Question: Best Genome Browser?
2
gravatar for spandankeshav
8.0 years ago by
Finland
spandankeshav80 wrote:

Hello,

I am trying to see the location of genes and their neighbors (what sort of functions they are doing) in a genome. So, could anyone recommend any good browser? Any suggestions would be helpful.

Thanks!

-Spandan

genomics browser • 9.1k views
ADD COMMENTlink modified 23 months ago by igor-poletaev0 • written 8.0 years ago by spandankeshav80
1

Another biostar post about it here: What tools/libraries do you use to visualize genomic feature data?

ADD REPLYlink written 7.0 years ago by Manu Prestat4.0k
5
gravatar for aravind ramesh
8.0 years ago by
India
aravind ramesh530 wrote:

Artemis is One of the useful genome browser you can find helpful.

http://www.sanger.ac.uk/resources/software/artemis/

A list of Genome Browser softwares is provided in below link.

http://en.wikipedia.org/wiki/Genome_browser

ADD COMMENTlink written 8.0 years ago by aravind ramesh530
3
gravatar for toshnam
8.0 years ago by
toshnam620
Seoul, Republic of Korea
toshnam620 wrote:

I recommend the IGV (http://www.broadinstitute.org/igv/home). It has a detail tutorial and supports a wide variety of data types, including array-based and next-generation sequence data, and genomic annotations. If you have installed JAVA, you can easily start from using JAVA Web Start without any install process.

ADD COMMENTlink written 8.0 years ago by toshnam620
2
gravatar for Simran
8.0 years ago by
Simran40
Denmark
Simran40 wrote:

Synteny Analysis in Ensembl provides a list of upto 15 upstream and downstream genes for a query gene based on syntenic regions between different species.

ADD COMMENTlink written 8.0 years ago by Simran40
1
gravatar for vaskin90
8.0 years ago by
vaskin90290
Milan, Italy
vaskin90290 wrote:

Try UGENE. It's open-source and free. It has a polyfunctional tool. http://ugene.unipro.ru/

ADD COMMENTlink written 8.0 years ago by vaskin90290
1
gravatar for dli
7.0 years ago by
dli230
WUSTL
dli230 wrote:

The WashU Epigenome Browser have a cool feature called 'Juxtaposition', which brings user-defined genes/regions together for easy comparison view. Supporting flexible extension of regions/genes.

For OP's question, simply right click on any gene track, choose 'Juxtapose', you will see all genes would be placed near each other :)

ADD COMMENTlink written 7.0 years ago by dli230
0
gravatar for igor-poletaev
23 months ago by
igor-poletaev0 wrote:

Persephone Software is working on the web version of their genome browser. It is free, though does not yet have all the features of their paid enterprise desktop version. It is very fast and is tailored to show several genomes at once, linking syntenic chromosomes. Check it out at http://web.persephonesoft.com

ADD COMMENTlink written 23 months ago by igor-poletaev0
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