RNAseq of GEPARSIXTO
294 formalin-fixed paraffin-embedded (FFPE) tissue samples were sent to the UNC Lineberger Comprehensive Cancer Center Translational Genomics Lab (TGL) for RNA isolation using the Maxwell 16 MDx Instrument (Promega AS3000) and the Maxwell 16 LEV RNA FFPE Kit (Promega AS1260) following the manufacturer’s protocol (Promega 9FB167). 279 total RNA sequencing libraries were prepared at TGL using a Bravo Automated Liquid-Handling Platform (Agilent G5562A) and the TruSeq Stranded Total RNA Library Prep Gold Kit (Illumina 20020599) following the manufacturer’s protocol (Illumina 1000000040499). RNAseq library quality and quantity were measured using a TapeStation 4200 (Agilent G2991AA) and Qubit 3.0 fluorometer (Life Technologies Q33216), pooled at equal molar ratios, and denatured following the manufacturer’s protocol (Illumina 1000000106351). 271 total RNA sequencing libraries were sequenced at TGL on NovaSeq 6000 (Illumina 20012850) S4 flow cells (Illumina 20028313) following the manufacturer’s protocol (Illumina 1000000019358) using a 2x50 bp paired-end configuration and pool sizes of 91 libraries to target a read depth of 110 million clusters per library on average.
- 271 samples
- DAC: EGAC00001003172
- Technology: Illumina NovaSeq 6000
GBG Forschungs GmbH (GBG) is an academic institute for breast cancer research that conducts scientifically oriented clinical studies. Today, the GBG has clinical data from more than 50,000 breast cancer patients at its disposal. With this expertise and the experience of more than 30 years of research, GBG is one of the leading breast cancer research institutes worldwide. In order to apply for sample data for research projects, a research proposal has to be submitted to the GBG. A corresponding template can be found on the GBG homepage (https://www.gbg.de/de/forschung/forschungsprojekte.php). Research proposals may be submitted by academic institutions as well as by the researching industry. Applications will be reviewed in the “Translational Research Board" of the GBG. Its members include investigators from both basic and applied clinical research. The Board discusses current research concepts and applications at regular meetings. If necessary, the applications will also be submitted to the responsible ethics committee. The applicant receives only temporary, purpose-bound and non-transferable rights of use to the data provided. The rights and obligations of the user are set out in a written agreement (Data Access Agreement, DAA). If necessary, this agreement also defines further rights and obligations of both parties, e.g. in case of publication of results (authorship), etc. Furthermore, a so-called Statistical Analysis Plan (SAP) defines how the statistical evaluation of the data will be performed.
GBG Forschungs GmbH (GBG) is an academic institute for breast cancer research that conducts scientifically oriented clinical studies. Today, the GBG has clinical data from more than 50,000 breast cancer patients at its disposal. With this expertise and the experience of more than 30 years of research, GBG is one of the leading breast cancer research institutes worldwide. In order to apply for sample data for research projects, a research proposal has to be submitted to the GBG. A corresponding template can be found on the GBG homepage (https://www.gbg.de/de/forschung/forschungsprojekte.php). Research proposals may be submitted by academic institutions as well as by the researching industry. Applications will be reviewed in the “Translational Research Board" of the GBG. Its members include investigators from both basic and applied clinical research. The Board discusses current research concepts and applications at regular meetings. If necessary, the applications will also be submitted to the responsible ethics committee. The applicant receives only temporary, purpose-bound and non-transferable rights of use to the data provided. The rights and obligations of the user are set out in a written agreement (Data Access Agreement, DAA). If necessary, this agreement also defines further rights and obligations of both parties, e.g. in case of publication of results (authorship), etc. Furthermore, a so-called Statistical Analysis Plan (SAP) defines how the statistical evaluation of the data will be performed.
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 |
|---|---|---|
| Other |