Question: How do I make a schema with all described variants within a gene?
0
gravatar for spanakorice
8 months 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 • 337 views
ADD COMMENTlink modified 8 months ago by WouterDeCoster31k • written 8 months ago by spanakorice10
2

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

ADD REPLYlink written 8 months ago by ATpoint6.5k

Plotting a single transcript with ggbio

ADD REPLYlink written 8 months ago by genomax54k
3
gravatar for Pierre Lindenbaum
8 months ago by
France/Nantes/Institut du Thorax - INSERM UMR1087
Pierre Lindenbaum111k 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 8 months ago • written 8 months ago by Pierre Lindenbaum111k
2
gravatar for WouterDeCoster
8 months ago by
Belgium
WouterDeCoster31k wrote:

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

ADD COMMENTlink modified 8 months ago • written 8 months ago by WouterDeCoster31k

Only for human data?

ADD REPLYlink written 8 months ago by genomax54k

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

ADD REPLYlink modified 8 months ago • written 8 months ago by WouterDeCoster31k

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

ADD REPLYlink written 8 months ago by spanakorice10
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