What is a functional annotation?
What is a functional annotation?
Functional annotation is defined as the process of collecting information about and describing a gene’s biological identity—its various aliases, molecular function, biological role(s), subcellular location, and its expression domains within the plant.
What is annotation in RNA-Seq?
For each tissue or individual, the raw reads are aligned to the genome using BWA. This step allows us to quickly identify regions of the genome that are actively transcribed. We use the results from all tissues to create one set of alignment blocks roughly corresponding to exons.
What is the function of RNA-Seq analysis?
RNA-seq (RNA-sequencing) is a technique that can examine the quantity and sequences of RNA in a sample using next generation sequencing (NGS). It analyzes the transcriptome of gene expression patterns encoded within our RNA.
What are examples of annotations?
- HIGHLIGHTING/UNDERLINING. Highlighting or underlining key words and phrases or major ideas is the most common form of annotating texts.
- PARAPHRASE/SUMMARY OF MAIN IDEAS.
- DESCRIPTIVE OUTLINE.
- COMMENTS/RESPONSES.
What is a DNA sequencer used for?
DNA sequencing is a laboratory technique used to determine the exact sequence of bases (A, C, G, and T) in a DNA molecule. The DNA base sequence carries the information a cell needs to assemble protein and RNA molecules. DNA sequence information is important to scientists investigating the functions of genes.
What are reads in RNA sequencing?
From Wikipedia, the free encyclopedia. In DNA sequencing, a read is an inferred sequence of base pairs (or base pair probabilities) corresponding to all or part of a single DNA fragment.
What is the output of RNA Seq differential expression analysis?
The output of RNA-seq differential expression analysis is a list of significant differentially expressed genes (DEGs). To gain greater biological insight on the differentially expressed genes there are various analyses that can be done: determine whether there is enrichment of known biological functions, interactions, or pathways
How does functional enrichment work in RNA-Seq?
There are a plethora of functional enrichment tools that perform some type of “over-representation” analysis by querying databases containing information about gene function and interactions.
How to analyze RNA Seq with are / Bioconductor?
Analysis of RNA-Seq Data with R/Bioconductor Overview Slide 8/53 Sequence Alignment/Map (SAM/BAM) Format SAM is a tab-delimited alignment format consisting of a header section (lines starting with @) and an alignment section with 12 columns. BAM is the compressed, indexed and binary version of this format.
What can the ONT argument accept in RNA Seq?
Finally, the ont argument can accept either “BP” (Biological Process), “MF” (Molecular Function), and “CC” (Cellular Component) subontologies, or “ALL” for all three. NOTE: Instead of saving just the results summary from the ego object, it might also be beneficial to save the object itself.
https://www.youtube.com/watch?v=MFRkwXq6v_I