Question: Is There Any Tool For Drawing A Gene/Protein Diagram?
4
gravatar for Daniel
8.0 years ago by
Daniel40
México
Daniel40 wrote:

Is there any tool for drawing a diagram of the "anatomy" or structure of protein/gene domains just like the figures normally shown in articles?

visualization • 13k views
ADD COMMENTlink modified 4.7 years ago by jeffk8900120 • written 8.0 years ago by Daniel40

Could you link to some example figures that illustrate what you want?

ADD REPLYlink written 8.0 years ago by Neilfws48k
9
gravatar for Khader Shameer
8.0 years ago by
Manhattan, NY
Khader Shameer18k wrote:

If you are looking at 2D, schematic diagrams like the following figure: alt text You can use My Domains.

Similar schematic diagrams can be generated from protein structure (seee the following figure) data using DOMPLOT.

alt text

If you are looking at 3D structure visualization of your gene/protein: Try one of the following tools:

  • PyMol: Educational use is free, limited options
  • Molscript / Raster3D: Very powerful visualization programs, command-line.
  • Jmol: Web based, Java applet
  • Several other tools are available here and here

See an example MolScript figure below:

alt text

ADD COMMENTlink written 8.0 years ago by Khader Shameer18k
2

Nice list! Thanks for adding some color to the weekend

ADD REPLYlink written 8.0 years ago by Chris Evelo10.0k

Nice list, thanks for adding some color to my weekend

ADD REPLYlink written 8.0 years ago by Chris Evelo10.0k

Glad to note that :) !

ADD REPLYlink written 8.0 years ago by Khader Shameer18k
3
gravatar for Andra Waagmeester
8.0 years ago by
Maastricht, the Netherlands
Andra Waagmeester3.2k wrote:

If you like coding, you could also give TiKZ a try: http://www.texample.net/tikz/examples/area/biology/

TiKZ has a steep learning curve, but once you get the hold of it, making nice illustrations become really fun.

ADD COMMENTlink written 8.0 years ago by Andra Waagmeester3.2k
0
gravatar for jeffk8900
4.7 years ago by
jeffk8900120
United States
jeffk8900120 wrote:

You can use the newly released lollipop tool from cBioPortal team. Just modify input to include header and gene name for protein of interest:

Hugo_Symbol    
AR    

The resultant protein diagram can be edited in SVG editor to remove extraneous graphical elements.

Tool can be founder here:

http://www.cbioportal.org/public-portal/mutation_mapper.jsp

ADD COMMENTlink written 4.7 years ago by jeffk8900120
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