RNA-seq Samples of the Three-Dimensional Epigenome Roadmap of Human B-cell Differentiation

INSTRUCTIONS FOR APPLICANTS Thank you for your interest in accessing the controlled-access datasets generated by the Javierre Lab at the Josep Carreras Leukaemia Research Institute (IJC). To apply for access, please submit: 1.A brief research proposal (max. one page) outlining: a.scientific objectives b.planned analyses c.data protection and security arrangements 2.A signed copy of the IJC–Javierre Lab Data Access Agreement (DAA). Please send the documents to: bmjavierre@carrerasresearch.org. Your request will be reviewed by the IJC–Javierre Lab Data Access Committee (DAC). Who must sign the DAA? For and on behalf of the User, the following individuals MUST sign: - All immediate users of the data, and - The Principal Investigator / Lab Head supervising the project. For and on behalf of the User Institution: - An authorised institutional representative. Institutional stamp or seal is welcome where available. For any questions: bmjavierre@carrerasresearch.org DATA ACCESS AGREEMENT This Agreement governs the conditions under which controlled-access human genomic data generated by the Javierre Lab at the Josep Carreras Leukaemia Research Institute (IJC) may be accessed and used. Access is conditional on approval by the IJC Data Access Committee (DAC) and full compliance with this Agreement by both the User and the User Institution. 1. Definitions - IJC: The Institut de Recerca contra la Leucèmia Josep Carreras, a public biomedical research institute specializing in haematological malignancies. - Javierre Lab: The research group led by Dr. Biola M. Javierre at the IJC, responsible for generating the datasets made available in EGA. - DAC: The IJC–Javierre Lab Data Access Committee mandated by the IJC to evaluate requests and grant or deny access. - EGA: The European Genome-phenome Archive, operated by EMBL-EBI and CRG, providing long-term archival and controlled access to human personal data. - Data: Any controlled-access human genomic, epigenomic, transcriptomic, or associated metadata generated by the Javierre Lab and deposited in the EGA. - User: The researcher(s) approved by the DAC to access the Data. - User Institution: The legal entity employing or affiliating the User, responsible for ensuring compliance. - Data Subject: The individual who contributed biological material and underwent informed consent. - Approved Purpose: The specific research project submitted in the DAC application. 2. Conditions of Use 2.1 Purpose limitation The Data may be used only for the Approved Purpose and only within the boundaries of the consent under which samples were collected at the IJC. Any new purpose, including: - additional analyses, - integration with new cohorts, - machine learning model training, requires new DAC approval. 2.2 Prohibition of re-identification Users shall NOT: - attempt to identify or re-identify any Data Subject, - link the Data with other datasets without explicit DAC approval, - use analytic techniques whose objective or risk profile includes re-identification. 2.3 Confidentiality Users must keep all Data confidential and must NOT: - share Data with collaborators outside their institution, - distribute Data internally to unlisted personnel, - upload Data to public platforms, cloud storage, or code repositories. A collaborator at another institution must apply separately. 3. Security Requirements 3.1 Technical safeguards The User Institution must ensure: - secure institutional servers or approved GDPR-compliant cloud infrastructure, - encryption at rest and in transit, - multi-factor authentication, - no storage on personal devices or personal cloud accounts, - no upload to AI tools (including model-training systems). 3.2 Organisational safeguards - Access restricted to individuals named in the application - Logging of data access and processing activities - Immediate revocation when users leave the institution 3.3 International data transfers Data may NOT be transferred outside the EEA unless: - the destination has an EU adequacy decision or - SCCs + DPIA exist, and DAC approval is granted. 4. Intellectual Property - All rights over the Data remain with the IJC. - Users may generate new intellectual property based on their analyses, but NOT based on the Data itself. - The Data must not be duplicated except for computational purposes directly required for the Approved Purpose. 5. Data Retention and Destruction - Data may be retained only for the duration of the Approved Purpose. - Within 30 days of completion or termination, the User shall delete all Data. - A Data Destruction Declaration must be sent to the DAC. - The DAC may request logs or audits. 6. Updates or Donor Withdrawal If required due to: - Data Subject withdrawal, - ethics committee requirements, - correction to source datasets, the User must delete outdated versions upon DAC request. 7. Publications Policy Users must: - Include the following acknowledgement: “This study makes use of controlled-access data generated by the Javierre Lab at the Josep Carreras Leukaemia Research Institute (IJC) and deposited in the European Genome-phenome Archive (EGA).” - Cite the primary dataset publications provided upon access approval. - Notify the DAC of publications, preprints, or scientific outputs derived from the Data. 8. Breach and Termination - Any breach leads to immediate termination of access. - The User must immediately destroy all Data. - The IJC may notify the User Institution, EGA, and relevant funders or authorities. 9. Amendments The DAC may update this Agreement to align with regulatory or institutional requirements. Continued Data use depends on acceptance of updated terms. 10. Signatures For and on behalf of the User Name: Position: Signature: Date: For and on behalf of the User Institution Name: Position: Institution: Signature: Date: WHEN SUBMITTING THIS DOCUMENT, PLEASE INCLUDE ALL PAGES OF THE AGREEMENT WITH THIS SIGNATURE PAGE