| previous version at arrest.tools/interrogate-previous | stable version at arrest.tools/interrogate | latest version at arrest.tools/interrogate-latest |

ARResT/Interrogate is currently in transition to a BaseSpace Sequence Hub while retaining functionalities of the software. The ARResT/Interrogate bioinformatic software will still be operable for EuroClonality and EuroMRD members that currently use ARResT/Interrogate for their research. New clients can express their interest for the use of ARResT/Interrogate to: info@euroclonality.org. These new clients will be informed as soon as the ARResT @BSSH is available.

In ARResT/Interrogate [arrest.tools/interrogate], we put together a bioinformatics platform with features and functionalities for wide-ranging immunoprofiling. It can process and annotate raw sequencing data for multiple types of IG/TR rearrangements, store and retrieve results and reports, enable multiple queries on data and metadata, visualise, provide access to full sequences and enable their detailed analysis - under one interactive web browser-based interface.

It is the result of collaborative efforts within the EuroClonality-NGS Working Group [euroclonalityngs.org] of ESLHO [eslho.org], focused on developing, standardizing and validating in vitro assays and bioinformatics for IG/TR NGS analysis towards a wide variety of applications, many with their own needs: basic research, technology development,, diagnostic and clinical, MRD and clonality assessment and monitoring, repertoire studies. More on activities and protocols in the ‘EuroClonality’ tab.

The user interface is organised in ‘panels’ and ‘tabs’ (e.g. you’re now in panel ‘HQ’, tab ‘intro’). Most of the documentation exists as hover-over tooltips under ?s and messages across the platform. It’s highly advisable to click around after loading the ‘demo’ (blue button in ‘file’ panel), incl. after switching to the ‘advanced’ user mode (top left).

In case of trouble, email us with as many details as possible, what you were doing and if the issue persisted after a fresh start

- screenshots are invaluable, even if the app has crashed and is grayed out - use any tool you like, for example mrcoles.com/full-page-screen-capture-chrome-extension

Be aware that slow/firewalled networks and computers might affect stability and performance - try alternatives, talk to your IT, and/or email us for advice and help.

The ARResT team,

contact@arrest.tools

The ARResT/Interrogate Software was developed by the EuroClonality Consortium. The EuroClonality Consortium is a scientific network in which universities and academic research institutes perform collaborative research in the field of immunoglobulin and T-cell receptor gene rearrangements for different applications. The ARResT/Interrogate Software was created as a tool for analysis of immunoglobulin and T-cell receptor gene rearrangements, for scientific research and educational purposes.

The EuroClonality Foundation was established as a legal entity that can act on behalf of all participants of the EuroClonality Consortium. This foundation is registered with the Netherlands Chamber of Commerce (No. 69300232) and is managed by the Board of the EuroClonality Consortium. All participants of the Consortium have authorized the EuroClonality Foundation to act on their behalf in matters concerning the Consortium and more specifically regarding the contracting with third-parties on behalf of the Consortium and the management of intellectual property rights developed within the Consortium.

The ARResT/Interrogate Software can be used free of charge by academic users and non-profit organizations. Users from the private sector need a commercial license from the EuroClonality Foundation by contacting info@euroclonality.org.

Research Use Only

The ARResT/Interrogate Software has a Research Use Only or similar labeling statement. The use is limited to scientific research, assay development and non-clinical product evaluation purposes. The user acknowledges that the ARResT/Interrogate Software must not be used for diagnostic, prognostic or therapeutic purposes.

For the avoidance of doubt it is agreed by user, that EuroClonality Foundation and participants of EuroClonality Consortium will not be responsible or liable for any losses, costs, expenses, or any other forms of liability arising out of the unauthorized or unlicensed use of ARResT/Interrogate Software. By using the ARResT/Interrogate Software for any purpose, users agree to indemnify and hold EuroClonality Foundation and EuroClonality Consortium participants harmless for any and all damages and/or liability, however characterized, related to the unauthorized or unlicensed use of the ARResT/Interrogate Software. Under no circumstances shall EuroClonality Foundation or the members of the EuroClonality Consortium be liable for any consequential damages resulting from any use (approved or otherwise) of the ARResT/Interrogate Software.

Liability

The ARResT/Interrogate Software was developed by the EuroClonality Consortium during the performance of scientific research. It is the conviction of both the EuroClonality Consortium and the EuroClonality Foundation that the software is useful for the analysis of immunoglobulin and T-cell receptor rearrangements for different applications. HOWEVER documents and software regarding the ARResT/Interrogate Software are provided “AS IS”, without any warranty for purpose of any kind. The EuroClonality Foundation provides the software in good faith but does not warrant or assume any legal liability or responsibility for the accuracy, completeness, or usefulness of any information, apparatus, product, or process disclosed or for any damage that may be caused by the use of the software.

Warranty disclaimer

No responsibility is assumed by the participants of the EuroClonality Consortium and the EuroClonality Foundation for any injury and/or damage to persons or property as a matter of products liability, negligence or otherwise, or from any use of operation of any methods, products, instructions or ideas contained in the ARResT/Interrogate Software.

The user is responsible for the integrity and availability, including preventing the loss of data that the user generates, uses, analyzes, manages, or stores in connection with or through use of the ARResT/Interrogate Software, including implementing appropriate policies and procedures regarding the provision of access to and use of the generated data, conducting routine backups and archiving of data. The participants of the EuroClonality Consortium and the EuroClonality Foundation have no liability to the users in connection with inability to access, loss or corruption of data.

The user may not make, have made, import, use, copy, reproduce, distribute, display, publish, sell, re-sell, lease, or sub-license the ARResT/Interrogate Software, in whole or in part. The user may not modify, improve, translate, reverse engineer, decompile, disassemble, or create derivative works of the ARResT/Interrogate Software or otherwise attempt to (a) defeat, avoid, by-pass, remove, deactivate, or otherwise circumvent any software protection mechanisms in the ARResT/Interrogate Software including, without limitation, any such mechanism used to restrict or control the functionality of the ARResT/Interrogate Software, or (b) derive the source code or the underlying ideas, algorithms, structure, or organization form of the ARResT/Interrogate Software.

Links from ARResT/Interrogate Software to third-party sites do not constitute an endorsement by the participants of the EuroClonality Consortium or EuroClonality Foundation of the said third-parties or their products and services.

Advertisement policy

The name of ARResT/Interrogate Software should not be associated with publicity or business promotion without prior written approval of EuroClonality Foundation. Our website does not host any form of advertisement.

External links

ARResT/Interrogate Software may provide links to other Internet sites for the convenience of users. Neither the participants of the EuroClonality Consortium nor EuroClonality Foundation are however responsible for the availability or content of these external sites. Neither the participants of the EuroClonality Consortium nor EuroClonality Foundation accept any liability for the quality or purpose of products, services, or information described or offered at these other Internet sites.

Institutional data

Access to ARResT/Interrogate Software requires the user to register with institutional data. By accepting these Terms of Use, the user grants permission for the registration and use of such data for the purpose of checking the user’s identity and for internal statistical purposes only. This information (in aggregated or other non-personally identifiable form(s)) will not be shared with any third-parties. These data are accessible to the ARResT/Interrogate administration only.

March 2024, by the Board of the EuroClonality Foundation