CZ GEN EPI is a tool that uses pathogen genomic sequence data to help you infer how pathogens are moving through a population and how cases and outbreaks are related. In order to become a User of CZ GEN EPI you must be acting in your organizational capacity, which means a couple things: (1) your use of CZ GEN EPI may be subject to your organization’s policies and (2) upon sign-up, you’ll be placed into a group with other users from your organization.
Here’s how CZ GEN EPI processes and manages Upload Data: Users submit Raw Sequence Data (as described below) as well as information about those sequences, such as the date the sample was collected ("Sample Metadata" as further defined below -- Raw Sequence Data and Sample Metadata together make "Upload Data"). In the event any human genetic data is contained within the Raw Sequence Data, it is filtered out and deleted following upload, leaving genomic data only about the pathogen. This pathogen genomic data is then analyzed in order to identify the normally-occurring genetic mutations that make up each pathogen sample’s unique genetic "barcode." This barcode can then be used to identify strains, variants, and relationships between samples. By default, these analytical outputs will be visible to the User that uploaded the Sample and other members of the User’s organization ("Group", ex: a Department of Public Health) using CZ GEN EPI.
Users can then choose to share analytical outputs outside their Group. We hope that this sharing of pathogen data will help to create a clearer picture of how pathogens are circulating in your community and thereby help advance public health goals.
|Type of Data||What is it?||What’s it used for?||How is it shared?||Your Choices|
|Data you upload to or create using CZ GEN EPI|
|Raw Sequence Data||Genetic sequence files (ex: FASTQ) uploaded by Users containing both host and pathogenic genomic data.|
Upon upload, Raw Sequence Data is processed through our data pipeline and all human genetic information (if any) is filtered out and deleted.
We use the remaining data, with Sample Metadata, to create the Pathogen Consensus Genome and to support your creation of further analytical results.
Raw Sequence Data is processed only to filter out host data. It is not available to anyone other than you.
Other than as specifically requested by you, such as to debug an issue, staff working on CZ GEN EPI never access this data.
This data is temporarily disclosed to our service providers (ex: AWS) in order to operate the service.
Users can request deletion of Raw Sequence Data, Sample Metadata, Pathogen Consensus Genomes, analytical outputs, or their CZ GEN EPI account data by contacting us at firstname.lastname@example.org and we will fulfill the request within the timelines set forth under applicable privacy laws. You can learn more about your choices in the Section titled, “Choices About Your Data.”
Please be aware, however, that we cannot delete any Pathogen Consensus Genomes or analytical outputs which have been shared outside of CZ GEN EPI.
|Sample Metadata||Data about Samples annotated by Users (ex: sample collection date or location).||See above.|
Sample Metadata is visible to other users in your Group, as well as third party entities that your Group is visible to. These entities can see your samples, but not your private, internal identifiers.
This data is also accessible by technical partners (CZ Biohub and CZI, LLC) and Service Providers (ex: AWS) that help operate, secure, and improve CZ GEN EPI. For example, we need to be able to access your data in order to back up and maintain the database.
We will never sell your data or share it with anyone that does.
|Pathogen Consensus Genome||Data about the likely pathogen strains contained within the Raw Sequence Data|
Users may also upload this data to CZ GEN EPI directly if they have assembled a pathogen consensus genome in a different program, but would like to analyze that genome in CZ GEN EPI.
Pathogen Consensus Genomes are visible to other users in your Group, as well as third party entities that your Group is visible to.
Samples marked "private" will never be shared beyond your Group unless you choose to mark them "public" later on.
|Analytical results||Analyses created by Users based on Pathogen Consensus Genomes (ex: phylogenetic trees).||Users use CZ GEN EPI to drive analytical results that they can then choose to share more broadly.||Analytical results you create are visible to other users in your Group, as well as third party entities that your Group is visible to.|
|Data CZ GEN EPI collects|
|User Data||Data about researchers with CZ GEN EPI accounts such as name, email, institution, basic information about how they are using CZ GEN EPI, and information provided through surveys, during an in-person event, or for user support (ex: resolving support requests).||We use this data only to operate, secure, and improve the CZ GEN EPI services.|
Basic CZ GEN EPI account information such as name and institution may be visible to other CZ GEN EPI Users.
This data is also shared with technical partners (CZ Biohub and CZI, LLC) and Service Providers (ex: AWS) that help operate, secure, and improve CZ GEN EPI.
We will never sell your data or share it with anyone that does.
|Users can request deletion of their CZ GEN EPI account data by contacting us at email@example.com and we will fulfill the request within the timelines set forth under applicable privacy laws. You can learn more about your choices in the Section titled, “Choices About Your Data.”|
|Device and Analytics Data||Device Data (ex: browser type and operating system, and IP address) and Analytics Information (ex: links within CZ GEN EPI you click on and how often you log into CZ GEN EPI) includes basic information about how Users and Visitors are interacting with CZ GEN EPI and a general location (i.e. country) of where they are accessing the Services.||See above.||See above.|
We will never share your personal information for behavioral advertising purposes nor will we ever sell your personal information. We do collect, use, and retain your data as follows:
"Upload Data" is data that Users upload to CZ GEN EPI (other than the information which is provided during registration to create a User account). Upload Data consists of pathogen genomic data (including "Raw Sequence Data", which includes both host and pathogenic genome data and "Pathogen Consensus Genomes," which is only pathogenic genome data) and corresponding metadata ("Sample Metadata", such as time and location of sample collection). In the event that human genetic sequence information is uploaded as part of the Upload, it is removed as part of processing the Upload.
As described in our Terms, Users are required to obtain and maintain all necessary consents, permissions, and authorizations required by applicable laws prior to uploading, sharing, and exporting Upload Data with the Services.
Upload Data includes Raw Sequence Data, Pathogen Consensus Genomes, and Sample Metadata.
If you are able to find data in CZ GEN EPI or any Sample Metadata that you believe is identifying, please let us know at firstname.lastname@example.org and we will address it.
Upload Data is used for the following business purposes:
We do not own Upload Data and we will never sell your data nor will we share your personal information for behavioral advertising purposes. As mentioned above, your Upload Data will be visible within your Group.
Raw Sequence Data and Sample Metadata are shared back to the Users that uploaded the data, as well as other Users within the same organization (your "Group"). This data is also disclosed to service providers (ex: AWS) in order to store the data. Please note that while the Raw Sequence Data is temporarily visible to other members of your Group, this data is not retained on the CZ GEN EPI platform and is permanently deleted from our backend after 90 days.
We may also disclose your Pathogen Consensus Genomes (whether uploaded by you or generated by us) and/or analytical outputs with third parties in accordance with the provisions of your organization’s policies and/or as required by law. For example, certain Users in California currently allow the California Department of Public Health ("CDPH") to access data from their Group. Where such access is allowed by Groups, the third party can access this data through their own CZ GEN EPI accounts, and may have similar viewing permissions as members of the uploading Group. However, they will not have access to your private, internal identifiers.
You control the sharing of Raw Sequence Data and Sample Metadata which has been uploaded by any member of your organization Group. It will not be visible to other Users outside of your Group unless you choose to share it more broadly. We don’t own, rent, or sell your data.
Pathogen Consensus Genomes, whether uploaded by you or generated by CZ GEN EPI, will be disclosed by us with public repositories (as set out below) unless you choose to mark this information as "private." In the event that the Pathogen Consensus Genome is created by us, it will automatically be marked as private if the corresponding Raw Sequence Data is marked private.
To the extent that the GDPR applies, we rely on the following legal bases to use and disclose personal data in Upload Data:
The Raw Sequence Data is processed to support research regarding the study of infectious disease with the potential to benefit global public health. Upon upload, human genetic information (if any) is filtered out to create a Pathogen Consensus Genome which is used to advance scientific research.
In the rare event that human genetic data is not successfully deleted in the initial upload process, CZ GEN EPI may process this data only insofar as necessary in order to delete it. This processing is in our legitimate interest, and in the legitimate interests of CZB and CZI LLC, in order for us to ensure that no personal data is contained within the genomic data stored on CZ GEN EPI.
The remaining pathogen genome does not contain personal data, as it cannot be personally linked with an identifiable individual.
If you have uploaded Raw Sequence Data, we first strip any human reads (if any), and then generate a Pathogen Consensus Genome by mapping the remaining sequencing reads to a pathogen-specific reference genome. These Consensus Genomes are the foundational unit of analysis for genomic epidemiology. If you have submitted Pathogen Consensus Genomes as Raw Sequence Data, we simply align it to the appropriate pathogen reference genome.
CZ GEN EPI also gives you the ability to create new analytical outputs from pathogen genomes, such as phylogenetic trees that allow you to better map the relationship between strains.
Users have full control over their data and the ability to mark samples as "private". Private samples will never be shared outside of your Group unless you choose to mark them as "public" later on.
Analytical results, including phylogenetic trees, generated from your Upload Data and Pathogen Consensus Genomes are the property of your Group only, and can only be seen by you and members of your group. You and your group control who to share them with and when.
Additionally, as outlined above, this data may be visible in some form to third parties in accordance with your organization’s policies, or in accordance with applicable law.
CZ GEN EPI also collects information about Users in order to offer the Service. CZ GEN EPI collects basic identifiers required to create an account (e.g. email address, name, Group affiliation), Device and Analytics Data, information from Cookies, and information Users decide they want to upload onto CZ GEN EPI.
User Data will be used to operate, secure, and improve the Services. This means the following business purposes:
To the extent that the GDPR applies, we rely on the following legal bases to use and disclose personal data in User Data:
We retain your personal data only as long as is reasonably necessary:
Please note that we do not control, and so cannot delete Pathogen Consensus Genomes and analytical outputs that have been shared outside of CZ GEN EPI.
Users have the option to share their analytical outputs with certain third party tools. You control whether to use these integrations or not.
In certain circumstances, we also share your Upload Data and analytical results with other governmental, public health entities in accordance with your organization’s policies and with applicable law. For example, certain Users in California currently allow the California Department of Public Health ("CDPH") to access Upload Data and analytical results from their Group.
We use industry standard security measures to ensure the confidentiality, integrity and availability of data uploaded into CZ GEN EPI. This includes practices like encrypting connections to CZ GEN EPI using TLS (encrypting data while in transit), hosting CZ GEN EPI on leading cloud providers with robust physical security, and ensuring that access to any personal data within CZ GEN EPI by CZIF, CZB, and CZI LLC staff is limited to those staff who need access to operate the Service.
Security takes ongoing work and we will continue to monitor and adjust our security measures as CZ GEN EPI develops. Please notify us immediately at email@example.com if you suspect your account has been compromised or are aware of any other security issues relating to CZ GEN EPI.
Users have the following choices and rights:
We may ask for additional information that allows us to reasonably verify that you are the person about whom we collected personal information. If you would like an authorized agent to make a request for you, have that agent email firstname.lastname@example.org with information that is sufficient for us to verify that the authorized agent is acting on your behalf.
If you would like to appeal a decision with respect to a request to exercise any of these rights, please email us at email@example.com and explain the basis for your appeal.
If your data is subject to the EU or UK data protection laws (e.g., GDPR) and you wish to raise a concern about our use of your information (and without prejudice to any other rights you may have), you have the right to do so with your local supervisory authority or by emailing us at firstname.lastname@example.org.
Please note: CZ GEN EPI is not designed for or directed toward children under the age of 16 and we do not have actual knowledge that we have sold or shared the personal information of users under 16 years of age. If we become aware that we have the information of such children collected through CZ GEN EPI, we will promptly delete it.
We don’t share personal data with third parties for their direct marketing purposes or behavioral advertising, nor do we support any Do Not Track signals since there’s currently no standard for how online services respond to those signals. As standards develop, we may establish policies for responding to DNT signals that we would describe in this Privacy Notice. You can learn more about DNT here.
CZ GEN EPI is a US-based service. If you want to use CZ GEN EPI, you must first agree to our Terms, which set out the contract between CZ GEN EPI and our Users. We operate in the United States, and use technical infrastructure in the United States to deliver the Services to you.
In accordance with the contract between us and our Users, we need to transfer personal data to the United States and to other jurisdictions as necessary to provide the Services. Please note that the privacy protections with respect to your information in these countries may not be the same as in your home country.
The California Consumer Privacy Act (“CCPA”) requires certain businesses to give California residents a number of rights regarding their personal information. We are offering these rights to you, including the right to have your personal information deleted (subject to certain exceptions), the right to change or correct your personal information, the right to limit the use or disclosure of your sensitive personal information (if applicable), the right to access your personal information, the right to opt-out of the “selling” or “sharing” of personal information (if applicable), and the right not to be discriminated against for exercising these rights.
These rights, and how to exercise them, are described in more detail in the Section titled “Choices about Your Data” of this Policy Policy. In addition to these rights, we give you a right to request the following information about your personal information that we have collected in the past 12 months:
The Right to Know. This right allows you to request the following information about the personal information that we’ve collected about you in the past 12 months:
Information about Data Collection
Information about Data Disclosure
Virginia, Colorado, Connecticut, and Utah also have adopted privacy laws that give consumers certain rights, including the right to confirm whether controllers are processing the consumer’s personal data, the right to access that data, the right to obtain a copy of that data, the right to correct inaccuracies in that data, and the right to delete that data. As discussed above in the Section titled “Choices About Your Data,” we provide these rights to all consumers, regardless of where they reside.
Additionally, these four states have adopted rights to opt-out of: (1) targeted advertising; (2) the sale of personal data; and (3) profiling in furtherance of decisions that produce legal or similarly significant effects concerning the consumer. We do not sell your data, use it for targeted advertising or to profile you in furtherance of decisions that produce legal or similarly significant effects.