RNA-Seq data quality scores
There are different ways to encode the quality scores in FASTQ files from Next-generation sequencing machines. This is important to find out before using the data and to convert between formats if necessary.
Category: bioinformatics
The CCDS project
The CCDS project tries to identify a core set of human and mouse protein coding regions in a stable manner.
Genomic Start Coordinates
There is always confusion about different notations of the start coordinates of genomic features between different genome browsers and file formats.
Coding Phases / Frames
The phase (or sometimes called frame) gives information on how to translate individual parts of a gene, the coding exons. Phases 1 & 2 have a different definition in GFF and EnsEMBL format!
NoSQL Databases
Originally developed for large-scale web applications, nosql databases like to see themselves as next generation dbs and are using “not only sql”.