Tool/Workflow for multi sequence align and phylogentic tree

[ReneRanzinger]

There is no urgency to this request. At some point I would like to schedule a 30-40 min meeting with you to see if there is a need to add some tools or functionality in GlyGen or just make some operations easier.

Questions I wanted to answer using GlyGen

• Identify all the homologs of SULF1 -> align them -> download alignment -> make a phylogenetic tree and a table of amino acids that are conserved and which glycosylation sites, and binding or active sites are conserved across all homologs. This would give me an idea about when the paralogs split and how functions might have been modified.

Because we do not have a multiple sequence aligner or tree builder in GlyGen I needed to download the sequences in fasta format align them with external tool and make a phylogenetic tree. I had a difficult time doing this in GlyGen.

[ReneRanzinger]

@rajamazumder will create a document or slide on workflow/ steps he took to try to generate a phylogenetic tree. That will also include a "wishlist" what he wants to see in GlyGen for this.

@ReneRanzinger and other will review

Maybe to be done within GlyGen or to link out to another resource who will complete the alignment and tree