Question: How do I make a schema with all described variants within a gene?
0
gravatar for spanakorice
2.5 years 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 • 844 views
ADD COMMENTlink modified 2.5 years ago by WouterDeCoster43k • written 2.5 years ago by spanakorice10
2

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

ADD REPLYlink written 2.5 years ago by ATpoint34k

Plotting a single transcript with ggbio

ADD REPLYlink written 2.5 years ago by genomax83k
3
gravatar for Pierre Lindenbaum
2.5 years ago by
France/Nantes/Institut du Thorax - INSERM UMR1087
Pierre Lindenbaum128k 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 2.5 years ago • written 2.5 years ago by Pierre Lindenbaum128k
2
gravatar for WouterDeCoster
2.5 years ago by
Belgium
WouterDeCoster43k wrote:

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

ADD COMMENTlink modified 2.5 years ago • written 2.5 years ago by WouterDeCoster43k

Only for human data?

ADD REPLYlink written 2.5 years ago by genomax83k

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

ADD REPLYlink modified 2.5 years ago • written 2.5 years ago by WouterDeCoster43k

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

ADD REPLYlink written 2.5 years ago by spanakorice10
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