Top level links:
- Main top level page for all documentation
- EnteroBase Features
- Registering on EnteroBase and logging in
- Using the API
- About the underlying pipelines and other internals
- How schemes in EnteroBase work
Web Service Terms
- Web Service Terms
- WHAT'S IN THESE TERMS?
- WHO WE ARE AND HOW TO CONTACT US
- BY USING OUR SERVICE YOU ACCEPT THESE TERMS
- WE MAY MAKE CHANGES TO THESE TERMS
- WE MAY CHANGE, SUSPEND OR WITHDRAW OUR SERVICE
- YOU MUST KEEP YOUR ACCOUNT DETAILS SAFE
- HOW YOU MAY USE MATERIAL ON OUR SERVICE
- DO NOT RELY ON INFORMATION ON THIS SERVICE
- WE ARE NOT RESPONSIBLE FOR WEB SERVICES WE LINK TO
- OUR RESPONSIBILITY FOR LOSS OR DAMAGE SUFFERED BY YOU
- POSTING MATERIAL ON OUR SERVICE
- WE ARE NOT RESPONSIBLE FOR VIRUSES AND YOU MUST NOT INTRODUCE THEM
- VALIDITY OF THESE TERMS
- OTHER IMPORTANT TERMS
- INFORMATION WE COLLECT
- USES MADE OF THE INFORMATION
- WHEN WE SHARE YOUR INFORMATION
- WHERE WE STORE YOUR PERSONAL DATA
- YOUR RIGHTS
- ACCESS TO INFORMATION
- APPENDIX A
PLEASE READ THESE TERMS AND CONDITIONS CAREFULLY BEFORE USING THIS SERVICE. READ APPENDIX A
WHAT'S IN THESE TERMS?
These terms tell you the rules for using our web service EnteroBase https://enterobase.warwick.ac.uk/ (“our service”).
WHO WE ARE AND HOW TO CONTACT US
https://enterobase.warwick.ac.uk/ is a service operated by the Achtman Lab in Warwick Medical School, which is a department within the University of Warwick ("We").
To contact us, please email M.J.Sergeant@warwick.ac.uk
EnteroBase aims to establish a world-class, one-stop, user-friendly, backwards-compatible but forward-looking genome database, EnteroBase—together with a set of web-based tools, to enable bacteriologists to identify, analyse, quantify and visualize genomic variation.
BY USING OUR SERVICE YOU ACCEPT THESE TERMS
See APPENDIX A
WE MAY MAKE CHANGES TO THESE TERMS
We amend these terms from time to time. Every time you wish to use our service, please check these terms to ensure you understand the terms that apply at that time.
WE MAY CHANGE, SUSPEND OR WITHDRAW OUR SERVICE
We may update and change our service from time to time.
We do not guarantee that our service, or any content on it, will always be available or be uninterrupted. We may suspend or withdraw or restrict the availability of all or any part of our service for business and operational reasons. We will try to give you reasonable notice of any suspension or withdrawal.
YOU MUST KEEP YOUR ACCOUNT DETAILS SAFE
If you choose, or you are provided with, a user identification code, password or any other piece of information as part of our security procedures, you must treat such information as confidential. You must not disclose it to any third party.
HOW YOU MAY USE MATERIAL ON OUR SERVICE
See APPENDIX A
You will use this service in a manner consistent with all applicable laws, legislation, rules and regulations. We are the owner or the licensee of all intellectual property rights in our service, and in the material published on it. Those works are protected by copyright laws and treaties around the world. All such rights are reserved. Our status (and that of any identified contributors) as the authors of content on our service must always be acknowledged.
You must not use any part of the content on our service for commercial purposes without obtaining a licence to do so from us and/or our licensors.
DO NOT RELY ON INFORMATION ON THIS SERVICE
The content on our service is provided for general information only. It is not intended to amount to advice on which you should rely. You must obtain professional or specialist advice before taking, or refraining from, any action on the basis of the content on our service.
Although we make reasonable efforts to update the information on our service, we make no representations, warranties or guarantees, whether express or implied, that the content on our service is accurate, complete or up to date. We are not responsible for the results of reliance on any such information.
WE ARE NOT RESPONSIBLE FOR WEB SERVICES WE LINK TO
The terms and conditions of any other web services that you link to through this service will also apply to the exclusion of all other terms and conditions including the present ones.
OUR RESPONSIBILITY FOR LOSS OR DAMAGE SUFFERED BY YOU
Whether you are a consumer or a business user:
- We do not exclude or limit in any way our liability to you where it would be unlawful to do so. This includes liability for death or personal injury caused by our negligence or the negligence of our employees, agents or subcontractors and for fraud or fraudulent misrepresentation.
- To the extent permitted by law, we do not warrant that use of this service will not infringe the rights of any other person or organisation, and we accept no responsibility or liability for any material communicated by you or any third parties via our service.
- Without limitation to any other of our terms, we will in no case be liable for damage to any device or digital content belonging to you that you could have avoided by following our advice to apply an update offered to you free of charge or for damage that was caused by you failing to correctly follow installation instructions or to have in place the minimum system requirements advised by us.
If you are a business user:
- We exclude all implied conditions, warranties, representations or other terms that may apply to our service or any content on it.
- We will not be liable to you for any loss or damage, whether in contract, tort (including negligence), breach of statutory duty, or otherwise, even if foreseeable, arising under or in connection with: use of, or inability to use, our service; or use of or reliance on any content displayed on our service.
- In particular, we will not be liable for: loss of profits, sales, business, or revenue; business interruption; loss of anticipated savings; loss of business opportunity, goodwill or reputation; or ** any indirect or consequential loss or damage.
Attention all users:
- This service is provided for academic use only. You agree not to use our service for any commercial or business purposes whatsoever, and we have no liability to you for any loss of profit, loss of business, business interruption, or loss of business opportunity.
POSTING MATERIAL ON OUR SERVICE
We do not intend to regularly monitor the use of our service or data transmitted to it. However, if we become aware that you are misusing our service, we reserve the right to take appropriate action, which may include excluding you and your affiliates from accessing our service and removing all data and materials that you may have transmitted.
WE ARE NOT RESPONSIBLE FOR VIRUSES AND YOU MUST NOT INTRODUCE THEM
We do not guarantee that our service will be secure or free from bugs or viruses. You are responsible for configuring your information technology, computer programmes and platform to access our service. You should use your own virus protection software.
You must not misuse our service by knowingly introducing viruses, trojans, worms, logic bombs or other material that is malicious or technologically harmful. You must not attempt to gain unauthorised access to our service, the server on which our service is stored or any server, computer or database connected to our service. You must not attack our service via a denial-of-service attack or a distributed denial-of service attack. By breaching this provision, you would commit a criminal offence under the Computer Misuse Act 1990. We will report any such breach to the relevant law enforcement authorities and we will co-operate with those authorities by disclosing your identity to them. In the event of such a breach, your right to use our service will cease immediately.
If you breach any of these terms, you agree to indemnify us for any losses, costs, expenses, fines or damages, including reasonable legal fees, incurred by or imposed upon us in relation to, or arising out of, such a breach.
VALIDITY OF THESE TERMS
If any part of these terms is declared invalid for any reason by a court of competent jurisdiction, this will not affect the validity of any remaining part of the terms. Any such remaining part will remain in full force and effect as if the invalid part of the terms had been eliminated.
OTHER IMPORTANT TERMS
We are the Achtman Lab of Warwick Medical School, which is a department within the University of Warwick whose administrative offices are at University House, Kirby Corner Road, Coventry, CV4 8UW.
We want to protect the privacy of all visitors to our webs services and of all of our customers, and this policy will help you to understand how we use your personal data.
This policy and (any other documents referred to on it) sets out the basis on which any personal data we collect from you, or that you provide to us, will be processed by us. Please read the following carefully to understand our views and practices regarding your personal data and how we will treat it.
INFORMATION WE COLLECT
Information you give us. You may provide us with personal information such as your name and contact details when you fill in a form on our service or when you correspond with us by phone, e-mail or otherwise. This is done to enable us to provide our products and services to you, for example in order for you to create an account, purchase credits, place an order, make an enquiry, or report a problem.
Information automatically collected when visiting the web service. We may also collect information about your computer, including where available your IP address, operating system and browser type, and information about your visit (such as clickstream to and from our service and pages viewed) for system administration and to report aggregate information to our webmasters. This is statistical data about our users' browsing actions and patterns which does not identify any individual and allows us to ensure that content from our service is presented in the most effective manner for you and for your computer.
A cookie is a small piece of data or message that is sent from a web server to your browser and stored on the hard drive of your computer. Cookies may make it easier for you to log on to and use this web service in future. They allow us to monitor web service traffic and to personalise the content of this service for our visitors.
We use the following cookies:
- Strictly necessary cookies. These are cookies that are essential in order to enable you to move around the web service and use its features, such as accessing secure areas of the web service.
- Analytical/performance cookies. They allow us to recognise and count the number of visitors and to see how visitors move around our web service when they are using it. All information these cookies collect is aggregated and therefore anonymous. This helps us to improve the way our web service works, for example, by ensuring that users are finding what they are looking for easily.
- Functionality cookies. These are used to recognise you when you return to our web service and to remember choices you make and provide enhanced, more personal features. Most web browsers allow some control of most cookies through the browser settings. To find out more about cookies, including how to see what cookies have been set and how to manage and delete them, please visit www.allaboutcookies.org.
To opt out of being tracked by Google Analytics across all web services visit http://tools.google.com/dlpage/gaoptout.
However, if you disable or decline cookies, some features will not be available to you or function properly and you may not be able to access some parts of the web service.
USES MADE OF THE INFORMATION
We use and analyse information held about you in the following ways:
- to provide you with access to relevant parts of our web service;
- to supply you with the information, products and services that you request from us;
- as part of our efforts to keep our service safe and secure;
- to administer, support, improve and develop our service, products and services; in particular, we may use your personal data to contact you for your views on our products and services and to notify you occasionally about changes or developments to our web service, products or services;
We may contact you by e-mail or by post to ask for feedback on how you use our service, but you may stop receiving these types of communications from us at any time by contacting us at M.J.Sergeant@warwick.ac.uk.
WHEN WE SHARE YOUR INFORMATION
We do not sell your personal information to third parties.
We share your information within the University of Warwick. We may also share your information with our affiliates, our business partners, our agents, our distributors, our suppliers, and our sub-contractors that assist us in making our web service and/or the products and services on our web service available to you. This includes, without limitation, analytics and search engine providers that assist us in the improvement and optimisation of our service.
If we believe that your use of our web service is unlawful or damaging to others, we reserve the right to disclose the information we have obtained through our web service about you to third parties to the extent that it is reasonably necessary in our opinion to prevent, remedy or take action in relation to such conduct.
We may also disclose or share your personal data in order to comply with any legal obligation; in order to enforce or apply any agreements or licences with you; or to protect the rights, property, or safety of the University of Warwick, our employees, affiliates, agents, distributors, licensors, suppliers, business partners, sub-contractors, and/or our customers. This includes exchanging information with other companies and organisations for the purposes of fraud protection and credit risk reduction.
If any part of our business (including those of our affiliates) is sold or integrated with another business, your details may be disclosed to our advisers and any prospective purchasers and their advisers.
WHERE WE STORE YOUR PERSONAL DATA
Information which you provide to us will ordinarily be stored on our secure servers. However, we do work with third party contractors, some of whom host and operate certain features of the web service. Accordingly, information that we collect from you may be collected in or transferred to a destination outside the European Economic Area ("EEA").
That information may be processed by staff operating outside the EEA who work for us or for one of our contractors. Bear in mind that countries outside the EEA do not always have strong data protection laws. By submitting your personal data, you agree to this transfer, storing and processing. We will take all steps reasonably necessary to ensure that your data is treated securely and in accordance with the Data Protection Act 1998 and this policy.
We may disclose your personal information to third parties if we are under a duty to disclose or share such information in order to comply with any legal obligation or to protect the rights, property or safety of the University of Warwick, its members or others.
Unfortunately, no data transmission over the internet is completely secure. We therefore cannot guarantee the security of your data transmitted to our service, and any transmission is at your own risk. However, once we have received your information, we will use strict procedures and security features to try to prevent unauthorised access, unlawful processing, accidental loss, destruction and damage.
Where we have given you (or where you have chosen) a password which enables you to access certain parts of our service, you are responsible for keeping this password confidential. We ask you not to share a password with anyone.
You have the right to ask us not to process your personal data for marketing purposes. We will usually inform you (before collecting your data) if we intend to use your data for such purposes or if we intend to disclose your information to any third party for such purposes. You can exercise your right to prevent such processing at any time by contacting us at M.J.Sergeant@warwick.ac.uk.
Our service may, from time to time, contain links to and from other web services, for instance our third party data providers. If you follow a link to any of these web services, please note that these web services have their own privacy policies and that we do not accept any responsibility or liability for their policies. Please check their policies before you submit any personal data to those web services.
ACCESS TO INFORMATION
Individuals have certain rights of access to their personal data, including the rights to see the personal data held about them and to ask that necessary changes are made to ensure that those data are accurate and up to date. If you wish to do this, please contact: M.J.Sergeant@warwick.ac.uk. The law allows us to charge a small fee to meet our costs in providing you with details of your personal data that we hold.
+44 2476151921 or by writing to us at M.J.Sergeant@warwick.ac.uk
Enterobase Users can do the following with no restrictions (public domain):
- Use, download and redistribute Achtman - 7 gene MLST schemes for Salmonella, Escherichia/Shigella, the Yersiniae and Moraxella.
Enterobase Users can do the following for academic use only:
- Search and download strain records and analysis results including strain metadata, genotyping and serotyping results, genome annotation and other analyses provided by EnteroBase
- Perform analyses on subsets of the database within the website and export these results.
- View and download rMLST genotyping results for strains within EnteroBase
- Upload sequencing data to be analysed by Enterobase's suite of tools.
- Use cgMLST schemes developed by the EnteroBase developers, Users can also export these data for offline analysis and presentation.
Usage outside of academic use will require explicit licensing from University of Warwick. Contact email@example.com
Enterobase Users agree to the following if/when they upload their data to us:
- EnteroBase will inspect user uploaded sequencing data, process it, and call a number of analyses - all results will be available to the data submitter.
- EnteroBase reserves the right to automatically run and present results of new analyses implemented on the website (subsequent to data submitters submission), without notifying the user.
- derivative analyses results will be made available to other users as soon as they are completed - this includes, serotyping and genotyping results.
- the genome assembly will be available to data submitter only for a period of 6 - 12 months, after which it will be made publicly available.
- the raw sequencing data will not be available through EnteroBase to any other user, but will be stored for running new analyses or for verification of past ones.
Enterobase Users CANNOT:
- Download, use or redistribute rMLST data, either allelic profiles or allele sequences. These are copyrighted by University of Oxford. Please contact them for licencing.
- Modify and redistribute data or analyses from EnteroBase without clearly attributing the original source as EnteroBase, and stating the modifications they have made.
- Reverse engineering and Reproducing EnteroBase-like database copies without explicit licencing
- EnteroBase Users may be surveyed on their use of EnteroBase to promote and improve the service
- If you use data generated by 3rd party tools in EnteroBase, please cite both EnteroBase and the paper describing the specific tool:
- rMLST is Copyright © 2010-2016, University of Oxford. rMLST is described in: Jolley et al. 2012 Microbiology 158:1005-15.
- Serovar predictions (SISTR) have been calculated using the pipeline developed by the SISTR team and is described in Yoshida et al. 2016 PLoS ONE 11(1): e0147101.
- EnteroBase retrieves data from public databases and is reviewed by EnteroBase users who act as independent curators. We offer no guarantee of accuracy or consistency with the metadata presented in EnteroBase.
- EnteroBase aims to serve genomic data to improve access to the scientific community. We hope that this will lead to collaborations between data submitters and 3rd parties. However data remains property of the data submitter (not with EnteroBase), and use of data beyond what EnteroBase displays should be checked with the original institution who submitted the data. This includes reproduction and derivative works, such as analysis, publication in scientific journals or online in web blogs.
NCBI data policy, from where we fetch most of the data: