Pathway Map

 

How to access the AlzPathway web service (online map) by Payao

  1. 1.Access to the Payao system at http://sblab.celldesigner.org:18080/Payao11/bin/.

  2. 2.Log in the Payao system by using
    AlzPathway demo user account. See the
    Additional file 3
    alzpathway_payao_access_instruction.pdf
    of our paper (see the section of Additional
    file) to find demo username and the
    corresponding password.

    You can register your own account  instead
    of using AlzPathway demo account. Access to AlzPathway is temporarily limited because our paper has not been published yet. If you register, please email us (info@alzpathway.org) to get a permission to access AlzPathway map on the Payao system. After publication of our paper, access to AlzPathway will be opened without any restriction.

  3. 3.Click View button of AlzPathway model among Popular Models to show AlzPathway map.











  4. 4.Browse AlzPathway map. Click a ballon to see a note (in the case of a reaction, evidences to the references in PubMed ID).













  5. 5.Browse tables of Species, Proteins, Genes, RNAs, and Reactions at the bottom of map.

AlzPathway is also available as the web service (online map) implemented by using the Payao system, a community-based, collaborative web service platform for pathway model curation, enabling us to continuously update by AD researchers.

☛ Payao system

AlzPathway is also available as
the high resolution image map.
High resolution image map is
available as the Additional file 2
alzpathway_image_map.png
of our paper (see the section of
Additional file). This image map
does not contain the reference
information used for constructing
the AlzPathway. SBML (Cell
Desinger) map and Online map (Payao) are recommended to browse the AlzPathway map.

3. High resolution image map

AlzPathway is available as the
SBML (Systems Biology Markup
Language) map for CellDesigner.
SBML map file is available as
the Additional file 1
alzpathway_sbml_map.xml of

our paper (see the section of

Additional file). SBML file can be

browsed using CellDesigner.
Please download CellDesigner
at http://celldesigner.org/, install it, and open
the SBML file alzpathway_sbml_map.xml to
browse AlzPathway map by CellDesigner.

1. SBML map

2. Web service (online map)
by Payao

  1. •SBML map file: alzpathway_sbml_map.xml
                                Additional file 1 of our paper; link will be available after publication.

  2. •Pure SBML map file: alzpathway_pure_sbml.xml
                                Additional file 5 of our paper; link will be available after publication.

                            The pure SBML file is for compatibility with other SMBL supporting tools.

  1. •Expanded SBML map file with Gene Ontology: alzpathway_pure_sbml.xml

                            Additional file 7 of our paper; link will be available after publication.

                            The SBML map file with the external links to Gene Ontology requires time

                            to be opened by CellDesigner 4.2, and thus was provided separately as an

                            expanded SBML map.

  1. •BioPAX file: alzpathway_biopax.owl

                            Additional file 6 of our paper; link will be available after publication.

                            The BioPAX file is for exchanges of pathway data.

  1. •High resolution image map file: alzpathway_image_map.png
                                Additional file 2 of our paper; link will be available after publication.

4. Binary-relation notation map

  1. •Binary-relation notation file: alzpathway_binary_relation.sif
                                Additional file 4 of our paper; link will be available after publication.