Browsing by Subject "RNA"
Now showing items 1-20 of 33
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A high-resolution map of human evolutionary constraint using 29 mammals.
(Nature, 2011-10-12)The comparison of related genomes has emerged as a powerful lens for genome interpretation. Here we report the sequencing and comparative analysis of 29 eutherian genomes. We confirm that at least 5.5% of the human genome ... -
A minimal monitoring approach for the treatment of hepatitis C virus infection (ACTG A5360 [MINMON]): a phase 4, open-label, single-arm trial.
(The lancet. Gastroenterology & hepatology, 2022-04)<h4>Background</h4>Despite widespread availability of direct-acting antivirals including generic formulations, limited progress has been made in the global adoption of hepatitis C virus (HCV) treatment. Barriers to treatment ... -
Altered gene expression and DNA damage in peripheral blood cells from Friedreich's ataxia patients: cellular model of pathology.
(PLoS Genet, 2010-01-15)The neurodegenerative disease Friedreich's ataxia (FRDA) is the most common autosomal-recessively inherited ataxia and is caused by a GAA triplet repeat expansion in the first intron of the frataxin gene. In this disease, ... -
Analysis and Error Correction in Structures of Macromolecular Interiors and Interfaces
(2009)As of late 2009, the Protein Data Bank (PDB) has grown to contain over 70,000 models. This recent increase in the amount of structural data allows for more extensive explication of the governing principles of macromolecular ... -
Characterization of a Full-Length TTP Family Member Association with RNA Sequence Elements
(2016)Post-transcriptional regulation of cytoplasmic mRNAs is an efficient mechanism of regulating the amounts of active protein within a eukaryotic cell. RNA sequence elements located in the untranslated regions of mRNAs can ... -
Codon Usage Biases Differ Between Tissues and Can Confer Tissue-Specific Gene Expression in Drosophila
(2022)Codon usage bias is a fundamental aspect of the genetic code. For many years synonymous mutations to a coding sequence were considered to be functionally “silent.” We now appreciate that is not the case and that synonymous ... -
Complement-Mediated Regulation of Apolipoprotein E in Cultured Human RPE Cells.
(Investigative ophthalmology & visual science, 2017-06)Complement activation is implicated in the pathogenesis of age-related macular degeneration (AMD). Apolipoprotein E (ApoE) and complement activation products such as membrane attack complex (MAC) are present in ... -
Computational Methods for RNA Structure Validation and Improvement.
(Methods Enzymol, 2015)With increasing recognition of the roles RNA molecules and RNA/protein complexes play in an unexpected variety of biological processes, understanding of RNA structure-function relationships is of high current importance. ... -
Developing a Predictive and Quantitative Understanding of RNA Ligand Recognition
(2021)RNA recognition frequently results in conformational changes that optimizeintermolecular binding. As a consequence, the overall binding affinity of RNAto its binding partners depends not only on the intermolecular ... -
Development and Application of Aptamer-Based Therapeutics
(2009)Stroke is the leading cause of morbidity and the third leading cause of death in the United States. Over 80% of strokes are ischemic in nature, produced by a thrombus occluding the cerebral circulation. Currently, there ... -
Evaluating whole transcriptome amplification for gene profiling experiments using RNA-Seq.
(BMC Biotechnol, 2015-07-30)BACKGROUND: RNA-Seq has enabled high-throughput gene expression profiling to provide insight into the functional link between genotype and phenotype. Low quantities of starting RNA can be a severe hindrance for studies that ... -
Gene Expression Analysis in Neurons throughout Late-Onset Alzheimer’s Disease Pathological Progression
(2017-05-04)Over 20 susceptibility loci for late-onset Alzheimer’s disease (LOAD) have been identified in large-scale genome-wide association studies (GWAS), and several past studies have found differences in gene expression between ... -
Hybrid error correction and de novo assembly of single-molecule sequencing reads.
(Nat Biotechnol, 2012-07-01)Single-molecule sequencing instruments can generate multikilobase sequences with the potential to greatly improve genome and transcriptome assembly. However, the error rates of single-molecule reads are high, which has limited ... -
Insights, Assays, and Strategies for Small Molecule-Based Modulation of the MALAT1 RNA Triple Helix
(2020)Recent discoveries of myriad of endogenous RNA transcripts that do not code for proteins has led to a paradigm shift in our understanding of human biology. As the subsequent “RNA revolution” continues to elucidate ... -
Macromolecular Organization of the Rough Endoplasmic Reticulum at Homeostasis and Stress
(2019)The endoplasmic reticulum (ER) is an organelle that exists as a patchwork offunctional membrane domains with unique protein components. The rough ER is onesuch domain characterized by associated ribosomal particles and is ... -
Occurrence and Function of Hoogsteen Base Pairs in Nucleic Acids
(2016)Nucleic acids (DNA and RNA) play essential roles in the central dogma of biology for the storage and transfer of genetic information. The unique chemical and conformational structures of nucleic acids – the double helix ... -
On-chip Labeling via Surface Initiated Enzymatic Polymerization (SIEP) for Nucleic Acids Hybridization Detection
(2013)Current techniques for nucleic acid analysis often involve extensive sample preparation that requires skilled personnel and multiple purification steps. In this dissertation, we introduce an on-chip, isothermal, ... -
permGPU: Using graphics processing units in RNA microarray association studies.
(BMC Bioinformatics, 2010-06-16)BACKGROUND: Many analyses of microarray association studies involve permutation, bootstrap resampling and cross-validation, that are ideally formulated as embarrassingly parallel computing problems. Given that these analyses ... -
Pleiotrophin regulates the ductular reaction by controlling the migration of cells in liver progenitor niches.
(Gut, 2016-04)OBJECTIVE: The ductular reaction (DR) involves mobilisation of reactive-appearing duct-like cells (RDC) along canals of Hering, and myofibroblastic (MF) differentiation of hepatic stellate cells (HSC) in the space of Disse. ... -
Posttranscriptional Regulation of Embryonic Neurogenesis by the Exon Junction Complex
(2016)The six-layered neuron structure in the cerebral cortex is the foundation for human mental abilities. In the developing cerebral cortex, neural stem cells undergo proliferation and differentiate into intermediate progenitors ...
