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Specificity Between Lactobacilli And Hymenopteran Hosts Is The Exception Rather Than The Rule
(2013-03)
Lactobacilli (Lactobacillales: Lactobacillaceae) are well known for their roles in food fermentation, as probiotics, and in human health, but they can also be dominant members of the microbiota of some species of Hymenoptera ...
Expanded Progenitor Populations, Vitreo-Retinal Abnormalities, and Muller Glial Reactivity in the Zebrafish Leprechaun/Patched2 Retina
(2009-10)
The roles of the Hedgehog (Hh) pathway in controlling vertebrate retinal development have been studied extensively; however, species-and context-dependent findings have provided differing conclusions. Hh signaling has been ...
Predicting Combinatorial Binding of Transcription Factors to Regulatory Elements in the Human Genome by Association Rule Mining
(2007-11)
Cis-acting transcriptional regulatory elements in mammalian genomes typically contain specific combinations of binding sites for various transcription factors. Although some cisregulatory elements have been well studied, ...
miRNA-Dependent Translational Repression in the Drosophila Ovary
(Public Library of Science, 2009-03-02)
Background: The Drosophila ovary is a tissue rich in post-transcriptional regulation of gene expression. Many of the regulatory factors are proteins identified via genetic screens. The more recent discovery of microRNAs, ...
The Retrohoming of Linear Group II Intron RNAs in Drosophila melanogaster Occurs by Both DNA Ligase 4–Dependent and –Independent Mechanisms
(Public Library of Science, 2012-02-16)
Mobile group II introns are bacterial retrotransposons that are thought to have invaded early eukaryotes and evolved into introns and retroelements in higher organisms. In bacteria, group II introns typically retrohome via ...
Alternative Computational Protocols for Supercharging Protein Surfaces for Reversible Unfolding and Retention of Stability
(PLOS One, 2013-05-31)
Reengineering protein surfaces to exhibit high net charge, referred to as “supercharging”, can improve reversibility of unfolding by preventing aggregation of partially unfolded states. Incorporation of charged side chains ...
Intron 4 Containing Novel GABAB1 Isoforms Impair GABAB Receptor Function
(Public Library of Science, 2010-11-18)
Background -- Gamma-aminobutyric acid type B (GABAB) receptors decrease neural activity through G protein signaling. There are two subunits, GABAB1 and GABAB2. Alternative splicing provides GABAB1 with structural and ...
The Functions of Auxilin and Rab11 in Drosophila Suggest That the Fundamental Role of Ligand Endocytosis in Notch Signaling Cells Is Not Recycling
(Public Library of Science, 2011-03-23)
Notch signaling requires ligand internalization by the signal sending cells. Two endocytic proteins, epsin and auxilin, are essential for ligand internalization and signaling. Epsin promotes clathrin-coated vesicle formation, ...
Prediction and Validation of Gene-Disease Associations Using Methods Inspired by Social Network Analyses
(PLOS One, 2013-05-01)
Correctly identifying associations of genes with diseases has long been a goal in biology. With the emergence of large-scale gene-phenotype association datasets in biology, we can leverage statistical and machine learning ...
Improved Ribosome-Footprint and mRNA Measurements Provide Insights into Dynamics and Regulation of Yeast Translation
(2016-02)
Ribosome-footprint profiling provides genome-wide snapshots of translation, but technical challenges can confound its analysis. Here, we use improved methods to obtain ribosome-footprint profiles and mRNA abundances that ...