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The DOI matches its Crossref record; 8 of the 8 references it cites were found in a registry or an index.

ChIP-Seq identification of weakly conserved heart enhancers

Blow, Matthew J, McCulley, David J, Li, Zirong, Zhang, Tao, Akiyama, Jennifer A, Holt, Amy, Plajzer-Frick, Ingrid, Shoukry, Malak, Wright, Crystal, Chen, Feng, Afzal, Veena, Bristow, James, Ren, Bing, Black, Brian L, Rubin, Edward M, Visel, Axel, Pennacchio, Len A·2010·Nature Genetics
DOI 10.1038/ng.650PMC PMC3138496
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Crossref · 10.1038/ng.650

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  • Systematic delineation of cardiac CREs in genes associated with heart development can be achieved by ChIP-seq using antibodies against cardiac-specific transcription factors.

    “Systematic delineation of cardiac CREs in genes that are associated with heart development can be achieved by chromatin immunoprecipitation technique using antibodies against cardiac-specific transcription factors followed by deep sequencing (ChIP-seq)”

    From A cis-regulatory-directed pipeline for the identification of genes involved in cardiac development and disease (2021) · cites this paper as [7]

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Research works printed but not linked: 36

  1. Hoffman, J.I., Kaplan, S. & Liberthson, R.R. Prevalence of congenital heart disease. Am. Heart J. 147, 425–439 (2004). · DOI
  2. Lloyd-Jones, D. et al. Heart disease and stroke statistics–2009 update: a report from the American Heart Association Statistics Committee and Stroke Statistics Subcommittee. Circulation 119, 480–486 (2009). · DOI
  3. Pierpont, M.E. et al. Genetic basis for congenital heart defects: current knowledge: a scientific statement from the American Heart Association Congenital Cardiac Defects Committee, Council on Cardiovascular Disease in the Young: endorsed by the American Academy of Pediatrics. Circulation 115, 3015–3038 (2007). · DOI
  4. Bruneau, B.G. The developmental genetics of congenital heart disease. Nature 451, 943–948 (2008). · DOI · Paper page
  5. Bentham, J. & Bhattacharya, S. Genetic mechanisms controlling cardiovascular development. Ann. NY Acad. Sci. 1123, 10–19 (2008). · DOI
  6. Kleinjan, D.A. & van Heyningen, V. Long-range control of gene expression: emerging mechanisms and disruption in disease. Am. J. Hum. Genet. 76, 8–32 (2005). · DOI
  7. Aparicio, S. et al. Detecting conserved regulatory elements with the model genome of the Japanese puffer fish, Fugu rubripes. Proc. Natl. Acad. Sci. USA 92, 1684–1688 (1995). · DOI
  8. Nobrega, M.A., Ovcharenko, I., Afzal, V. & Rubin, E.M. Scanning human gene deserts for long-range enhancers. Science 302, 413 (2003). · DOI · Paper page
  9. de la Calle-Mustienes, E. et al. A functional survey of the enhancer activity of conserved non-coding sequences from vertebrate Iroquois cluster gene deserts. Genome Res. 15, 1061–1072 (2005). · DOI
  10. Prabhakar, S. et al. Close sequence comparisons are sufficient to identify human cis-regulatory elements. Genome Res. 16, 855–863 (2006). · DOI
  11. Pennacchio, L.A. et al. In vivo enhancer analysis of human conserved non-coding sequences. Nature 444, 499–502 (2006). · DOI · Paper page
  12. Visel, A. et al. Ultraconservation identifies a small subset of extremely constrained developmental enhancers. Nat. Genet. 40, 158–160 (2008). · DOI
  13. Yao, T.P. et al. Gene dosage-dependent embryonic development and proliferation defects in mice lacking the transcriptional integrator p300. Cell 93, 361–372 (1998). · DOI
  14. Xi, H. et al. Identification and characterization of cell type-specific and ubiquitous chromatin regulatory structures in the human genome. PLoS Genet. 3, e136 (2007). · DOI
  15. Chen, X. et al. Integration of external signaling pathways with the core transcriptional network in embryonic stem cells. Cell 133, 1106–1117 (2008). · DOI
  16. Visel, A. et al. ChIP-Seq accurately predicts tissue-specific activity of enhancers. Nature 457, 854–858 (2009). · DOI · Paper page
  17. Valouev, A. et al. Genome-wide analysis of transcription factor binding sites based on ChIP-Seq data. Nat. Methods 5, 829–834 (2008). · DOI · Paper page
  18. Kuhn, R.M. et al. The UCSC Genome Browser Database: update 2009. Nucleic Acids Res. 37, D755–D761 (2009). · DOI
  19. Kothary, R. et al. A transgene containing lacZ inserted into the dystonia locus is expressed in neural tube. Nature 335, 435–437 (1988). · DOI
  20. Srivastava, D. Making or breaking the heart: from lineage determination to morphogenesis. Cell 126, 1037–1048 (2006). · DOI
  21. Olson, E.N. Gene regulatory networks in the evolution and development of the heart. Science 313, 1922–1927 (2006). · DOI
  22. Cooper, G.M. & Brown, C.D. Qualifying the relationship between sequence conservation and molecular function. Genome Res. 18, 201–205 (2008). · DOI
  23. Birney, E. et al. Identification and analysis of functional elements in 1% of the human genome by the ENCODE pilot project. Nature 447, 799–816 (2007). · DOI · Paper page
  24. Margulies, E.H. et al. Analyses of deep mammalian sequence alignments and constraint predictions for 1% of the human genome. Genome Res. 17, 760–774 (2007). · DOI
  25. Cheng, Y. et al. Transcriptional enhancement by GATA1-occupied DNA segments is strongly associated with evolutionary constraint on the binding site motif. Genome Res. 18, 1896–1905 (2008). · DOI
  26. King, D.C. et al. Finding cis-regulatory elements using comparative genomics: some lessons from ENCODE data. Genome Res. 17, 775–786 (2007). · DOI
  27. Fisher, S., Grice, E.A., Vinton, R.M., Bessling, S.L. & McCallion, A.S. Conservation of RET regulatory function from human to zebrafish without sequence similarity. Science 312, 276–279 (2006). · DOI
  28. Narlikar, L. et al. Genome-wide discovery of human heart enhancers. Genome Res 20, 381–392 (2010). · DOI
  29. Blanchette, M. et al. Aligning multiple genomic sequences with the threaded blockset aligner. Genome Res. 14, 708–715 (2004). · DOI · Paper page
  30. Murphy, W.J., Pringle, T.H., Crider, T.A., Springer, M.S. & Miller, W. Using genomic data to unravel the root of the placental mammal phylogeny. Genome Res. 17, 413–421 (2007). · DOI
  31. Visel, A., Minovitsky, S., Dubchak, I. & Pennacchio, L.A. VISTA Enhancer Browser–a database of tissue-specific human enhancers. Nucleic Acids Res. 35, D88–D92 (2007). · DOI · Paper page
  32. Barrera, L.O. et al. Genome-wide mapping and analysis of active promoters in mouse embryonic stem cells and adult organs. Genome Res. 18, 46–59 (2008). · DOI
  33. Li, Z. et al. A global transcriptional regulatory role for c-Myc in Burkitt's lymphoma cells. Proc. Natl. Acad. Sci. USA 100, 8164–8169 (2003). · DOI
  34. Blow, M.J. et al. Identification of ancient remains through genomic sequencing. Genome Res. 18, 1347–1353 (2008). · DOI
  35. Bryne, J.C. et al. JASPAR, the open access database of transcription factor-binding profiles: new content and tools in the 2008 update. Nucleic Acids Res. 36, D102–D106 (2008). · DOI
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Metadata

Authors
Blow, M. J., McCulley, D. J., Li, Z., Zhang, T., Akiyama, J. A., Holt, A., Plajzer-Frick, I., Shoukry, M., Wright, C., Chen, F., Afzal, V., Bristow, J., Ren, B., Black, B. L., Rubin, E. M., Visel, A., & Pennacchio, L. A.
Venue
Nature Genetics
Publisher
Springer Science and Business Media LLC
Published
2010-08-22
Volume
42
Issue
9
Pages
806-810
ISSN
  • 1061-4036
  • 1546-1718
DOI
10.1038/ng.650
PMC
PMC3138496
Cited by
392
References
8
Language
en
Licence
www.springer.com/tdm (tdm)

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