Retinal mRNA profiles of 12 week-old wild type (WT) after ONC or sham were generated by deep sequencing, in triplicate, using Illumina Hiseq2000. We believe that our study will lead to a better understanding of and insight into the molecular mechanisms underlying RGC death after axonal injury. in PSBII 2nd floor Seminar Room 2108 (The Physical Sciences Building II is. Kuhn Time and Location: Lectures: Tuesdays and Thursdays, 4:20 - 5:35, Room 205 Recitation Sessions: Alternating Thursdays at 9:00 a.m. Furthermore, the antioxidative defense and immune responses occurred concurrently in the early stages after axonal injury. This is the first semester of the Graduate Quantum Mechanics sequence at ODU. Our results indicated that ER stress plays a key role under these conditions. Differential gene expression analysis showed that endoplasmic reticulum stress-related genes and antioxidative response-related genes have been shown to be significantly upregulated 2 days after ONC.Ĭonclusions: Our study represents the first detailed analysis of retinal transcriptomes in the early stages after axonal injury. Results: Using an optimized data analysis workflow, we mapped about 66 million sequence reads per sample to the mouse genome (build mm9). qRT–PCR validation was performed using TaqMan assays. The sequence reads were analyzed by CLC genomics workbench and R software. Retinal mRNA profiles were generated by deep sequencing, in triplicate, using IlluminaHiseq2000. CLC Sequence Viewer is a free software workbench for basic bio informatics, enabling users to make a large number of bio informatics analysis, combined with smooth data management, and excellent. The experiment group underwent an optic nerve crush (ONC) procedure to induce axonal injury in the right eye, and the control group underwent a sham procedure. Methods: 12-week-old wild-type (WT) mice were used in this study. Purpose: The purpose of this study was to use RNA-seq to investigate the molecular mechanisms of damage in the early stages of the response to axonal injury, before the onset of RGC death. The Addgene analyze sequence program is a tool for basic DNA sequence analysis that can detect common plasmid features in the sequence and create a map from those features. RNA sequence reveals mouse retinal transcriptome changes early after axonal injuryĮxpression profiling by high throughput sequencing Finally, we demonstrate that a ClC-0 homology model created from an alternative sequence alignment fails to replicate any of the experimental observations.GEO help: Mouse over screen elements for information. We locate the binding sites, as well as pinpointing the rate-limiting steps in conduction, and make testable predictions about how the single channel current across ClC-0 and ClC-1 will vary as the ionic concentrations are increased. We find that conduction in these pores involves three ions. Employing open-state ClC-0 and ClC-1 channel models, current-voltage curves consistent with experimental measurements are obtained. Then, retaining the same pore shape, the prokaryotic ClC channel is converted to either ClC-0 or ClC-1 by replacing all the nonconserved dipole-containing and charged amino acid residues. Two residues that are occluding the channel are slowly pushed outward with molecular dynamics to create a continuous ion-conducting path with the minimum radius of 2.5 Å. We create an open-state configuration of the prokaryotic ClC Cl − channel using its known crystallographic structure as a basis. The conduction properties of ClC-0 and ClC-1 chloride channels are examined using electrostatic calculations and three-dimensional Brownian dynamics simulations.
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