The DOI matches its Crossref record; 1 of the 1 references it cites were found in a registry or an index.
The Human Transcriptome Map Reveals Extremes in Gene Density, Intron Length, GC Content, and Repeat Pattern for Domains of Highly and Weakly Expressed Genes
Open accessAbstract
The chromosomal gene expression profiles established by the Human Transcriptome Map (HTM) revealed a clustering of highly expressed genes in about 30 domains, called ridges. To physically characterize ridges, we constructed a new HTM based on the draft human genome sequence (HTMseq). Expression of 25,003 genes can be analyzed online in a multitude of tissues (http://bioinfo.amc.uva.nl/HTMseq). Ridges are found to be very gene-dense domains with a high GC content, a high SINE repeat density, and a low LINE repeat density. Genes in ridges have significantly shorter introns than genes outside of ridges. The HTMseq also identifies a significant clustering of weakly expressed genes in domains with fully opposite characteristics (antiridges). Both types of domains are open to tissue-specific expression regulation, but the maximal expression levels in ridges are considerably higher than in antiridges. Ridges are therefore an integral part of a higher order structure in the genome related to transcriptional regulation.
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Cites
HIV-1 Integration in the Human Genome Favors Active Genes and Local Hotspots
Schröder, A. R. W., Shinn, P., Chen, H., Berry, C., Ecker, J. R., & Bushman, F. (2002) · Cell · doi:10.1016/s0092-8674(02)00864-4 · Cited by 1,832
Cited by
International Chicken Genome Sequencing Consortium (2004) · Nature · doi:10.1038/nature03154 · Cited by 2,750
Li, G., Ruan, X., Auerbach, R. K., Sandhu, K. S., Zheng, M., Wang, P., Poh, H. M., Goh, Y., Lim, J., Zhang, J., et al. (2012) · Cell · doi:10.1016/j.cell.2011.12.014 · Cited by 1,232
Widespread RNA Editing of Embedded Alu Elements in the Human Transcriptome
Kim, D. D. Y., Kim, T. T. Y., Walsh, T., Kobayashi, Y., Matise, T. C., Buyske, S., & Gabriel, A. (2004) · Genome Research · doi:10.1101/gr.2855504 · Cited by 538
Mechanisms and Consequences of Double‐Strand DNA Break Formation in Chromatin
Cannan, W. J., & Pederson, D. S. (2016) · Journal of Cellular Physiology · doi:10.1002/jcp.25048 · Cited by 499
“This frequency could account for the estimated 10–50 DSBs that form every day in every nucleated human cell (Vilenchik and Knudson, 2003; and reviewed in Mehta and Haber, 2014), but only if SSBs persist for a large fraction of the cell cycle.”
BackgroundHigh Guanine and Cytosine Content Increases mRNA Levels in Mammalian Cells
Kudla, G., Lipinski, L., Caffin, F., Helwak, A., & Zylicz, M. (2006) · PLoS Biology · doi:10.1371/journal.pbio.0040180 · Cited by 476
Metadata
- Authors
- Versteeg, van Schaik, B. D. C., van Batenburg, M. F., Roos, M., Monajemi, R., Caron, H., Bussemaker, H. J., & van Kampen, A. H. C.
- Venue
- Genome Research
- Publisher
- Cold Spring Harbor Laboratory
- Published
- 2003-01-01
- Volume
- 13
- Issue
- 9
- Pages
- 1998-2004
- ISSN
- 1088-9051 (ISSN-L)
- OpenAlex
- W2114014715
- Cited by
- 352
- References
- 1
- Type
- posted content
- Language
- en
- Open access
- bronze
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- Versteeg, van Schaik, B. D. C., van Batenburg, M. F., Roos, M., Monajemi, R., Caron, H., Bussemaker, H. J., & van Kampen, A. H. C. (2003). The Human Transcriptome Map Reveals Extremes in Gene Density, Intron Length, GC Content, and Repeat Pattern for Domains of Highly and Weakly Expressed Genes. Genome Research. https://doi.org/10.1101/gr.1649303
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