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.
Need Help?

Log2-CPM (voom)-normalised read-count matrix of the RNAseq Datasets of CLUSTER JIA pre-MTX cohort

Samples were sequenced with NovaSeq6000 and the sequencing files were processed using the RSSnextflow workflow (https://gitlab.com/b8307038/rssnextflow). The raw read counts from all batches were combined. Analysis-ready batch-corrected read counts were generated using ComBat-seq. Read counts normalisation for DGE analysis was performed with limma-voom function (log2 CPM) as seen in the pipeline.

Request Access

DUO:0000026
version: 2021-02-23

user specific restriction

This data use modifier indicates that use is limited to use by approved users.

DUO:0000027
version: 2021-02-23

project specific restriction

This data use modifier indicates that use is limited to use within an approved project.

DUO:0000028
version: 2021-02-23

institution specific restriction

This data use modifier indicates that use is limited to use within an approved institution.

DUO:0000042
version: 2021-02-23

general research use

This data use permission indicates that use is allowed for general research use for any research purpose.

CLUSTER Consortium Data Access Policy

Access to CLUSTER datasets is controlled. Please only click the "Request Access" button on the EGA website after a Data Access Agreement is sent to the CLUSTER Consortium (email to s.ng@qmul.ac.uk) The DAA form can be found through the CLUSTER Consortium Data Access Policy URL link. Alternatively, please go to: https://zenodo.org/records/17856897 to find the form.

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
EGAS50000001501 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
EGAF50000515809 xlsx 24.9 kB
EGAF50000515811 txt 20.4 MB
EGAF50000515812 txt 18.7 MB
EGAF50000515813 txt 21.6 MB
EGAF50000515814 txt 21.9 MB
EGAF50000515815 txt 22.0 MB
6 Files (104.7 MB)