The DOI matches its Crossref record; 150 of the 151 references it cites were found in a registry or an index.
Epigenetic Regulation: A New Frontier for Biomedical Engineers
Abstract
Gene expression in mammalian cells depends on the epigenetic status of the chromatin, including DNA methylation, histone modifications, promoter-enhancer interactions, and noncoding RNA-mediated regulation. The coordinated actions of these multifaceted regulations determine cell development, cell cycle regulation, cell state and fate, and the ultimate responses in health and disease. Therefore, studies of epigenetic modulations are critical for our understanding of gene regulation mechanisms at the molecular, cellular, tissue, and organ levels. The aim of this review is to provide biomedical engineers with an overview of the principles of epigenetics, methods of study, recent findings in epigenetic regulation in health and disease, and computational and sequencing tools for epigenetics analysis, with an emphasis on the cardiovascular system. This review concludes with the perspectives of the application of bioengineering to advance epigenetics and the utilization of epigenetics to translate bioengineering research into clinical medicine.
Overview
Integrity signals
Registry
Cites
Statistics
Verification
Claims the paper makes
Claims other papers make about this one
Each is checked against this paper’s own text: does it say what the citing paper says it does?
In the citing paper
“On the other hand, the deacetylases remove acetyl groups of acetylated lysine.”
From Revisiting Epigenetics Fundamentals and Its Biomedical Implications (2024) · cites this paper as [58]
In the citing paper
“This modification in tail histones plays a very important role during transcription regulation through two mechanisms.”
From Revisiting Epigenetics Fundamentals and Its Biomedical Implications (2024) · cites this paper as [58]
In the citing paper
“The main mechanism by which the structure and the function of chromatin are regulated is through post-translational modifications in the amino acids of histone proteins, such as methylation, acetylation, ubiquitination, phosphorylation, SUMOylation, ribosylation, propionylation, butyrylation, crotonylation, and citrullination [58].”
From Revisiting Epigenetics Fundamentals and Its Biomedical Implications (2024) · cites this paper as [58]
In the citing paper
“Firstly, it refers to the ability to neutralize the positive charge of the lysine by adding the acetyl group to histones, thus forming an affinity between DNA (negatively charged) and histones less tightly arranged, and consequently, greater accessibility of DNA to transcription factors is observed, for example.”
From Revisiting Epigenetics Fundamentals and Its Biomedical Implications (2024) · cites this paper as [58]
In the citing paper
“Acetylation occurs in the N-terminal lysine residues of histones, and this mechanism is mediated by acetyltransferases (HATs) that are responsible for adding acetyl groups to the tails of histones.”
From Revisiting Epigenetics Fundamentals and Its Biomedical Implications (2024) · cites this paper as [58]
In the citing paper
“And secondly, it is involved in the recognition of acetylation marks on histones by different proteins which can recruit different classes of chromatin structures, regulating proteins to promote or inhibit gene transcription [55,58].”
From Revisiting Epigenetics Fundamentals and Its Biomedical Implications (2024) · cites this paper as [58]
Citations
Cites
Potent and specific genetic interference by double-stranded RNA in Caenorhabditis elegans
Fire, A., Xu, S., Montgomery, M. K., Kostas, S. A., Driver, S. E., & Mello, C. C. (1998) · Nature · doi:10.1038/35888 · Cited by 15,429
Molecular Structure of Nucleic Acids: A Structure for Deoxyribose Nucleic Acid
WATSON, J. D., & CRICK, F. H. C. (1953) · Nature · doi:10.1038/171737a0 · Cited by 13,584
The C. elegans heterochronic gene lin-4 encodes small RNAs with antisense complementarity to lin-14
Lee, R. C., Feinbaum, R. L., & Ambros, V. (1993) · Cell · doi:10.1016/0092-8674(93)90529-y · Cited by 12,948
Comprehensive Mapping of Long-Range Interactions Reveals Folding Principles of the Human Genome
Lieberman-Aiden, E., van Berkum, N. L., Williams, L., Imakaev, M., Ragoczy, T., Telling, A., Amit, I., Lajoie, B. R., Sabo, P. J., Dorschner, M. O., et al. (2009) · Science · doi:10.1126/science.1181369 · Cited by 8,898
Circular RNAs are a large class of animal RNAs with regulatory potency
Memczak, S., Jens, M., Elefsinioti, A., Torti, F., Krueger, J., Rybak, A., Maier, L., Mackowiak, S. D., Gregersen, L. H., Munschauer, M., et al. (2013) · Nature · doi:10.1038/nature11928 · Cited by 7,990
Natural RNA circles function as efficient microRNA sponges
Hansen, T. B., Jensen, T. I., Clausen, B. H., Bramsen, J. B., Finsen, B., Damgaard, C. K., & Kjems, J. (2013) · Nature · doi:10.1038/nature11993 · Cited by 7,985
High-Resolution Profiling of Histone Methylations in the Human Genome
Barski, A., Cuddapah, S., Cui, K., Roh, T.-Y., Schones, D. E., Wang, Z., Wei, G., Chepelev, I., & Zhao, K. (2007) · Cell · doi:10.1016/j.cell.2007.05.009 · Cited by 6,845
Buenrostro, J. D., Giresi, P. G., Zaba, L. C., Chang, H. Y., & Greenleaf, W. J. (2013) · Nature Methods · doi:10.1038/nmeth.2688 · Cited by 6,422
Okano, M., Bell, D. W., Haber, D. A., & Li, E. (1999) · Cell · doi:10.1016/s0092-8674(00)81656-6 · Cited by 6,143
Regulation of chromatin by histone modifications
Bannister, A. J., & Kouzarides, T. (2011) · Cell Research · doi:10.1038/cr.2011.22 · Cited by 6,012
Research works printed but not linked: 2
- Smolarek I, 2010, Med. Sci. Monit, 16, CR149
- 10.1101/gr.5533506 · DOI
Cited by
Sorted by citations
Brain Lateralization: A Comparative Perspective.
Güntürkün, O., Ströckens, F., & Ocklenburg, S. (2020) · Physiological Reviews · doi:10.1152/physrev.00006.2019 · Cited by 412
Alveolar Epithelial Type II Cells as Drivers of Lung Fibrosis in Idiopathic Pulmonary Fibrosis
Parimon, T., Yao, C., Stripp, B. R., Noble, P. W., & Chen, P. (2020) · International Journal of Molecular Sciences · doi:10.3390/ijms21072269 · Cited by 397
Idiopathic Pulmonary Fibrosis: An Update on Pathogenesis
Mei, Q., Liu, Z., Zuo, H., Yang, Z., & Qu, J. (2022) · Frontiers in Pharmacology · doi:10.3389/fphar.2021.797292 · Cited by 360
Davis, M. J., Earley, S., Li, Y.-S., & Chien, S. (2023) · Physiological Reviews · doi:10.1152/physrev.00053.2021 · Cited by 273
Self-citationPhosphoenolpyruvate carboxykinase in cell metabolism: Roles and mechanisms beyond gluconeogenesis
Yu, S., Meng, S., Xiang, M., & Ma, H. (2021) · Molecular Metabolism · doi:10.1016/j.molmet.2021.101257 · Cited by 277
Metadata
- Authors
- Chen, Z., Li, S., Subramaniam, S., Shyy, J. Y.-J., & Chien, S.
- Affiliations
- City Of Hope National Medical Center (US)
- University of California San Diego (US)
- Venue
- Annual Review of Biomedical Engineering
- Publisher
- Annual Reviews
- Published
- 2017-06-21
- Volume
- 19
- Issue
- 1
- Pages
- 195-219
- ISSN
- 1523-9829 (ISSN-L)
- 1545-4274
- OpenAlex
- W2509725501
- Cited by
- 163
- References
- 151
- Citations by year
- 2026: 2 · 2025: 5 · 2024: 12 · 2023: 19 · 2022: 12 · 2021: 29 · 2020: 33 · 2019: 28 · 2018: 12 · 2017: 9
- FWCI
- 2.10
- Type
- journal article
- Language
- en
- Open access
- closed
- Locations
- Annual Review of Biomedical Engineering (publishedVersion)
- PubMed (publishedVersion)
- Funders
- National Heart, Lung, and Blood Institute (R00HL122368)
- Topics
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Epigenetics and DNA Methylation
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Genomics and Chromatin Dynamics
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Cancer Research › Cancer-related molecular mechanisms research
- Keywords
- epigenetic regulation, chromatin, DNA methylation, histone modifications, enhancer-promoter interactions, non-coding RNA, gene expression regulation, cardiovascular system, bioengineering applications, clinical translation
- MeSH terms
- Animals, Biomedical Engineering, Chromatin, Forecasting, Gene Expression Regulation, Humans, Models, Genetic, Protein Processing, Post-Translational, DNA Methylation, RNA, Untranslated, Epigenesis, Genetic
About these checks
Registry, retraction, Cites and statistics results are computed, not judged, with one exception: a printed reference that no index lists is read once by a model before it counts as a citation error. Claims are extracted by a model and kept only when their quote appears verbatim in the text; each cited source is then checked, with a model’s help, for whether it says what the claim relies on. Those verdicts can be wrong — read the claim’s quote and the cited source before relying on one.
Statistics and arithmetic are recomputed, not judged.
Confidence bands are shown only for fields calibrated on our annotated test set. None is calibrated yet, so no band is shown.
What counts as a claim ›How we measure confidence ›How we check this ›
Are you an author, or do you see a problem with this page? Request a review
