• Publications
  • Influence
PPARgamma and C/EBP factors orchestrate adipocyte biology via adjacent binding on a genome-wide scale.
Peroxisome proliferator-activated receptor gamma(PPARgamma), a nuclear receptor and the target of anti-diabetic thiazolinedione drugs, is known as the master regulator of adipocyte biology. AlthoughExpand
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Promoter features related to tissue specificity as measured by Shannon entropy
BackgroundThe regulatory mechanisms underlying tissue specificity are a crucial part of the development and maintenance of multicellular organisms. A genome-wide analysis of promoters in the contextExpand
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PlasmoDB: the Plasmodium genome resource. A database integrating experimental and computational data
PlasmoDB (http://PlasMoDB.org) is the official database of the Plasmodium falciparum genome sequencing consortium. Expand
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Using TESS to Predict Transcription Factor Binding Sites in DNA Sequence
  • J. Schug
  • Biology, Medicine
  • Current protocols in bioinformatics
  • 1 February 2003
This unit describes how to use the Transcription Element Search System (TESS). This Web site predicts transcription factor binding sites (TFBS) in DNA sequence using two different kinds of models ofExpand
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Comparative analysis of RNA-Seq alignment algorithms and the RNA-Seq unified mapper (RUM)
We developed an RNA-Seq simulator that models the main impediments to RNA alignment, including alternative splicing, insertions, deletions, substitutions, sequencing errors and intron signal. Expand
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Epigenetic regulation of the DLK1-MEG3 microRNA cluster in human type 2 diabetic islets.
Type 2 diabetes mellitus (T2DM) is a complex disease characterized by the inability of the insulin-producing β cells in the endocrine pancreas to overcome insulin resistance in peripheral tissues. ToExpand
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Epigenomic plasticity enables human pancreatic α to β cell reprogramming.
Insulin-secreting β cells and glucagon-secreting α cells maintain physiological blood glucose levels, and their malfunction drives diabetes development. Using ChIP sequencing and RNA sequencingExpand
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Propagation of adipogenic signals through an epigenomic transition state.
The transcriptional mechanisms by which temporary exposure to developmental signals instigates adipocyte differentiation are unknown. During early adipogenesis, we find transient enrichment of theExpand
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Foxa1 and Foxa2 Are Essential for Sexual Dimorphism in Liver Cancer
Hepatocellular carcinoma (HCC) is sexually dimorphic in both rodents and humans, with significantly higher incidence in males, an effect that is dependent on sex hormones. The molecular mechanisms byExpand
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MicroRNAs control intestinal epithelial differentiation, architecture, and barrier function.
BACKGROUND & AIMS Whereas the importance of microRNA (miRNA) for the development of several tissues is well established, its role in the intestine is unknown. We aimed to quantify the complete miRNAExpand
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