Uwe Ohler, PhD

Department:
Biostatistics and Bioinformatics

Email Address:
uwe.ohler@duke.edu

Website:
http://www.genome.duke.edu/people/faculty/ohler

Address:
Box 3382
DUMC
Durham, NC 27710

Telephone:
9196685388

Fax Telephone:
9196680795

Research Interests:
Computational Biology of Gene Regulation
Sequence Analysis
Image Expression Analysis
Applied Machine Learning

Publications:
2009 -- Pubmed # 19141595 -- Megraw M, Pereira F, Jensen ST, Ohler U, Hatzigeorgiou AG. A transcription factor affinity-based code for mammalian transcription initiation. Genome Res. 2009 Apr;19(4):644-56.

2009 -- Pubmed # 19589141 -- Rach EA, Yuan HY, Majoros WH, Tomancak P, Ohler U. Motif composition, conservation and condition-specificity of single and alternative transcription start sites in the Drosophila genome. Genome Biol. 2009;10(7):R73.

2008 -- Pubmed # 18225947 -- Holste D, Ohler U. Strategies for identifying RNA splicing regulatory motifs and predicting alternative splicing events. PLoS Comput Biol. 2008 Jan;4(1):e21.

2007 -- Pubmed # 17975066 -- Brady SM, Orlando DA, Lee JY, Wang JY, Koch J, Dinneny JR, Mace D, Ohler U, Benfey PN. A high-resolution root spatiotemporal map reveals dominant expression patterns. Science. 2007 Nov 2;318(5851):801-6.

2007 -- Pubmed # 18075594 -- Gottwein E, Mukherjee N, Sachse C, Frenzel C, Majoros WH, Chi JT, Braich R, Manoharan M, Soutschek J, Ohler U, Cullen BR. A viral microRNA functions as an orthologue of cellular miR-155. Nature. 2007 Dec 13;450(7172):1096-9.

2007 -- Pubmed # 17555584 -- Majoros WH, Ohler U. Spatial preferences of microRNA targets in 3' untranslated regions. BMC Genomics. 2007;8:152.

2006 -- Pubmed # 16581911 -- Lee JY, Colinas J, Wang JY, Mace D, Ohler U, Benfey PN. Transcriptional and posttranscriptional regulation of transcription factor expression in Arabidopsis roots. Proc Natl Acad Sci U S A. 2006 Apr 11;103(15):6055-60.

2006 -- Pubmed # 16873489 -- Mace DL, Lee JY, Twigg RW, Colinas J, Benfey PN, Ohler U. Quantification of transcription factor expression from Arabidopsis images. Bioinformatics. 2006 Jul 15;22(14):e323-31.

2006 -- Pubmed # 16873497 -- Narlikar L, Gordân R, Ohler U, Hartemink AJ. Informative priors based on transcription factor structural class improve de novo motif discovery. Bioinformatics. 2006 Jul 15;22(14):e384-92.

2005 -- Pubmed # 16110330 -- Ohler U, Shomron N, Burge CB. Recognition of unknown conserved alternatively spliced exons. PLoS Comput Biol. 2005 Jul;1(2):113-22.

2004 -- Pubmed # 15317971 -- Ohler U, Yekta S, Lim LP, Bartel DP, Burge CB. Patterns of flanking sequence conservation and a characteristic upstream motif for microRNA gene identification. RNA. 2004 Sep;10(9):1309-22.

2002 -- Pubmed # 12537576 -- Ohler U, Liao GC, Niemann H, Rubin GM. Computational analysis of core promoters in the Drosophila genome. Genome Biol. 2002;3(12):RESEARCH0087.

2001 -- Pubmed # 11173099 -- Ohler U, Niemann H. Identification and analysis of eukaryotic promoters: recent computational approaches. Trends Genet. 2001 Feb;17(2):56-60.

2000 -- Pubmed # 10779488 -- Reese MG, Hartzell G, Harris NL, Ohler U, Abril JF, Lewis SE. Genome annotation assessment in Drosophila melanogaster. Genome Res. 2000 Apr;10(4):483-501.