Need Help?

RNAseq of human intestinal epithelial cell layers cultured in OGM, ENR, and ENRRT

This dataset contains RNA sequencing data in fastq and bam format from 24 samples of human jejunum organoids grown in 3D configuration or as 2D monolayers on anodisc imaging chambers (AICs) in medium formulations OGM, ENR, and ENRRT. The RNA sequencing samples were sequenced using paired-end sequencing (2x150 bp) on an Illumina NovaSeq 6000 instrument at the SciLifeLab National Genomics Infrastructure (NGI) in Uppsala.

Request Access

Uppsala University Data Access Agreement

Uppsala University FEGA Access guide Requests for data Requests for access to these data will be assessed based on Swedish laws and regulations. Requests must include an explicit acceptance of the conditions stated below and information about the following aspects: - The requester must attach an approval from an ethics committee or equivalent body that allows the data to be handled in accordance to the laws and ethical guidelines in the receiving country. - For researchers in the European Union – specify the legal basis according to GDPR to use the data. - Information about how the data will be stored and managed with regards to information security procedures. Requests for data are only accepted if the recipient adheres to the following conditions: Purpose - The recipient agrees to use data only for research. Confidentiality -The recipient agrees to preserve, at all times, the confidentiality of data pertaining to identifiable data subjects. Data protection - Recipients in EU agrees that it, and its registered users, are covered by and shall comply with the obligations contained in the General Data Protection Regulation (EU) 2016/679 ("GDPR"). Upon receipt of the data, the recipient will become controller of the personal data as defined in the GDPR. Recipients outside EU shall comply with relevant national laws concerning the protection of personal data. Uppsala University reserves the right to request and inspect data security and management documentation to ensure the adequacy of data protection measures. The recipient agrees that it, and its registered users, shall not analyse or make any use of the data in such a way that has the potential to: (a) lead to the identification of any data subject; or (b) compromise the protected identity of any data subject in any way. Access and Governance - The recipient agrees that it shall take all reasonable security precautions to keep the data confidential. The recipient agrees to, under no circumstances, give access to data to any third party, except to registered users (as described below). The recipient agrees to only give access to data, in whole or part, or any identifiable material derived from the data, to a registered user. The recipient agrees that before it gives any registered user access to data, it shall first inform about the conditions stated in this text and that he or she must comply with the obligations. The recipient shall only give registered users that are not researchers (including but not limited to students or new researchers to the field) access to the data if they are supervised by a researcher who will take responsibility for such registered users’ use of the data. The recipient must make sure that: - Data is processed in a way that ensures the confidentiality and integrity of the data. - Analysis and storage of the data must be performed in a secure environment that ensures that only registered users have access to the data. - Transfer of data must be done through encrypted channels. - There are standard operating routines that ensure that registered users handle the data in accordance with information security and legal requirements. - In the case of a personal data breach, the recipient must immediately inform Uppsala University, and the appropriate national data protection authority, of such an incident. Errors - The recipient must notify the Uppsala University of any errors detected in the data. Acknowledgement of data use - The recipient agrees to acknowledge the creators and source of the data in any work based in whole or part on the Data. Definitions: “Research” shall mean research that is seeking to advance the understanding of the research purpose stated in the ethics approval or equivalent document. “Registered User” shall mean a researcher (or an individual conducting research under the supervision of a researcher) that is employed by the recipient and is bound by confidentiality and has been informed of the conditions stated above. For the avoidance of doubt, “Registered User” may also include students, visiting academics, contractors, sub-contractors or independent consultants provided that any such individual is bound by confidentiality and non-use obligations no less onerous than those binding the recipient’s employees.

Studies are experimental investigations of a particular phenomenon, e.g., case-control studies on a particular trait or cancer research projects reporting matching cancer normal genomes from patients.

Study ID Study Title Study Type
EGAS50000001241 Transcriptome Sequencing

This table displays only public information pertaining to the files in the dataset. If you wish to access this dataset, please submit a request. If you already have access to these data files, please consult the download documentation.

ID File Type Size Quality Report
Located in
EGAF50000426755 fastq.gz 8.6 GB
EGAF50000426756 fastq.gz 9.0 GB
EGAF50000426757 fastq.gz 9.4 GB
EGAF50000426758 fastq.gz 9.9 GB
EGAF50000426759 fastq.gz 7.9 GB
EGAF50000426760 fastq.gz 8.3 GB
EGAF50000426761 fastq.gz 10.0 GB
EGAF50000426762 fastq.gz 10.8 GB
EGAF50000426763 fastq.gz 7.7 GB
EGAF50000426764 fastq.gz 8.2 GB
EGAF50000426765 fastq.gz 9.6 GB
EGAF50000426766 fastq.gz 10.1 GB
EGAF50000426767 fastq.gz 8.3 GB
EGAF50000426768 fastq.gz 8.9 GB
EGAF50000426769 fastq.gz 8.8 GB
EGAF50000426770 fastq.gz 8.3 GB
EGAF50000426771 fastq.gz 8.5 GB
EGAF50000426772 fastq.gz 8.0 GB
EGAF50000426773 fastq.gz 7.5 GB
EGAF50000426774 fastq.gz 7.9 GB
EGAF50000426775 fastq.gz 8.2 GB
EGAF50000426776 fastq.gz 8.5 GB
EGAF50000426777 fastq.gz 6.9 GB
EGAF50000426778 fastq.gz 7.3 GB
EGAF50000426779 fastq.gz 8.5 GB
EGAF50000426780 fastq.gz 8.3 GB
EGAF50000426781 fastq.gz 9.6 GB
EGAF50000426782 fastq.gz 10.1 GB
EGAF50000426783 fastq.gz 7.1 GB
EGAF50000426784 fastq.gz 7.5 GB
EGAF50000426785 fastq.gz 8.6 GB
EGAF50000426786 fastq.gz 9.2 GB
EGAF50000426787 fastq.gz 8.7 GB
EGAF50000426788 fastq.gz 9.4 GB
EGAF50000426789 fastq.gz 6.5 GB
EGAF50000426790 fastq.gz 6.8 GB
EGAF50000426791 fastq.gz 12.2 GB
EGAF50000426792 fastq.gz 13.0 GB
EGAF50000426793 fastq.gz 9.8 GB
EGAF50000426794 fastq.gz 10.4 GB
EGAF50000426795 fastq.gz 8.7 GB
EGAF50000426796 fastq.gz 9.2 GB
EGAF50000426797 fastq.gz 6.9 GB
EGAF50000426798 fastq.gz 6.6 GB
EGAF50000426799 fastq.gz 6.9 GB
EGAF50000426800 fastq.gz 7.7 GB
EGAF50000426801 fastq.gz 7.0 GB
EGAF50000426802 fastq.gz 7.4 GB
EGAF50000426803 bam 35.3 GB
EGAF50000426804 bam 23.8 GB
EGAF50000426805 txt 36.2 MB
EGAF50000426806 bam 14.7 GB
EGAF50000426807 txt 36.2 MB
EGAF50000426808 bam 11.1 GB
EGAF50000426809 txt 36.2 MB
EGAF50000426810 bam 33.4 GB
EGAF50000426811 bam 34.8 GB
EGAF50000426812 bam 33.3 GB
EGAF50000426813 txt 36.2 MB
EGAF50000426814 bam 39.6 GB
EGAF50000426815 txt 36.2 MB
EGAF50000426816 bam 29.8 GB
EGAF50000426817 txt 36.2 MB
EGAF50000426818 bam 32.4 GB
EGAF50000426819 txt 36.2 MB
EGAF50000426820 bam 14.1 GB
EGAF50000426821 txt 36.2 MB
EGAF50000426822 txt 36.2 MB
EGAF50000426823 bam 42.5 GB
EGAF50000426824 txt 36.2 MB
EGAF50000426825 bam 26.3 GB
EGAF50000426826 txt 36.2 MB
EGAF50000426827 txt 36.2 MB
EGAF50000426828 txt 36.2 MB
EGAF50000426829 bam 13.6 GB
EGAF50000426830 bam 33.2 GB
EGAF50000426831 txt 36.2 MB
EGAF50000426832 bam 33.3 GB
EGAF50000426833 txt 36.2 MB
EGAF50000426834 txt 36.2 MB
EGAF50000426835 txt 36.2 MB
EGAF50000426836 bam 34.9 GB
EGAF50000426837 bam 38.1 GB
EGAF50000426838 txt 36.2 MB
EGAF50000426839 bam 30.6 GB
EGAF50000426840 bam 30.3 GB
EGAF50000426841 txt 36.2 MB
EGAF50000426842 bam 15.0 GB
EGAF50000426843 txt 36.2 MB
EGAF50000426844 txt 36.2 MB
EGAF50000426845 bam 14.4 GB
EGAF50000426846 txt 36.2 MB
EGAF50000426847 txt 36.2 MB
EGAF50000426848 bam 30.8 GB
EGAF50000426849 txt 36.2 MB
EGAF50000426850 bam 34.4 GB
96 Files (1.1 TB)