Effects of Metformin on Transcriptomic and Metabolomic Profiles in Breast Cancer Survivors Enrolled in the Randomized Placebo-Controlled MetBreCS Trial
RNA from snap-frozen breast tissue biopsies were purified after lysing by tissuelyser (Qiagen) and using RNA Purification Plus Kit (Norgen biotek CORP, 47700) with additional on-column DNase-I treatment (Qiagen, 79254) at 27 °C. RNA purity and integrity (RIN) were quantified using RNA 6000 Nano kit (Agilent Technologies, 5067-1511) on the 4200 TapeStation (Agilent, Santa Clara, USA). Library preparation and 2x75bp paired-end of 160 ng total RNA input was performed using Illumina Stranded Total RNA Prep Ligation kit and Illumina HiSeq4000 system (Illumina, Sand Diego, CA, USA). RNA sequencing data from HiSeq4000 were quality checked and aligned to GRCh38 (GCA_000001405.15) reference genome using HISAT2 2.0.5 and submitted to subread v.1.5.2 for feature counts calculation. Finally, 36 paired biopsies samples (metformin n=26 and placebo n=12) were sequenced and included in the final analyses.
- 21/02/2025
- 72 samples
- DAC: EGAC50000000523
- Technology: Illumina HiSeq 4000
- HMB DUO:0000006 (version: 2021-02-23)health or medical or biomedical researchThis data use permission indicates that use is allowed for health/medical/biomedical purposes; does not include the study of population origins or ancestry.
- COL DUO:0000020 (version: 2021-02-23)collaboration requiredThis data use modifier indicates that the requestor must agree to collaboration with the primary study investigator(s).
- IRB DUO:0000021 (version: 2021-02-23)ethics approval requiredThis data use modifier indicates that the requestor must provide documentation of local IRB/ERB approval.
- TS DUO:0000025 (version: 2021-02-23)time limit on useThis data use modifier indicates that use is approved for a specific number of months.
- PS DUO:0000027 (version: 2021-02-23)project specific restrictionThis data use modifier indicates that use is limited to use within an approved project.
- IS DUO:0000028 (version: 2021-02-23)institution specific restrictionThis data use modifier indicates that use is limited to use within an approved institution.
Helse Bergen HF Data Access Policy for the MetBreCS trial dataset submitted to Federated EGA Norway
1. Data Access Committee A Data Access Committee (DAC) is a body of one or more named individuals who are responsible for data release to external requesters based on consent and/or National Research Ethics terms. Each dataset submitted by Helse Bergen HF for archival and controlled access sharing in Federated EGA Norway, has a DAC appointed by Helse Bergen HF to govern controlled access to the dataset according to this Data Access Policy. Multiple datasets may be affiliated to a single DAC. Helse Bergen HF as an institution has the overall data controller responsibility, and will appoint a DAC based on proper internal procedures that ensures involvement of institutional functions such as Data Protection Officer, legal control, etc. 2. Data use conditions To advise any would-be requester on how the data can be used, Data Use Ontology codes (DUO) is associated to each dataset, providing the requester more insights into which terms for sharing and use of the data that applies, and that needs to be addressed as part of the communication with the DAC in a data access request. No access to an Helse Bergen HF dataset deposited in FEGA Norway can be granted to a requester before all applicable conditions and requirements for the use and management of the data have been agreed upon in a signed Data Access Agreement. 3. Data Access Agreement The Data Access Agreement (DAA) will include requirements specific for both the dataset and the management of the data in the hands of the requester applying for access, and will thus be an individual DAA for each case of granted access to a dataset. As a rule, a DAA for an Helse Bergen HF dataset will take the form of a Data Transfer Agreement, where the requester will commit to take on responsibilities and duties as a data controller. A template for a GDPR compliant DAA between Helse Bergen HF and a data requester within the area of applicability of GDPR (European Economic Area) can be found here. For sharing of an Helse Bergen HF dataset from FEGA Norway to a location outside the area of applicability of GDPR, such as the United States, Canada, etc, a standard DAA template is not yet available. 4. Processing of requests for access The overall data access approval process at Helse Bergen HF can be summarised as follows: ● DAC for an Helse Bergen HF dataset is contacted by a potential data requester ● DAC continues communication with requester to understand the purpose of use, i.e. research setting the dataset is envisioned for by requester, to identify if data sharing is possible directly under current conditions for the dataset, or actions such as re-consenting is needed and desirable to accommodate the proposed research setting/data use. ● A Data Access Agreement is jointly formulated and agreed upon, with the DAC following internal Helse Bergen HF procedure to include the Data Protection Officer and Division for research support. ● When a completed DAA has been signed between the parties, and archived at Helse Bergen HF, the DAC will instruct the FEGA Norway node to release the data to the requester.
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 |
|---|---|---|
| EGAS50000000874 | Transcriptome Analysis |
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 | Located in | |
|---|---|---|---|---|
| EGAF50000275734 | fastq.gz | 6.3 GB | ||
| EGAF50000275735 | fastq.gz | 7.1 GB | ||
| EGAF50000275736 | fastq.gz | 5.6 GB | ||
| EGAF50000275737 | fastq.gz | 6.1 GB | ||
| EGAF50000275738 | fastq.gz | 5.6 GB | ||
| EGAF50000275739 | fastq.gz | 6.4 GB | ||
| EGAF50000275740 | fastq.gz | 6.6 GB | ||
| EGAF50000275741 | fastq.gz | 7.5 GB | ||
| EGAF50000275742 | fastq.gz | 5.8 GB | ||
| EGAF50000275743 | fastq.gz | 6.4 GB | ||
| EGAF50000275744 | fastq.gz | 5.4 GB | ||
| EGAF50000275745 | fastq.gz | 5.9 GB | ||
| EGAF50000275915 | fastq.gz | 4.8 GB | ||
| EGAF50000275916 | fastq.gz | 5.4 GB | ||
| EGAF50000275917 | fastq.gz | 4.1 GB | ||
| EGAF50000275918 | fastq.gz | 5.5 GB | ||
| EGAF50000275919 | fastq.gz | 4.7 GB | ||
| EGAF50000275920 | fastq.gz | 5.1 GB | ||
| EGAF50000275921 | fastq.gz | 6.5 GB | ||
| EGAF50000275922 | fastq.gz | 7.2 GB | ||
| EGAF50000275923 | fastq.gz | 5.1 GB | ||
| EGAF50000275924 | fastq.gz | 5.6 GB | ||
| EGAF50000275925 | fastq.gz | 5.6 GB | ||
| EGAF50000275926 | fastq.gz | 6.2 GB | ||
| EGAF50000275927 | fastq.gz | 4.9 GB | ||
| EGAF50000275928 | fastq.gz | 5.4 GB | ||
| EGAF50000275929 | fastq.gz | 5.6 GB | ||
| EGAF50000275930 | fastq.gz | 6.3 GB | ||
| EGAF50000275931 | fastq.gz | 6.2 GB | ||
| EGAF50000275932 | fastq.gz | 5.6 GB | ||
| EGAF50000275933 | fastq.gz | 6.1 GB | ||
| EGAF50000275934 | fastq.gz | 4.5 GB | ||
| EGAF50000275935 | fastq.gz | 4.3 GB | ||
| EGAF50000275936 | fastq.gz | 4.6 GB | ||
| EGAF50000275937 | fastq.gz | 4.1 GB | ||
| EGAF50000275938 | fastq.gz | 4.2 GB | ||
| EGAF50000275939 | fastq.gz | 5.8 GB | ||
| EGAF50000275940 | fastq.gz | 4.4 GB | ||
| EGAF50000275941 | fastq.gz | 5.4 GB | ||
| EGAF50000275942 | fastq.gz | 6.3 GB | ||
| EGAF50000275943 | fastq.gz | 6.0 GB | ||
| EGAF50000275944 | fastq.gz | 5.5 GB | ||
| EGAF50000275945 | fastq.gz | 5.4 GB | ||
| EGAF50000275946 | fastq.gz | 5.2 GB | ||
| EGAF50000275948 | fastq.gz | 6.0 GB | ||
| EGAF50000275949 | fastq.gz | 5.9 GB | ||
| EGAF50000275996 | fastq.gz | 5.8 GB | ||
| EGAF50000275997 | fastq.gz | 5.0 GB | ||
| EGAF50000275998 | fastq.gz | 5.6 GB | ||
| EGAF50000275999 | fastq.gz | 4.2 GB | ||
| EGAF50000276000 | fastq.gz | 4.5 GB | ||
| EGAF50000276001 | fastq.gz | 4.7 GB | ||
| EGAF50000276002 | fastq.gz | 5.0 GB | ||
| EGAF50000276003 | fastq.gz | 5.7 GB | ||
| EGAF50000276639 | fastq.gz | 6.1 GB | ||
| EGAF50000276640 | fastq.gz | 5.6 GB | ||
| EGAF50000276641 | fastq.gz | 6.1 GB | ||
| EGAF50000276642 | fastq.gz | 4.7 GB | ||
| EGAF50000276643 | fastq.gz | 5.2 GB | ||
| EGAF50000276644 | fastq.gz | 4.2 GB | ||
| EGAF50000276645 | fastq.gz | 4.6 GB | ||
| EGAF50000276646 | fastq.gz | 5.8 GB | ||
| EGAF50000276647 | fastq.gz | 6.6 GB | ||
| EGAF50000276648 | fastq.gz | 6.1 GB | ||
| EGAF50000276649 | fastq.gz | 5.1 GB | ||
| EGAF50000276650 | fastq.gz | 5.8 GB | ||
| EGAF50000276651 | fastq.gz | 4.9 GB | ||
| EGAF50000276652 | fastq.gz | 6.8 GB | ||
| EGAF50000276653 | fastq.gz | 5.6 GB | ||
| EGAF50000276654 | fastq.gz | 5.6 GB | ||
| EGAF50000276655 | fastq.gz | 6.0 GB | ||
| EGAF50000276656 | fastq.gz | 6.7 GB | ||
| EGAF50000276657 | fastq.gz | 5.4 GB | ||
| EGAF50000276658 | fastq.gz | 5.7 GB | ||
| EGAF50000276659 | fastq.gz | 5.9 GB | ||
| EGAF50000276660 | fastq.gz | 6.3 GB | ||
| EGAF50000276661 | fastq.gz | 6.0 GB | ||
| EGAF50000276662 | fastq.gz | 5.0 GB | ||
| EGAF50000276663 | fastq.gz | 5.5 GB | ||
| EGAF50000276664 | fastq.gz | 5.4 GB | ||
| EGAF50000276665 | fastq.gz | 5.9 GB | ||
| EGAF50000276668 | fastq.gz | 5.8 GB | ||
| EGAF50000276669 | fastq.gz | 6.3 GB | ||
| EGAF50000276670 | fastq.gz | 4.5 GB | ||
| EGAF50000276671 | fastq.gz | 5.1 GB | ||
| EGAF50000276672 | fastq.gz | 5.5 GB | ||
| EGAF50000276673 | fastq.gz | 2.8 GB | ||
| EGAF50000276674 | fastq.gz | 3.1 GB | ||
| EGAF50000276675 | fastq.gz | 5.0 GB | ||
| EGAF50000276676 | fastq.gz | 5.4 GB | ||
| EGAF50000276677 | fastq.gz | 6.2 GB | ||
| EGAF50000276678 | fastq.gz | 6.8 GB | ||
| EGAF50000276679 | fastq.gz | 6.2 GB | ||
| EGAF50000276680 | fastq.gz | 5.4 GB | ||
| EGAF50000276681 | fastq.gz | 4.7 GB | ||
| EGAF50000276682 | fastq.gz | 6.7 GB | ||
| EGAF50000276683 | fastq.gz | 5.9 GB | ||
| EGAF50000276684 | fastq.gz | 5.7 GB | ||
| EGAF50000276685 | fastq.gz | 5.2 GB | ||
| EGAF50000276686 | fastq.gz | 6.2 GB | ||
| EGAF50000276687 | fastq.gz | 5.7 GB | ||
| EGAF50000276688 | fastq.gz | 5.8 GB | ||
| EGAF50000276689 | fastq.gz | 5.4 GB | ||
| EGAF50000276690 | fastq.gz | 3.7 GB | ||
| EGAF50000276691 | fastq.gz | 6.3 GB | ||
| EGAF50000276692 | fastq.gz | 6.0 GB | ||
| EGAF50000276693 | fastq.gz | 4.1 GB | ||
| EGAF50000276694 | fastq.gz | 6.8 GB | ||
| EGAF50000276695 | fastq.gz | 5.2 GB | ||
| EGAF50000276696 | fastq.gz | 4.4 GB | ||
| EGAF50000276697 | fastq.gz | 5.7 GB | ||
| EGAF50000276698 | fastq.gz | 5.2 GB | ||
| EGAF50000276700 | fastq.gz | 5.3 GB | ||
| EGAF50000276701 | fastq.gz | 5.7 GB | ||
| EGAF50000276702 | fastq.gz | 3.6 GB | ||
| EGAF50000276703 | fastq.gz | 4.0 GB | ||
| EGAF50000276704 | fastq.gz | 7.5 GB | ||
| EGAF50000276705 | fastq.gz | 4.9 GB | ||
| EGAF50000276706 | fastq.gz | 6.0 GB | ||
| EGAF50000276707 | fastq.gz | 5.2 GB | ||
| EGAF50000276708 | fastq.gz | 5.7 GB | ||
| EGAF50000276709 | fastq.gz | 5.8 GB | ||
| EGAF50000276710 | fastq.gz | 5.0 GB | ||
| EGAF50000276711 | fastq.gz | 5.4 GB | ||
| EGAF50000276712 | fastq.gz | 5.6 GB | ||
| EGAF50000276713 | fastq.gz | 6.8 GB | ||
| EGAF50000276714 | fastq.gz | 6.3 GB | ||
| EGAF50000276715 | fastq.gz | 5.5 GB | ||
| EGAF50000276716 | fastq.gz | 6.2 GB | ||
| EGAF50000276717 | fastq.gz | 5.9 GB | ||
| EGAF50000276718 | fastq.gz | 7.4 GB | ||
| EGAF50000276719 | fastq.gz | 4.7 GB | ||
| EGAF50000276720 | fastq.gz | 4.5 GB | ||
| EGAF50000276721 | fastq.gz | 5.4 GB | ||
| EGAF50000276722 | fastq.gz | 4.6 GB | ||
| EGAF50000276723 | fastq.gz | 5.5 GB | ||
| EGAF50000276724 | fastq.gz | 5.9 GB | ||
| EGAF50000276725 | fastq.gz | 5.0 GB | ||
| EGAF50000276726 | fastq.gz | 4.8 GB | ||
| EGAF50000276727 | fastq.gz | 4.9 GB | ||
| EGAF50000276728 | fastq.gz | 6.4 GB | ||
| EGAF50000276729 | fastq.gz | 5.9 GB | ||
| EGAF50000276730 | fastq.gz | 5.2 GB | ||
| EGAF50000276731 | fastq.gz | 4.5 GB | ||
| EGAF50000314287 | txt | 14.6 MB | ||
| 145 Files (793.7 GB) | ||||