Computational Regulatory Genomics

Publications (2013)

Using machine learning to identify disease-relevant regulatory RNAs

Uwe Ohler 
Proc. Natl. Acad. Sci. U.S.A. 2013;   PubMed Central   DOI   PubMed  

MicroRNA target site identification by integrating sequence and binding information

W. Majoros,  P. Lekprasert,  Neelanjan Mukherjee,  R. Skalsky,  D. Corcoran,  B. Cullen,  Uwe Ohler 
Nat. Methods 2013;   PubMed Central   DOI   PubMed  

Genome-wide identification and predictive modeling of tissue-specific alternative polyadenylation

Dina Hafez,  T. Ni,  S. Mukherjee,  J. Zhu,  Uwe Ohler 
Bioinformatics 2013;   PubMed Central   DOI   PubMed  

Automated annotation of gene expression image sequences via non-parametric factor analysis and conditional random fields

I. Pruteanu-Malinici,  W. Majoros,  Uwe Ohler 
Bioinformatics 2013;   PubMed Central   DOI   PubMed  

Integrated detection of natural antisense transcripts using strand-specific RNA sequencing data

S. Li,  L. Liberman,  Neelanjan Mukherjee,  P. Benfey,  Uwe Ohler 
PubMed Central   DOI   PubMed  

Fine time course expression analysis identifies cascades of activation and repression and maps a putative regulator of mammalian sex determination

S. Munger,  A. Natarajan,  L. Looger,  Uwe Ohler,  B. Capel 
PLoS Genet. 2013;   PubMed Central   DOI   PubMed  

Sustained-input switches for transcription factors and microRNAs are central building blocks of eukaryotic gene circuits

M. Megraw,  S. Mukherjee,  Uwe Ohler 
Genome Biol. 2013;   DOI   PubMed  

Distinct polyadenylation landscapes of diverse human tissues revealed by a modified PA-seq strategy

T. Ni,  Y. Yang,  Dina Hafez,  W. Yang,  K. Kiesewetter,  Y. Wakabayashi,  Uwe Ohler,  W. Peng,  J. Zhu 
BMC Genomics 2013;   PubMed Central   DOI   PubMed  
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