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| − | * [http://www.plosone.org/article/info%3Adoi%2F10.1371%2Fjournal.pone.0038695 Group Normalization for Genomic Data. Ghandi M, Beer MA, PLoS ONE 7(8): e38695. (2012) doi:10.1371/journal.pone.0038695]
| + | '''[http://www.nature.com/ng/journal/v47/n8/full/ng.3364.html Nature Genetics News & Views article on our deltaSVM paper]''' |
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| − | * [http://www.ncbi.nlm.nih.gov/pubmed/21875935 Discriminative prediction of mammalian enhancers from DNA sequence. Lee D, Karchin R, Beer MA. Genome Res. 2011 21: 2167-2180]
| + | '''[http://www.hopkinsmedicine.org/news/media/releases/vulnerabilities_in_genomes_dimmer_switches_should_shed_light_on_hundreds_of_complex_diseases Nature Genetics paper on impact of regulatory variants]''' |
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| − | * [http://www.ncbi.nlm.nih.gov/pubmed/19253296 Identification of miR-21 targets in breast cancer cells using a quantitative proteomic approach. Yang Y, Chaerkady R, Beer MA, Mendell JT, Pandey A. Proteomics. 2009 Mar;9(5):1374-84]
| + | '''[http://www.newsweek.com/humans-and-mice-are-both-more-similar-and-different-previously-thought-285635 Newsweek article on Mouse ENCODE paper]''' |
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| − | * [http://www.ncbi.nlm.nih.gov/pubmed/19211792 Lin-28B transactivation is necessary for Myc-mediated let-7 repression and proliferation. Chang TC, Zeitels LR, Hwang HW, Chivukula RR, Wentzel EA, Dews M, Jung J, Gao P, Dang CV, Beer MA, Thomas-Tikhonenko A, Mendell JT. Proc Natl Acad Sci U S A. 2009 Mar 3;106(9):3384-9. Epub 2009 Feb 11.]
| + | '''[http://www.hopkinsmedicine.org/news/media/releases/scientists_map_mouse_genomes_mission_control_centers Mouse ENCODE Consortium paper in Nature]''' |
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| − | * [http://www.ncbi.nlm.nih.gov/pubmed/18071029 Metrics of sequence constraint overlook regulatory sequences in an exhaustive analysis at phox2b. McGaughey DM, Vinton RM, Huynh J, Al-Saif A, Beer MA, McCallion AS. Genome Res. 2008 Feb;18(2):252-60. Epub 2007 Dec 10]
| + | '''[http://www.bme.jhu.edu/news-events/news-highlights.php?id=412 Beer Lab awarded NIH grant for regulatory contributions to disease. ]''' |
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| − | * [http://www.ncbi.nlm.nih.gov/pubmed/17540599 Transactivation of miR-34a by p53 broadly influences gene expression and promotes apoptosis. Chang TC, Wentzel EA, Kent OA, Ramachandran K, Mullendore M, Lee KH, Feldmann G, Yamakuchi M, Ferlito M, Lowenstein CJ, Arking DE, Beer MA, Maitra A, Mendell JT. Mol Cell. 2007 Jun 8;26(5):745-52. Epub 2007 May 31]
| + | '''[http://www.bme.jhu.edu/news-events/news-highlights.php?id=360 kmer-SVM Genome Research paper voted Top 10 in Regulatory Genomics.] ''' |
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| − | * [http://www.ncbi.nlm.nih.gov/pubmed/15870260 Functional characterization of a novel Ku70/80 pause site at the H19/Igf2 imprinting control region. D. J. Katz, M. A. Beer, J. M. Levorse and S. M. Tilghman, Mol Cell Biol 25, p3855-3863 (2005).]
| + | '''[http://www.hopkinsmedicine.org/institute_basic_biomedical_sciences/news_events/Announcements/2013_04_YID.html Dongwon Lee awarded Young Investigator Day Award.] ''' |
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| − | * [http://www.ncbi.nlm.nih.gov/pubmed/14672978 Whole-genome discovery of transcription factor finding sites by network-level conservation. M. Pritsker, Y. C. Liu, M. A. Beer, and S. Tavazoie, Genome Res. 2004 Jan;14(1):99-108. Epub 2003 Dec 12.]
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| − | * [http://www.ncbi.nlm.nih.gov/pubmed/15084257 Predicting Gene Expression from Sequence. M. A. Beer and S. Tavazoie, Cell 117, p185-198 (2004)]
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