Question: Metabolic network database
0
gravatar for Na Sed
3.9 years ago by
Na Sed290
United States
Na Sed290 wrote:

As you know BioGrid is a database that contains the information of relations between genes, i.e. network of genes. Now, I was wondering if we have such database for metabolite data. I appreciate if you would help me. Indeed, I want to make a network between metabolites and I do not know any database that I can use.

biogrid network metabolite • 1.6k views
ADD COMMENTlink modified 3.7 years ago by Egon Willighagen5.2k • written 3.9 years ago by Na Sed290
3
gravatar for natasha.sernova
3.9 years ago by
natasha.sernova3.7k
natasha.sernova3.7k wrote:

I hope this will help you:

It's a paper-summary from 2015:

http://bmcbioinformatics.biomedcentral.com/articles/10.1186/s12859-015-0462-y

A list of different databases:

http://metabolomicssociety.org/resources/metabolomics-databases

A shorter list of databases:

https://en.wikipedia.org/wiki/List_of_biological_databases#Metabolic_pathway_and_Protein_Function_databases

You are not the first person who was going to create such a database, some people shared their views on the topic:

https://en.wikipedia.org/wiki/Metabolic_network_modelling

ADD COMMENTlink modified 3.9 years ago • written 3.9 years ago by natasha.sernova3.7k
1
gravatar for ivivek_ngs
3.9 years ago by
ivivek_ngs4.9k
Seattle,WA, USA
ivivek_ngs4.9k wrote:

You can take a look at ipath2 , reactome and consensuspathdb, they should be having metabolic pathways for gene-gene relationships to consequent pathways. Even IPA has it but you need a commercial license for IPA.

ADD COMMENTlink written 3.9 years ago by ivivek_ngs4.9k
1
gravatar for Egon Willighagen
3.7 years ago by
Maastricht
Egon Willighagen5.2k wrote:

WikiPathways is an extensive pathway database which also contains many metabolic pathways.

ADD COMMENTlink written 3.7 years ago by Egon Willighagen5.2k
Please log in to add an answer.

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 2380 users visited in the last hour