DOI: 10.1093/nar/gkp939. The UCSC Genome Browser database: update 2010

The UCSC Genome Browser database: update 2010

10.1093/nar/gkp939

Crossref journal-article

Oxford University Press (OUP)

Nucleic Acids Research (286)

Bibliography

Rhead, B., Karolchik, D., Kuhn, R. M., Hinrichs, A. S., Zweig, A. S., Fujita, P. A., Diekhans, M., Smith, K. E., Rosenbloom, K. R., Raney, B. J., Pohl, A., Pheasant, M., Meyer, L. R., Learned, K., Hsu, F., Hillman-Jackson, J., Harte, R. A., Giardine, B., Dreszer, T. R., â¦ Kent, W. J. (2009). The UCSC Genome Browser database: update 2010. Nucleic Acids Research, 38(Database), D613âD619.

Authors 23

B. Rhead (first)
D. Karolchik (additional)
R. M. Kuhn (additional)
A. S. Hinrichs (additional)
A. S. Zweig (additional)
P. A. Fujita (additional)
M. Diekhans (additional)
K. E. Smith (additional)
K. R. Rosenbloom (additional)
B. J. Raney (additional)
A. Pohl (additional)
M. Pheasant (additional)
L. R. Meyer (additional)
K. Learned (additional)
F. Hsu (additional)
J. Hillman-Jackson (additional)
R. A. Harte (additional)
B. Giardine (additional)
T. R. Dreszer (additional)
H. Clawson (additional)
G. P. Barber (additional)
D. Haussler (additional)
W. J. Kent (additional)

References 35 Referenced 480

10.1093/nar/gkg129 / Nucleic Acids Research by Karolchik (2003)
10.1093/nar/gkn875 / Nucleic Acids Research (2009)
10.1093/nar/gkn721 / Nucleic Acids Research (2009)
10.1093/nar/gkl842 / Nucleic Acids Research (2007)
10.1093/nar/gkn723 / Nucleic Acids Research (2009)
10.1093/nar/gkn828 / Nucleic Acids Research (2009)
10.1101/gr.1933104 / Genome Research by Blanchette (2004)
10.1093/bioinformatics/btl048 / Bioinformatics (2006)
10.1093/nar/gkm966 / Nucleic Acids Research (2008)
10.1093/nar/gkn741 / Nucleic Acids Research (2009)
10.1093/nar/gkl1017 / Nucleic Acids Research (2007)
10.1126/science.1105136 / Science by The ENCODE Project Consortium (2004)
10.1101/gr.229202. Article published online before March 2002 / Genome Research (2002)
10.1093/nar/gkh103 / Nucleic Acids Research by Karolchik (2004)
10.1101/gr.3694705 / Genome Research by Kent (2005)
10.1093/nar/gki100 / Nucleic Acids Research by Hsu (2005)
10.1093/nar/gkl928 / Nucleic Acids Research (2007)
10.1101/gr.2596504 / Genome Research by The MGC Project Team (2004)
{'key': '19_35952236', 'first-page': '1316', 'volume': '18', 'year': '2009', 'journal-title': 'Genome Research', 'ISSN': 'http://id.crossref.org/issn/1088-9051', 'issn-type': 'print'} / Genome Research (2009)
10.1038/ng1416 / Nature genetics by Iafrate (2004)
10.1038/nrg1767 / Nature reviews. Genetics by Feuk (2006)
10.1093/nar/gkj097 / Nucleic Acids Research by Nord (2006)
10.1093/nar/gkm961 / Nucleic Acids Research (2008)
10.1038/ng0904-921 / Nature genetics by Austin (2004)
10.1101/gr.3715005 / Genome Research (2005)
10.1093/nar/gkn665 / Nucleic Acids Research (2009)
10.1186/1471-2105-10-136 / BMC bioinformatics [electronic resource] by Jain (2009)
10.1093/nar/gkn664 / Nucleic Acids Research (2009)
10.1093/nar/29.1.308 / Nucleic Acids Research by Sherry (2001)
10.1126/science.319.5862.395 / Science by Kaiser (2008)
10.1101/gr.087577.108 / Genome Research (2009)
10.1093/bioinformatics/btp242 / Bioinformatics (2009)
10.1093/nar/28.1.235 / Nucleic Acids Research by Berman (2000)
10.1002/jcc.20084 / Journal of computational chemistry by Pettersen (2004)
10.1093/bioinformatics/btp352 / Bioinformatics (2009)

Dates

Type	When
Created	15 years, 9 months ago (Nov. 11, 2009, 8:58 p.m.)
Deposited	6 years, 6 months ago (Feb. 24, 2019, 9:15 a.m.)
Indexed	2 weeks, 3 days ago (Aug. 12, 2025, 6:12 p.m.)
Issued	15 years, 9 months ago (Nov. 11, 2009)
Published	15 years, 9 months ago (Nov. 11, 2009)
Published Online	15 years, 9 months ago (Nov. 11, 2009)
Published Print	15 years, 7 months ago (Jan. 1, 2010)

Funders 0

None

BibTeX

@article{Rhead_2009, title={The UCSC Genome Browser database: update 2010}, volume={38}, ISSN={1362-4962}, url={http://dx.doi.org/10.1093/nar/gkp939}, DOI={10.1093/nar/gkp939}, number={Database}, journal={Nucleic Acids Research}, publisher={Oxford University Press (OUP)}, author={Rhead, B. and Karolchik, D. and Kuhn, R. M. and Hinrichs, A. S. and Zweig, A. S. and Fujita, P. A. and Diekhans, M. and Smith, K. E. and Rosenbloom, K. R. and Raney, B. J. and Pohl, A. and Pheasant, M. and Meyer, L. R. and Learned, K. and Hsu, F. and Hillman-Jackson, J. and Harte, R. A. and Giardine, B. and Dreszer, T. R. and Clawson, H. and Barber, G. P. and Haussler, D. and Kent, W. J.}, year={2009}, month=nov, pages={D613–D619} }

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