WHAT CAN I DO ON THE T2D@ZJU SITE?

T2D@ZJU is a knowledgebase integrating 3 levels of connections associated with type 2 diabetes mellitus (T2D), including curated directed connections (CDC) dataset, protein-protein interactions (PPI) dataset and text-mining based relationships (TMR) dataset. We provides a Cytoscape Web based interactive network browser for users to visualize the network relationships between T2D-related entities. Our aim is to create a comprehensive T2D network, which will offer a better understanding of T2D for basic and clinical researchers and hereby facilitate the T2D-related translational research. Tools and data on the T2D@ZJU site can be used to:

1. Get information about a biomolecule (gene, complex, protein or simple molecule) of interest. (section I)
Example1: Get information of "INS".
Example2: Expand network with neighboring nodes of "MAFA"

2. Get information about pathways that related with T2D. (section II).
Example: Get information of "Insulin Signaling Pathway".

3. Get the Network of T2D (section III.).
Example: T2D Network

CONTENTS

I.Get information about a biomolecule of interest.

I.A For a macromolecule, you can:

I.A.A. search by molecule short name, provided in table on the website.

I.A.B. search by gene symbol, provided in table on the website.

I.A.C. search by Gene ID, provided in table on the website.

I.A.D. search by UniProt ID, provided in table on the website.

I.A.E. search by OMIM ID.

I.A.E. search by HGNC ID.

I.B For a micromolecule, you can:

I.B.A. search by PubChem ID, provided in table on the website.

I.A.B. search by CAS Number.

I.A.C. search by ChEBI ID.

I.A.D. search by DrugBank ID, while the simple molecule is a drug.


II. Get information about pathways that are related with T2D.

II.A. Get information of pathways related with T2D.


III. Get the Network of T2D.

III.A. Get the overview of T2D network.


IV. Help tips. (section IV)

IV.A. Mouseover a node.

IV.B. Click on a node.

IV.C. Double click a node.

IV.D. Right click a node or edge.

IV.E. Using panel in lower right corner of the graph of network.


SECTIONS

Section I. Get information about a biomolecule of interest.

A. Choose search type, enter a search term in the keyword search box, and press the "SEARCH" button.

B. The result page will display:

(a). Network situation of searching biomolecule and other biomolecules which are directly connected to it.

(b). Information table of edges related with the biomolecule in T2D network, PPI database, TMR database.

(c). Block of Tips in the right side of page (see section IV).


Section II. Get information about pathways that are related with T2D

A. Choose one term of your interest in dropdown box.

B. The result page will display:

(a). The pathway network.

(b). Block of Tips in the right side of page (see section IV)


Section III. Get the Network of T2D

A. Click on "Click Here To show the Whole network"

B. The result page will display T2D Network.


Section IV. Help tips.

A. Mouseover a node, you can get type and name of the biomolecule, highlight it and its neighboring nodes and edges.

B. Click on a node, detail information about the biomolecule will be displayed in a table below the network

C. Double click a node and choose its neighboring nodes of your interest, then click "add" to expand the current network.

D. Right click an edge or node, you can remove edge, node and expand network.

E. Use panel to reduce, amplify and move the network.


HOW CAN I CITE T2D@ZJU?

We hope all articles who used the result of T2D@ZJU can cite the website address below:

Yang Z, Yang J, Liu W, Wu L, Xing L, Wang Y, et al. T2D@ZJU: a knowledgebase integrating heterogeneous connections associated with type 2 diabetes mellitus. Database : the journal of biological databases and curation. 2013;2013:bat052.


HOW CAN I GET DATA FROM T2D@ZJU?

A. When on a page that displays a network, choose "Export Format", and click on "export", the current information of the network will be saved.

B. "Downloads" page provide you with a lot of resource to download