About file location

As the EGA is co-managed by the EMBL-EBI and CRG, files could be located in the UK and/or Spain, as indicated by their respective flags.

Alternatively, files could be located in one of the international Federated EGA nodes, as indicated next to the node's flag.
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RNA sequencing data and whole exome sequencing data of genetically modified IDH1 wildtype and mutant chondrosarcoma cell lines

This dataset contains total RNA sequencing (polyA enriched) data of early and late passages of n=5 vector-based CH2879 empty vector and IDH1mut cell lines. Total RNA sequencing (polyA enriched) using 150bp paired-end reads was performed in triplicate using the NEBNext Ultra II Directional RNA Library Prep Kit (New England Biolabs) on the NovaSeq6000 platform (Illumina). Additionally, this dataset contains whole exome sequencing data of n=15 parental, mock, and CRISPR-edited IDH1mut and IDH1wt CH2879 and JJ012 cell lines. Whole exome sequencing using 150bp paired-end reads with a minimum coverage of 100x was performed in single using the SureSelect Human All Exon V8 library (Agilent Technologies) on the NovaSeq X platform (Illumina).

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Policy: LUMC Department Pathology, Bone and Soft Tissue Tumor Group

Access to this dataset is controlled by BSTTumor-group LUMC. Access to data will be granted to qualified investigators for appropriate use. Please contact this DAC to request data access.

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
EGAS50000001870 Exome Sequencing
EGAS50000001871 RNASeq

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
i
EGAF50000861587 fastq.gz 5.6 GB
EGAF50000861588 fastq.gz 5.6 GB
EGAF50000861589 fastq.gz 6.4 GB
EGAF50000861590 fastq.gz 6.5 GB
EGAF50000861591 fastq.gz 3.3 GB
EGAF50000861592 fastq.gz 3.3 GB
EGAF50000861593 fastq.gz 2.7 GB
EGAF50000861594 fastq.gz 2.9 GB
EGAF50000861595 fastq.gz 2.8 GB
EGAF50000861596 fastq.gz 2.8 GB
EGAF50000861597 fastq.gz 2.8 GB
EGAF50000861598 fastq.gz 2.8 GB
EGAF50000861599 fastq.gz 2.8 GB
EGAF50000861600 fastq.gz 2.8 GB
EGAF50000861601 fastq.gz 3.1 GB
EGAF50000861602 fastq.gz 3.0 GB
EGAF50000861603 fastq.gz 3.3 GB
EGAF50000861604 fastq.gz 3.2 GB
EGAF50000861605 fastq.gz 3.5 GB
EGAF50000861606 fastq.gz 3.6 GB
EGAF50000861607 fastq.gz 2.8 GB
EGAF50000861608 fastq.gz 2.7 GB
EGAF50000861609 fastq.gz 2.8 GB
EGAF50000861610 fastq.gz 2.8 GB
EGAF50000861611 fastq.gz 3.0 GB
EGAF50000861612 fastq.gz 3.0 GB
EGAF50000861613 fastq.gz 2.8 GB
EGAF50000861614 fastq.gz 2.8 GB
EGAF50000861615 fastq.gz 3.0 GB
EGAF50000861616 fastq.gz 3.0 GB
EGAF50000861617 fastq.gz 2.7 GB
EGAF50000861618 fastq.gz 2.7 GB
EGAF50000861619 fastq.gz 2.3 GB
EGAF50000861620 fastq.gz 2.4 GB
EGAF50000861621 fastq.gz 2.0 GB
EGAF50000861622 fastq.gz 1.9 GB
EGAF50000861623 fastq.gz 3.5 GB
EGAF50000861624 fastq.gz 3.7 GB
EGAF50000861625 fastq.gz 1.2 GB
EGAF50000861626 fastq.gz 1.1 GB
EGAF50000861627 fastq.gz 2.0 GB
EGAF50000861628 fastq.gz 2.2 GB
EGAF50000861629 fastq.gz 730.6 MB
EGAF50000861630 fastq.gz 761.7 MB
EGAF50000861631 fastq.gz 659.2 MB
EGAF50000861632 fastq.gz 690.1 MB
EGAF50000861633 fastq.gz 519.3 MB
EGAF50000861634 fastq.gz 538.4 MB
EGAF50000861635 fastq.gz 539.8 MB
EGAF50000861636 fastq.gz 514.2 MB
EGAF50000861637 fastq.gz 164.8 MB
EGAF50000861638 fastq.gz 171.2 MB
EGAF50000861639 fastq.gz 707.2 MB
EGAF50000861640 fastq.gz 738.8 MB
EGAF50000861641 fastq.gz 501.8 MB
EGAF50000861642 fastq.gz 521.9 MB
EGAF50000861643 fastq.gz 395.0 MB
EGAF50000861644 fastq.gz 415.3 MB
EGAF50000861645 fastq.gz 1.2 GB
EGAF50000861646 fastq.gz 1.1 GB
EGAF50000861647 fastq.gz 377.0 MB
EGAF50000861648 fastq.gz 401.9 MB
EGAF50000861649 fastq.gz 513.5 MB
EGAF50000861650 fastq.gz 495.3 MB
EGAF50000861651 fastq.gz 155.9 MB
EGAF50000861652 fastq.gz 148.2 MB
EGAF50000861653 fastq.gz 438.0 MB
EGAF50000861654 fastq.gz 458.8 MB
EGAF50000861655 fastq.gz 840.9 MB
EGAF50000861656 fastq.gz 880.9 MB
EGAF50000861657 fastq.gz 1.4 GB
EGAF50000861658 fastq.gz 1.3 GB
EGAF50000861659 fastq.gz 584.2 MB
EGAF50000861660 fastq.gz 617.8 MB
EGAF50000861661 fastq.gz 568.2 MB
EGAF50000861662 fastq.gz 595.1 MB
EGAF50000861663 fastq.gz 989.2 MB
EGAF50000861664 fastq.gz 1.1 GB
EGAF50000861665 fastq.gz 505.3 MB
EGAF50000861666 fastq.gz 540.1 MB
EGAF50000861667 fastq.gz 342.5 MB
EGAF50000861668 fastq.gz 324.0 MB
EGAF50000861669 fastq.gz 279.0 MB
EGAF50000861670 fastq.gz 293.2 MB
EGAF50000861671 fastq.gz 223.0 MB
EGAF50000861672 fastq.gz 237.6 MB
EGAF50000861673 fastq.gz 551.9 MB
EGAF50000861674 fastq.gz 578.0 MB
EGAF50000861675 fastq.gz 525.9 MB
EGAF50000861676 fastq.gz 550.9 MB
EGAF50000861677 fastq.gz 45.6 MB
EGAF50000861678 fastq.gz 48.0 MB
EGAF50000861679 fastq.gz 2.0 GB
EGAF50000861680 fastq.gz 2.1 GB
EGAF50000861681 fastq.gz 1.8 GB
EGAF50000861682 fastq.gz 1.9 GB
EGAF50000861683 fastq.gz 3.2 GB
EGAF50000861684 fastq.gz 3.4 GB
EGAF50000861685 fastq.gz 1.6 GB
EGAF50000861686 fastq.gz 1.7 GB
EGAF50000861687 fastq.gz 530.8 MB
EGAF50000861688 fastq.gz 557.0 MB
EGAF50000861689 fastq.gz 2.0 GB
EGAF50000861690 fastq.gz 2.1 GB
EGAF50000861691 fastq.gz 2.0 GB
EGAF50000861692 fastq.gz 1.9 GB
EGAF50000861693 fastq.gz 1.3 GB
EGAF50000861694 fastq.gz 1.2 GB
EGAF50000861695 fastq.gz 3.6 GB
EGAF50000861696 fastq.gz 3.8 GB
EGAF50000861697 fastq.gz 1.8 GB
EGAF50000861698 fastq.gz 1.7 GB
EGAF50000861699 fastq.gz 1.7 GB
EGAF50000861700 fastq.gz 1.8 GB
EGAF50000861701 fastq.gz 890.7 MB
EGAF50000861702 fastq.gz 942.9 MB
EGAF50000861703 fastq.gz 1.2 GB
EGAF50000861704 fastq.gz 1.3 GB
EGAF50000861705 fastq.gz 2.4 GB
EGAF50000861706 fastq.gz 2.5 GB
EGAF50000861707 fastq.gz 3.9 GB
EGAF50000861708 fastq.gz 4.1 GB
EGAF50000861709 fastq.gz 1.6 GB
EGAF50000861710 fastq.gz 1.8 GB
EGAF50000861711 fastq.gz 1.7 GB
EGAF50000861712 fastq.gz 1.6 GB
EGAF50000861713 fastq.gz 2.9 GB
EGAF50000861714 fastq.gz 3.1 GB
EGAF50000861715 fastq.gz 1.4 GB
EGAF50000861716 fastq.gz 1.5 GB
EGAF50000861717 fastq.gz 933.4 MB
EGAF50000861718 fastq.gz 993.5 MB
EGAF50000861719 fastq.gz 1.2 GB
EGAF50000861720 fastq.gz 1.3 GB
EGAF50000861721 fastq.gz 638.9 MB
EGAF50000861722 fastq.gz 685.6 MB
EGAF50000861723 fastq.gz 2.3 GB
EGAF50000861724 fastq.gz 2.5 GB
EGAF50000861725 fastq.gz 1.4 GB
EGAF50000861726 fastq.gz 1.5 GB
EGAF50000861727 fastq.gz 150.2 MB
EGAF50000861728 fastq.gz 159.8 MB
EGAF50000861729 fastq.gz 1.1 GB
EGAF50000861730 fastq.gz 1.2 GB
EGAF50000861731 fastq.gz 1.3 GB
EGAF50000861732 fastq.gz 1.2 GB
EGAF50000861733 fastq.gz 645.4 MB
EGAF50000861734 fastq.gz 595.2 MB
EGAF50000861735 fastq.gz 1.7 GB
EGAF50000861736 fastq.gz 1.8 GB
EGAF50000861737 fastq.gz 3.0 GB
EGAF50000861738 fastq.gz 3.3 GB
EGAF50000861739 fastq.gz 881.2 MB
EGAF50000861740 fastq.gz 960.1 MB
EGAF50000861741 fastq.gz 2.0 GB
EGAF50000861742 fastq.gz 1.8 GB
EGAF50000861743 fastq.gz 2.1 GB
EGAF50000861744 fastq.gz 2.4 GB
EGAF50000861745 fastq.gz 1.9 GB
EGAF50000861746 fastq.gz 2.1 GB
EGAF50000861747 fastq.gz 1.3 GB
EGAF50000861748 fastq.gz 1.4 GB
EGAF50000861749 fastq.gz 1.8 GB
EGAF50000861750 fastq.gz 1.9 GB
EGAF50000861751 fastq.gz 27.5 GB
EGAF50000861752 fastq.gz 25.2 GB
EGAF50000861753 fastq.gz 2.5 GB
EGAF50000861754 fastq.gz 2.7 GB
EGAF50000861755 fastq.gz 2.3 GB
EGAF50000861756 fastq.gz 2.2 GB
EGAF50000861757 fastq.gz 1.5 GB
EGAF50000861758 fastq.gz 1.3 GB
EGAF50000861759 fastq.gz 2.1 GB
EGAF50000861760 fastq.gz 2.3 GB
EGAF50000861761 fastq.gz 1.9 GB
EGAF50000861762 fastq.gz 2.1 GB
EGAF50000861763 fastq.gz 2.6 GB
EGAF50000861764 fastq.gz 2.8 GB
EGAF50000861765 fastq.gz 1.4 GB
EGAF50000861766 fastq.gz 1.5 GB
EGAF50000861767 fastq.gz 2.7 GB
EGAF50000861768 fastq.gz 3.0 GB
EGAF50000861769 fastq.gz 2.4 GB
EGAF50000861770 fastq.gz 2.2 GB
EGAF50000861771 fastq.gz 2.8 GB
EGAF50000861772 fastq.gz 3.1 GB
EGAF50000861773 fastq.gz 1.9 GB
EGAF50000861774 fastq.gz 2.1 GB
EGAF50000861775 fastq.gz 2.0 GB
EGAF50000861776 fastq.gz 2.2 GB
EGAF50000861777 fastq.gz 3.6 GB
EGAF50000861778 fastq.gz 3.3 GB
EGAF50000861779 fastq.gz 4.7 GB
EGAF50000861780 fastq.gz 5.1 GB
EGAF50000861781 fastq.gz 1.1 GB
EGAF50000861782 fastq.gz 1.2 GB
EGAF50000861783 fastq.gz 1.1 GB
EGAF50000861784 fastq.gz 1.1 GB
EGAF50000861785 fastq.gz 991.5 MB
EGAF50000861786 fastq.gz 1.0 GB
EGAF50000861787 fastq.gz 303.2 MB
EGAF50000861788 fastq.gz 315.6 MB
202 Files (414.3 GB)