Question: How do I make a schema with all described variants within a gene?
0
gravatar for spanakorice
11 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 • 464 views
ADD COMMENTlink modified 11 months ago by WouterDeCoster34k • written 11 months ago by spanakorice10
2

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

ADD REPLYlink written 11 months ago by ATpoint9.5k

Plotting a single transcript with ggbio

ADD REPLYlink written 11 months ago by genomax58k
3
gravatar for Pierre Lindenbaum
11 months ago by
France/Nantes/Institut du Thorax - INSERM UMR1087
Pierre Lindenbaum114k 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 11 months ago • written 11 months ago by Pierre Lindenbaum114k
2
gravatar for WouterDeCoster
11 months ago by
Belgium
WouterDeCoster34k wrote:

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

ADD COMMENTlink modified 11 months ago • written 11 months ago by WouterDeCoster34k

Only for human data?

ADD REPLYlink written 11 months ago by genomax58k

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

ADD REPLYlink modified 11 months ago • written 11 months ago by WouterDeCoster34k

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

ADD REPLYlink written 11 months ago by spanakorice10
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