cBioPortal · sbabyanusha · Jun 22, 2026
diff --git a/public/pancan_metaprism_2023/LICENSE b/public/pancan_metaprism_2023/LICENSE
@@ -0,0 +1 @@
+The data are available under the ODC Open Database License (ODbL)(http://opendatacommons.org/licenses/odbl/1.0/) (summary available here: http://www.opendatacommons.org/licenses/odbl/1-0/summary/): you are free to share and modify the data so long as you attribute any public use of the database, or works produced from the database; keep the resulting data-sets open; and offer your shared or adapted version of the data-set under the same ODbL license.
diff --git a/public/pancan_metaprism_2023/README.md b/public/pancan_metaprism_2023/README.md
@@ -0,0 +1,72 @@
+# META-PRISM
+
+**Publication** : The study is now published in Cancer Discovery and is freely available at https://pubmed.ncbi.nlm.nih.gov/36862804/. 
+**Local Instance** : <https://cbioportal.gustaveroussy.fr:8081/study/summary?id=metaprism_2023>.
+**Local Instance** : <https://nextcloud.gustaveroussy.fr/s/dbCwPWKZMj6BmDp>.
+**Study Id** : pancan_metaprism_2023
+**Reference genome** : GRCh37
+
+## Description
+
+## Clinical data: (data_clinical_patient.txt) (data_clinical_sample.txt)
+
+- `Supplementary_Table_1.xlsx` Clinical characteristics and samples of the 1,031 patients included in the META-PRISM
+  cohort.
+
+**Clinical data remapping**:
+
+| Original column						| Renamed column         				   | Patient/Sample Attribute 	        |
+| ---| ---| --- |
+| Subject_Id							| Patient_Id			 			   | Patient					|
+| Sex								| Sex			 		 		   | Patient					|
+| Age_At_Biopsy						| AGE_AT_BIOPSY			 		   | Patient					|
+| Oncotree_Code						| Oncotree_Code			 	           | Sample					|
+| Primary_Tumor_Site					| Primary Site			 			   | Sample					|
+| Histology							| Histology			 	 		   | Sample					|
+| Metastatic_Sites						| Metastatic Site 		 			   | Sample					|
+| Treatments_Before_Biopsy				| Treatments Before Biopsy			   | Patient					|
+| Albumin_At_Biopsy(g/L)				| Albumin At Biopsy(g/L)			 	   | Patient					|
+| Lactate_Dehydrogenase_At_Biopsy(UI/L)	| Lactate Dehydrogenase At Biopsy(UI/L) | Patient					|
+| Neutrophils_At_Biopsy(10^9/L)			| Neutrophils At Biopsy(10^9/L)		   | Patient					|
+| Lymphocytes_At_Biopsy(10^9/L)		| Lymphocytes At Biopsy(10^9/L)	           | Patient					|
+| GRIM_Score							| Gustave Roussy Immune Score		   | Patient					|
+| Alcohol								| Alcohol History			 		   | Patient					|
+| Smoking_History						| Smoking History		 			   | Patient					|
+| Vital_Status							| OS status.			 			   | Patient					|
+| Sample_Id_DNA_T					| Sample_Id			     		           | Sample					|
+
+## Segmented data: (data_cna_hg19.seg)
+
+- `Data_Table_5.somatic_cna_segments.tsv` Table of all 42,769 curated copy-number segments identified in 569
+  WES tumor/normal sample pairs. 
+
+## Mutation data: (data_mutations.txt)
+
+- `Data_Table_3.somatic_mutations.maf.gz` Table of all 117,747 somatic mutations detected in 569 analyzed
+  WES tumor/normal sample pairs. Only mutations that pass all filters are included.
+
+## Zscore Expression data: (data_mrna_seq_tpm_zscores_ref_all_samples.txt)
+
+- `Data_Table_2.rna_gene_tpm.tsv.gz` Table in 58,288 x 948 format with the expression TPM of 58,288 genes in
+  the 947 RNAseq tumor samples.
+
+## SV data: (data_sv.txt)
+
+- `Data_Table_10.rna_fusions.tsv.gz` Table of all 707,027 fusion calls as identified by Arriba v1.2.0, EricScript v0.5.5,
+  Pizzly v0.37.3, or StarFusion v1.8.1.
+
+## Copy number data: (data_cna.txt)
+
+- `Data_Table_1.rna_gene_counts.tsv.gz` Table in 58,288 x 948 format with the expression raw counts of 58,288 genes in
+  the 947 RNAseq tumor samples.
+
+## Mutational Signatures:
+
+(data_mutational_signatures_counts_SBS.txt)
+- `Data_Table_9.sbs_96_signature_counts.tsv` Table in 78 x 451 format with the mutation counts contributed by each of
+  the 78 signatures from COSMIC SBS v3.2 database in the 450 WES tumor samples .
+
+(data_mutational_signatures_contribution_SBS.txt)
+- `Data_Table_11.rna_ssgsea_immune.tsv` Table in 29 x 948 format with the functional gene expression signatures (ssGSEA
+  scores) on the 29 gene sets in 947 RNAseq tumor samples.
+
diff --git a/public/pancan_metaprism_2023/case_lists/cases_all.txt b/public/pancan_metaprism_2023/case_lists/cases_all.txt
diff --git a/public/pancan_metaprism_2023/case_lists/cases_cna.txt b/public/pancan_metaprism_2023/case_lists/cases_cna.txt
@@ -0,0 +1,6 @@
+cancer_study_identifier: pancan_metaprism_2023
+stable_id: pancan_metaprism_2023_cna
+case_list_name: Samples with CNA data
+case_list_description: Samples with CNA data (569 samples)
+case_list_category: all_cases_with_cna_data
+case_list_ids: MP-0002-D01_R01	MP-0004-D01_R01	MP-0005-D01_R01	MP-0006-D01_R01	MP-0007-D01_R01	MP-0010-D02_R02	MP-0011-D01_R01	MP-0013-D01_R01	MP-0014-D01_R01	MP-0015-D01_R01	MP-0025-D01_R01	MP-0026-D01_R01	MP-0027-D01_R01	MP-0032-D01_R01	MP-0034-D01_R01	MP-0036-D01_R01	MP-0037-D01_R01	MP-0038-D01_R01	MP-0039-D01_R01	MP-0042-D01_R01	MP-0043-D01_R01	MP-0046-D01_R01	MP-0047-D01_R01	MP-0048-D02_R02	MP-0051-D03_R03	MP-0053-D01_R01	MP-0054-D01_R01	MP-0055-D01_R01	MP-0057-D01_R01	MP-0058-D01_R01	MP-0060-D01_R01	MP-0062-D01_R01	MP-0065-D02_R02	MP-0067-D01	MP-0069-D02	MP-0070-D01_R01	MP-0071-D01_R01	MP-0073-D02_R02	MP-0075-D01_R01	MP-0076-D02_R02	MP-0077-D01_R01	MP-0081-D02_R02	MP-0082-D01_R01	MP-0085-D01	MP-0087-D02_R02	MP-0088-D01_R01	MP-0089-D02_R02	MP-0091-D01_R01	MP-0092-D01_R01	MP-0093-D01_R01	MP-0094-D01_R01	MP-0096-D01_R01	MP-0097-D01_R01	MP-0100-D01_R01	MP-0102-D01_R01	MP-0103-D01_R01	MP-0104-D01	MP-0106-D01_R01	MP-0108-D01_R01	MP-0110-D01_R01	MP-0112-D01_R01	MP-0117-D01_R01	MP-0118-D02_R02	MP-0121-D01	MP-0123-D01	MP-0125-D01_R01	MP-0126-D01_R01	MP-0127-D01_R01	MP-0128-D01_R01	MP-0133-D01_R01	MP-0135-D03_R03	MP-0136-D01_R01	MP-0138-D01_R01	MP-0139-D01_R01	MP-0140-D01_R01	MP-0141-D01_R01	MP-0142-D01	MP-0143-D01_R01	MP-0145-D01_R01	MP-0147-D01_R01	MP-0149-D01_R01	MP-0150-D01_R01	MP-0151-D01_R01	MP-0152-D01_R01	MP-0156-D01_R01	MP-0160-D01_R01	MP-0162-D01_R01	MP-0164-D01_R01	MP-0166-D01	MP-0170-D01_R01	MP-0171-D01	MP-0175-D01_R01	MP-0176-D01_R01	MP-0177-D01_R01	MP-0178-D02_R02	MP-0181-D01_R01	MP-0182-D01_R01	MP-0184-D01_R01	MP-0185-D01_R01	MP-0187-D01_R01	MP-0188-D02_R02	MP-0190-D01_R01	MP-0191-D01	MP-0192-D01_R01	MP-0194-D01	MP-0195-D01_R01	MP-0200-D01_R01	MP-0201-D01_R01	MP-0203-D01_R01	MP-0206-D01	MP-0207-D03_R03	MP-0209-D01_R01	MP-0210-D01_R01	MP-0211-D01_R01	MP-0213-D01_R01	MP-0214-D02_R02	MP-0215-D01_R01	MP-0216-D01_R01	MP-0217-D01_R01	MP-0218-D01_R01	MP-0219-D02_R02	MP-0222-D01_R01	MP-0224-D01_R01	MP-0225-D01_R01	MP-0226-D01_R01	MP-0228-D01	MP-0230-D01_R01	MP-0231-D01_R01	MP-0232-D01_R01	MP-0234-D01_R01	MP-0235-D02_R02	MP-0236-D01_R01	MP-0238-D01_R01	MP-0239-D01_R01	MP-0240-D01_R01	MP-0241-D01_R01	MP-0242-D01_R01	MP-0245-D01	MP-0247-D01_R01	MP-0248-D03_R03	MP-0249-D01_R01	MP-0250-D01_R01	MP-0251-D01_R01	MP-0252-D01	MP-0253-D01_R01	MP-0255-D01_R01	MP-0257-D01_R01	MP-0258-D01	MP-0259-D01_R01	MP-0262-D01	MP-0263-D01_R01	MP-0264-D01_R01	MP-0265-D01_R01	MP-0266-D01_R01	MP-0267-D01_R01	MP-0268-D01_R01	MP-0269-D01_R01	MP-0271-D01_R01	MP-0272-D02	MP-0275-D01_R01	MP-0277-D01_R01	MP-0279-D02_R02	MP-0281-D01_R01	MP-0282-D01_R01	MP-0285-D01	MP-0289-D01_R01	MP-0290-D01_R01	MP-0291-D01_R01	MP-0292-D01	MP-0293-D01_R01	MP-0294-D02_R02	MP-0295-D01_R01	MP-0297-D02_R02	MP-0299-D02_R02	MP-0300-D01	MP-0302-D01_R01	MP-0307-D01_R01	MP-0309-D01_R01	MP-0311-D01	MP-0315-D01_R01	MP-0317-D01_R01	MP-0318-D01_R01	MP-0321-D01_R01	MP-0323-D01_R01	MP-0324-D01_R01	MP-0325-D02_R02	MP-0326-D01_R01	MP-0327-D01_R01	MP-0328-D01_R01	MP-0329-D01_R01	MP-0330-D01_R01	MP-0331-D01_R01	MP-0334-D01_R01	MP-0335-D01_R01	MP-0336-D01_R01	MP-0337-D01_R01	MP-0338-D01_R01	MP-0339-D01_R01	MP-0342-D01_R01	MP-0344-D01_R01	MP-0345-D01_R01	MP-0346-D01_R01	MP-0347-D01_R01	MP-0348-D01_R01	MP-0351-D01_R01	MP-0352-D01_R01	MP-0353-D01_R01	MP-0354-D01_R01	MP-0355-D02_R02	MP-0356-D01_R01	MP-0357-D04_R04	MP-0358-D01_R01	MP-0360-D01_R01	MP-0361-D01_R01	MP-0363-D01_R01	MP-0364-D01	MP-0365-D01_R01	MP-0367-D01_R01	MP-0368-D01_R01	MP-0371-D01	MP-0373-D01_R01	MP-0374-D01_R01	MP-0375-D01_R01	MP-0378-D01_R01	MP-0380-D01_R01	MP-0381-D01_R01	MP-0382-D03_R03	MP-0383-D02_R02	MP-0384-D01_R01	MP-0386-D01_R01	MP-0387-D01_R01	MP-0388-D01_R01	MP-0391-D01_R01	MP-0392-D01_R01	MP-0393-D01_R01	MP-0394-D01_R01	MP-0396-D01_R01	MP-0397-D01_R01	MP-0398-D01_R01	MP-0399-D01_R01	MP-0400-D01_R01	MP-0401-D01_R01	MP-0402-D01_R01	MP-0404-D02_R02	MP-0406-D01_R01	MP-0410-D02_R02	MP-0411-D01_R01	MP-0413-D01_R01	MP-0414-D01_R01	MP-0416-D01_R01	MP-0418-D01_R01	MP-0420-D01_R01	MP-0422-D01_R01	MP-0423-D01_R01	MP-0425-D01_R01	MP-0429-D01_R01	MP-0431-D01_R01	MP-0432-D02_R02	MP-0434-D01_R01	MP-0438-D01	MP-0442-D01_R01	MP-0445-D01_R01	MP-0453-D01_R01	MP-0454-D01_R01	MP-0458-D01_R01	MP-0461-D02_R02	MP-0464-D01_R01	MP-0466-D01_R01	MP-0467-D01_R01	MP-0472-D01_R01	MP-0475-D01_R01	MP-0477-D01_R01	MP-0479-D01_R01	MP-0492-D01	MP-0494-D02_R02	MP-0496-D01_R01	MP-0497-D05_R05	MP-0504-D01	MP-0512-D03_R03	MP-0514-D01_R01	MP-0515-D01_R01	MP-0517-D01	MP-0520-D01_R01	MP-0528-D01_R01	MP-0529-D01_R01	MP-0531-D01	MP-0532-D01_R01	MP-0540-D01_R01	MP-0542-D01_R01	MP-0543-D01_R01	MP-0544-D01_R01	MP-0557-D02_R02	MP-0561-D01_R01	MP-0565-D01_R01	MP-0566-D02_R02	MP-0567-D01_R01	MP-0570-D02_R02	MP-0573-D01_R01	MP-0577-D01_R01	MP-0580-D01_R01	MP-0585-D01_R01	MP-0587-D02_R02	MP-0588-D01_R01	MP-0593-D01_R01	MP-0594-D01_R01	MP-0596-D01_R01	MP-0597-D01_R01	MP-0598-D01_R01	MP-0601-D01_R01	MP-0602-D01	MP-0605-D01	MP-0608-D01	MP-0609-D01	MP-0612-D01_R01	MP-0613-D01_R01	MP-0616-D01_R01	MP-0617-D01_R01	MP-0618-D01_R01	MP-0619-D02	MP-0620-D01	MP-0621-D01_R01	MP-0623-D01	MP-0624-D01	MP-0625-D02_R02	MP-0626-D02_R02	MP-0628-D01_R01	MP-0629-D01_R01	MP-0631-D02_R02	MP-0635-D01_R01	MP-0637-D01_R01	MP-0638-D01_R01	MP-0639-D01_R01	MP-0641-D01_R01	MP-0645-D02_R02	MP-0646-D01	MP-0647-D01_R01	MP-0648-D01	MP-0649-D01_R01	MP-0650-D01_R01	MP-0652-D01_R01	MP-0653-D01_R01	MP-0654-D02_R02	MP-0655-D03_R03	MP-0658-D01_R01	MP-0659-D01_R01	MP-0663-D01	MP-0668-D02_R02	MP-0670-D01_R01	MP-0672-D01_R01	MP-0673-D01_R01	MP-0679-D01_R01	MP-0680-D01_R01	MP-0683-D02_R02	MP-0685-D02_R02	MP-0687-D01_R01	MP-0689-D01_R01	MP-0690-D01_R01	MP-0693-D01	MP-0695-D02_R02	MP-0696-D01_R01	MP-0698-D01	MP-0699-D01	MP-0702-D01	MP-0705-D02_R02	MP-0706-D02_R02	MP-0707-D01_R01	MP-0709-D01	MP-0711-D02_R02	MP-0713-D01_R01	MP-0715-D01	MP-0723-D01_R01	MP-0729-D01	MP-0733-D01_R01	MP-0735-D01_R01	MP-0738-D01_R01	MP-0744-D01_R01	MP-0747-D01_R01	MP-0750-D01_R01	MP-0753-D01_R01	MP-0757-D01_R01	MP-0760-D01_R01	MP-0761-D01_R01	MP-0762-D01_R01	MP-0767-D02_R02	MP-0768-D01	MP-0769-D02_R02	MP-0770-D01_R01	MP-0772-D01_R01	MP-0773-D01_R01	MP-0776-D01_R01	MP-0778-D01_R01	MP-0779-D02_R02	MP-0780-D02_R02	MP-0783-D01_R01	MP-0784-D01_R01	MP-0786-D01_R01	MP-0790-D01	MP-0791-D01	MP-0792-D01_R01	MP-0794-D01_R01	MP-0801-D01	MP-0802-D01_R01	MP-0804-D01	MP-0805-D01_R01	MP-0806-D01_R01	MP-0810-D01_R01	MP-0811-D01_R01	MP-0812-D01_R01	MP-0815-D01_R01	MP-0817-D01_R01	MP-0818-D01_R01	MP-0820-D01_R01	MP-0821-D01	MP-0822-D02_R02	MP-0825-D01_R01	MP-0827-D01	MP-0831-D01_R01	MP-0832-D01_R01	MP-0836-D01_R01	MP-0839-D01_R01	MP-0841-D01_R01	MP-0842-D01_R01	MP-0843-D01	MP-0851-D01_R01	MP-0853-D01_R01	MP-0854-D01_R01	MP-0858-D01_R01	MP-0859-D01_R01	MP-0860-D01_R01	MP-0862-D01_R01	MP-0863-D01_R01	MP-0865-D01_R01	MP-0868-D01_R01	MP-0869-D01_R01	MP-0871-D01_R01	MP-0874-D01	MP-0877-D01_R01	MP-0880-D02_R02	MP-0881-D01_R01	MP-0882-D01_R01	MP-0883-D01_R01	MP-0885-D01_R01	MP-0888-D01_R01	MP-0890-D01_R01	MP-0891-D01	MP-0893-D01_R01	MP-0896-D01_R01	MP-0897-D01_R01	MP-0898-D01_R01	MP-0899-D01_R01	MP-0902-D01	MP-0903-D01_R01	MP-0904-D02_R02	MP-0906-D01_R01	MP-0908-D02_R02	MP-0909-D01_R01	MP-0910-D01_R01	MP-0911-D01_R01	MP-0912-D01_R01	MP-0913-D01_R01	MP-0914-D01	MP-0915-D01_R01	MP-0916-D01	MP-0917-D01_R01	MP-0918-D02_R02	MP-0920-D01_R01	MP-0921-D01_R01	MP-0922-D01	MP-0923-D01_R01	MP-0924-D01_R01	MP-0925-D01	MP-0926-D02_R02	MP-0927-D01_R01	MP-0928-D01_R01	MP-0929-D02_R02	MP-0930-D01	MP-0931-D01_R01	MP-0932-D01	MP-0933-D01	MP-0934-D01_R01	MP-0935-D01	MP-0936-D01_R01	MP-0938-D01_R01	MP-0940-D01_R01	MP-0941-D01	MP-0942-D01_R01	MP-0943-D02_R02	MP-0945-D01_R01	MP-0946-D01_R01	MP-0947-D01_R01	MP-0948-D01_R01	MP-0949-D01_R01	MP-0951-D01_R01	MP-0952-D02_R02	MP-0953-D02_R02	MP-0954-D01_R01	MP-0955-D01	MP-0956-D01_R01	MP-0957-D01_R01	MP-0958-D02_R02	MP-0959-D01_R01	MP-0960-D01_R01	MP-0962-D01_R01	MP-0963-D01_R01	MP-0964-D01_R01	MP-0965-D01_R01	MP-0966-D01_R01	MP-0967-D01_R01	MP-0968-D01_R01	MP-0969-D01_R01	MP-0970-D01_R01	MP-0972-D01_R01	MP-0973-D01_R01	MP-0974-D01_R01	MP-0975-D01	MP-0976-D01_R01	MP-0977-D01	MP-0978-D01_R01	MP-0979-D01_R01	MP-0980-D01_R01	MP-0981-D01_R01	MP-0982-D01	MP-0983-D01_R01	MP-0984-D01_R01	MP-0985-D01_R01	MP-0986-D01	MP-0987-D02_R02	MP-0988-D01_R01	MP-0989-D01_R01	MP-0990-D01_R01	MP-0991-D01	MP-0992-D01_R01	MP-0993-D01_R01	MP-0994-D01	MP-0995-D01	MP-0996-D01_R01	MP-0997-D01	MP-0998-D01	MP-0999-D01	MP-1000-D01_R01	MP-1001-D01_R01	MP-1002-D01	MP-1003-D01_R01	MP-1004-D01_R01	MP-1005-D01_R01	MP-1006-D01_R01	MP-1007-D01_R01	MP-1008-D01_R01	MP-1009-D01_R01	MP-1010-D01_R01	MP-1011-D01_R01	MP-1012-D01	MP-1013-D01_R01	MP-1014-D01	MP-1015-D01	MP-1016-D01_R01	MP-1019-D01_R01	MP-1020-D01_R01	MP-1021-D01_R01	MP-1022-D01_R01	MP-1023-D01_R01	MP-1024-D01_R01	MP-1025-D01_R01	MP-1026-D01_R01	MP-1027-D01	MP-1028-D01	MP-1029-D01_R01	MP-1030-D01_R01	MP-1031-D01_R01
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		The data are available under the ODC Open Database License (ODbL)(http://opendatacommons.org/licenses/odbl/1.0/) (summary available here: http://www.opendatacommons.org/licenses/odbl/1-0/summary/): you are free to share and modify the data so long as you attribute any public use of the database, or works produced from the database; keep the resulting data-sets open; and offer your shared or adapted version of the data-set under the same ODbL license.