integrated Platform for Genome-wide Mapping of Chromatin States Using High-throughput ChIP-sequencing in Tumor Tissues

Published on: April 5, 2018

Integrative interpretable learning reveals shared patterns of epitranscriptomic regulation across multiple cancer

Xiangyu Yin1,2,3, Gang Tu2,4, Xuan Wang2,4

  • 1Department of Public Health, Department of Pharmacology, School of Medicine, Nanjing University of Chinese Medicine, Nanjing, 210023, China.

BMC Biology
|May 20, 2026
PubMed
Summary

This study reveals shared epitranscriptomic patterns of N4-acetylcytidine (ac4C) across cancers, identifying novel ac4C-mediated genes linked to poor prognosis. These findings offer insights for cancer biomarkers and therapies.

Keywords:
Epitranscriptomic regulationGenomic featuresInterpretable analysisN4-acetylcytidine (ac4C)

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Generating the Transcriptional Regulation View of Transcriptomic Features for Prediction Task and Dark Biomarker Detection on Small Datasets
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Last Updated: May 21, 2026

An Integrated Platform for Genome-wide Mapping of Chromatin States Using High-throughput ChIP-sequencing in Tumor Tissues
10:41

An Integrated Platform for Genome-wide Mapping of Chromatin States Using High-throughput ChIP-sequencing in Tumor Tissues

Published on: April 5, 2018

Generating the Transcriptional Regulation View of Transcriptomic Features for Prediction Task and Dark Biomarker Detection on Small Datasets
03:37

Generating the Transcriptional Regulation View of Transcriptomic Features for Prediction Task and Dark Biomarker Detection on Small Datasets

Published on: March 1, 2024

Area of Science:

  • Epitranscriptomics
  • Cancer Biology
  • Genomics

Background:

  • Cancer arises from dysregulated cell processes, with N4-acetylcytidine (ac4C) acetylation linked to metastasis and tumor progression.
  • The shared epitranscriptomic regulatory patterns and interconnected networks across diverse cancer types remain largely unexplored.

Purpose of the Study:

  • To develop the first pan-cancer model for ac4C epitranscriptome analysis.
  • To identify shared epitranscriptomic patterns and regulatory networks of ac4C across various cancer types.
  • To discover novel ac4C-mediated genes associated with cancer prognosis.

Main Methods:

  • Utilized 88 ac4C epitranscriptome datasets from multiple cancer types and normal tissues.
  • Developed a pan-cancer model integrating sequence and genome-derived knowledge using a deep learning transformer architecture.
  • Performed interpretable analysis to uncover shared epitranscriptomic patterns and gene associations.

Main Results:

  • Uncovered shared epitranscriptomic patterns of dysregulated ac4C across cancers, particularly in low GC-content 3'UTR regions and internal 3'UTR splicing.
  • Identified candidate ac4C-mediated genes involved in cancer epitranscriptomic regulation.
  • Discovered three novel ac4C-mediated genes (SMARCD1, SENP5, RNF207) associated with poor clinical prognosis across cancer types.

Conclusions:

  • Emphasized the significance of comprehensive ac4C epitranscriptome characterization in the pan-cancer landscape.
  • Highlighted the potential of ac4C epitranscriptome insights for developing RNA modification-based biomarkers.
  • Suggested implications for novel therapeutic strategies targeting RNA modifications in cancer.