Question: How do I make a schema with all described variants within a gene?
0
gravatar for spanakorice
10 weeks ago by
spanakorice10
spanakorice10 wrote:

Hello. I would like to make a graphical representation of a transcript with all known variants. Something similar to image below.

Would anyone know how this can be done (apart from the "add custom tracks" of UCSC genome browser)?

Thank you in advance.

enter image description here

schema variants gene • 202 views
ADD COMMENTlink modified 10 weeks ago by WouterDeCoster25k • written 10 weeks ago by spanakorice10
2

Well, 99.9% sure that this figure was made in powerpoint.

ADD REPLYlink written 10 weeks ago by ATPoint3.0k

Plotting a single transcript with ggbio

ADD REPLYlink written 10 weeks ago by genomax42k
3
gravatar for Pierre Lindenbaum
10 weeks ago by
France/Nantes/Institut du Thorax - INSERM UMR1087
Pierre Lindenbaum104k wrote:

I wrote a uniprot->SVG interface for a colleague. http://lindenb.github.io/pages/uniprot/paintsvg.html

you give a uniprot ID and fill a list of variant in a text area. You can later export and open it in inkscape.

enter image description here

ADD COMMENTlink modified 10 weeks ago • written 10 weeks ago by Pierre Lindenbaum104k
2
gravatar for WouterDeCoster
10 weeks ago by
Belgium
WouterDeCoster25k wrote:

This is also a convenient tool to quickly get such an image for human variant data: MutationMapper

ADD COMMENTlink modified 10 weeks ago • written 10 weeks ago by WouterDeCoster25k

Only for human data?

ADD REPLYlink written 10 weeks ago by genomax42k

Oh yeah, that's probably the case (clarified).

ADD REPLYlink modified 10 weeks ago • written 10 weeks ago by WouterDeCoster25k

Thank you. MutationMapper seems to do what I was searching for! I still have to try with my data.

ADD REPLYlink written 10 weeks ago by spanakorice10
Please log in to add an answer.

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 932 users visited in the last hour