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4dn:nih_only_area:oh_action_items [2019/01/24 16:28] rcalandrelli created |
4dn:nih_only_area:oh_action_items [2025/04/22 16:21] (current) |
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| Access to the following document is restricted to NIH officials and OH PIs and staff. | Access to the following document is restricted to NIH officials and OH PIs and staff. | ||
| - | - OH will put together a survey to get an idea of 4DN network members attitudes about data sharing (both internally within the network, as well as with the external user community. | + | 1. OH will put together a survey to get an idea of 4DN network members attitudes about data sharing (both internally within the network, as well as with the external user community. |
| * OH will develop a set of proposed questions. The following is proposed on OH internal workshop on August 26th. | * OH will develop a set of proposed questions. The following is proposed on OH internal workshop on August 26th. | ||
| - | Data sharing survey \\ \\ OH is tasked by NIH to deliver the following survey on data sharing policy. | + | **Data sharing survey** \\ \\ OH is tasked by NIH to deliver the following survey on data sharing policy. |
| 1. What time do you feel comfortable to share your data within the 4DN consortium? | 1. What time do you feel comfortable to share your data within the 4DN consortium? | ||
| - | By data production | + | * By data production |
| - | + | * By data production and validation | |
| - | By data production and validation | + | * By manuscript submission |
| - | + | * By publication | |
| - | By manuscript submission | + | |
| - | + | ||
| - | By publication | + | |
| 2. To what extent do you feel comfortable to share the data prior to publication (multiple choice)? | 2. To what extent do you feel comfortable to share the data prior to publication (multiple choice)? | ||
| - | Processed data | + | * Processed data |
| - | + | * Raw data | |
| - | Raw data | + | * Metadata including cell type and treatment condition |
| - | + | * The methods and protocols on data generation together with the data | |
| - | Metadata including cell type and treatment condition | + | |
| - | + | ||
| - | The methods and protocols on data generation together with the data | + | |
| - | + | ||
| - | --- | + | |
| - OH will run these questions by Nils/Leonid | - OH will run these questions by Nils/Leonid | ||
| Line 51: | Line 43: | ||
| - The timeline on this is: Responses should be in before the next 4DN SC meeting (September 20th). | - The timeline on this is: Responses should be in before the next 4DN SC meeting (September 20th). | ||
| - | September 9: Dr. Judy Meitz suggested that the Policy WG should be given sufficient time to prepare the survey, beyond the Sept 20th SC meeting. | + | September 9: Dr. Judy Mietz suggested that the Policy WG should be given sufficient time to prepare the survey, beyond the Sept 20th SC meeting. |
| 2. OH and DCIC will work together to integrate the data portal with the OH portal. | 2. OH and DCIC will work together to integrate the data portal with the OH portal. | ||
| Line 59: | Line 51: | ||
| 3. Suggested updates to the web portal (8/29/2016) | 3. Suggested updates to the web portal (8/29/2016) | ||
| - | The Home Page: | + | **The Home Page:** |
| - | ·There is no easily accessible “About” section on the homepage that describes what “4D Nucleome” is or that it is a program/consortium. It might be useful to have something on the homepage that briefly describes the program (see the [[https://commonfund.nih.gov/4Dnucleome/index|“Program Snapshot” on the Common Fund page]] for an example) AND the purpose of the portal. It should be understandable to someone outside the consortium. (9/2/2016) | + | * There is no easily accessible “About” section on the homepage that describes what “4D Nucleome” is or that it is a program/consortium. It might be useful to have something on the homepage that briefly describes the program (see the [[https://commonfund.nih.gov/4Dnucleome/index|“Program Snapshot” on the Common Fund page]] for an example) AND the purpose of the portal. It should be understandable to someone outside the consortium. (9/2/2016) |
| + | * “Welcome to 4DN Portal” should read “Welcome to the 4DN Portal” (9/1/2016) | ||
| + | * The Data, Software, and Training links on the homepage need more description. Are these resources generated from the program or training on how to use the program resources? If not, their purpose should be stated in the description. Why would someone need to access these links? Where did these resources come from? (9/9/2016) | ||
| + | * The “Software” links to “Genome Interaction” and the email address listed is: “rcalandrelli at eng dot ucsd dot edu”. Might want to reformat this email address. (9/1/2016) | ||
| + | * The “Training – education and outreach materials” is not an accurate description for the “4DN Library” link. I suggest changing that heading to “4DN Publications” or something similar. (9/1/2016) | ||
| + | * Note: The heading "Training" remained the same. A new field has been added to the homepage named "Publications". | ||
| + | * The “Tutorials on 4DN communication tools” is unclear. Are these tools for the public to communicate with the consortium? Whom is communicating with whom? I suggest moving this link to the left side bar and/or clarifying with “For Consortium Member Only” or something along those lines. This should be done for all password protected links to avoid confusion from non-consortium members. FYI – the Youtube video that describes all of the password protected sites is viewable to the public. (9/9/2016) | ||
| - | ·“Welcome to 4DN Portal” should read “Welcome to the 4DN Portal” (9/1/2016) | + | **The Left Side Bar:** |
| - | ·The Data, Software, and Training links on the homepage need more description. Are these resources generated from the program or training on how to use the program resources? If not, their purpose should be stated in the description. Why would someone need to access these links? Where did these resources come from? (9/9/2016) | + | * The “4DN Wiki” is password protected, this could also be labeled “For Consortium Member Only”. There seems to be a lot of protected links and it might be best if all of these are populated under this heading, on the left side bar. (9/2/2016) |
| - | + | * The “4DN Publications” link is the same as the one listed under “4DN Library”. Is there a reason for this? The same as the “Software” link, it is listed twice. I suggested either linking out to everything twice, in the same order as the homepage, or removing duplicates. (9/1/2016). Note: the links in the homepage have been also inserted in the side bar. | |
| - | ·The “Software” links to “Genome Interaction” and the email address listed is: “rcalandrelli at eng dot ucsd dot edu”. Might want to reformat this email address. (9/1/2016) | + | * Why is the overview of the 4DN program buried in the left side bar under “Funded Projects”? The overview should be easily accessible on the homepage. (9/1/2016). Note: the overview of the 4DN is now the first item of the left side bar. |
| - | + | * The External Advisors are also listed under “Funded Projects” for some reason. Also, FYI these names and emails are publically available. | |
| - | ·The “Training – education and outreach materials” is not an accurate description for the “4DN Library” link. I suggest changing that heading to “4DN Publications” or something similar. (9/1/2016) | + | |
| - | + | ||
| - | Note: The heading "Training" remained the same. A new field has been added to the homepage named "Publications". | + | |
| - | + | ||
| - | ·The “Tutorials on 4DN communication tools” is unclear. Are these tools for the public to communicate with the consortium? Whom is communicating with whom? I suggest moving this link to the left side bar and/or clarifying with “For Consortium Member Only” or something along those lines. This should be done for all password protected links to avoid confusion from non-consortium members. FYI – the Youtube video that describes all of the password protected sites is viewable to the public. (9/9/2016) | + | |
| - | + | ||
| - | The Left Side Bar: | + | |
| - | + | ||
| - | ·The “4DN Wiki” is password protected, this could also be labeled “For Consortium Member Only”. There seems to be a lot of protected links and it might be best if all of these are populated under this heading, on the left side bar. (9/2/2016) | + | |
| - | + | ||
| - | ·The “4DN Publications” link is the same as the one listed under “4DN Library”. Is there a reason for this? The same as the “Software” link, it is listed twice. I suggested either linking out to everything twice, in the same order as the homepage, or removing duplicates. (9/1/2016) | + | |
| - | + | ||
| - | Note: the links in the homepage have been also inserted in the side bar. | + | |
| - | + | ||
| - | ·Why is the overview of the 4DN program buried in the left side bar under “Funded Projects”? The overview should be easily accessible on the homepage. (9/1/2016) | + | |
| - | + | ||
| - | Note: the overview of the 4DN is now the first item of the left side bar. | + | |
| - | + | ||
| - | ·The External Advisors are also listed under “Funded Projects” for some reason. Also, FYI these names and emails are publically available. | + | |
| Note: ESA names are still publicly available but emails have been removed from the "External Advisors" page. (9/6/2016) | Note: ESA names are still publicly available but emails have been removed from the "External Advisors" page. (9/6/2016) | ||
| - | Note: "Funded Projects" and "External Advisors" have been both moved under "Overview" and an "NIH 4DN Overview" entry has | + | Note: "Funded Projects" and "External Advisors" have been both moved under "Overview" and an "NIH 4DN Overview" entry has been created for better organization. (9/9/2016) |
| - | + | ||
| - | been created for better organization. (9/9/2016) | + | |
| Note: The overall layout of the site was revamped to provide easier navigation and cleaner UI. (9/6/2016) | Note: The overall layout of the site was revamped to provide easier navigation and cleaner UI. (9/6/2016) | ||
| Line 128: | Line 105: | ||
| * Create a section on the 4D Nucleome website that is linked to the approved policies | * Create a section on the 4D Nucleome website that is linked to the approved policies | ||
| * Approved and latest policies can be accessed on GitHub (easy to track changes and freeze released versions, no need to update any links when the policies are updated. See below: | * Approved and latest policies can be accessed on GitHub (easy to track changes and freeze released versions, no need to update any links when the policies are updated. See below: | ||
| - | + | * Publication Policy: [[https://github.com/4dn-dcic/4dn-policies/blob/master/4dn-publication-policy.md#4d-nucleome-project---publication-policy|https://github.com/4dn-dcic/4dn-policies/blob/master/4dn-publication-policy.md#4d-nucleome-project---publication-policy]] | |
| - | Publication Policy: [[https://github.com/4dn-dcic/4dn-policies/blob/master/4dn-publication-policy.md#4d-nucleome-project---publication-policy|https://github.com/4dn-dcic/4dn-policies/blob/master/4dn-publication-policy.md#4d-nucleome-project---publication-policy]] | + | * Software Sharing Policy: [[https://github.com/4dn-dcic/4dn-policies/blob/master/4dn-software-sharing-policy.md#4d-nucleome-project---software-sharing-policy|https://github.com/4dn-dcic/4dn-policies/blob/master/4dn-software-sharing-policy.md#4d-nucleome-project---software-sharing-policy]] |
| - | + | * More information about the policies (including citation information) can be found here: [[https://github.com/4dn-dcic/4dn-policies|https://github.com/4dn-dcic/4dn-policies]] | |
| - | Software Sharing Policy: [[https://github.com/4dn-dcic/4dn-policies/blob/master/4dn-software-sharing-policy.md#4d-nucleome-project---software-sharing-policy|https://github.com/4dn-dcic/4dn-policies/blob/master/4dn-software-sharing-policy.md#4d-nucleome-project---software-sharing-policy]] | + | |
| - | + | ||
| - | More information about the policies (including citation information) can be found here: [[https://github.com/4dn-dcic/4dn-policies|https://github.com/4dn-dcic/4dn-policies]] | + | |
| * Should be on the Public Portal | * Should be on the Public Portal | ||
4dn/nih_only_area/oh_action_items.1548376138.txt.gz · Last modified: 2025/04/22 16:21 (external edit)