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Combinatorial binding predicts spatio-temporal cis-regulatory activity
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Siepel, A., Bejerano, G., Pedersen, J. S., Hinrichs, A. S., Hou, M., Rosenbloom, K., Clawson, H., Spieth, J., Hillier, L. W., Richards, S., et al. (2005) · Genome Research · doi:10.1101/gr.3715005 · Cited by 3,971
VISTA Enhancer Browser—a database of tissue-specific human enhancers
Visel, A., Minovitsky, S., Dubchak, I., & Pennacchio, L. A. (2007) · Nucleic Acids Research · doi:10.1093/nar/gkl822 · Cited by 1,080
Transcriptional enhancers: Intelligent enhanceosomes or flexible billboards?
Arnosti, D. N., & Kulkarni, M. M. (2005) · Journal of Cellular Biochemistry · doi:10.1002/jcb.20352 · Cited by 309
A core transcriptional network for early mesoderm development in Drosophila melanogaster
Sandmann, T., Girardot, C., Brehme, M., Tongprasit, W., Stolc, V., & Furlong, E. E. M. (2007) · Genes & Development · doi:10.1101/gad.1509007 · Cited by 286
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Arnosti, D. N., Barolo, S., Levine, M., & Small, S. (1996) · Development · doi:10.1242/dev.122.1.205 · Cited by 226
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Wilson, N. K., Foster, S. D., Wang, X., Knezevic, K., Schütte, J., Kaimakis, P., Chilarska, P. M., Kinston, S., Ouwehand, W. H., Dzierzak, E., et al. (2010) · Cell stem cell · doi:10.1016/j.stem.2010.07.016 · Cited by 728
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Garber, M., Yosef, N., Goren, A., Raychowdhury, R., Thielke, A., Guttman, M., Robinson, J., Minie, B., Chevrier, N., Itzhaki, Z., et al. (2012) · Molecular Cell · doi:10.1016/j.molcel.2012.07.030 · Cited by 369
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Mikhaylichenko, O., Bondarenko, V., Harnett, D., Schor, I. E., Males, M., Viales, R. R., & Furlong, E. E. M. (2018) · Genes & Development · doi:10.1101/gad.308619.117 · Cited by 293
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Metadata
- Authors
- Zinzen, R. P., Girardot, C., Gagneur, J., Braun, M., & Furlong, E. E. M.
- Venue
- Nature
- Published
- 2009-11
- Volume
- 462
- Issue
- 7269
- Pages
- 65-70
- ISSN
- 0028-0836 (ISSN-L)
- 1476-4687
- OpenAlex
- W1977620504
- Cited by
- 395
- References
- 5
- FWCI
- 14.64
- Type
- journal article
- Language
- en
- Open access
- closed
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Contains information from the Semantic Scholar Academic Graph Datasets, made available under the ODC Attribution License (ODC-BY 1.0).
Semantic Scholar’s data is described in: Kinney, R., et al. (2023). The Semantic Scholar Open Data Platform. arXiv:2301.10140.
