HAMR: high-throughput annotation of modified ribonucleotides

HAMR: high-throughput annotation of modified ribonucleotides.

RNA is often altered post-transcriptionally by the covalent modification of particular nucleotides; these modifications are known to modulate the structure and activity of their host RNAs. The recent discovery that an RNA methyl-6 adenosine demethylase (FTO) is a risk gene in obesity has brought to light the significance of RNA modifications to human biology. These noncanonical nucleotides, whe...

High Throughput Sequence Manipulation and Annotation

Simple high-throughput annotation pipeline (SHAP)

SUMMARY SHAP (simple high-throughput annotation pipeline) is a lightweight and scalable sequence annotation pipeline capable of supporting research efforts that generate or utilize large volumes of DNA sequence data. The software provides Grid capable analysis, relational storage and Web-based full-text searching of annotation results. Implemented in Java, SHAP recognizes the limited resources ...

High-throughput functional annotation of influenza A virus

17 A novel genome-wide genetics platform is presented in this study, which permits functional 18 interrogation of all point mutations across a viral genome in parallel. Here we generated the first 19 fitness profile of individual point mutations across the influenza virus genome. Critical residues 20 on the viral genome were systematically identified, which provided a collection of subdomain 21...

Next-Generation High-Throughput Functional Annotation of Microbial Genomes

Host infection by microbial pathogens cues global changes in microbial and host cell biology that facilitate microbial replication and disease. The complete maps of thousands of bacterial and viral genomes have recently been defined; however, the rate at which physiological or biochemical functions have been assigned to genes has greatly lagged. The National Institute of Allergy and Infectious ...