Computational biology and genomics
Updated 2016 September 15th: I’ve made this into an R package, which is available at my GitHub repository A short post on utilising the OMIM API via some wrapper functions I wrote in R. A wrapper, as explained in the Wikipedia article, is simply a subroutine that calls another subroutine. If you plan on using…
A post on linking OMIM IDs to gene coordinates using biomaRt; this provides a way of representing OMIM IDs on the genome. For those unfamiliar with OMIM, here’s the description from the OMIM FAQ: Online Mendelian Inheritance in Man (OMIM) is a continuously updated catalog of human genes and genetic disorders and traits, with particular…
Transposons have the ability to “jump” around in genomes and sometimes transposons jump into genomic sites occupied by other repetitive elements; these cases are what I refer to as “composite repetitive elements” for the purpose of this post. While almost all DNA transposons and the majority of retrotransposons have lost the ability to move around…
Here’s a very short post on how to fetch lincRNAs from Ensembl using R and the biomaRt package. For those who are not familiar with biomaRt, you can check out my older post on biomaRt. Firstly, start R and install the biomaRt package from Bioconductor by copying and pasting the code below: