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Announcements

Wiki authors: We patched the widget code again this weekend to fix all remaining known bugs. We will consider expanding the length of the short title for AOPs for the next release. If you notice any additional problems, please report them here: Bug_Reports.

Wiki users: To avoid spammers, we now require email confirmation before any user is allowed to edit. We apologize for any inconvenience this may cause. Instructions for confirming your email if you already have an account are given here: Confirm Email If you have any troubles confirming your email, please email us at aopwiki@googlegroups.com.

The Help documentation will be updated soon to provide more information about how to comment on existing AOPs. We ask that all users abide by the AOP Wiki Editing & Comments Policy. To author or edit AOPs still requires membership in an OECD AOP development project.

AOP-Wiki authors: We will be providing some additional help related to the new widget arrangement soon. Please see here for more information: Author Info.

Welcome to the Collaborative Adverse Outcome Pathway Wiki (AOP-Wiki)

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This wiki represents a joint effort between the European Commission – DG Joint Research Centre (JRC) and U.S. Environmental Protection Agency (EPA). This serves as one component of a larger OECD-sponsored AOP Knowledgebase effort and represents the central repository for all AOPs developed as part of the OECD AOP Development Effort by the Extended Advisory Group on Molecular Screening and Toxicogenomics. The other major components of this knowledgebase are Effectopedia, produced by the Organisation for Economic Co-operation and Development (OECD), the AOP Xplorer, produced by the US Army Corps of Engineers - Engineering Research and Development Center, and the Intermediate Effects DB produced by the JRC.

If you are interested in contributing AOP-related knowledge to the AOP-KB, please follow the instructions laid out at the OECD Adverse Outcome Pathways, Molecular Screening and Toxicogenomics page.

The Guidance on Developing and Assessing AOPs document is the basis for all work related to contributing and sharing AOP-related knowledge. A Users' Handbook Supplement to this Guidance has been written to aid systematic development and transparent assessment of Adverse Outcome Pathways (AOPs).

The handbook contains a template to guide AOP description and provides focused and practical instructions for developers and assessors intended to assist in identifying, organizing, and evaluating critical information on key events and linkages (i.e., key event relationships (KER)) within the AOP, as well as guidance on how to assess the weight of evidence supporting the overall AOP.

This wiki is based upon the Chemical Mode of Action wiki developed by the EPA under the auspices of the WHO International Programme on Chemical Safety (IPCS) Mode of Action Steering Group.

Disclaimer

The content of this wiki is the sole responsibility of the individual contributors and does not necessarily represent the views of the Partner organizations. Mention of trade names or commercial products does not constitute endorsement by any of the Partner organizations.

How to add a new AOP

This section needs to be updated to match the new templates and widget arrangement For more detailed instructions, please see the main Help page.

Before You Start

Please read the AOP Wiki Editing & Comments Policy.

We have recently posted a slide deck containing additional help for wiki users: File:AOP Wiki Tutorial.pdf

This slide deck has three sections

  1. Slides 1-22 provide an overview of the AOP-KB and correspond to our introductory webinars
  2. Slides 23-46 provide a mapping from the current wiki structure to the OECD guidance
  3. Slides 47-76 provide information on help resources in the wiki and a graphical depiction of the workflow involved in entering AOPs

Note that the screenshots are now out of date. We hope to replace those soon

To create a new AOP

  1. Click the following link in the Sidebar: [| Create new AOP]
  2. You may be prompted to sign in. If so, use your Wiki credentials to sign in. If not, proceed to the next step.
  3. In the text field labeled Short Title, enter a unique name with fewer than 30 characters.
  4. In the text field labeled Long Title, you may enter a more descriptive name for your AOP.
    1. If you have an MIE, the current naming convention would include both the MIE and AO in the AOP page name. If the MIE is unknown, use the earliest KE and we'll rename the page once the MIE is defined.

To edit AOP pages

  1. To add text to any section, click the Edit link to the right of the Heading for that section. Type your notes in the resulting text box and click the save page button at the bottom. Don't delete the ==Heading== line at the top. You shouldn't need to manually edit the Summary of the AOP section. Please make those changes via the automated process described below.
  2. To add a new item in the Summary section (If you manually enter text in this section, it will get deleted in subsequent edits using the widgets.):
    1. Click the widget page link located directly under the Summary heading.
    2. You will be directed to the widget page for your AOP where there are buttons to add new items to each Summary section.
      1. Click the "Add Item to Table" button.
      2. Fill out the appropriate boxes in the pop up box. Details for each are on the AOP Help page.
      3. Click the Submit button.
    3. As you add new items in the widget page, the corresponding AOP page in the Wiki is updated. This step is done automatically. There is no action to be undertaken on your part.
    4. If you added an existing item, a link to the page for that item will be added to your list. If you create a new item, a link to a stub page will be created. You can navigate to that page to fill in any information you have. You can return to the AOP page via the link that is automatically created on the page for that item.
    5. If you want to edit information about an existing item, follow the link to the item page, make your edits, and return to the AOP page via the AOP link on that page.
  3. In cases where a heading does not have a widget yet, check out our Upcoming Features page to see where it stands in the queue. New buttons will be added as soon as the widgets are developed.

To edit other pages

  1. Overview sections are intended for editing programmatically to maintain a consistent format across pages. If you manually enter text in this section, it will get deleted in subsequent edits using the widgets.
  2. All other sections can be edited as described above for editing the AOP page.