From 18edd66a52b4d1b10a697e8d2fee79e1b1452b73 Mon Sep 17 00:00:00 2001 From: sbabyanusha Date: Mon, 8 Jul 2024 18:48:46 -0400 Subject: [PATCH] Removed microbiome profile from all Pancan --- .../case_lists/cases_microbiome.txt | 6 ------ .../acc_tcga_pan_can_atlas_2018/data_microbiome.txt | 3 --- .../acc_tcga_pan_can_atlas_2018/meta_microbiome.txt | 12 ------------ .../case_lists/cases_microbiome.txt | 6 ------ .../blca_tcga_pan_can_atlas_2018/data_microbiome.txt | 3 --- .../blca_tcga_pan_can_atlas_2018/meta_microbiome.txt | 12 ------------ .../case_lists/cases_microbiome.txt | 6 ------ .../brca_tcga_pan_can_atlas_2018/data_microbiome.txt | 3 --- .../brca_tcga_pan_can_atlas_2018/meta_microbiome.txt | 12 ------------ .../case_lists/cases_microbiome.txt | 6 ------ .../cesc_tcga_pan_can_atlas_2018/data_microbiome.txt | 3 --- .../cesc_tcga_pan_can_atlas_2018/meta_microbiome.txt | 12 ------------ .../case_lists/cases_microbiome.txt | 6 ------ .../chol_tcga_pan_can_atlas_2018/data_microbiome.txt | 3 --- .../chol_tcga_pan_can_atlas_2018/meta_microbiome.txt | 12 ------------ .../case_lists/cases_microbiome.txt | 6 ------ .../data_microbiome.txt | 3 --- .../meta_microbiome.txt | 12 ------------ .../case_lists/cases_microbiome.txt | 6 ------ .../dlbc_tcga_pan_can_atlas_2018/data_microbiome.txt | 3 --- .../dlbc_tcga_pan_can_atlas_2018/meta_microbiome.txt | 12 ------------ .../case_lists/cases_microbiome.txt | 6 ------ .../esca_tcga_pan_can_atlas_2018/data_microbiome.txt | 3 --- .../esca_tcga_pan_can_atlas_2018/meta_microbiome.txt | 12 ------------ .../case_lists/cases_microbiome.txt | 6 ------ .../gbm_tcga_pan_can_atlas_2018/data_microbiome.txt | 3 --- .../gbm_tcga_pan_can_atlas_2018/meta_microbiome.txt | 12 ------------ .../case_lists/cases_microbiome.txt | 6 ------ .../hnsc_tcga_pan_can_atlas_2018/data_microbiome.txt | 3 --- .../hnsc_tcga_pan_can_atlas_2018/meta_microbiome.txt | 12 ------------ .../case_lists/cases_microbiome.txt | 6 ------ .../kich_tcga_pan_can_atlas_2018/data_microbiome.txt | 3 --- .../kich_tcga_pan_can_atlas_2018/meta_microbiome.txt | 12 ------------ .../case_lists/cases_microbiome.txt | 6 ------ .../kirc_tcga_pan_can_atlas_2018/data_microbiome.txt | 3 --- .../kirc_tcga_pan_can_atlas_2018/meta_microbiome.txt | 12 ------------ .../case_lists/cases_microbiome.txt | 6 ------ .../kirp_tcga_pan_can_atlas_2018/data_microbiome.txt | 3 --- .../kirp_tcga_pan_can_atlas_2018/meta_microbiome.txt | 12 ------------ .../case_lists/cases_microbiome.txt | 6 ------ .../lgg_tcga_pan_can_atlas_2018/data_microbiome.txt | 3 --- .../lgg_tcga_pan_can_atlas_2018/meta_microbiome.txt | 12 ------------ .../case_lists/cases_microbiome.txt | 6 ------ .../lihc_tcga_pan_can_atlas_2018/data_microbiome.txt | 3 --- .../lihc_tcga_pan_can_atlas_2018/meta_microbiome.txt | 12 ------------ .../case_lists/cases_microbiome.txt | 6 ------ .../luad_tcga_pan_can_atlas_2018/data_microbiome.txt | 3 --- .../luad_tcga_pan_can_atlas_2018/meta_microbiome.txt | 12 ------------ .../case_lists/cases_microbiome.txt | 6 ------ .../lusc_tcga_pan_can_atlas_2018/data_microbiome.txt | 3 --- .../lusc_tcga_pan_can_atlas_2018/meta_microbiome.txt | 12 ------------ .../case_lists/cases_microbiome.txt | 6 ------ .../meso_tcga_pan_can_atlas_2018/data_microbiome.txt | 3 --- .../meso_tcga_pan_can_atlas_2018/meta_microbiome.txt | 12 ------------ .../case_lists/cases_microbiome.txt | 6 ------ .../ov_tcga_pan_can_atlas_2018/data_microbiome.txt | 3 --- .../ov_tcga_pan_can_atlas_2018/meta_microbiome.txt | 12 ------------ .../case_lists/cases_microbiome.txt | 6 ------ .../paad_tcga_pan_can_atlas_2018/data_microbiome.txt | 3 --- .../paad_tcga_pan_can_atlas_2018/meta_microbiome.txt | 12 ------------ .../case_lists/cases_microbiome.txt | 6 ------ .../pcpg_tcga_pan_can_atlas_2018/data_microbiome.txt | 3 --- .../pcpg_tcga_pan_can_atlas_2018/meta_microbiome.txt | 12 ------------ .../case_lists/cases_microbiome.txt | 6 ------ .../prad_tcga_pan_can_atlas_2018/data_microbiome.txt | 3 --- .../prad_tcga_pan_can_atlas_2018/meta_microbiome.txt | 12 ------------ .../case_lists/cases_microbiome.txt | 6 ------ .../sarc_tcga_pan_can_atlas_2018/data_microbiome.txt | 3 --- .../sarc_tcga_pan_can_atlas_2018/meta_microbiome.txt | 12 ------------ .../case_lists/cases_microbiome.txt | 6 ------ .../skcm_tcga_pan_can_atlas_2018/data_microbiome.txt | 3 --- .../skcm_tcga_pan_can_atlas_2018/meta_microbiome.txt | 12 ------------ .../case_lists/cases_microbiome.txt | 6 ------ .../stad_tcga_pan_can_atlas_2018/data_microbiome.txt | 3 --- .../stad_tcga_pan_can_atlas_2018/meta_microbiome.txt | 12 ------------ .../case_lists/cases_microbiome.txt | 6 ------ .../tgct_tcga_pan_can_atlas_2018/data_microbiome.txt | 3 --- .../tgct_tcga_pan_can_atlas_2018/meta_microbiome.txt | 12 ------------ .../case_lists/cases_microbiome.txt | 6 ------ .../thca_tcga_pan_can_atlas_2018/data_microbiome.txt | 3 --- 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public/ucs_tcga_pan_can_atlas_2018/case_lists/cases_microbiome.txt delete mode 100644 public/ucs_tcga_pan_can_atlas_2018/data_microbiome.txt delete mode 100644 public/ucs_tcga_pan_can_atlas_2018/meta_microbiome.txt delete mode 100644 public/uvm_tcga_pan_can_atlas_2018/case_lists/cases_microbiome.txt delete mode 100644 public/uvm_tcga_pan_can_atlas_2018/data_microbiome.txt delete mode 100644 public/uvm_tcga_pan_can_atlas_2018/meta_microbiome.txt diff --git a/public/acc_tcga_pan_can_atlas_2018/case_lists/cases_microbiome.txt b/public/acc_tcga_pan_can_atlas_2018/case_lists/cases_microbiome.txt deleted file mode 100755 index c73c565b67..0000000000 --- a/public/acc_tcga_pan_can_atlas_2018/case_lists/cases_microbiome.txt +++ /dev/null @@ -1,6 +0,0 @@ -cancer_study_identifier: acc_tcga_pan_can_atlas_2018 -stable_id: acc_tcga_pan_can_atlas_2018_microbiome -case_list_name: Samples with microbiome data -case_list_description: All samples with microbiome data (78 samples) -case_list_category: other -case_list_ids: TCGA-OR-A5JY-01 TCGA-OR-A5LD-01 TCGA-OR-A5JC-01 TCGA-OR-A5JQ-01 TCGA-OR-A5J5-01 TCGA-OR-A5LP-01 TCGA-OR-A5JL-01 TCGA-OR-A5JA-01 TCGA-OR-A5LL-01 TCGA-OR-A5L9-01 TCGA-OR-A5JX-01 TCGA-OR-A5L5-01 TCGA-P6-A5OF-01 TCGA-OR-A5JI-01 TCGA-OR-A5JF-01 TCGA-OR-A5K0-01 TCGA-OR-A5J2-01 TCGA-OR-A5J1-01 TCGA-OR-A5LH-01 TCGA-OR-A5KY-01 TCGA-OR-A5LE-01 TCGA-OR-A5JB-01 TCGA-OR-A5K5-01 TCGA-OR-A5LB-01 TCGA-OR-A5LG-01 TCGA-OR-A5LM-01 TCGA-OR-A5JK-01 TCGA-OR-A5J8-01 TCGA-OR-A5LO-01 TCGA-OR-A5LA-01 TCGA-OR-A5JG-01 TCGA-OR-A5KW-01 TCGA-OR-A5LS-01 TCGA-OR-A5JE-01 TCGA-OR-A5JW-01 TCGA-OR-A5LC-01 TCGA-OR-A5K8-01 TCGA-PK-A5HB-01 TCGA-OR-A5JM-01 TCGA-PK-A5HA-01 TCGA-OR-A5K4-01 TCGA-PK-A5H8-01 TCGA-OR-A5KZ-01 TCGA-OR-A5KU-01 TCGA-OR-A5K3-01 TCGA-OR-A5K6-01 TCGA-OR-A5KO-01 TCGA-OR-A5JR-01 TCGA-OR-A5LJ-01 TCGA-OR-A5L8-01 TCGA-OU-A5PI-01 TCGA-OR-A5J3-01 TCGA-OR-A5JP-01 TCGA-OR-A5JV-01 TCGA-OR-A5LK-01 TCGA-OR-A5K2-01 TCGA-OR-A5KX-01 TCGA-OR-A5JZ-01 TCGA-OR-A5KT-01 TCGA-OR-A5L6-01 TCGA-OR-A5J9-01 TCGA-OR-A5J6-01 TCGA-PA-A5YG-01 TCGA-OR-A5KV-01 TCGA-OR-A5LT-01 TCGA-OR-A5L3-01 TCGA-PK-A5H9-01 TCGA-OR-A5JJ-01 TCGA-OR-A5JT-01 TCGA-OR-A5L4-01 TCGA-OR-A5JS-01 TCGA-OR-A5LR-01 TCGA-OR-A5JO-01 TCGA-OR-A5LN-01 TCGA-OR-A5JD-01 TCGA-OR-A5K9-01 TCGA-OR-A5J7-01 TCGA-OR-A5K1-01 diff --git a/public/acc_tcga_pan_can_atlas_2018/data_microbiome.txt b/public/acc_tcga_pan_can_atlas_2018/data_microbiome.txt deleted file mode 100644 index 1992dda0c3..0000000000 --- a/public/acc_tcga_pan_can_atlas_2018/data_microbiome.txt +++ /dev/null @@ -1,3 +0,0 @@ -version https://git-lfs.github.com/spec/v1 -oid sha256:91e17af64d5b9ae5001b5c044cd50c68f476b641aa83425c51192a6b26832a5a -size 1676115 diff --git a/public/acc_tcga_pan_can_atlas_2018/meta_microbiome.txt b/public/acc_tcga_pan_can_atlas_2018/meta_microbiome.txt deleted file mode 100644 index 92ae09a5e4..0000000000 --- a/public/acc_tcga_pan_can_atlas_2018/meta_microbiome.txt +++ /dev/null @@ -1,12 +0,0 @@ -cancer_study_identifier: acc_tcga_pan_can_atlas_2018 -genetic_alteration_type: GENERIC_ASSAY -generic_assay_type: MICROBIOME_SIGNATURE -datatype: LIMIT-VALUE -stable_id: microbiome_signature -profile_name: Microbiome Signatures (log RNA Seq CPM) -profile_description: Microbial Signatures (log-cpm) from whole-transcriptome sequencing studies of TCGA (Poore et al. Nature 2020). -data_filename: data_microbiome.txt -show_profile_in_analysis_tab: true -pivot_threshold_value: 0 -value_sort_order: ASC -generic_entity_meta_properties: NAME,DESCRIPTION,URL diff --git a/public/blca_tcga_pan_can_atlas_2018/case_lists/cases_microbiome.txt b/public/blca_tcga_pan_can_atlas_2018/case_lists/cases_microbiome.txt deleted file mode 100755 index e6014b5c74..0000000000 --- a/public/blca_tcga_pan_can_atlas_2018/case_lists/cases_microbiome.txt +++ /dev/null @@ -1,6 +0,0 @@ -cancer_study_identifier: blca_tcga_pan_can_atlas_2018 -stable_id: blca_tcga_pan_can_atlas_2018_microbiome -case_list_name: Samples with microbiome data -case_list_description: All samples with microbiome data (407 samples) -case_list_category: other -case_list_ids: TCGA-GD-A3OP-01 TCGA-4Z-AA86-01 TCGA-2F-A9KO-01 TCGA-GU-A42Q-01 TCGA-HQ-A5NE-01 TCGA-DK-A3IS-01 TCGA-E5-A2PC-01 TCGA-FD-A3SL-01 TCGA-FD-A5BU-01 TCGA-UY-A9PE-01 TCGA-FD-A3N6-01 TCGA-CU-A3YL-01 TCGA-GV-A3JW-01 TCGA-XF-A9SV-01 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TCGA-R3-A69X-01 TCGA-DK-A3X2-01 TCGA-BT-A42E-01 TCGA-4Z-AA7R-01 TCGA-E7-A677-01 TCGA-E7-A519-01 TCGA-CF-A9FM-01 TCGA-XF-AAMR-01 TCGA-BT-A20X-01 TCGA-G2-AA3C-01 TCGA-CU-A0YN-01 TCGA-FJ-A3Z7-01 TCGA-CF-A9FH-01 TCGA-GV-A3QI-01 TCGA-4Z-AA82-01 TCGA-GC-A6I1-01 TCGA-FD-A5BX-01 TCGA-FD-A3B6-01 TCGA-ZF-AA5P-01 TCGA-BT-A20V-01 TCGA-FD-A3SP-01 diff --git a/public/blca_tcga_pan_can_atlas_2018/data_microbiome.txt b/public/blca_tcga_pan_can_atlas_2018/data_microbiome.txt deleted file mode 100644 index f553cabea4..0000000000 --- a/public/blca_tcga_pan_can_atlas_2018/data_microbiome.txt +++ /dev/null @@ -1,3 +0,0 @@ -version https://git-lfs.github.com/spec/v1 -oid sha256:222e4509641282fd0380225e9bdc124ca2037711d30098a4f9dd90eb312a3ff6 -size 7643329 diff --git a/public/blca_tcga_pan_can_atlas_2018/meta_microbiome.txt b/public/blca_tcga_pan_can_atlas_2018/meta_microbiome.txt deleted file mode 100644 index 8ddc14f6a0..0000000000 --- a/public/blca_tcga_pan_can_atlas_2018/meta_microbiome.txt +++ /dev/null @@ -1,12 +0,0 @@ -cancer_study_identifier: blca_tcga_pan_can_atlas_2018 -genetic_alteration_type: GENERIC_ASSAY -generic_assay_type: MICROBIOME_SIGNATURE -datatype: LIMIT-VALUE -stable_id: microbiome_signature -profile_name: Microbiome Signatures (log RNA Seq CPM) -profile_description: Microbial Signatures (log-cpm) from whole-transcriptome sequencing studies of TCGA (Poore et al. Nature 2020). -data_filename: data_microbiome.txt -show_profile_in_analysis_tab: true -pivot_threshold_value: 0 -value_sort_order: ASC -generic_entity_meta_properties: NAME,DESCRIPTION,URL diff --git a/public/brca_tcga_pan_can_atlas_2018/case_lists/cases_microbiome.txt b/public/brca_tcga_pan_can_atlas_2018/case_lists/cases_microbiome.txt deleted file mode 100755 index bb2c5f82ec..0000000000 --- a/public/brca_tcga_pan_can_atlas_2018/case_lists/cases_microbiome.txt +++ /dev/null @@ -1,6 +0,0 @@ -cancer_study_identifier: brca_tcga_pan_can_atlas_2018 -stable_id: brca_tcga_pan_can_atlas_2018_microbiome -case_list_name: Samples with microbiome data -case_list_description: All samples with microbiome data (1070 samples) -case_list_category: other -case_list_ids: TCGA-OL-A66H-01 TCGA-3C-AALK-01 TCGA-AR-A1AH-01 TCGA-EW-A2FW-01 TCGA-E9-A1R0-01 TCGA-BH-A0BL-01 TCGA-AR-A1AJ-01 TCGA-A7-A13G-01 TCGA-AC-A62Y-01 TCGA-E9-A1QZ-01 TCGA-E9-A1R2-01 TCGA-E9-A3X8-01 TCGA-AR-A255-01 TCGA-E2-A10B-01 TCGA-C8-A1HL-01 TCGA-EW-A2FS-01 TCGA-D8-A1XA-01 TCGA-AO-A1KQ-01 TCGA-A2-A04V-01 TCGA-A8-A0A6-01 TCGA-AN-A0XL-01 TCGA-A7-A3IY-01 TCGA-B6-A0IE-01 TCGA-GM-A2D9-01 TCGA-D8-A3Z5-01 TCGA-E9-A1ND-01 TCGA-AN-A03X-01 TCGA-EW-A1P5-01 TCGA-E9-A1RD-01 TCGA-E9-A1NA-01 TCGA-LD-A66U-01 TCGA-AO-A0J8-01 TCGA-A8-A08R-01 TCGA-BH-A0DZ-01 TCGA-EW-A1PD-01 TCGA-E9-A1N5-01 TCGA-A8-A07B-01 TCGA-D8-A1J8-01 TCGA-B6-A0RV-01 TCGA-E2-A15R-01 TCGA-E9-A3QA-01 TCGA-BH-A2L8-01 TCGA-A7-A0CE-01 TCGA-LL-A6FR-01 TCGA-A2-A3XX-01 TCGA-A2-A0D4-01 TCGA-A2-A0YC-01 TCGA-GM-A2DK-01 TCGA-GM-A2DC-01 TCGA-AR-A24N-01 TCGA-E2-A1B0-01 TCGA-EW-A1IW-01 TCGA-EW-A6S9-01 TCGA-A2-A0CQ-01 TCGA-AQ-A0Y5-01 TCGA-E9-A1N3-01 TCGA-GM-A2DN-01 TCGA-BH-A18K-01 TCGA-A2-A3XT-01 TCGA-A7-A4SE-01 TCGA-BH-A0DT-01 TCGA-AC-A6IV-01 TCGA-LL-A7SZ-01 TCGA-A1-A0SJ-01 TCGA-AR-A2LJ-01 TCGA-AQ-A1H3-01 TCGA-D8-A1JB-01 TCGA-B6-A0IQ-01 TCGA-BH-A0BC-01 TCGA-EW-A1IY-01 TCGA-E2-A3DX-01 TCGA-BH-A1FG-01 TCGA-B6-A0X4-01 TCGA-AR-A0TS-01 TCGA-AN-A0G0-01 TCGA-BH-A18R-01 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TCGA-GM-A4E0-01 TCGA-AC-A5XU-01 diff --git a/public/brca_tcga_pan_can_atlas_2018/data_microbiome.txt b/public/brca_tcga_pan_can_atlas_2018/data_microbiome.txt deleted file mode 100644 index 647eb11d19..0000000000 --- a/public/brca_tcga_pan_can_atlas_2018/data_microbiome.txt +++ /dev/null @@ -1,3 +0,0 @@ -version https://git-lfs.github.com/spec/v1 -oid sha256:219977249f69216c47b97a0d8564dbcdcc209365642be133c8d22d0093409e89 -size 19669562 diff --git a/public/brca_tcga_pan_can_atlas_2018/meta_microbiome.txt b/public/brca_tcga_pan_can_atlas_2018/meta_microbiome.txt deleted file mode 100644 index b0ad692e3e..0000000000 --- a/public/brca_tcga_pan_can_atlas_2018/meta_microbiome.txt +++ /dev/null @@ -1,12 +0,0 @@ -cancer_study_identifier: brca_tcga_pan_can_atlas_2018 -genetic_alteration_type: GENERIC_ASSAY -generic_assay_type: MICROBIOME_SIGNATURE -datatype: LIMIT-VALUE -stable_id: microbiome_signature -profile_name: Microbiome Signatures (log RNA Seq CPM) -profile_description: Microbial Signatures (log-cpm) from whole-transcriptome sequencing studies of TCGA (Poore et al. Nature 2020). -data_filename: data_microbiome.txt -show_profile_in_analysis_tab: true -pivot_threshold_value: 0 -value_sort_order: ASC -generic_entity_meta_properties: NAME,DESCRIPTION,URL diff --git a/public/cesc_tcga_pan_can_atlas_2018/case_lists/cases_microbiome.txt b/public/cesc_tcga_pan_can_atlas_2018/case_lists/cases_microbiome.txt deleted file mode 100755 index c849adf1d4..0000000000 --- a/public/cesc_tcga_pan_can_atlas_2018/case_lists/cases_microbiome.txt +++ /dev/null @@ -1,6 +0,0 @@ -cancer_study_identifier: cesc_tcga_pan_can_atlas_2018 -stable_id: cesc_tcga_pan_can_atlas_2018_microbiome -case_list_name: Samples with microbiome data -case_list_description: All samples with microbiome data (294 samples) -case_list_category: other -case_list_ids: TCGA-VS-A94Z-01 TCGA-Q1-A73R-01 TCGA-C5-A2M1-01 TCGA-EK-A2R7-01 TCGA-EX-A1H6-01 TCGA-XS-A8TJ-01 TCGA-VS-A8EJ-01 TCGA-Q1-A5R2-01 TCGA-JW-A5VI-01 TCGA-ZJ-A8QO-01 TCGA-4J-AA1J-01 TCGA-BI-A0VS-01 TCGA-DS-A1OA-01 TCGA-ZJ-AAXU-01 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TCGA-WL-A834-01 TCGA-C5-A8YT-01 TCGA-EA-A3Y4-01 TCGA-EA-A5ZF-01 TCGA-VS-A9V2-01 TCGA-ZJ-AAXJ-01 TCGA-C5-A7UE-01 TCGA-UC-A7PF-01 TCGA-EA-A5ZE-01 TCGA-JW-A852-01 TCGA-EK-A2R8-01 TCGA-C5-A1ML-01 TCGA-DG-A2KJ-01 TCGA-FU-A3NI-01 TCGA-EA-A439-01 TCGA-EA-A3HR-01 TCGA-C5-A8XI-01 TCGA-EA-A50E-01 TCGA-EK-A2RC-01 TCGA-DS-A0VK-01 TCGA-C5-A1BN-01 TCGA-VS-A957-01 TCGA-C5-A7CM-01 TCGA-JX-A3Q0-01 TCGA-LP-A5U2-01 TCGA-C5-A1BJ-01 TCGA-ZJ-AAXT-01 TCGA-EA-A3HU-01 TCGA-JX-A3Q8-01 TCGA-VS-A8EC-01 TCGA-ZJ-AAXA-01 TCGA-Q1-A6DW-01 diff --git a/public/cesc_tcga_pan_can_atlas_2018/data_microbiome.txt b/public/cesc_tcga_pan_can_atlas_2018/data_microbiome.txt deleted file mode 100644 index 6cee9b3ec0..0000000000 --- a/public/cesc_tcga_pan_can_atlas_2018/data_microbiome.txt +++ /dev/null @@ -1,3 +0,0 @@ -version https://git-lfs.github.com/spec/v1 -oid sha256:875ccc206e06fb39ff3e2bd7995153c496e3b2533b68904ed151608279594250 -size 5593882 diff --git a/public/cesc_tcga_pan_can_atlas_2018/meta_microbiome.txt b/public/cesc_tcga_pan_can_atlas_2018/meta_microbiome.txt deleted file mode 100644 index 94c0d4f72d..0000000000 --- a/public/cesc_tcga_pan_can_atlas_2018/meta_microbiome.txt +++ /dev/null @@ -1,12 +0,0 @@ -cancer_study_identifier: cesc_tcga_pan_can_atlas_2018 -genetic_alteration_type: GENERIC_ASSAY -generic_assay_type: MICROBIOME_SIGNATURE -datatype: LIMIT-VALUE -stable_id: microbiome_signature -profile_name: Microbiome Signatures (log RNA Seq CPM) -profile_description: Microbial Signatures (log-cpm) from whole-transcriptome sequencing studies of TCGA (Poore et al. Nature 2020). -data_filename: data_microbiome.txt -show_profile_in_analysis_tab: true -pivot_threshold_value: 0 -value_sort_order: ASC -generic_entity_meta_properties: NAME,DESCRIPTION,URL diff --git a/public/chol_tcga_pan_can_atlas_2018/case_lists/cases_microbiome.txt b/public/chol_tcga_pan_can_atlas_2018/case_lists/cases_microbiome.txt deleted file mode 100755 index b6d6ce9ff3..0000000000 --- a/public/chol_tcga_pan_can_atlas_2018/case_lists/cases_microbiome.txt +++ /dev/null @@ -1,6 +0,0 @@ -cancer_study_identifier: chol_tcga_pan_can_atlas_2018 -stable_id: chol_tcga_pan_can_atlas_2018_microbiome -case_list_name: Samples with microbiome data -case_list_description: All samples with microbiome data (36 samples) -case_list_category: other -case_list_ids: TCGA-YR-A95A-01 TCGA-W5-AA30-01 TCGA-W5-AA38-01 TCGA-ZH-A8Y5-01 TCGA-4G-AAZO-01 TCGA-3X-AAVC-01 TCGA-W6-AA0S-01 TCGA-W5-AA31-01 TCGA-W5-AA2O-01 TCGA-W5-AA2Z-01 TCGA-W5-AA36-01 TCGA-W5-AA33-01 TCGA-W5-AA39-01 TCGA-W5-AA2U-01 TCGA-W5-AA2X-01 TCGA-W5-AA2T-01 TCGA-3X-AAVA-01 TCGA-ZH-A8Y6-01 TCGA-WD-A7RX-01 TCGA-W5-AA34-01 TCGA-W5-AA2R-01 TCGA-W5-AA2I-01 TCGA-ZH-A8Y4-01 TCGA-ZH-A8Y8-01 TCGA-3X-AAV9-01 TCGA-4G-AAZT-01 TCGA-W5-AA2H-01 TCGA-3X-AAVB-01 TCGA-ZH-A8Y2-01 TCGA-ZD-A8I3-01 TCGA-ZU-A8S4-01 TCGA-W5-AA2W-01 TCGA-3X-AAVE-01 TCGA-W5-AA2G-01 TCGA-ZH-A8Y1-01 TCGA-W5-AA2Q-01 diff --git a/public/chol_tcga_pan_can_atlas_2018/data_microbiome.txt b/public/chol_tcga_pan_can_atlas_2018/data_microbiome.txt deleted file mode 100644 index b5438ccd30..0000000000 --- a/public/chol_tcga_pan_can_atlas_2018/data_microbiome.txt +++ /dev/null @@ -1,3 +0,0 @@ -version https://git-lfs.github.com/spec/v1 -oid sha256:af15e7640baf9b73609f62fc8cfd3d64b6e67dcbd480780123edd6bf87ad8886 -size 914451 diff --git a/public/chol_tcga_pan_can_atlas_2018/meta_microbiome.txt b/public/chol_tcga_pan_can_atlas_2018/meta_microbiome.txt deleted file mode 100644 index 801606bf0f..0000000000 --- a/public/chol_tcga_pan_can_atlas_2018/meta_microbiome.txt +++ /dev/null @@ -1,12 +0,0 @@ -cancer_study_identifier: chol_tcga_pan_can_atlas_2018 -genetic_alteration_type: GENERIC_ASSAY -generic_assay_type: MICROBIOME_SIGNATURE -datatype: LIMIT-VALUE -stable_id: microbiome_signature -profile_name: Microbiome Signatures (log RNA Seq CPM) -profile_description: Microbial Signatures (log-cpm) from whole-transcriptome sequencing studies of TCGA (Poore et al. Nature 2020). -data_filename: data_microbiome.txt -show_profile_in_analysis_tab: true -pivot_threshold_value: 0 -value_sort_order: ASC -generic_entity_meta_properties: NAME,DESCRIPTION,URL diff --git a/public/coadread_tcga_pan_can_atlas_2018/case_lists/cases_microbiome.txt b/public/coadread_tcga_pan_can_atlas_2018/case_lists/cases_microbiome.txt deleted file mode 100644 index 0ff1c025a0..0000000000 --- a/public/coadread_tcga_pan_can_atlas_2018/case_lists/cases_microbiome.txt +++ /dev/null @@ -1,6 +0,0 @@ -cancer_study_identifier: coadread_tcga_pan_can_atlas_2018 -stable_id: coadread_tcga_pan_can_atlas_2018_microbiome -case_list_name: Samples with microbiome data -case_list_description: All samples with microbiome data (583 samples) -case_list_category: other -case_list_ids: TCGA-AF-3911-01 TCGA-AG-3901-01 TCGA-3L-AA1B-01 TCGA-D5-5538-01 TCGA-F4-6854-01 TCGA-AG-3898-01 TCGA-AF-2692-01 TCGA-AA-3821-01 TCGA-AG-A026-01 TCGA-CM-5864-01 TCGA-CL-4957-01 TCGA-T9-A92H-01 TCGA-A6-A567-01 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TCGA-AG-3599-01 TCGA-CM-6680-01 TCGA-AF-6136-01 TCGA-AA-3660-01 TCGA-CM-4747-01 TCGA-EF-5831-01 TCGA-DM-A28G-01 TCGA-G4-6297-01 TCGA-AA-3529-01 TCGA-CM-6170-01 TCGA-AG-3601-01 TCGA-DY-A1DD-01 diff --git a/public/coadread_tcga_pan_can_atlas_2018/data_microbiome.txt b/public/coadread_tcga_pan_can_atlas_2018/data_microbiome.txt deleted file mode 100644 index 0551031b33..0000000000 --- a/public/coadread_tcga_pan_can_atlas_2018/data_microbiome.txt +++ /dev/null @@ -1,3 +0,0 @@ -version https://git-lfs.github.com/spec/v1 -oid sha256:a87c25dec7140772bdafee5125f852b58413049223cd1484f65f5713678b1c24 -size 10836121 diff --git a/public/coadread_tcga_pan_can_atlas_2018/meta_microbiome.txt b/public/coadread_tcga_pan_can_atlas_2018/meta_microbiome.txt deleted file mode 100644 index 1dbc982ce0..0000000000 --- a/public/coadread_tcga_pan_can_atlas_2018/meta_microbiome.txt +++ /dev/null @@ -1,12 +0,0 @@ -cancer_study_identifier: coadread_tcga_pan_can_atlas_2018 -genetic_alteration_type: GENERIC_ASSAY -generic_assay_type: MICROBIOME_SIGNATURE -datatype: LIMIT-VALUE -stable_id: microbiome_signature -profile_name: Microbiome Signatures (log RNA Seq CPM) -profile_description: Microbial Signatures (log-cpm) from whole-transcriptome sequencing studies of TCGA (Poore et al. Nature 2020). -data_filename: data_microbiome.txt -show_profile_in_analysis_tab: true -pivot_threshold_value: 0 -value_sort_order: ASC -generic_entity_meta_properties: NAME,DESCRIPTION,URL diff --git a/public/dlbc_tcga_pan_can_atlas_2018/case_lists/cases_microbiome.txt b/public/dlbc_tcga_pan_can_atlas_2018/case_lists/cases_microbiome.txt deleted file mode 100644 index c259186211..0000000000 --- a/public/dlbc_tcga_pan_can_atlas_2018/case_lists/cases_microbiome.txt +++ /dev/null @@ -1,6 +0,0 @@ -cancer_study_identifier: dlbc_tcga_pan_can_atlas_2018 -stable_id: dlbc_tcga_pan_can_atlas_2018_microbiome -case_list_name: Samples with microbiome data -case_list_description: All samples with microbiome data (47 samples) -case_list_category: other -case_list_ids: TCGA-FF-A7CQ-01 TCGA-FF-8061-01 TCGA-FF-8041-01 TCGA-GS-A9TZ-01 TCGA-G8-6907-01 TCGA-G8-6914-01 TCGA-G8-6906-01 TCGA-FA-A6HO-01 TCGA-FA-A82F-01 TCGA-GS-A9TT-01 TCGA-RQ-A68N-01 TCGA-GR-7351-01 TCGA-FF-A7CX-01 TCGA-FF-8062-01 TCGA-FF-A7CW-01 TCGA-GR-A4D5-01 TCGA-FA-A4BB-01 TCGA-GS-A9U4-01 TCGA-FA-A6HN-01 TCGA-GR-7353-01 TCGA-RQ-AAAT-01 TCGA-GS-A9TY-01 TCGA-RQ-A6JB-01 TCGA-G8-6325-01 TCGA-FA-A86F-01 TCGA-FA-8693-01 TCGA-GR-A4D4-01 TCGA-FA-A7Q1-01 TCGA-FA-A4XK-01 TCGA-GR-A4D6-01 TCGA-GS-A9TV-01 TCGA-GS-A9TQ-01 TCGA-FF-8043-01 TCGA-FF-A7CR-01 TCGA-GS-A9TU-01 TCGA-G8-6909-01 TCGA-GR-A4D9-01 TCGA-FF-8047-01 TCGA-G8-6326-01 TCGA-GS-A9TX-01 TCGA-GS-A9TW-01 TCGA-FM-8000-01 TCGA-G8-6324-01 TCGA-FF-8042-01 TCGA-GS-A9U3-01 TCGA-FF-8046-01 TCGA-FA-A7DS-01 diff --git a/public/dlbc_tcga_pan_can_atlas_2018/data_microbiome.txt b/public/dlbc_tcga_pan_can_atlas_2018/data_microbiome.txt deleted file mode 100644 index 59c14c3ad5..0000000000 --- a/public/dlbc_tcga_pan_can_atlas_2018/data_microbiome.txt +++ /dev/null @@ -1,3 +0,0 @@ -version https://git-lfs.github.com/spec/v1 -oid sha256:adb038f73b0458bb5becb9c7e8e503e61d7d1636cdb20bcd90231e1de0e1ebaf -size 1113780 diff --git a/public/dlbc_tcga_pan_can_atlas_2018/meta_microbiome.txt b/public/dlbc_tcga_pan_can_atlas_2018/meta_microbiome.txt deleted file mode 100644 index da28fc0c0f..0000000000 --- a/public/dlbc_tcga_pan_can_atlas_2018/meta_microbiome.txt +++ /dev/null @@ -1,12 +0,0 @@ -cancer_study_identifier: dlbc_tcga_pan_can_atlas_2018 -genetic_alteration_type: GENERIC_ASSAY -generic_assay_type: MICROBIOME_SIGNATURE -datatype: LIMIT-VALUE -stable_id: microbiome_signature -profile_name: Microbiome Signatures (log RNA Seq CPM) -profile_description: Microbial Signatures (log-cpm) from whole-transcriptome sequencing studies of TCGA (Poore et al. Nature 2020). -data_filename: data_microbiome.txt -show_profile_in_analysis_tab: true -pivot_threshold_value: 0 -value_sort_order: ASC -generic_entity_meta_properties: NAME,DESCRIPTION,URL diff --git a/public/esca_tcga_pan_can_atlas_2018/case_lists/cases_microbiome.txt b/public/esca_tcga_pan_can_atlas_2018/case_lists/cases_microbiome.txt deleted file mode 100644 index 785078a336..0000000000 --- a/public/esca_tcga_pan_can_atlas_2018/case_lists/cases_microbiome.txt +++ /dev/null @@ -1,6 +0,0 @@ -cancer_study_identifier: esca_tcga_pan_can_atlas_2018 -stable_id: esca_tcga_pan_can_atlas_2018_microbiome -case_list_name: Samples with microbiome data -case_list_description: All samples with microbiome data (181 samples) -case_list_category: other -case_list_ids: TCGA-LN-A5U7-01 TCGA-JY-A6FH-01 TCGA-L7-A56G-01 TCGA-R6-A8W8-01 TCGA-2H-A9GM-01 TCGA-Z6-A9VB-01 TCGA-IG-A97H-01 TCGA-JY-A939-01 TCGA-R6-A6XQ-01 TCGA-IG-A4P3-01 TCGA-LN-A7HY-01 TCGA-R6-A6L6-01 TCGA-IG-A5B8-01 TCGA-L5-A43J-01 TCGA-L5-A8NT-01 TCGA-R6-A8WC-01 TCGA-L5-A8NU-01 TCGA-2H-A9GK-01 TCGA-LN-A49W-01 TCGA-IG-A97I-01 TCGA-L5-A8NQ-01 TCGA-IG-A3YA-01 TCGA-LN-A7HW-01 TCGA-LN-A7HX-01 TCGA-IG-A51D-01 TCGA-L5-A8NL-01 TCGA-L5-A88V-01 TCGA-V5-A7RC-01 TCGA-L5-A43I-01 TCGA-R6-A6DQ-01 TCGA-2H-A9GO-01 TCGA-VR-AA4G-01 TCGA-LN-A49O-01 TCGA-L5-A8NR-01 TCGA-LN-A8I1-01 TCGA-LN-A4A8-01 TCGA-VR-A8EX-01 TCGA-LN-A8HZ-01 TCGA-LN-A49K-01 TCGA-R6-A6L4-01 TCGA-LN-A49Y-01 TCGA-LN-A4A4-01 TCGA-IG-A3YB-01 TCGA-KH-A6WC-01 TCGA-LN-A4A5-01 TCGA-IG-A8O2-01 TCGA-JY-A6FA-01 TCGA-R6-A6Y0-01 TCGA-LN-A4A1-01 TCGA-IG-A4QT-01 TCGA-JY-A6FG-01 TCGA-V5-A7RB-01 TCGA-LN-A9FP-01 TCGA-L5-A43H-01 TCGA-JY-A6FB-01 TCGA-2H-A9GF-01 TCGA-VR-A8EZ-01 TCGA-L5-A8NW-01 TCGA-LN-A4A2-01 TCGA-L5-A4OF-01 TCGA-LN-A5U5-01 TCGA-L5-A4OR-01 TCGA-L5-A8NS-01 TCGA-IG-A625-01 TCGA-Z6-AAPN-01 TCGA-VR-A8Q7-01 TCGA-L5-A893-01 TCGA-R6-A6KZ-01 TCGA-2H-A9GR-01 TCGA-2H-A9GJ-01 TCGA-2H-A9GQ-01 TCGA-LN-A4A9-01 TCGA-L5-A4OQ-01 TCGA-VR-AA7D-01 TCGA-VR-A8EY-01 TCGA-L5-A43C-01 TCGA-VR-A8ET-01 TCGA-L5-A4ON-01 TCGA-R6-A6XG-01 TCGA-L5-A8NE-01 TCGA-L5-A8NF-01 TCGA-JY-A6FE-01 TCGA-V5-AASX-01 TCGA-LN-A4A3-01 TCGA-V5-A7RE-01 TCGA-L5-A4OU-01 TCGA-JY-A6F8-01 TCGA-L5-A4OO-01 TCGA-LN-A9FQ-01 TCGA-R6-A6Y2-01 TCGA-JY-A6FD-01 TCGA-L5-A8NN-01 TCGA-LN-A49X-01 TCGA-LN-A4MQ-01 TCGA-XP-A8T8-01 TCGA-LN-A49P-01 TCGA-L5-A4OP-01 TCGA-LN-A49R-01 TCGA-LN-A4MR-01 TCGA-LN-A9FR-01 TCGA-L5-A43E-01 TCGA-VR-A8EU-01 TCGA-L5-A891-01 TCGA-VR-A8EW-01 TCGA-LN-A9FO-01 TCGA-L5-A4OH-01 TCGA-Z6-A8JD-01 TCGA-L5-A4OT-01 TCGA-L5-A43M-01 TCGA-L5-A88Z-01 TCGA-V5-AASV-01 TCGA-L5-A8NG-01 TCGA-L5-A4OG-01 TCGA-L5-A8NH-01 TCGA-L5-A4OI-01 TCGA-L5-A8NJ-01 TCGA-S8-A6BW-01 TCGA-Q9-A6FU-01 TCGA-ZR-A9CJ-01 TCGA-IG-A7DP-01 TCGA-LN-A49S-01 TCGA-L5-A4OS-01 TCGA-L5-A4OX-01 TCGA-IC-A6RE-01 TCGA-L5-A4OW-01 TCGA-LN-A49N-01 TCGA-L5-A88Y-01 TCGA-LN-A8I0-01 TCGA-L5-A4OM-01 TCGA-IG-A5S3-01 TCGA-Z6-A8JE-01 TCGA-M9-A5M8-01 TCGA-2H-A9GL-01 TCGA-S8-A6BV-01 TCGA-V5-AASW-01 TCGA-RE-A7BO-01 TCGA-2H-A9GI-01 TCGA-IG-A6QS-01 TCGA-JY-A93E-01 TCGA-L5-A8NK-01 TCGA-JY-A93F-01 TCGA-VR-AA4D-01 TCGA-IG-A50L-01 TCGA-L5-A4OJ-01 TCGA-VR-A8EP-01 TCGA-L5-A88W-01 TCGA-L5-A8NV-01 TCGA-L5-A8NI-01 TCGA-IG-A3I8-01 TCGA-LN-A7HV-01 TCGA-VR-A8EO-01 TCGA-VR-A8ER-01 TCGA-L7-A6VZ-01 TCGA-LN-A49U-01 TCGA-IG-A4QS-01 TCGA-LN-A5U6-01 TCGA-X8-AAAR-01 TCGA-R6-A6DN-01 TCGA-IG-A3Y9-01 TCGA-XP-A8T6-01 TCGA-JY-A93C-01 TCGA-IG-A3QL-01 TCGA-JY-A93D-01 TCGA-L5-A88S-01 TCGA-2H-A9GN-01 TCGA-VR-AA7I-01 TCGA-2H-A9GH-01 TCGA-LN-A49V-01 TCGA-LN-A49L-01 TCGA-VR-AA7B-01 TCGA-LN-A49M-01 TCGA-LN-A4A6-01 TCGA-LN-A7HZ-01 TCGA-Q9-A6FW-01 TCGA-VR-A8EQ-01 TCGA-R6-A8WG-01 TCGA-R6-A8W5-01 TCGA-JY-A938-01 TCGA-IG-A3YC-01 TCGA-L5-A4OE-01 TCGA-L5-A8NM-01 diff --git a/public/esca_tcga_pan_can_atlas_2018/data_microbiome.txt b/public/esca_tcga_pan_can_atlas_2018/data_microbiome.txt deleted file mode 100644 index 968675bbe7..0000000000 --- a/public/esca_tcga_pan_can_atlas_2018/data_microbiome.txt +++ /dev/null @@ -1,3 +0,0 @@ -version https://git-lfs.github.com/spec/v1 -oid sha256:fc0b5e6b475b4549beaa26f16ec5a80e55307f8764a767bc910c746f2beae682 -size 3544267 diff --git a/public/esca_tcga_pan_can_atlas_2018/meta_microbiome.txt b/public/esca_tcga_pan_can_atlas_2018/meta_microbiome.txt deleted file mode 100644 index dfd07ff84e..0000000000 --- a/public/esca_tcga_pan_can_atlas_2018/meta_microbiome.txt +++ /dev/null @@ -1,12 +0,0 @@ -cancer_study_identifier: esca_tcga_pan_can_atlas_2018 -genetic_alteration_type: GENERIC_ASSAY -generic_assay_type: MICROBIOME_SIGNATURE -datatype: LIMIT-VALUE -stable_id: microbiome_signature -profile_name: Microbiome Signatures (log RNA Seq CPM) -profile_description: Microbial Signatures (log-cpm) from whole-transcriptome sequencing studies of TCGA (Poore et al. Nature 2020). -data_filename: data_microbiome.txt -show_profile_in_analysis_tab: true -pivot_threshold_value: 0 -value_sort_order: ASC -generic_entity_meta_properties: NAME,DESCRIPTION,URL diff --git a/public/gbm_tcga_pan_can_atlas_2018/case_lists/cases_microbiome.txt b/public/gbm_tcga_pan_can_atlas_2018/case_lists/cases_microbiome.txt deleted file mode 100644 index 2fbc0e7619..0000000000 --- a/public/gbm_tcga_pan_can_atlas_2018/case_lists/cases_microbiome.txt +++ /dev/null @@ -1,6 +0,0 @@ -cancer_study_identifier: gbm_tcga_pan_can_atlas_2018 -stable_id: gbm_tcga_pan_can_atlas_2018_microbiome -case_list_name: Samples with microbiome data -case_list_description: All samples with microbiome data (160 samples) -case_list_category: other -case_list_ids: TCGA-27-1832-01 TCGA-27-1831-01 TCGA-28-5216-01 TCGA-12-1597-01 TCGA-28-5218-01 TCGA-06-5418-01 TCGA-27-2523-01 TCGA-06-0125-01 TCGA-06-0219-01 TCGA-06-0125-02 TCGA-06-5414-01 TCGA-28-1747-01 TCGA-12-0616-01 TCGA-06-5415-01 TCGA-28-2499-01 TCGA-06-5411-01 TCGA-06-0211-01 TCGA-19-1787-01 TCGA-27-1835-01 TCGA-28-5213-01 TCGA-06-2561-01 TCGA-14-1829-01 TCGA-06-2563-01 TCGA-14-0817-01 TCGA-76-4932-01 TCGA-06-5412-01 TCGA-26-5135-01 TCGA-16-1045-01 TCGA-06-0141-01 TCGA-06-2557-01 TCGA-06-0157-01 TCGA-28-1753-01 TCGA-26-5139-01 TCGA-26-5136-01 TCGA-28-2509-01 TCGA-06-0168-01 TCGA-26-1442-01 TCGA-12-0821-01 TCGA-06-2567-01 TCGA-27-2526-01 TCGA-28-2513-01 TCGA-32-2615-01 TCGA-27-1834-01 TCGA-14-0787-01 TCGA-06-0178-01 TCGA-12-5295-01 TCGA-12-3650-01 TCGA-28-5220-01 TCGA-06-0190-01 TCGA-02-2483-01 TCGA-06-5417-01 TCGA-14-1825-01 TCGA-12-0618-01 TCGA-06-5413-01 TCGA-32-2616-01 TCGA-32-5222-01 TCGA-06-0882-01 TCGA-12-3653-01 TCGA-06-0238-01 TCGA-27-2524-01 TCGA-41-3915-01 TCGA-26-5134-01 TCGA-19-5960-01 TCGA-28-5215-01 TCGA-19-2619-01 TCGA-14-1034-01 TCGA-14-1034-02 TCGA-15-1444-01 TCGA-06-5856-01 TCGA-32-4213-01 TCGA-06-0646-01 TCGA-19-2620-01 TCGA-76-4928-01 TCGA-41-4097-01 TCGA-28-5204-01 TCGA-06-0745-01 TCGA-76-4926-01 TCGA-32-1970-01 TCGA-28-5208-01 TCGA-15-0742-01 TCGA-06-1804-01 TCGA-27-2528-01 TCGA-14-0789-01 TCGA-08-0386-01 TCGA-02-0055-01 TCGA-76-4931-01 TCGA-27-1830-01 TCGA-06-0184-01 TCGA-12-3652-01 TCGA-06-0187-01 TCGA-14-1823-01 TCGA-02-2486-01 TCGA-16-0846-01 TCGA-06-0221-02 TCGA-06-2559-01 TCGA-06-0747-01 TCGA-32-1980-01 TCGA-06-0649-01 TCGA-28-5209-01 TCGA-76-4929-01 TCGA-06-0686-01 TCGA-76-4927-01 TCGA-28-5207-01 TCGA-06-0171-02 TCGA-06-2558-01 TCGA-06-0644-01 TCGA-06-2562-01 TCGA-06-2570-01 TCGA-26-5132-01 TCGA-12-5299-01 TCGA-32-2632-01 TCGA-19-4065-01 TCGA-41-2572-01 TCGA-06-0744-01 TCGA-06-0130-01 TCGA-06-0749-01 TCGA-19-2629-01 TCGA-06-0174-01 TCGA-06-5408-01 TCGA-06-2569-01 TCGA-06-0190-02 TCGA-06-0743-01 TCGA-76-4925-01 TCGA-06-0645-01 TCGA-27-2519-01 TCGA-14-0790-01 TCGA-14-2554-01 TCGA-06-0139-01 TCGA-28-2514-01 TCGA-06-5859-01 TCGA-06-0878-01 TCGA-19-2624-01 TCGA-26-5133-01 TCGA-06-0211-02 TCGA-06-5416-01 TCGA-27-1837-01 TCGA-06-0132-01 TCGA-06-5858-01 TCGA-27-2521-01 TCGA-14-0871-01 TCGA-32-2638-01 TCGA-06-0138-01 TCGA-32-2634-01 TCGA-06-5410-01 TCGA-41-5651-01 TCGA-06-2564-01 TCGA-06-0158-01 TCGA-12-0619-01 TCGA-14-0781-01 TCGA-41-2571-01 TCGA-06-0129-01 TCGA-19-2625-01 TCGA-06-2565-01 TCGA-02-2485-01 TCGA-06-0210-01 TCGA-06-0210-02 TCGA-19-1390-01 TCGA-02-0047-01 TCGA-06-0750-01 TCGA-32-1982-01 diff --git a/public/gbm_tcga_pan_can_atlas_2018/data_microbiome.txt b/public/gbm_tcga_pan_can_atlas_2018/data_microbiome.txt deleted file mode 100644 index 6445a1ae41..0000000000 --- a/public/gbm_tcga_pan_can_atlas_2018/data_microbiome.txt +++ /dev/null @@ -1,3 +0,0 @@ -version https://git-lfs.github.com/spec/v1 -oid sha256:ed5bad3b855eec1fd5f27703da5fea06f0e5d416e9b0cf23f3feb6e3c1032b91 -size 3163317 diff --git a/public/gbm_tcga_pan_can_atlas_2018/meta_microbiome.txt b/public/gbm_tcga_pan_can_atlas_2018/meta_microbiome.txt deleted file mode 100644 index 2f0f792adb..0000000000 --- a/public/gbm_tcga_pan_can_atlas_2018/meta_microbiome.txt +++ /dev/null @@ -1,12 +0,0 @@ -cancer_study_identifier: gbm_tcga_pan_can_atlas_2018 -genetic_alteration_type: GENERIC_ASSAY -generic_assay_type: MICROBIOME_SIGNATURE -datatype: LIMIT-VALUE -stable_id: microbiome_signature -profile_name: Microbiome Signatures (log RNA Seq CPM) -profile_description: Microbial Signatures (log-cpm) from whole-transcriptome sequencing studies of TCGA (Poore et al. Nature 2020). -data_filename: data_microbiome.txt -show_profile_in_analysis_tab: true -pivot_threshold_value: 0 -value_sort_order: ASC -generic_entity_meta_properties: NAME,DESCRIPTION,URL diff --git a/public/hnsc_tcga_pan_can_atlas_2018/case_lists/cases_microbiome.txt b/public/hnsc_tcga_pan_can_atlas_2018/case_lists/cases_microbiome.txt deleted file mode 100644 index 0b3d09cb6d..0000000000 --- a/public/hnsc_tcga_pan_can_atlas_2018/case_lists/cases_microbiome.txt +++ /dev/null @@ -1,6 +0,0 @@ -cancer_study_identifier: hnsc_tcga_pan_can_atlas_2018 -stable_id: hnsc_tcga_pan_can_atlas_2018_microbiome -case_list_name: Samples with microbiome data -case_list_description: All samples with microbiome data (514 samples) -case_list_category: other -case_list_ids: TCGA-CV-A45Q-01 TCGA-BA-5149-01 TCGA-UF-A7JJ-01 TCGA-CR-6467-01 TCGA-T2-A6WX-01 TCGA-IQ-A61O-01 TCGA-CN-6998-01 TCGA-CN-6019-01 TCGA-CV-5966-01 TCGA-CN-5366-01 TCGA-MT-A67A-01 TCGA-CX-7085-01 TCGA-CQ-6220-01 TCGA-CV-A45Y-01 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TCGA-CN-6996-01 TCGA-CV-7091-01 TCGA-BA-A4II-01 TCGA-BA-A6DE-01 diff --git a/public/hnsc_tcga_pan_can_atlas_2018/data_microbiome.txt b/public/hnsc_tcga_pan_can_atlas_2018/data_microbiome.txt deleted file mode 100644 index 766bf797d6..0000000000 --- a/public/hnsc_tcga_pan_can_atlas_2018/data_microbiome.txt +++ /dev/null @@ -1,3 +0,0 @@ -version https://git-lfs.github.com/spec/v1 -oid sha256:84ea91e07b36c71ce3bed5b39b8c21f56425ba120e13bd6449ffe79dfea489f8 -size 9584722 diff --git a/public/hnsc_tcga_pan_can_atlas_2018/meta_microbiome.txt b/public/hnsc_tcga_pan_can_atlas_2018/meta_microbiome.txt deleted file mode 100644 index 3a4b992de9..0000000000 --- a/public/hnsc_tcga_pan_can_atlas_2018/meta_microbiome.txt +++ /dev/null @@ -1,12 +0,0 @@ -cancer_study_identifier: hnsc_tcga_pan_can_atlas_2018 -genetic_alteration_type: GENERIC_ASSAY -generic_assay_type: MICROBIOME_SIGNATURE -datatype: LIMIT-VALUE -stable_id: microbiome_signature -profile_name: Microbiome Signatures (log RNA Seq CPM) -profile_description: Microbial Signatures (log-cpm) from whole-transcriptome sequencing studies of TCGA (Poore et al. Nature 2020). -data_filename: data_microbiome.txt -show_profile_in_analysis_tab: true -pivot_threshold_value: 0 -value_sort_order: ASC -generic_entity_meta_properties: NAME,DESCRIPTION,URL diff --git a/public/kich_tcga_pan_can_atlas_2018/case_lists/cases_microbiome.txt b/public/kich_tcga_pan_can_atlas_2018/case_lists/cases_microbiome.txt deleted file mode 100644 index 9f1d89df02..0000000000 --- a/public/kich_tcga_pan_can_atlas_2018/case_lists/cases_microbiome.txt +++ /dev/null @@ -1,6 +0,0 @@ -cancer_study_identifier: kich_tcga_pan_can_atlas_2018 -stable_id: kich_tcga_pan_can_atlas_2018_microbiome -case_list_name: Samples with microbiome data -case_list_description: All samples with microbiome data (65 samples) -case_list_category: other -case_list_ids: TCGA-KN-8429-01 TCGA-KN-8428-01 TCGA-KN-8426-01 TCGA-KM-8439-01 TCGA-KL-8345-01 TCGA-KL-8332-01 TCGA-KN-8423-01 TCGA-KO-8405-01 TCGA-KL-8338-01 TCGA-KL-8337-01 TCGA-KN-8433-01 TCGA-KN-8435-01 TCGA-KL-8326-01 TCGA-KM-8441-01 TCGA-KL-8334-01 TCGA-KL-8339-01 TCGA-KO-8408-01 TCGA-KN-8437-01 TCGA-KO-8404-01 TCGA-KL-8331-01 TCGA-KN-8418-01 TCGA-KO-8410-01 TCGA-KO-8406-01 TCGA-KM-8443-01 TCGA-KN-8432-01 TCGA-KL-8341-01 TCGA-KM-8440-01 TCGA-KL-8325-01 TCGA-KM-8639-01 TCGA-KL-8323-01 TCGA-KN-8427-01 TCGA-KO-8414-01 TCGA-KL-8344-01 TCGA-KL-8342-01 TCGA-KO-8413-01 TCGA-KN-8431-01 TCGA-KO-8411-01 TCGA-KL-8343-01 TCGA-KL-8333-01 TCGA-KM-8438-01 TCGA-KM-8476-01 TCGA-KN-8434-01 TCGA-KO-8416-01 TCGA-KL-8324-01 TCGA-KN-8424-01 TCGA-KL-8346-01 TCGA-KN-8422-01 TCGA-KL-8335-01 TCGA-KL-8328-01 TCGA-KL-8329-01 TCGA-KM-8477-01 TCGA-KL-8327-01 TCGA-KN-8436-01 TCGA-KL-8340-01 TCGA-KO-8409-01 TCGA-KO-8417-01 TCGA-KN-8419-01 TCGA-KM-8442-01 TCGA-KO-8403-01 TCGA-KO-8415-01 TCGA-KN-8425-01 TCGA-KL-8336-01 TCGA-KL-8330-01 TCGA-KN-8421-01 TCGA-KO-8407-01 diff --git a/public/kich_tcga_pan_can_atlas_2018/data_microbiome.txt b/public/kich_tcga_pan_can_atlas_2018/data_microbiome.txt deleted file mode 100644 index 751c62fa0a..0000000000 --- a/public/kich_tcga_pan_can_atlas_2018/data_microbiome.txt +++ /dev/null @@ -1,3 +0,0 @@ -version https://git-lfs.github.com/spec/v1 -oid sha256:b7c1df5302db91e8cb84218b309ac7f3d0798a355881bafe1c5f940ba2f83c12 -size 1440709 diff --git a/public/kich_tcga_pan_can_atlas_2018/meta_microbiome.txt b/public/kich_tcga_pan_can_atlas_2018/meta_microbiome.txt deleted file mode 100644 index 8889d792c9..0000000000 --- a/public/kich_tcga_pan_can_atlas_2018/meta_microbiome.txt +++ /dev/null @@ -1,12 +0,0 @@ -cancer_study_identifier: kich_tcga_pan_can_atlas_2018 -genetic_alteration_type: GENERIC_ASSAY -generic_assay_type: MICROBIOME_SIGNATURE -datatype: LIMIT-VALUE -stable_id: microbiome_signature -profile_name: Microbiome Signatures (log RNA Seq CPM) -profile_description: Microbial Signatures (log-cpm) from whole-transcriptome sequencing studies of TCGA (Poore et al. Nature 2020). -data_filename: data_microbiome.txt -show_profile_in_analysis_tab: true -pivot_threshold_value: 0 -value_sort_order: ASC -generic_entity_meta_properties: NAME,DESCRIPTION,URL diff --git a/public/kirc_tcga_pan_can_atlas_2018/case_lists/cases_microbiome.txt b/public/kirc_tcga_pan_can_atlas_2018/case_lists/cases_microbiome.txt deleted file mode 100644 index d4e2e06d77..0000000000 --- a/public/kirc_tcga_pan_can_atlas_2018/case_lists/cases_microbiome.txt +++ /dev/null @@ -1,6 +0,0 @@ -cancer_study_identifier: kirc_tcga_pan_can_atlas_2018 -stable_id: kirc_tcga_pan_can_atlas_2018_microbiome -case_list_name: Samples with microbiome data -case_list_description: All samples with microbiome data (509 samples) -case_list_category: other -case_list_ids: TCGA-CZ-4863-01 TCGA-BP-4165-01 TCGA-B0-5077-01 TCGA-CJ-4876-01 TCGA-AK-3445-01 TCGA-CJ-4902-01 TCGA-BP-4161-01 TCGA-B0-4823-01 TCGA-CW-6087-01 TCGA-B0-5098-01 TCGA-B0-5113-01 TCGA-DV-5566-01 TCGA-B0-5117-01 TCGA-MM-A564-01 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a/public/kirc_tcga_pan_can_atlas_2018/data_microbiome.txt b/public/kirc_tcga_pan_can_atlas_2018/data_microbiome.txt deleted file mode 100644 index 475caeb49a..0000000000 --- a/public/kirc_tcga_pan_can_atlas_2018/data_microbiome.txt +++ /dev/null @@ -1,3 +0,0 @@ -version https://git-lfs.github.com/spec/v1 -oid sha256:2f8133469b0e6dd40a42dea69fb384fd4321d16c2b54e094d704ab57fa337b11 -size 9492596 diff --git a/public/kirc_tcga_pan_can_atlas_2018/meta_microbiome.txt b/public/kirc_tcga_pan_can_atlas_2018/meta_microbiome.txt deleted file mode 100644 index c96313dab8..0000000000 --- a/public/kirc_tcga_pan_can_atlas_2018/meta_microbiome.txt +++ /dev/null @@ -1,12 +0,0 @@ -cancer_study_identifier: kirc_tcga_pan_can_atlas_2018 -genetic_alteration_type: GENERIC_ASSAY -generic_assay_type: MICROBIOME_SIGNATURE -datatype: LIMIT-VALUE -stable_id: microbiome_signature -profile_name: Microbiome Signatures (log RNA Seq CPM) -profile_description: Microbial Signatures (log-cpm) from whole-transcriptome sequencing studies of TCGA (Poore et al. Nature 2020). -data_filename: data_microbiome.txt -show_profile_in_analysis_tab: true -pivot_threshold_value: 0 -value_sort_order: ASC -generic_entity_meta_properties: NAME,DESCRIPTION,URL diff --git a/public/kirp_tcga_pan_can_atlas_2018/case_lists/cases_microbiome.txt b/public/kirp_tcga_pan_can_atlas_2018/case_lists/cases_microbiome.txt deleted file mode 100644 index 5b25bad761..0000000000 --- a/public/kirp_tcga_pan_can_atlas_2018/case_lists/cases_microbiome.txt +++ /dev/null @@ -1,6 +0,0 @@ -cancer_study_identifier: kirp_tcga_pan_can_atlas_2018 -stable_id: kirp_tcga_pan_can_atlas_2018_microbiome -case_list_name: Samples with microbiome data -case_list_description: All samples with microbiome data (278 samples) -case_list_category: other -case_list_ids: TCGA-B1-A657-01 TCGA-F9-A8NY-01 TCGA-2Z-A9JP-01 TCGA-A4-8312-01 TCGA-2K-A9WE-01 TCGA-A4-8311-01 TCGA-GL-A9DD-01 TCGA-IA-A83V-01 TCGA-SX-A7SO-01 TCGA-PJ-A5Z9-01 TCGA-G7-A8LD-01 TCGA-G7-7502-01 TCGA-MH-A856-01 TCGA-BQ-5879-01 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TCGA-A4-A5Y1-01 TCGA-P4-A5ED-01 TCGA-A4-7288-01 TCGA-GL-7773-01 TCGA-KV-A74V-01 TCGA-A4-8630-01 TCGA-A4-7584-01 TCGA-GL-A9DC-01 TCGA-2Z-A9JL-01 TCGA-G7-7501-01 TCGA-HE-A5NI-01 TCGA-B9-4115-01 TCGA-HE-A5NF-01 TCGA-DZ-6135-01 TCGA-AL-3466-01 TCGA-UZ-A9PP-01 \ No newline at end of file diff --git a/public/kirp_tcga_pan_can_atlas_2018/data_microbiome.txt b/public/kirp_tcga_pan_can_atlas_2018/data_microbiome.txt deleted file mode 100644 index de8c603baa..0000000000 --- a/public/kirp_tcga_pan_can_atlas_2018/data_microbiome.txt +++ /dev/null @@ -1,3 +0,0 @@ -version https://git-lfs.github.com/spec/v1 -oid sha256:5d6109d5c2ef9e388da23223b953d58964c9247b8e05ef1881dc045bdd9366d1 -size 5303965 diff --git a/public/kirp_tcga_pan_can_atlas_2018/meta_microbiome.txt b/public/kirp_tcga_pan_can_atlas_2018/meta_microbiome.txt deleted file mode 100644 index 1877eaa9a0..0000000000 --- a/public/kirp_tcga_pan_can_atlas_2018/meta_microbiome.txt +++ /dev/null @@ -1,12 +0,0 @@ -cancer_study_identifier: kirp_tcga_pan_can_atlas_2018 -genetic_alteration_type: GENERIC_ASSAY -generic_assay_type: MICROBIOME_SIGNATURE -datatype: LIMIT-VALUE -stable_id: microbiome_signature -profile_name: Microbiome Signatures (log RNA Seq CPM) -profile_description: Microbial Signatures (log-cpm) from whole-transcriptome sequencing studies of TCGA (Poore et al. Nature 2020). -data_filename: data_microbiome.txt -show_profile_in_analysis_tab: true -pivot_threshold_value: 0 -value_sort_order: ASC -generic_entity_meta_properties: NAME,DESCRIPTION,URL diff --git a/public/lgg_tcga_pan_can_atlas_2018/case_lists/cases_microbiome.txt b/public/lgg_tcga_pan_can_atlas_2018/case_lists/cases_microbiome.txt deleted file mode 100644 index 9070a7c2ad..0000000000 --- a/public/lgg_tcga_pan_can_atlas_2018/case_lists/cases_microbiome.txt +++ /dev/null @@ -1,6 +0,0 @@ -cancer_study_identifier: lgg_tcga_pan_can_atlas_2018 -stable_id: lgg_tcga_pan_can_atlas_2018_microbiome -case_list_name: Samples with microbiome data -case_list_description: All samples with microbiome data (513 samples) -case_list_category: other -case_list_ids: TCGA-E1-5319-01 TCGA-HT-7693-01 TCGA-CS-6665-01 TCGA-S9-A7J2-01 TCGA-FG-A6J3-01 TCGA-FG-6688-01 TCGA-S9-A6TX-01 TCGA-VM-A8C8-01 TCGA-HT-A74L-01 TCGA-DU-A5TS-01 TCGA-DB-A4XA-01 TCGA-HT-A4DV-01 TCGA-TQ-A7RP-01 TCGA-E1-5311-01 TCGA-E1-A7YI-01 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TCGA-WY-A85A-01 TCGA-FG-5962-01 diff --git a/public/lgg_tcga_pan_can_atlas_2018/data_microbiome.txt b/public/lgg_tcga_pan_can_atlas_2018/data_microbiome.txt deleted file mode 100644 index 83e22635f2..0000000000 --- a/public/lgg_tcga_pan_can_atlas_2018/data_microbiome.txt +++ /dev/null @@ -1,3 +0,0 @@ -version https://git-lfs.github.com/spec/v1 -oid sha256:87ba2d311eacbbd9db794c556f5a6d50a198b53387a33768f7f08e9c8be08802 -size 9565694 diff --git a/public/lgg_tcga_pan_can_atlas_2018/meta_microbiome.txt b/public/lgg_tcga_pan_can_atlas_2018/meta_microbiome.txt deleted file mode 100644 index 79bb1e615a..0000000000 --- a/public/lgg_tcga_pan_can_atlas_2018/meta_microbiome.txt +++ /dev/null @@ -1,12 +0,0 @@ -cancer_study_identifier: lgg_tcga_pan_can_atlas_2018 -genetic_alteration_type: GENERIC_ASSAY -generic_assay_type: MICROBIOME_SIGNATURE -datatype: LIMIT-VALUE -stable_id: microbiome_signature -profile_name: Microbiome Signatures (log RNA Seq CPM) -profile_description: Microbial Signatures (log-cpm) from whole-transcriptome sequencing studies of TCGA (Poore et al. Nature 2020). -data_filename: data_microbiome.txt -show_profile_in_analysis_tab: true -pivot_threshold_value: 0 -value_sort_order: ASC -generic_entity_meta_properties: NAME,DESCRIPTION,URL diff --git a/public/lihc_tcga_pan_can_atlas_2018/case_lists/cases_microbiome.txt b/public/lihc_tcga_pan_can_atlas_2018/case_lists/cases_microbiome.txt deleted file mode 100644 index 3b5bc2fc4a..0000000000 --- a/public/lihc_tcga_pan_can_atlas_2018/case_lists/cases_microbiome.txt +++ /dev/null @@ -1,6 +0,0 @@ -cancer_study_identifier: lihc_tcga_pan_can_atlas_2018 -stable_id: lihc_tcga_pan_can_atlas_2018_microbiome -case_list_name: Samples with microbiome data -case_list_description: All samples with microbiome data (358 samples) -case_list_category: other -case_list_ids: TCGA-FV-A495-01 TCGA-KR-A7K7-01 TCGA-BC-A3KF-01 TCGA-DD-A4NV-01 TCGA-CC-A1HT-01 TCGA-BD-A3EP-01 TCGA-ES-A2HT-01 TCGA-CC-A3MA-01 TCGA-ZP-A9CV-01 TCGA-DD-AACY-01 TCGA-CC-A9FW-01 TCGA-BC-A10Y-01 TCGA-CC-A3MB-01 TCGA-ED-A459-01 TCGA-PD-A5DF-01 TCGA-ED-A5KG-01 TCGA-DD-AAVX-01 TCGA-ED-A7PY-01 TCGA-RC-A7SF-01 TCGA-DD-AAW0-01 TCGA-ED-A66X-01 TCGA-DD-AAC8-01 TCGA-FV-A3I1-01 TCGA-RC-A7S9-01 TCGA-ZP-A9D2-01 TCGA-G3-A5SL-01 TCGA-CC-A3M9-01 TCGA-DD-A3A4-01 TCGA-ED-A7XP-01 TCGA-DD-A11A-01 TCGA-DD-A73B-01 TCGA-DD-AACA-01 TCGA-DD-A1EH-01 TCGA-DD-AA3A-01 TCGA-WX-AA46-01 TCGA-RG-A7D4-01 TCGA-DD-A73F-01 TCGA-2Y-A9H4-01 TCGA-K7-AAU7-01 TCGA-DD-A3A2-01 TCGA-EP-A26S-01 TCGA-FV-A2QQ-01 TCGA-3K-AAZ8-01 TCGA-DD-A3A5-01 TCGA-DD-AADP-01 TCGA-CC-5259-01 TCGA-DD-A1EA-01 TCGA-CC-A8HU-01 TCGA-ES-A2HS-01 TCGA-2Y-A9H0-01 TCGA-2Y-A9GU-01 TCGA-RC-A7SB-01 TCGA-FV-A4ZP-01 TCGA-DD-AAD3-01 TCGA-2Y-A9H9-01 TCGA-DD-AAW2-01 TCGA-DD-A39V-01 TCGA-DD-AADD-01 TCGA-DD-AADW-01 TCGA-DD-AACS-01 TCGA-CC-A9FV-01 TCGA-FV-A3R3-01 TCGA-G3-A7M7-01 TCGA-DD-A4NK-01 TCGA-ED-A97K-01 TCGA-DD-AACV-01 TCGA-DD-A4NF-01 TCGA-DD-A3A8-01 TCGA-G3-A25S-01 TCGA-DD-A1EL-01 TCGA-DD-AACH-01 TCGA-WQ-A9G7-01 TCGA-DD-A4NO-01 TCGA-G3-A7M9-01 TCGA-CC-5261-01 TCGA-ZS-A9CG-01 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TCGA-HP-A5N0-01 TCGA-K7-A5RF-01 TCGA-ED-A7PZ-01 TCGA-YA-A8S7-01 TCGA-DD-A39X-01 TCGA-DD-AACF-01 TCGA-DD-A1EC-01 TCGA-DD-AAE0-01 TCGA-G3-AAV0-01 TCGA-CC-A5UE-01 TCGA-DD-AACJ-01 TCGA-G3-AAV5-01 TCGA-DD-AAVS-01 TCGA-DD-A11B-01 TCGA-DD-A4NS-01 TCGA-ED-A8O5-01 TCGA-BC-4072-01 TCGA-BC-A10U-01 TCGA-G3-A5SK-01 TCGA-DD-A1EK-01 TCGA-DD-A3A7-01 TCGA-DD-AACN-01 TCGA-DD-AAD5-01 TCGA-CC-A3MC-01 TCGA-DD-A73A-01 TCGA-DD-AADI-01 TCGA-CC-A7IG-01 TCGA-G3-AAV3-01 TCGA-MI-A75H-01 TCGA-DD-A73E-01 TCGA-2Y-A9H7-01 TCGA-CC-A8HV-01 TCGA-DD-AADJ-01 TCGA-DD-AAD6-01 TCGA-BC-A10S-01 TCGA-LG-A9QD-01 TCGA-DD-A3A1-01 TCGA-DD-AACZ-01 TCGA-CC-A7IK-01 TCGA-DD-AADO-01 TCGA-CC-A7II-01 TCGA-DD-AAW1-01 TCGA-NI-A8LF-01 TCGA-FV-A23B-01 TCGA-DD-AADC-01 TCGA-G3-A3CJ-01 TCGA-ZP-A9D1-01 TCGA-DD-A73C-01 TCGA-CC-A9FU-01 TCGA-G3-A25X-01 TCGA-DD-AACP-01 TCGA-UB-A7MB-01 TCGA-DD-AADG-01 TCGA-DD-A4NH-01 TCGA-EP-A12J-01 TCGA-CC-5262-01 TCGA-ZS-A9CD-01 TCGA-DD-AAE9-01 TCGA-BD-A2L6-01 TCGA-DD-AAEI-01 TCGA-2Y-A9H3-01 TCGA-2Y-A9GV-01 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TCGA-2Y-A9H5-01 TCGA-G3-A7M5-01 TCGA-DD-A4NI-01 TCGA-2Y-A9H8-01 TCGA-2Y-A9GT-01 TCGA-UB-A7ME-01 TCGA-DD-A119-01 TCGA-MI-A75I-01 TCGA-2Y-A9H1-01 TCGA-CC-A8HT-01 TCGA-DD-AADL-01 TCGA-CC-A7IJ-01 TCGA-5C-A9VH-01 TCGA-DD-AADR-01 TCGA-2Y-A9HB-01 TCGA-DD-AAE3-01 TCGA-DD-A4NA-01 TCGA-DD-AACI-01 TCGA-DD-AADU-01 TCGA-EP-A3RK-01 TCGA-CC-A5UD-01 TCGA-DD-AADV-01 TCGA-DD-AAEE-01 TCGA-ZS-A9CF-01 TCGA-G3-A7M8-01 TCGA-DD-AAVP-01 TCGA-CC-5260-01 TCGA-DD-A4NR-01 TCGA-2Y-A9H2-01 TCGA-DD-AAE6-01 TCGA-G3-AAV2-01 TCGA-ZP-A9CY-01 TCGA-DD-A115-01 TCGA-DD-A39Y-01 diff --git a/public/lihc_tcga_pan_can_atlas_2018/data_microbiome.txt b/public/lihc_tcga_pan_can_atlas_2018/data_microbiome.txt deleted file mode 100644 index 5ec1f5cb41..0000000000 --- a/public/lihc_tcga_pan_can_atlas_2018/data_microbiome.txt +++ /dev/null @@ -1,3 +0,0 @@ -version https://git-lfs.github.com/spec/v1 -oid sha256:e32f40860c2dc6cd02f1aefa27cf83b9d774ae73dd66d69ca648cb255c1dd946 -size 6754356 diff --git a/public/lihc_tcga_pan_can_atlas_2018/meta_microbiome.txt b/public/lihc_tcga_pan_can_atlas_2018/meta_microbiome.txt deleted file mode 100644 index 8489d18590..0000000000 --- a/public/lihc_tcga_pan_can_atlas_2018/meta_microbiome.txt +++ /dev/null @@ -1,12 +0,0 @@ -cancer_study_identifier: lihc_tcga_pan_can_atlas_2018 -genetic_alteration_type: GENERIC_ASSAY -generic_assay_type: MICROBIOME_SIGNATURE -datatype: LIMIT-VALUE -stable_id: microbiome_signature -profile_name: Microbiome Signatures (log RNA Seq CPM) -profile_description: Microbial Signatures (log-cpm) from whole-transcriptome sequencing studies of TCGA (Poore et al. Nature 2020). -data_filename: data_microbiome.txt -show_profile_in_analysis_tab: true -pivot_threshold_value: 0 -value_sort_order: ASC -generic_entity_meta_properties: NAME,DESCRIPTION,URL diff --git a/public/luad_tcga_pan_can_atlas_2018/case_lists/cases_microbiome.txt b/public/luad_tcga_pan_can_atlas_2018/case_lists/cases_microbiome.txt deleted file mode 100644 index b8aeeed046..0000000000 --- a/public/luad_tcga_pan_can_atlas_2018/case_lists/cases_microbiome.txt +++ /dev/null @@ -1,6 +0,0 @@ -cancer_study_identifier: luad_tcga_pan_can_atlas_2018 -stable_id: luad_tcga_pan_can_atlas_2018_microbiome -case_list_name: Samples with microbiome data -case_list_description: All samples with microbiome data (491 samples) -case_list_category: other -case_list_ids: TCGA-44-4112-01 TCGA-NJ-A4YP-01 TCGA-86-8278-01 TCGA-62-A470-01 TCGA-44-6778-01 TCGA-49-AARQ-01 TCGA-97-A4M1-01 TCGA-55-6975-01 TCGA-99-8033-01 TCGA-05-4420-01 TCGA-78-7149-01 TCGA-50-6597-01 TCGA-69-8255-01 TCGA-69-8453-01 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https://git-lfs.github.com/spec/v1 -oid sha256:5830049c89a3ba6e3b89371cec22ce2d7b2f24eccb67b79c1a749f8a3ee65ab4 -size 9167202 diff --git a/public/luad_tcga_pan_can_atlas_2018/meta_microbiome.txt b/public/luad_tcga_pan_can_atlas_2018/meta_microbiome.txt deleted file mode 100644 index 90e06e7a9a..0000000000 --- a/public/luad_tcga_pan_can_atlas_2018/meta_microbiome.txt +++ /dev/null @@ -1,12 +0,0 @@ -cancer_study_identifier: luad_tcga_pan_can_atlas_2018 -genetic_alteration_type: GENERIC_ASSAY -generic_assay_type: MICROBIOME_SIGNATURE -datatype: LIMIT-VALUE -stable_id: microbiome_signature -profile_name: Microbiome Signatures (log RNA Seq CPM) -profile_description: Microbial Signatures (log-cpm) from whole-transcriptome sequencing studies of TCGA (Poore et al. Nature 2020). -data_filename: data_microbiome.txt -show_profile_in_analysis_tab: true -pivot_threshold_value: 0 -value_sort_order: ASC -generic_entity_meta_properties: NAME,DESCRIPTION,URL diff --git a/public/lusc_tcga_pan_can_atlas_2018/case_lists/cases_microbiome.txt b/public/lusc_tcga_pan_can_atlas_2018/case_lists/cases_microbiome.txt deleted file mode 100644 index 3194fd71dc..0000000000 --- a/public/lusc_tcga_pan_can_atlas_2018/case_lists/cases_microbiome.txt +++ /dev/null @@ -1,6 +0,0 @@ -cancer_study_identifier: lusc_tcga_pan_can_atlas_2018 -stable_id: lusc_tcga_pan_can_atlas_2018_microbiome -case_list_name: Samples with microbiome data -case_list_description: All samples with microbiome data (471 samples) -case_list_category: other -case_list_ids: TCGA-18-3417-01 TCGA-77-A5G3-01 TCGA-90-7769-01 TCGA-77-A5G1-01 TCGA-22-4613-01 TCGA-66-2766-01 TCGA-37-4135-01 TCGA-43-7656-01 TCGA-85-8481-01 TCGA-56-A4ZK-01 TCGA-22-1011-01 TCGA-77-8156-01 TCGA-43-A475-01 TCGA-37-3789-01 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TCGA-NK-A5CR-01 TCGA-63-A5MM-01 TCGA-22-0944-01 TCGA-77-6844-01 TCGA-66-2786-01 TCGA-56-8082-01 TCGA-98-A539-01 TCGA-O2-A52S-01 TCGA-21-5784-01 TCGA-18-3414-01 TCGA-L3-A524-01 TCGA-39-5021-01 TCGA-85-A5B5-01 TCGA-56-5897-01 TCGA-77-8144-01 TCGA-J1-A4AH-01 TCGA-56-7580-01 TCGA-63-A5MY-01 TCGA-33-AASL-01 TCGA-85-A512-01 TCGA-66-2768-01 TCGA-O2-A5IB-01 TCGA-77-7335-01 diff --git a/public/lusc_tcga_pan_can_atlas_2018/data_microbiome.txt b/public/lusc_tcga_pan_can_atlas_2018/data_microbiome.txt deleted file mode 100644 index 58ab8e0187..0000000000 --- a/public/lusc_tcga_pan_can_atlas_2018/data_microbiome.txt +++ /dev/null @@ -1,3 +0,0 @@ -version https://git-lfs.github.com/spec/v1 -oid sha256:35f9acba387766e3d92e89a8e7cfa83ae1e3e2ab93d0a022a51ae77885a3825f -size 8804222 diff --git a/public/lusc_tcga_pan_can_atlas_2018/meta_microbiome.txt b/public/lusc_tcga_pan_can_atlas_2018/meta_microbiome.txt deleted file mode 100644 index 8224b8026f..0000000000 --- a/public/lusc_tcga_pan_can_atlas_2018/meta_microbiome.txt +++ /dev/null @@ -1,12 +0,0 @@ -cancer_study_identifier: lusc_tcga_pan_can_atlas_2018 -genetic_alteration_type: GENERIC_ASSAY -generic_assay_type: MICROBIOME_SIGNATURE -datatype: LIMIT-VALUE -stable_id: microbiome_signature -profile_name: Microbiome Signatures (log RNA Seq CPM) -profile_description: Microbial Signatures (log-cpm) from whole-transcriptome sequencing studies of TCGA (Poore et al. Nature 2020). -data_filename: data_microbiome.txt -show_profile_in_analysis_tab: true -pivot_threshold_value: 0 -value_sort_order: ASC -generic_entity_meta_properties: NAME,DESCRIPTION,URL diff --git a/public/meso_tcga_pan_can_atlas_2018/case_lists/cases_microbiome.txt b/public/meso_tcga_pan_can_atlas_2018/case_lists/cases_microbiome.txt deleted file mode 100644 index 010539dbfe..0000000000 --- a/public/meso_tcga_pan_can_atlas_2018/case_lists/cases_microbiome.txt +++ /dev/null @@ -1,6 +0,0 @@ -cancer_study_identifier: meso_tcga_pan_can_atlas_2018 -stable_id: meso_tcga_pan_can_atlas_2018_microbiome -case_list_name: Samples with microbiome data -case_list_description: All samples with microbiome data (87 samples) -case_list_category: other -case_list_ids: TCGA-TS-A8AF-01 TCGA-ZN-A9VQ-01 TCGA-TS-A7P7-01 TCGA-UD-AAC5-01 TCGA-TS-A7P3-01 TCGA-ZN-A9VS-01 TCGA-3U-A98G-01 TCGA-UD-AABZ-01 TCGA-LK-A4NZ-01 TCGA-TS-A8AI-01 TCGA-TS-A7PB-01 TCGA-UD-AAC6-01 TCGA-MQ-A4LC-01 TCGA-SC-A6LP-01 TCGA-UD-AAC1-01 TCGA-YS-A95C-01 TCGA-MQ-A6BN-01 TCGA-3U-A98I-01 TCGA-LK-A4NY-01 TCGA-MQ-A4KX-01 TCGA-LK-A4O6-01 TCGA-ZN-A9VW-01 TCGA-UD-AABY-01 TCGA-3U-A98J-01 TCGA-TS-A8AY-01 TCGA-SC-A6LQ-01 TCGA-3H-AB3K-01 TCGA-UD-AAC7-01 TCGA-MQ-A6BR-01 TCGA-YS-AA4M-01 TCGA-ZN-A9VO-01 TCGA-MQ-A6BS-01 TCGA-SH-A7BD-01 TCGA-YS-A95B-01 TCGA-ZN-A9VV-01 TCGA-UD-AAC4-01 TCGA-TS-A7OZ-01 TCGA-MQ-A6BL-01 TCGA-UT-A88C-01 TCGA-UT-A97Y-01 TCGA-SH-A7BC-01 TCGA-SC-AA5Z-01 TCGA-UT-A88D-01 TCGA-SH-A7BH-01 TCGA-ZN-A9VU-01 TCGA-NQ-A638-01 TCGA-3U-A98H-01 TCGA-MQ-A4LV-01 TCGA-LK-A4O0-01 TCGA-NQ-A57I-01 TCGA-TS-A7OU-01 TCGA-MQ-A4LP-01 TCGA-MQ-A6BQ-01 TCGA-SC-A6LR-01 TCGA-3H-AB3L-01 TCGA-SC-A6LN-01 TCGA-TS-A8AV-01 TCGA-SH-A9CT-01 TCGA-TS-A7P6-01 TCGA-3H-AB3O-01 TCGA-3H-AB3U-01 TCGA-3H-AB3T-01 TCGA-UT-A88E-01 TCGA-3H-AB3M-01 TCGA-TS-A7OY-01 TCGA-SC-A6LM-01 TCGA-LK-A4O5-01 TCGA-LK-A4O4-01 TCGA-LK-A4O7-01 TCGA-3H-AB3S-01 TCGA-MQ-A4LJ-01 TCGA-SH-A9CU-01 TCGA-TS-A8AS-01 TCGA-UT-A88G-01 TCGA-TS-A7P1-01 TCGA-3H-AB3X-01 TCGA-3U-A98E-01 TCGA-XT-AASU-01 TCGA-MQ-A4LI-01 TCGA-LK-A4NW-01 TCGA-ZN-A9VP-01 TCGA-MQ-A4LM-01 TCGA-3U-A98F-01 TCGA-TS-A7P8-01 TCGA-TS-A7P0-01 TCGA-3U-A98D-01 TCGA-LK-A4O2-01 diff --git a/public/meso_tcga_pan_can_atlas_2018/data_microbiome.txt b/public/meso_tcga_pan_can_atlas_2018/data_microbiome.txt deleted file mode 100644 index ab99fab1da..0000000000 --- a/public/meso_tcga_pan_can_atlas_2018/data_microbiome.txt +++ /dev/null @@ -1,3 +0,0 @@ -version https://git-lfs.github.com/spec/v1 -oid sha256:bc3247e8a4b14513a79e6189929faf3d8a51ba5f2dcc2d96a7fae6a3cb8febeb -size 1839295 diff --git a/public/meso_tcga_pan_can_atlas_2018/meta_microbiome.txt b/public/meso_tcga_pan_can_atlas_2018/meta_microbiome.txt deleted file mode 100644 index cc64dbc6a3..0000000000 --- a/public/meso_tcga_pan_can_atlas_2018/meta_microbiome.txt +++ /dev/null @@ -1,12 +0,0 @@ -cancer_study_identifier: meso_tcga_pan_can_atlas_2018 -genetic_alteration_type: GENERIC_ASSAY -generic_assay_type: MICROBIOME_SIGNATURE -datatype: LIMIT-VALUE -stable_id: microbiome_signature -profile_name: Microbiome Signatures (log RNA Seq CPM) -profile_description: Microbial Signatures (log-cpm) from whole-transcriptome sequencing studies of TCGA (Poore et al. Nature 2020). -data_filename: data_microbiome.txt -show_profile_in_analysis_tab: true -pivot_threshold_value: 0 -value_sort_order: ASC -generic_entity_meta_properties: NAME,DESCRIPTION,URL diff --git a/public/ov_tcga_pan_can_atlas_2018/case_lists/cases_microbiome.txt b/public/ov_tcga_pan_can_atlas_2018/case_lists/cases_microbiome.txt deleted file mode 100644 index 3533393847..0000000000 --- a/public/ov_tcga_pan_can_atlas_2018/case_lists/cases_microbiome.txt +++ /dev/null @@ -1,6 +0,0 @@ -cancer_study_identifier: ov_tcga_pan_can_atlas_2018 -stable_id: ov_tcga_pan_can_atlas_2018_microbiome -case_list_name: Samples with microbiome data -case_list_description: All samples with microbiome data (417 samples) -case_list_category: other -case_list_ids: TCGA-61-1910-01 TCGA-61-1728-01 TCGA-31-1953-01 TCGA-31-1951-01 TCGA-24-1552-01 TCGA-13-1477-01 TCGA-30-1862-01 TCGA-29-1698-01 TCGA-13-0924-01 TCGA-25-1326-01 TCGA-09-1659-01 TCGA-23-1021-01 TCGA-24-2281-01 TCGA-61-1918-01 TCGA-23-2084-01 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b/public/ov_tcga_pan_can_atlas_2018/meta_microbiome.txt deleted file mode 100644 index 9af3ac0b39..0000000000 --- a/public/ov_tcga_pan_can_atlas_2018/meta_microbiome.txt +++ /dev/null @@ -1,12 +0,0 @@ -cancer_study_identifier: ov_tcga_pan_can_atlas_2018 -genetic_alteration_type: GENERIC_ASSAY -generic_assay_type: MICROBIOME_SIGNATURE -datatype: LIMIT-VALUE -stable_id: microbiome_signature -profile_name: Microbiome Signatures (log RNA Seq CPM) -profile_description: Microbial Signatures (log-cpm) from whole-transcriptome sequencing studies of TCGA (Poore et al. Nature 2020). -data_filename: data_microbiome.txt -show_profile_in_analysis_tab: true -pivot_threshold_value: 0 -value_sort_order: ASC -generic_entity_meta_properties: NAME,DESCRIPTION,URL diff --git a/public/paad_tcga_pan_can_atlas_2018/case_lists/cases_microbiome.txt b/public/paad_tcga_pan_can_atlas_2018/case_lists/cases_microbiome.txt deleted file mode 100644 index 341157b5bc..0000000000 --- a/public/paad_tcga_pan_can_atlas_2018/case_lists/cases_microbiome.txt +++ /dev/null @@ -1,6 +0,0 @@ -cancer_study_identifier: paad_tcga_pan_can_atlas_2018 -stable_id: paad_tcga_pan_can_atlas_2018_microbiome -case_list_name: Samples with microbiome data -case_list_description: All samples with microbiome data (177 samples) -case_list_category: other -case_list_ids: TCGA-IB-7649-01 TCGA-LB-A7SX-01 TCGA-3A-A9IR-01 TCGA-OE-A75W-01 TCGA-HZ-8637-01 TCGA-FB-AAPQ-01 TCGA-HZ-7919-01 TCGA-HZ-A49I-01 TCGA-IB-AAUR-01 TCGA-HZ-8519-01 TCGA-LB-A9Q5-01 TCGA-XN-A8T3-01 TCGA-F2-A44G-01 TCGA-RB-A7B8-01 TCGA-XD-AAUG-01 TCGA-3A-A9IL-01 TCGA-F2-6879-01 TCGA-HZ-A49G-01 TCGA-F2-A44H-01 TCGA-HZ-A49H-01 TCGA-HV-A7OL-01 TCGA-HZ-A4BH-01 TCGA-HZ-8002-01 TCGA-2L-AAQE-01 TCGA-HZ-7924-01 TCGA-3A-A9IZ-01 TCGA-IB-AAUU-01 TCGA-IB-A6UG-01 TCGA-3E-AAAZ-01 TCGA-FB-AAPP-01 TCGA-3A-A9IH-01 TCGA-RL-AAAS-01 TCGA-HZ-7923-01 TCGA-IB-AAUP-01 TCGA-HZ-7920-01 TCGA-3A-A9IC-01 TCGA-IB-7887-01 TCGA-HZ-A4BK-01 TCGA-IB-7886-01 TCGA-IB-8126-01 TCGA-S4-A8RO-01 TCGA-IB-8127-01 TCGA-HV-AA8V-01 TCGA-IB-AAUS-01 TCGA-HV-AA8X-01 TCGA-F2-6880-01 TCGA-IB-7645-01 TCGA-FB-AAQ2-01 TCGA-YY-A8LH-01 TCGA-FB-AAQ1-01 TCGA-YH-A8SY-01 TCGA-F2-7276-01 TCGA-3A-A9IS-01 TCGA-HZ-7918-01 TCGA-L1-A7W4-01 TCGA-IB-AAUT-01 TCGA-IB-A5SQ-01 TCGA-HZ-7925-01 TCGA-IB-A7M4-01 TCGA-HZ-7922-01 TCGA-HV-A7OP-01 TCGA-HZ-8638-01 TCGA-F2-7273-01 TCGA-IB-A7LX-01 TCGA-2J-AAB4-01 TCGA-HZ-8003-01 TCGA-2L-AAQL-01 TCGA-2J-AABO-01 TCGA-IB-A6UF-01 TCGA-FB-AAQ3-01 TCGA-2J-AABU-01 TCGA-HZ-A77O-01 TCGA-IB-AAUQ-01 TCGA-HZ-7926-01 TCGA-US-A77J-01 TCGA-IB-7651-01 TCGA-FB-AAPY-01 TCGA-2L-AAQJ-01 TCGA-IB-A5SP-01 TCGA-RB-AA9M-01 TCGA-Q3-AA2A-01 TCGA-2J-AAB8-01 TCGA-HZ-8315-01 TCGA-FB-AAQ0-01 TCGA-HV-A5A3-01 TCGA-Q3-A5QY-01 TCGA-IB-AAUV-01 TCGA-3E-AAAY-01 TCGA-HV-A5A4-01 TCGA-FB-A545-01 TCGA-3A-A9IU-01 TCGA-XD-AAUL-01 TCGA-H6-A45N-01 TCGA-US-A776-01 TCGA-XD-AAUI-01 TCGA-IB-7889-01 TCGA-FB-AAPS-01 TCGA-IB-AAUM-01 TCGA-FB-A5VM-01 TCGA-IB-AAUN-01 TCGA-3A-A9IV-01 TCGA-M8-A5N4-01 TCGA-Z5-AAPL-01 TCGA-2J-AAB6-01 TCGA-PZ-A5RE-01 TCGA-2J-AAB9-01 TCGA-3A-A9I9-01 TCGA-IB-A5SS-01 TCGA-LB-A8F3-01 TCGA-IB-7888-01 TCGA-HV-A5A5-01 TCGA-3A-A9IX-01 TCGA-S4-A8RP-01 TCGA-IB-AAUW-01 TCGA-FB-A7DR-01 TCGA-US-A77E-01 TCGA-3A-A9IN-01 TCGA-2L-AAQI-01 TCGA-IB-7890-01 TCGA-2J-AABK-01 TCGA-HZ-8317-01 TCGA-HZ-7289-01 TCGA-F2-A8YN-01 TCGA-US-A779-01 TCGA-HZ-A8P1-01 TCGA-XD-AAUH-01 TCGA-3A-A9I5-01 TCGA-3A-A9IO-01 TCGA-FB-AAPZ-01 TCGA-HV-A5A6-01 TCGA-HZ-A9TJ-01 TCGA-3A-A9J0-01 TCGA-2L-AAQM-01 TCGA-2J-AABH-01 TCGA-2J-AABR-01 TCGA-HZ-8001-01 TCGA-IB-7891-01 TCGA-FB-A4P5-01 TCGA-YB-A89D-01 TCGA-IB-7646-01 TCGA-IB-AAUO-01 TCGA-IB-7647-01 TCGA-H6-8124-01 TCGA-IB-7644-01 TCGA-FB-A78T-01 TCGA-3A-A9I7-01 TCGA-FB-A4P6-01 TCGA-3A-A9IB-01 TCGA-2J-AAB1-01 TCGA-IB-A5ST-01 TCGA-IB-A5SO-01 TCGA-2J-AABA-01 TCGA-2J-AABF-01 TCGA-IB-7652-01 TCGA-IB-7893-01 TCGA-2J-AABI-01 TCGA-XN-A8T5-01 TCGA-3A-A9IJ-01 TCGA-FB-AAQ6-01 TCGA-2J-AABV-01 TCGA-HZ-A8P0-01 TCGA-2J-AABT-01 TCGA-H8-A6C1-01 TCGA-HZ-8636-01 TCGA-HZ-A77P-01 TCGA-US-A77G-01 TCGA-FB-AAPU-01 TCGA-2J-AABE-01 TCGA-F2-A7TX-01 TCGA-HZ-8005-01 TCGA-IB-7897-01 TCGA-IB-7885-01 TCGA-2L-AAQA-01 TCGA-2J-AABP-01 TCGA-S4-A8RM-01 TCGA-HZ-A77Q-01 TCGA-US-A774-01 diff --git a/public/paad_tcga_pan_can_atlas_2018/data_microbiome.txt b/public/paad_tcga_pan_can_atlas_2018/data_microbiome.txt deleted file mode 100644 index 5de9c3abbe..0000000000 --- a/public/paad_tcga_pan_can_atlas_2018/data_microbiome.txt +++ /dev/null @@ -1,3 +0,0 @@ -version https://git-lfs.github.com/spec/v1 -oid sha256:a9defeb4552e86a4cda1bb123892643033fb8e4530a8b9518d207d97fb4a00d3 -size 3471541 diff --git a/public/paad_tcga_pan_can_atlas_2018/meta_microbiome.txt b/public/paad_tcga_pan_can_atlas_2018/meta_microbiome.txt deleted file mode 100644 index f3a6daaec7..0000000000 --- a/public/paad_tcga_pan_can_atlas_2018/meta_microbiome.txt +++ /dev/null @@ -1,12 +0,0 @@ -cancer_study_identifier: paad_tcga_pan_can_atlas_2018 -genetic_alteration_type: GENERIC_ASSAY -generic_assay_type: MICROBIOME_SIGNATURE -datatype: LIMIT-VALUE -stable_id: microbiome_signature -profile_name: Microbiome Signatures (log RNA Seq CPM) -profile_description: Microbial Signatures (log-cpm) from whole-transcriptome sequencing studies of TCGA (Poore et al. Nature 2020). -data_filename: data_microbiome.txt -show_profile_in_analysis_tab: true -pivot_threshold_value: 0 -value_sort_order: ASC -generic_entity_meta_properties: NAME,DESCRIPTION,URL diff --git a/public/pcpg_tcga_pan_can_atlas_2018/case_lists/cases_microbiome.txt b/public/pcpg_tcga_pan_can_atlas_2018/case_lists/cases_microbiome.txt deleted file mode 100644 index d5e8ddf56b..0000000000 --- a/public/pcpg_tcga_pan_can_atlas_2018/case_lists/cases_microbiome.txt +++ /dev/null @@ -1,6 +0,0 @@ -cancer_study_identifier: pcpg_tcga_pan_can_atlas_2018 -stable_id: pcpg_tcga_pan_can_atlas_2018_microbiome -case_list_name: Samples with microbiome data -case_list_description: All samples with microbiome data (177 samples) -case_list_category: other -case_list_ids: TCGA-QR-A6GW-01 TCGA-QT-A69Q-01 TCGA-P7-A5NY-01 TCGA-QR-A705-01 TCGA-W2-A7HD-01 TCGA-RW-A68B-01 TCGA-RW-A67W-01 TCGA-WB-A81F-01 TCGA-QR-A70G-01 TCGA-QR-A6H4-01 TCGA-TT-A6YK-01 TCGA-QR-A7IP-01 TCGA-QR-A70N-01 TCGA-QR-A6H0-01 TCGA-P8-A5KD-01 TCGA-RW-A684-01 TCGA-QR-A70C-01 TCGA-QR-A6GS-01 TCGA-WB-A81G-01 TCGA-W2-A7HH-01 TCGA-W2-A7H5-01 TCGA-WB-A81R-01 TCGA-S7-A7WV-01 TCGA-WB-A81Q-01 TCGA-QR-A700-01 TCGA-QT-A7U0-01 TCGA-SR-A6MY-01 TCGA-S7-A7WR-01 TCGA-WB-A80L-01 TCGA-WB-A80O-01 TCGA-RW-A7D0-01 TCGA-RW-A68C-01 TCGA-WB-A80V-01 TCGA-S7-A7WQ-01 TCGA-RW-A67V-01 TCGA-WB-A819-01 TCGA-SQ-A6I6-01 TCGA-QT-A5XK-01 TCGA-S7-A7WU-01 TCGA-W2-A7HC-01 TCGA-RW-A68A-01 TCGA-QR-A70T-01 TCGA-QR-A6GZ-01 TCGA-QR-A707-01 TCGA-WB-A81S-01 TCGA-S7-A7WO-01 TCGA-QT-A5XL-01 TCGA-QR-A6GR-01 TCGA-QT-A5XO-01 TCGA-WB-A80N-01 TCGA-RM-A68W-01 TCGA-QR-A70R-01 TCGA-QR-A6GO-01 TCGA-SP-A6QK-01 TCGA-QR-A70W-01 TCGA-RW-A689-01 TCGA-S7-A7X1-01 TCGA-S7-A7X2-01 TCGA-WB-A80M-01 TCGA-QR-A6GU-01 TCGA-WB-A81T-01 TCGA-QR-A70E-01 TCGA-P8-A5KC-01 TCGA-WB-A81P-01 TCGA-WB-A818-01 TCGA-SR-A6MP-01 TCGA-RW-A688-01 TCGA-QT-A5XJ-01 TCGA-QT-A5XM-01 TCGA-WB-A81E-01 TCGA-TT-A6YP-01 TCGA-S7-A7WT-01 TCGA-QR-A706-01 TCGA-RT-A6YC-01 TCGA-S7-A7WN-01 TCGA-SR-A6MV-01 TCGA-WB-A822-01 TCGA-SP-A6QF-01 TCGA-SR-A6MS-01 TCGA-S7-A7X0-01 TCGA-P8-A6RX-01 TCGA-SP-A6QC-01 TCGA-QR-A70P-01 TCGA-QR-A70V-01 TCGA-RW-A68F-01 TCGA-WB-A816-01 TCGA-QT-A5XN-01 TCGA-QR-A70A-01 TCGA-SA-A6C2-01 TCGA-WB-A81J-01 TCGA-SP-A6QJ-01 TCGA-W2-A7UY-01 TCGA-QR-A70Q-01 TCGA-RW-A7CZ-01 TCGA-RW-A68D-01 TCGA-QR-A70U-01 TCGA-WB-A81D-01 TCGA-QR-A70H-01 TCGA-RT-A6YA-01 TCGA-WB-A815-01 TCGA-QR-A6H5-01 TCGA-SP-A6QG-01 TCGA-WB-A81I-01 TCGA-RW-A67X-01 TCGA-P8-A6RY-01 TCGA-SP-A6QI-01 TCGA-SR-A6MT-01 TCGA-SR-A6MR-01 TCGA-WB-A80Y-01 TCGA-QR-A70I-01 TCGA-RM-A68T-01 TCGA-RX-A8JQ-01 TCGA-RW-A68G-01 TCGA-RW-A67Y-01 TCGA-WB-A81A-01 TCGA-SR-A6MZ-01 TCGA-SR-A6MU-01 TCGA-WB-A81M-01 TCGA-WB-A814-01 TCGA-WB-A81N-01 TCGA-WB-A81H-01 TCGA-PR-A5PH-01 TCGA-QR-A70D-01 TCGA-SP-A6QH-01 TCGA-TT-A6YJ-01 TCGA-SR-A6MQ-01 TCGA-RW-A685-01 TCGA-WB-A80Q-01 TCGA-TT-A6YN-01 TCGA-WB-A821-01 TCGA-WB-A817-01 TCGA-QR-A6H6-01 TCGA-WB-A81V-01 TCGA-QR-A6H1-01 TCGA-RW-A686-01 TCGA-QR-A70X-01 TCGA-QT-A5XP-01 TCGA-QR-A703-01 TCGA-S7-A7WP-01 TCGA-QR-A6GY-01 TCGA-SR-A6MX-01 TCGA-PR-A5PF-01 TCGA-WB-A80K-01 TCGA-QR-A70K-01 TCGA-PR-A5PG-01 TCGA-WB-A81K-01 TCGA-QR-A6H2-01 TCGA-QR-A70M-01 TCGA-W2-A7HF-01 TCGA-WB-A80P-01 TCGA-WB-A81W-01 TCGA-QR-A70O-01 TCGA-SP-A6QD-01 TCGA-XG-A823-01 TCGA-W2-A7HE-01 TCGA-RW-A680-01 TCGA-RW-A8AZ-01 TCGA-W2-A7HB-01 TCGA-W2-A7H7-01 TCGA-QR-A6H3-01 TCGA-QR-A7IN-01 TCGA-S7-A7WL-01 TCGA-RW-A681-01 TCGA-QR-A6GT-01 TCGA-TT-A6YO-01 TCGA-QR-A702-01 TCGA-S7-A7WW-01 TCGA-S7-A7WM-01 TCGA-QR-A70J-01 TCGA-QR-A708-01 TCGA-SQ-A6I4-01 TCGA-RT-A6Y9-01 TCGA-S7-A7WX-01 TCGA-QR-A6ZZ-01 TCGA-P7-A5NX-01 TCGA-W2-A7HA-01 TCGA-SR-A6N0-01 diff --git a/public/pcpg_tcga_pan_can_atlas_2018/data_microbiome.txt b/public/pcpg_tcga_pan_can_atlas_2018/data_microbiome.txt deleted file mode 100644 index 63687b289a..0000000000 --- a/public/pcpg_tcga_pan_can_atlas_2018/data_microbiome.txt +++ /dev/null @@ -1,3 +0,0 @@ -version https://git-lfs.github.com/spec/v1 -oid sha256:543a36a7b56cca0e30030262108d2e279e03beefe6471610a5596df6db066250 -size 3472003 diff --git a/public/pcpg_tcga_pan_can_atlas_2018/meta_microbiome.txt b/public/pcpg_tcga_pan_can_atlas_2018/meta_microbiome.txt deleted file mode 100644 index faea552df7..0000000000 --- a/public/pcpg_tcga_pan_can_atlas_2018/meta_microbiome.txt +++ /dev/null @@ -1,12 +0,0 @@ -cancer_study_identifier: pcpg_tcga_pan_can_atlas_2018 -genetic_alteration_type: GENERIC_ASSAY -generic_assay_type: MICROBIOME_SIGNATURE -datatype: LIMIT-VALUE -stable_id: microbiome_signature -profile_name: Microbiome Signatures (log RNA Seq CPM) -profile_description: Microbial Signatures (log-cpm) from whole-transcriptome sequencing studies of TCGA (Poore et al. Nature 2020). -data_filename: data_microbiome.txt -show_profile_in_analysis_tab: true -pivot_threshold_value: 0 -value_sort_order: ASC -generic_entity_meta_properties: NAME,DESCRIPTION,URL diff --git a/public/prad_tcga_pan_can_atlas_2018/case_lists/cases_microbiome.txt b/public/prad_tcga_pan_can_atlas_2018/case_lists/cases_microbiome.txt deleted file mode 100644 index 27b442b8e8..0000000000 --- a/public/prad_tcga_pan_can_atlas_2018/case_lists/cases_microbiome.txt +++ /dev/null @@ -1,6 +0,0 @@ -cancer_study_identifier: prad_tcga_pan_can_atlas_2018 -stable_id: prad_tcga_pan_can_atlas_2018_microbiome -case_list_name: Samples with microbiome data -case_list_description: All samples with microbiome data (492 samples) -case_list_category: other -case_list_ids: TCGA-G9-6343-01 TCGA-KK-A8IA-01 TCGA-KK-A6E4-01 TCGA-EJ-AB20-01 TCGA-H9-7775-01 TCGA-XJ-A9DX-01 TCGA-KK-A6E6-01 TCGA-G9-6339-01 TCGA-EJ-5509-01 TCGA-EJ-5521-01 TCGA-YL-A8SB-01 TCGA-V1-A9OF-01 TCGA-CH-5754-01 TCGA-YL-A8HM-01 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https://git-lfs.github.com/spec/v1 -oid sha256:8c796985232e5d60cf503c22d8525512ae329a656c708b896cbc82192b642744 -size 9184955 diff --git a/public/prad_tcga_pan_can_atlas_2018/meta_microbiome.txt b/public/prad_tcga_pan_can_atlas_2018/meta_microbiome.txt deleted file mode 100644 index 3040c65cd0..0000000000 --- a/public/prad_tcga_pan_can_atlas_2018/meta_microbiome.txt +++ /dev/null @@ -1,12 +0,0 @@ -cancer_study_identifier: prad_tcga_pan_can_atlas_2018 -genetic_alteration_type: GENERIC_ASSAY -generic_assay_type: MICROBIOME_SIGNATURE -datatype: LIMIT-VALUE -stable_id: microbiome_signature -profile_name: Microbiome Signatures (log RNA Seq CPM) -profile_description: Microbial Signatures (log-cpm) from whole-transcriptome sequencing studies of TCGA (Poore et al. Nature 2020). -data_filename: data_microbiome.txt -show_profile_in_analysis_tab: true -pivot_threshold_value: 0 -value_sort_order: ASC -generic_entity_meta_properties: NAME,DESCRIPTION,URL diff --git a/public/sarc_tcga_pan_can_atlas_2018/case_lists/cases_microbiome.txt b/public/sarc_tcga_pan_can_atlas_2018/case_lists/cases_microbiome.txt deleted file mode 100644 index d72590ed4b..0000000000 --- a/public/sarc_tcga_pan_can_atlas_2018/case_lists/cases_microbiome.txt +++ /dev/null @@ -1,6 +0,0 @@ -cancer_study_identifier: sarc_tcga_pan_can_atlas_2018 -stable_id: sarc_tcga_pan_can_atlas_2018_microbiome -case_list_name: Samples with microbiome data -case_list_description: All samples with microbiome data (253 samples) -case_list_category: other -case_list_ids: TCGA-X9-A973-01 TCGA-QQ-A8VB-01 TCGA-KD-A5QT-01 TCGA-DX-AB2Z-01 TCGA-DX-A23R-01 TCGA-DX-AB2H-01 TCGA-DX-AB3C-01 TCGA-X6-A7WC-01 TCGA-MO-A47P-01 TCGA-DX-A8BL-01 TCGA-WK-A8XZ-01 TCGA-FX-A3TO-01 TCGA-DX-A6BA-01 TCGA-LI-A67I-01 TCGA-FX-A76Y-01 TCGA-DX-A1L4-01 TCGA-DX-A48L-01 TCGA-DX-A2IZ-01 TCGA-DX-AB3B-01 TCGA-3B-A9HR-01 TCGA-MJ-A68J-01 TCGA-3B-A9HU-01 TCGA-X6-A8C5-01 TCGA-3B-A9HZ-01 TCGA-KD-A5QS-01 TCGA-DX-A6B9-01 TCGA-FX-A3RE-01 TCGA-DX-A3LW-01 TCGA-X6-A7WB-01 TCGA-PC-A5DL-01 TCGA-JV-A5VF-01 TCGA-DX-A6BB-01 TCGA-PC-A5DO-01 TCGA-3B-A9I3-01 TCGA-DX-A48U-01 TCGA-QQ-A5V9-01 TCGA-DX-A6BG-01 TCGA-DX-A23Z-01 TCGA-K1-A3PO-01 TCGA-X6-A7WA-01 TCGA-DX-AB2P-01 TCGA-DX-A3UF-01 TCGA-DX-A23V-01 TCGA-3B-A9HV-01 TCGA-3B-A9HY-01 TCGA-DX-A23Y-01 TCGA-MJ-A850-01 TCGA-DX-A1KU-01 TCGA-SI-AA8C-01 TCGA-WK-A8XT-01 TCGA-DX-A8BP-01 TCGA-PC-A5DK-01 TCGA-DX-A8BJ-01 TCGA-DX-A1L1-01 TCGA-K1-A6RT-01 TCGA-Z4-AAPF-01 TCGA-IE-A6BZ-01 TCGA-FX-A3NK-01 TCGA-DX-A48N-01 TCGA-RN-A68Q-01 TCGA-DX-A8BZ-01 TCGA-Z4-A9VC-01 TCGA-DX-A7ES-01 TCGA-JV-A5VE-01 TCGA-IS-A3K6-01 TCGA-DX-A6BF-01 TCGA-K1-A6RU-01 TCGA-3R-A8YX-01 TCGA-DX-A48K-01 TCGA-DX-A8BS-01 TCGA-DX-A48P-01 TCGA-QQ-A5V2-01 TCGA-X2-A95T-01 TCGA-KF-A41W-01 TCGA-3B-A9HL-01 TCGA-DX-A8BV-01 TCGA-IS-A3K8-01 TCGA-IS-A3K7-01 TCGA-X6-A7WD-01 TCGA-DX-AB2G-01 TCGA-DX-A8BK-01 TCGA-QQ-A8VH-01 TCGA-LI-A9QH-01 TCGA-DX-AB2F-01 TCGA-HB-A3YV-01 TCGA-3B-A9HJ-01 TCGA-DX-A48O-01 TCGA-DX-A6Z2-01 TCGA-3B-A9HO-01 TCGA-X6-A8C3-01 TCGA-DX-A23U-01 TCGA-DX-A8BU-01 TCGA-DX-A7ET-01 TCGA-DX-A7ER-01 TCGA-DX-A6YT-01 TCGA-DX-A3LT-01 TCGA-DX-AB2V-01 TCGA-Z4-AAPG-01 TCGA-DX-A6BE-01 TCGA-DX-A8BH-01 TCGA-IW-A3M6-01 TCGA-DX-A3UA-01 TCGA-X9-A971-01 TCGA-3B-A9I0-01 TCGA-K1-A42X-01 TCGA-DX-A1KW-01 TCGA-DX-A3LS-01 TCGA-DX-A7EU-01 TCGA-DX-A3U8-01 TCGA-DX-A6YU-01 TCGA-SI-A71O-01 TCGA-DX-A7EQ-01 TCGA-DX-AB3A-01 TCGA-DX-A7EL-01 TCGA-MB-A8JL-01 TCGA-DX-AB30-01 TCGA-DX-A3M1-01 TCGA-QC-A6FX-01 TCGA-DX-A3LY-01 TCGA-IW-A3M5-01 TCGA-DX-A2J0-01 TCGA-WK-A8Y0-01 TCGA-JV-A75J-01 TCGA-IE-A4EI-01 TCGA-DX-A48R-01 TCGA-DX-A3U9-01 TCGA-IW-A3M4-01 TCGA-DX-A1L2-01 TCGA-DX-AB2L-01 TCGA-DX-AB2J-01 TCGA-UE-A6QT-01 TCGA-DX-A7EM-01 TCGA-DX-A8BT-01 TCGA-DX-A6B7-01 TCGA-X6-A8C2-01 TCGA-FX-A3NJ-01 TCGA-DX-A6Z0-01 TCGA-FX-A48G-01 TCGA-SI-A71Q-01 TCGA-IE-A4EH-01 TCGA-DX-A3LU-01 TCGA-SG-A6Z4-01 TCGA-QQ-A5VD-01 TCGA-3B-A9HI-01 TCGA-PC-A5DN-01 TCGA-3B-A9I1-01 TCGA-MB-A5Y9-01 TCGA-DX-A6YZ-01 TCGA-DX-AB2T-01 TCGA-DX-A3UE-01 TCGA-X6-A8C7-01 TCGA-DX-A48J-01 TCGA-X6-A8C4-01 TCGA-DX-A2J1-01 TCGA-QC-A7B5-01 TCGA-FX-A2QS-01 TCGA-DX-A1L0-01 TCGA-DX-A6YS-01 TCGA-K1-A3PN-01 TCGA-DX-A3M2-01 TCGA-DX-A3U7-01 TCGA-3B-A9HS-01 TCGA-WK-A8XO-01 TCGA-IE-A3OV-01 TCGA-3B-A9HQ-01 TCGA-RN-AAAQ-01 TCGA-QQ-A8VD-01 TCGA-DX-A240-01 TCGA-DX-A6YV-01 TCGA-UE-A6QU-01 TCGA-HB-A5W3-01 TCGA-K1-A6RV-01 TCGA-WP-A9GB-01 TCGA-DX-A3UC-01 TCGA-DX-A6YQ-01 TCGA-IF-A4AJ-01 TCGA-DX-A6YR-01 TCGA-DX-A2J4-01 TCGA-MB-A5Y8-01 TCGA-DX-A8BX-01 TCGA-DX-AB32-01 TCGA-MB-A8JK-01 TCGA-QC-AA9N-01 TCGA-DX-AB35-01 TCGA-QQ-A8VG-01 TCGA-MB-A5YA-01 TCGA-3B-A9HP-01 TCGA-SG-A6Z7-01 TCGA-QQ-A5VB-01 TCGA-DX-A3U5-01 TCGA-IS-A3KA-01 TCGA-WK-A8XS-01 TCGA-VT-AB3D-01 TCGA-VT-A80J-01 TCGA-HB-A3L4-01 TCGA-DX-A1KZ-01 TCGA-DX-AB2X-01 TCGA-HS-A5NA-01 TCGA-DX-AB37-01 TCGA-DX-A6B8-01 TCGA-HS-A5N8-01 TCGA-DX-A7EO-01 TCGA-N1-A6IA-01 TCGA-HS-A5N7-01 TCGA-WK-A8XQ-01 TCGA-IF-A3RQ-01 TCGA-IE-A4EJ-01 TCGA-HB-A2OT-01 TCGA-KD-A5QU-01 TCGA-FX-A8OO-01 TCGA-DX-A8BG-01 TCGA-DX-A3UB-01 TCGA-SI-AA8B-01 TCGA-VT-A80G-01 TCGA-DX-A3U6-01 TCGA-K1-A42W-01 TCGA-DX-A8BO-01 TCGA-WK-A8XX-01 TCGA-DX-A8BN-01 TCGA-3B-A9HX-01 TCGA-MJ-A68H-01 TCGA-DX-A8BM-01 TCGA-QQ-A8VF-01 TCGA-X6-A8C6-01 TCGA-QQ-A5VA-01 TCGA-DX-A6YX-01 TCGA-DX-AATS-01 TCGA-MO-A47R-01 TCGA-X6-A7W8-01 TCGA-DX-A7EN-01 TCGA-QQ-A5VC-01 TCGA-DX-AB2W-01 TCGA-DX-A1KX-01 TCGA-DX-A3UD-01 TCGA-DX-A6BH-01 TCGA-DX-A23T-01 TCGA-DX-AB2O-01 TCGA-DX-A1KY-01 TCGA-DX-A1L3-01 TCGA-DX-AB36-01 TCGA-DX-AB2E-01 TCGA-Z4-A8JB-01 TCGA-SG-A849-01 TCGA-DX-A8BR-01 TCGA-DX-A7EI-01 TCGA-DX-AB2Q-01 TCGA-3B-A9HT-01 TCGA-DX-A7EF-01 TCGA-DX-AB2S-01 TCGA-SI-A71P-01 TCGA-WK-A8XY-01 TCGA-HB-A43Z-01 TCGA-IE-A4EK-01 diff --git a/public/sarc_tcga_pan_can_atlas_2018/data_microbiome.txt b/public/sarc_tcga_pan_can_atlas_2018/data_microbiome.txt deleted file mode 100644 index 040634a5e2..0000000000 --- a/public/sarc_tcga_pan_can_atlas_2018/data_microbiome.txt +++ /dev/null @@ -1,3 +0,0 @@ -version https://git-lfs.github.com/spec/v1 -oid sha256:1051399ab9424ebf1684b1e70368bdc914d51449861aaaed39e7f1ba792fa96e -size 4850085 diff --git a/public/sarc_tcga_pan_can_atlas_2018/meta_microbiome.txt b/public/sarc_tcga_pan_can_atlas_2018/meta_microbiome.txt deleted file mode 100644 index c968e45a92..0000000000 --- a/public/sarc_tcga_pan_can_atlas_2018/meta_microbiome.txt +++ /dev/null @@ -1,12 +0,0 @@ -cancer_study_identifier: sarc_tcga_pan_can_atlas_2018 -genetic_alteration_type: GENERIC_ASSAY -generic_assay_type: MICROBIOME_SIGNATURE -datatype: LIMIT-VALUE -stable_id: microbiome_signature -profile_name: Microbiome Signatures (log RNA Seq CPM) -profile_description: Microbial Signatures (log-cpm) from whole-transcriptome sequencing studies of TCGA (Poore et al. Nature 2020). -data_filename: data_microbiome.txt -show_profile_in_analysis_tab: true -pivot_threshold_value: 0 -value_sort_order: ASC -generic_entity_meta_properties: NAME,DESCRIPTION,URL diff --git a/public/skcm_tcga_pan_can_atlas_2018/case_lists/cases_microbiome.txt b/public/skcm_tcga_pan_can_atlas_2018/case_lists/cases_microbiome.txt deleted file mode 100644 index fa5acac0fd..0000000000 --- a/public/skcm_tcga_pan_can_atlas_2018/case_lists/cases_microbiome.txt +++ /dev/null @@ -1,6 +0,0 @@ -cancer_study_identifier: skcm_tcga_pan_can_atlas_2018 -stable_id: skcm_tcga_pan_can_atlas_2018_microbiome -case_list_name: Samples with microbiome data -case_list_description: All samples with microbiome data (443 samples) -case_list_category: other -case_list_ids: TCGA-EB-A5SF-01 TCGA-D3-A1Q5-06 TCGA-FW-A5DY-06 TCGA-EE-A17X-06 TCGA-EE-A2MI-06 TCGA-EE-A29T-06 TCGA-WE-A8ZN-06 TCGA-D9-A4Z3-01 TCGA-RP-A695-06 TCGA-ER-A19O-06 TCGA-DA-A95Y-06 TCGA-EE-A29G-06 TCGA-EB-A5VU-01 TCGA-GF-A6C9-06 TCGA-BF-A1Q0-01 TCGA-EE-A184-06 TCGA-FS-A1ZA-06 TCGA-DA-A1HW-06 TCGA-D3-A1Q4-06 TCGA-FS-A1YY-06 TCGA-EB-A5KH-06 TCGA-EE-A3J4-06 TCGA-EB-A5UN-06 TCGA-D3-A2JG-06 TCGA-EB-A3XB-01 TCGA-W3-AA1V-06 TCGA-EE-A3AC-06 TCGA-GN-A267-06 TCGA-ER-A2ND-06 TCGA-EB-A42Y-01 TCGA-GN-A4U4-06 TCGA-EB-A4OY-01 TCGA-ER-A19A-06 TCGA-EE-A20C-06 TCGA-EE-A2M8-06 TCGA-D3-A5GO-06 TCGA-D3-A8GD-06 TCGA-BF-A5EQ-01 TCGA-ER-A2NE-06 TCGA-EE-A2MD-06 TCGA-EE-A29D-06 TCGA-D3-A3CC-06 TCGA-EB-A3Y6-01 TCGA-ER-A1A1-06 TCGA-D3-A5GS-06 TCGA-Z2-AA3S-06 TCGA-EB-A6L9-06 TCGA-FS-A1ZQ-06 TCGA-DA-A3F5-06 TCGA-EE-A2MS-06 TCGA-ER-A2NF-06 TCGA-ER-A195-06 TCGA-ER-A42K-06 TCGA-ER-A2NF-01 TCGA-DA-A95V-06 TCGA-WE-A8K1-06 TCGA-EB-A553-01 TCGA-WE-AAA0-06 TCGA-GF-A4EO-06 TCGA-EE-A2M7-06 TCGA-D3-A2JN-06 TCGA-W3-A825-06 TCGA-GN-A265-06 TCGA-D3-A3CE-06 TCGA-GN-A4U7-06 TCGA-D3-A3C1-06 TCGA-EB-A6QZ-01 TCGA-EE-A2GJ-06 TCGA-D9-A4Z2-01 TCGA-D3-A2JK-06 TCGA-D3-A8GQ-06 TCGA-RP-A694-06 TCGA-EB-A4IQ-01 TCGA-D3-A1Q7-06 TCGA-DA-A1IA-06 TCGA-D3-A3ML-06 TCGA-D3-A3BZ-06 TCGA-ER-A19K-01 TCGA-FS-A4F8-06 TCGA-EE-A2GB-06 TCGA-EE-A3AH-06 TCGA-D3-A51F-06 TCGA-EB-A1NK-01 TCGA-D9-A3Z4-01 TCGA-D3-A2J6-06 TCGA-IH-A3EA-01 TCGA-FR-A2OS-01 TCGA-D3-A2JC-06 TCGA-DA-A3F2-06 TCGA-GN-A8LL-06 TCGA-GN-A26A-06 TCGA-EB-A5FP-01 TCGA-GN-A4U3-06 TCGA-D3-A51N-06 TCGA-EE-A17Y-06 TCGA-EE-A2MH-06 TCGA-ER-A19T-01 TCGA-EE-A2GH-06 TCGA-EB-A299-01 TCGA-D3-A1Q3-06 TCGA-EE-A29H-06 TCGA-D3-A1QA-06 TCGA-GN-A268-06 TCGA-D3-A8GN-06 TCGA-FR-A3YO-06 TCGA-D3-A51J-06 TCGA-EE-A29B-06 TCGA-EE-A29S-06 TCGA-ER-A3PL-06 TCGA-ER-A19S-06 TCGA-EE-A183-06 TCGA-ER-A19E-06 TCGA-EB-A3XC-01 TCGA-FS-A1Z7-06 TCGA-EE-A2MN-06 TCGA-W3-AA1W-06 TCGA-ER-A198-06 TCGA-EE-A3AB-06 TCGA-D9-A6EG-06 TCGA-ER-A19C-06 TCGA-W3-A828-06 TCGA-D3-A8GJ-06 TCGA-BF-A5ES-01 TCGA-EB-A3XF-01 TCGA-D3-A5GN-06 TCGA-FR-A7UA-06 TCGA-EE-A3JD-06 TCGA-EE-A2MJ-06 TCGA-FR-A728-01 TCGA-EB-A24C-01 TCGA-FS-A4FC-06 TCGA-D3-A1Q6-06 TCGA-EE-A29L-06 TCGA-EE-A3JA-06 TCGA-FR-A8YC-06 TCGA-ER-A193-06 TCGA-GF-A769-01 TCGA-D3-A5GR-06 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b/public/skcm_tcga_pan_can_atlas_2018/data_microbiome.txt deleted file mode 100644 index 50b4a32032..0000000000 --- a/public/skcm_tcga_pan_can_atlas_2018/data_microbiome.txt +++ /dev/null @@ -1,3 +0,0 @@ -version https://git-lfs.github.com/spec/v1 -oid sha256:42bd81e64dcca0eac34e59db59030a6f8cd19d684054060a63317bafd4981ec3 -size 8296781 diff --git a/public/skcm_tcga_pan_can_atlas_2018/meta_microbiome.txt b/public/skcm_tcga_pan_can_atlas_2018/meta_microbiome.txt deleted file mode 100644 index 8eee347614..0000000000 --- a/public/skcm_tcga_pan_can_atlas_2018/meta_microbiome.txt +++ /dev/null @@ -1,12 +0,0 @@ -cancer_study_identifier: skcm_tcga_pan_can_atlas_2018 -genetic_alteration_type: GENERIC_ASSAY -generic_assay_type: MICROBIOME_SIGNATURE -datatype: LIMIT-VALUE -stable_id: microbiome_signature -profile_name: Microbiome Signatures (log RNA Seq CPM) -profile_description: Microbial Signatures (log-cpm) from whole-transcriptome sequencing studies of TCGA (Poore et al. Nature 2020). -data_filename: data_microbiome.txt -show_profile_in_analysis_tab: true -pivot_threshold_value: 0 -value_sort_order: ASC -generic_entity_meta_properties: NAME,DESCRIPTION,URL diff --git a/public/stad_tcga_pan_can_atlas_2018/case_lists/cases_microbiome.txt b/public/stad_tcga_pan_can_atlas_2018/case_lists/cases_microbiome.txt deleted file mode 100644 index f90c70d194..0000000000 --- a/public/stad_tcga_pan_can_atlas_2018/case_lists/cases_microbiome.txt +++ /dev/null @@ -1,6 +0,0 @@ -cancer_study_identifier: stad_tcga_pan_can_atlas_2018 -stable_id: stad_tcga_pan_can_atlas_2018_microbiome -case_list_name: Samples with microbiome data -case_list_description: All samples with microbiome data (409 samples) -case_list_category: other -case_list_ids: TCGA-CG-4301-01 TCGA-D7-A4YV-01 TCGA-CD-8530-01 TCGA-CD-A48A-01 TCGA-EQ-A4SO-01 TCGA-BR-8683-01 TCGA-CG-5734-01 TCGA-CG-4475-01 TCGA-MX-A5UG-01 TCGA-BR-6457-01 TCGA-BR-4368-01 TCGA-CD-A4MG-01 TCGA-BR-A4QL-01 TCGA-BR-8296-01 TCGA-BR-8592-01 TCGA-RD-A8N4-01 TCGA-D7-6521-01 TCGA-BR-8295-01 TCGA-IN-A6RI-01 TCGA-D7-A6F0-01 TCGA-BR-8364-01 TCGA-CD-8534-01 TCGA-FP-A9TM-01 TCGA-CG-4437-01 TCGA-B7-5816-01 TCGA-HU-A4G3-01 TCGA-VQ-A8PQ-01 TCGA-BR-7722-01 TCGA-HU-A4H4-01 TCGA-VQ-A922-01 TCGA-D7-6815-01 TCGA-KB-A93J-01 TCGA-BR-4267-01 TCGA-VQ-A928-01 TCGA-BR-8058-01 TCGA-IN-8462-01 TCGA-FP-A4BF-01 TCGA-HU-8238-01 TCGA-CG-5721-01 TCGA-BR-6705-01 TCGA-BR-8487-01 TCGA-RD-A8N1-01 TCGA-BR-8687-01 TCGA-HU-A4GD-01 TCGA-D7-8579-01 TCGA-VQ-A8P5-01 TCGA-VQ-A94U-01 TCGA-CD-8528-01 TCGA-BR-A4IY-01 TCGA-CG-4443-01 TCGA-ZQ-A9CR-01 TCGA-IN-7808-01 TCGA-D7-A748-01 TCGA-BR-7707-01 TCGA-CD-A4MH-01 TCGA-VQ-A8PF-01 TCGA-BR-6452-01 TCGA-R5-A7ZF-01 TCGA-D7-6526-01 TCGA-B7-A5TK-01 TCGA-D7-6524-01 TCGA-BR-8381-01 TCGA-KB-A93H-01 TCGA-F1-A72C-01 TCGA-CD-A486-01 TCGA-VQ-A92D-01 TCGA-VQ-A8PJ-01 TCGA-VQ-A94P-01 TCGA-BR-8362-01 TCGA-CG-4466-01 TCGA-CD-8524-01 TCGA-B7-5818-01 TCGA-BR-A4J5-01 TCGA-BR-6802-01 TCGA-VQ-A924-01 TCGA-BR-A4J9-01 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a/public/stad_tcga_pan_can_atlas_2018/meta_microbiome.txt +++ /dev/null @@ -1,12 +0,0 @@ -cancer_study_identifier: stad_tcga_pan_can_atlas_2018 -genetic_alteration_type: GENERIC_ASSAY -generic_assay_type: MICROBIOME_SIGNATURE -datatype: LIMIT-VALUE -stable_id: microbiome_signature -profile_name: Microbiome Signatures (log RNA Seq CPM) -profile_description: Microbial Signatures (log-cpm) from whole-transcriptome sequencing studies of TCGA (Poore et al. Nature 2020). -data_filename: data_microbiome.txt -show_profile_in_analysis_tab: true -pivot_threshold_value: 0 -value_sort_order: ASC -generic_entity_meta_properties: NAME,DESCRIPTION,URL diff --git a/public/tgct_tcga_pan_can_atlas_2018/case_lists/cases_microbiome.txt b/public/tgct_tcga_pan_can_atlas_2018/case_lists/cases_microbiome.txt deleted file mode 100644 index ac1143b05a..0000000000 --- a/public/tgct_tcga_pan_can_atlas_2018/case_lists/cases_microbiome.txt +++ /dev/null @@ -1,6 +0,0 @@ -cancer_study_identifier: tgct_tcga_pan_can_atlas_2018 -stable_id: tgct_tcga_pan_can_atlas_2018_microbiome -case_list_name: Samples with microbiome data -case_list_description: All samples with microbiome data (133 samples) -case_list_category: other -case_list_ids: TCGA-4K-AAAL-01 TCGA-2G-AAFI-01 TCGA-2G-AAFH-01 TCGA-2G-AAHL-01 TCGA-2G-AAGG-01 TCGA-2G-AAH2-01 TCGA-2X-A9D5-01 TCGA-2G-AAGC-01 TCGA-2G-AAGE-01 TCGA-XE-A9SE-01 TCGA-WZ-A7V3-01 TCGA-XY-A89B-01 TCGA-2G-AAG3-01 TCGA-4K-AA1I-01 TCGA-ZM-AA0D-01 TCGA-2G-AAKM-01 TCGA-2G-AAGM-01 TCGA-2G-AAFO-01 TCGA-WZ-A7V4-01 TCGA-XE-AAO6-01 TCGA-VF-A8AB-01 TCGA-4K-AA1H-01 TCGA-ZM-AA0B-01 TCGA-SN-A6IS-01 TCGA-YU-AA4L-01 TCGA-2G-AAH4-01 TCGA-2G-AAH3-01 TCGA-XE-AANI-01 TCGA-2G-AAHN-01 TCGA-XE-AAOB-01 TCGA-2G-AAGZ-01 TCGA-YU-A90P-01 TCGA-XE-AANJ-01 TCGA-SB-A76C-01 TCGA-2G-AAGF-01 TCGA-VF-A8AA-01 TCGA-XE-A8H4-01 TCGA-WZ-A7V5-01 TCGA-YU-A90W-01 TCGA-YU-A94D-01 TCGA-XE-AAOC-01 TCGA-2G-AAFN-01 TCGA-2G-AAH0-01 TCGA-SO-A8JP-01 TCGA-2G-AAL7-01 TCGA-2G-AAF8-01 TCGA-S6-A8JW-01 TCGA-ZM-AA0F-01 TCGA-2G-AAGW-01 TCGA-2X-A9D6-01 TCGA-YU-AA61-01 TCGA-YU-A90Q-01 TCGA-YU-A94I-01 TCGA-YU-A90Y-01 TCGA-2G-AAG6-01 TCGA-XE-A8H5-01 TCGA-2G-AAFG-01 TCGA-2G-AAGT-01 TCGA-2G-AAG0-01 TCGA-VF-A8A8-01 TCGA-2G-AAGS-01 TCGA-W4-A7U4-01 TCGA-2G-AAGK-01 TCGA-2G-AAFZ-01 TCGA-XY-A8S3-01 TCGA-2G-AAGX-01 TCGA-XY-A8S2-01 TCGA-ZM-AA0E-01 TCGA-2G-AAG5-01 TCGA-2G-AAGP-01 TCGA-2G-AAGJ-01 TCGA-2G-AAG7-01 TCGA-2G-AAL5-01 TCGA-2G-AAFJ-01 TCGA-2G-AALP-01 TCGA-YU-A912-01 TCGA-2G-AAEX-01 TCGA-W4-A7U3-01 TCGA-XY-A9T9-01 TCGA-SN-A84W-01 TCGA-2G-AAHG-01 TCGA-2G-AAGY-01 TCGA-S6-A8JY-01 TCGA-W4-A7U2-01 TCGA-ZM-AA05-01 TCGA-2G-AAGN-01 TCGA-XE-AAOL-01 TCGA-2G-AAGO-01 TCGA-VF-A8AD-01 TCGA-XE-AANR-01 TCGA-ZM-AA0H-01 TCGA-2G-AAF6-01 TCGA-2G-AAGV-01 TCGA-SN-A84Y-01 TCGA-2G-AAF4-01 TCGA-ZM-AA06-01 TCGA-2G-AAHT-01 TCGA-WZ-A8D5-01 TCGA-2G-AAHC-01 TCGA-XE-AANV-01 TCGA-4K-AA1G-01 TCGA-2G-AAHA-01 TCGA-X3-A8G4-01 TCGA-2G-AAG9-01 TCGA-2G-AAFL-01 TCGA-XE-AAOJ-01 TCGA-2G-AAEW-01 TCGA-VF-A8AE-01 TCGA-2G-AAG8-01 TCGA-SB-A6J6-01 TCGA-2G-AAHP-01 TCGA-2G-AAH8-01 TCGA-XE-AAO3-01 TCGA-2G-AAFM-01 TCGA-S6-A8JX-01 TCGA-VF-A8A9-01 TCGA-2G-AAGI-01 TCGA-YU-A90S-01 TCGA-XE-AAOF-01 TCGA-2G-AAGA-01 TCGA-2G-AAKG-01 TCGA-XE-AAOD-01 TCGA-2G-AAKL-01 TCGA-XE-A8H1-01 TCGA-2G-AAKD-01 TCGA-2G-AAFY-01 TCGA-ZM-AA0N-01 TCGA-2G-AAFV-01 TCGA-2G-AAKH-01 TCGA-2G-AAF1-01 TCGA-XE-AAO4-01 TCGA-VF-A8AC-01 TCGA-SN-A84X-01 diff --git a/public/tgct_tcga_pan_can_atlas_2018/data_microbiome.txt b/public/tgct_tcga_pan_can_atlas_2018/data_microbiome.txt deleted file mode 100644 index 94209c695d..0000000000 --- a/public/tgct_tcga_pan_can_atlas_2018/data_microbiome.txt +++ /dev/null @@ -1,3 +0,0 @@ -version https://git-lfs.github.com/spec/v1 -oid sha256:bde7e9be9de0c2d9be76e3c9030d14b4619433aa5724182592f4a001a3113c7f -size 2673462 diff --git a/public/tgct_tcga_pan_can_atlas_2018/meta_microbiome.txt b/public/tgct_tcga_pan_can_atlas_2018/meta_microbiome.txt deleted file mode 100644 index 1067926ad9..0000000000 --- a/public/tgct_tcga_pan_can_atlas_2018/meta_microbiome.txt +++ /dev/null @@ -1,12 +0,0 @@ -cancer_study_identifier: tgct_tcga_pan_can_atlas_2018 -genetic_alteration_type: GENERIC_ASSAY -generic_assay_type: MICROBIOME_SIGNATURE -datatype: LIMIT-VALUE -stable_id: microbiome_signature -profile_name: Microbiome Signatures (log RNA Seq CPM) -profile_description: Microbial Signatures (log-cpm) from whole-transcriptome sequencing studies of TCGA (Poore et al. Nature 2020). -data_filename: data_microbiome.txt -show_profile_in_analysis_tab: true -pivot_threshold_value: 0 -value_sort_order: ASC -generic_entity_meta_properties: NAME,DESCRIPTION,URL diff --git a/public/thca_tcga_pan_can_atlas_2018/case_lists/cases_microbiome.txt b/public/thca_tcga_pan_can_atlas_2018/case_lists/cases_microbiome.txt deleted file mode 100644 index 68ee710d6a..0000000000 --- a/public/thca_tcga_pan_can_atlas_2018/case_lists/cases_microbiome.txt +++ /dev/null @@ -1,6 +0,0 @@ -cancer_study_identifier: thca_tcga_pan_can_atlas_2018 -stable_id: thca_tcga_pan_can_atlas_2018_microbiome -case_list_name: Samples with microbiome data -case_list_description: All samples with microbiome data (488 samples) -case_list_category: other -case_list_ids: TCGA-EM-A3AP-01 TCGA-FK-A3SH-01 TCGA-EM-A22J-01 TCGA-DE-A4MA-01 TCGA-MK-A84Z-01 TCGA-DJ-A2PP-01 TCGA-DJ-A13W-01 TCGA-EL-A3CM-01 TCGA-BJ-A2NA-01 TCGA-ET-A39L-01 TCGA-BJ-A0ZG-01 TCGA-DE-A4M8-01 TCGA-BJ-A2P4-01 TCGA-ET-A25K-01 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a/public/thca_tcga_pan_can_atlas_2018/data_microbiome.txt +++ /dev/null @@ -1,3 +0,0 @@ -version https://git-lfs.github.com/spec/v1 -oid sha256:b8ae7491f699da614581b945901c7f9b3921b34910c0aaaa74c5242904803d4b -size 9293502 diff --git a/public/thca_tcga_pan_can_atlas_2018/meta_microbiome.txt b/public/thca_tcga_pan_can_atlas_2018/meta_microbiome.txt deleted file mode 100644 index adae1c01c8..0000000000 --- a/public/thca_tcga_pan_can_atlas_2018/meta_microbiome.txt +++ /dev/null @@ -1,12 +0,0 @@ -cancer_study_identifier: thca_tcga_pan_can_atlas_2018 -genetic_alteration_type: GENERIC_ASSAY -generic_assay_type: MICROBIOME_SIGNATURE -datatype: LIMIT-VALUE -stable_id: microbiome_signature -profile_name: Microbiome Signatures (log RNA Seq CPM) -profile_description: Microbial Signatures (log-cpm) from whole-transcriptome sequencing studies of TCGA (Poore et al. Nature 2020). -data_filename: data_microbiome.txt -show_profile_in_analysis_tab: true -pivot_threshold_value: 0 -value_sort_order: ASC -generic_entity_meta_properties: NAME,DESCRIPTION,URL diff --git a/public/thym_tcga_pan_can_atlas_2018/case_lists/cases_microbiome.txt b/public/thym_tcga_pan_can_atlas_2018/case_lists/cases_microbiome.txt deleted file mode 100644 index d802429d34..0000000000 --- a/public/thym_tcga_pan_can_atlas_2018/case_lists/cases_microbiome.txt +++ /dev/null @@ -1,6 +0,0 @@ -cancer_study_identifier: thym_tcga_pan_can_atlas_2018 -stable_id: thym_tcga_pan_can_atlas_2018_microbiome -case_list_name: Samples with microbiome data -case_list_description: All samples with microbiome data (119 samples) -case_list_category: other -case_list_ids: TCGA-X7-A8M3-01 TCGA-X7-A8M1-01 TCGA-XM-A8RC-01 TCGA-XU-AAXZ-01 TCGA-XM-A8RD-01 TCGA-X7-A8DG-01 TCGA-XU-A92O-01 TCGA-3G-AB0Q-01 TCGA-4V-A9QJ-01 TCGA-4V-A9QX-01 TCGA-ZC-AAAH-01 TCGA-X7-A8DJ-01 TCGA-ZB-A96Q-01 TCGA-ZB-A96F-01 TCGA-4X-A9FB-01 TCGA-XU-A92X-01 TCGA-XU-A933-01 TCGA-XM-A8RG-01 TCGA-XM-A8RH-01 TCGA-ZB-A966-01 TCGA-5K-AAAP-01 TCGA-XM-AAZ3-01 TCGA-ZC-AAA7-01 TCGA-X7-A8M0-01 TCGA-XU-A932-01 TCGA-X7-A8D7-01 TCGA-X7-A8D8-01 TCGA-4X-A9FA-01 TCGA-4V-A9QN-01 TCGA-XU-A92Y-01 TCGA-XM-A8R9-01 TCGA-XM-AAZ2-01 TCGA-ZB-A96K-01 TCGA-ZB-A962-01 TCGA-ZB-A963-01 TCGA-XM-A8RI-01 TCGA-XU-A92Z-01 TCGA-XU-AAXY-01 TCGA-3G-AB0T-01 TCGA-XM-A8R8-01 TCGA-5V-A9RR-01 TCGA-X7-A8M6-01 TCGA-ZB-A96H-01 TCGA-ZB-A96O-01 TCGA-4V-A9QS-01 TCGA-5U-AB0E-01 TCGA-ZB-A964-01 TCGA-X7-A8M5-01 TCGA-3S-AAYX-01 TCGA-XU-A930-01 TCGA-YT-A95H-01 TCGA-XM-AAZ1-01 TCGA-ZB-A96L-01 TCGA-ZB-A96V-01 TCGA-ZB-A96C-01 TCGA-5G-A9ZZ-01 TCGA-XU-AAXX-01 TCGA-ZC-AAAA-01 TCGA-XU-A92W-01 TCGA-ZB-A96I-01 TCGA-ZB-A961-01 TCGA-XU-AAY0-01 TCGA-4V-A9QR-01 TCGA-XU-A931-01 TCGA-YT-A95D-01 TCGA-ZB-A965-01 TCGA-X7-A8DF-01 TCGA-X7-A8M4-01 TCGA-ZB-A96B-01 TCGA-ZB-A96E-01 TCGA-5U-AB0D-01 TCGA-XU-A936-01 TCGA-ZB-A96M-01 TCGA-XM-A8RL-01 TCGA-ZB-A96R-01 TCGA-XU-A92T-01 TCGA-ZB-A96P-01 TCGA-4X-A9FD-01 TCGA-4V-A9QI-01 TCGA-XU-A92V-01 TCGA-XU-A92Q-01 TCGA-YT-A95F-01 TCGA-ZB-A96D-01 TCGA-ZT-A8OM-01 TCGA-3G-AB14-01 TCGA-3S-A8YW-01 TCGA-ZB-A96A-01 TCGA-YT-A95E-01 TCGA-XU-AAY1-01 TCGA-ZB-A969-01 TCGA-4V-A9QT-01 TCGA-XU-A92U-01 TCGA-3G-AB19-01 TCGA-ZB-A96G-01 TCGA-3G-AB0O-01 TCGA-5U-AB0F-01 TCGA-4V-A9QW-01 TCGA-X7-A8DD-01 TCGA-4V-A9QL-01 TCGA-XU-AAXW-01 TCGA-3Q-A9WF-01 TCGA-4X-A9F9-01 TCGA-ZC-AAAF-01 TCGA-YT-A95G-01 TCGA-4V-A9QU-01 TCGA-XH-A853-01 TCGA-XM-A8RB-01 TCGA-X7-A8D9-01 TCGA-4V-A9QM-01 TCGA-X7-A8M8-01 TCGA-X7-A8DB-01 TCGA-XM-A8RE-01 TCGA-XM-A8RF-01 TCGA-X7-A8M7-01 TCGA-X7-A8DE-01 TCGA-3T-AA9L-01 TCGA-ZL-A9V6-01 TCGA-X7-A8D6-01 TCGA-4X-A9FC-01 diff --git a/public/thym_tcga_pan_can_atlas_2018/data_microbiome.txt b/public/thym_tcga_pan_can_atlas_2018/data_microbiome.txt deleted file mode 100644 index 255be8dd0e..0000000000 --- a/public/thym_tcga_pan_can_atlas_2018/data_microbiome.txt +++ /dev/null @@ -1,3 +0,0 @@ -version https://git-lfs.github.com/spec/v1 -oid sha256:7ec729a85d8d136372ffce820924bb114f10cf4b92d166c386eaee48b47fef41 -size 2419672 diff --git a/public/thym_tcga_pan_can_atlas_2018/meta_microbiome.txt b/public/thym_tcga_pan_can_atlas_2018/meta_microbiome.txt deleted file mode 100644 index 57d4f62866..0000000000 --- a/public/thym_tcga_pan_can_atlas_2018/meta_microbiome.txt +++ /dev/null @@ -1,12 +0,0 @@ -cancer_study_identifier: thym_tcga_pan_can_atlas_2018 -genetic_alteration_type: GENERIC_ASSAY -generic_assay_type: MICROBIOME_SIGNATURE -datatype: LIMIT-VALUE -stable_id: microbiome_signature -profile_name: Microbiome Signatures (log RNA Seq CPM) -profile_description: Microbial Signatures (log-cpm) from whole-transcriptome sequencing studies of TCGA (Poore et al. Nature 2020). -data_filename: data_microbiome.txt -show_profile_in_analysis_tab: true -pivot_threshold_value: 0 -value_sort_order: ASC -generic_entity_meta_properties: NAME,DESCRIPTION,URL diff --git a/public/ucec_tcga_pan_can_atlas_2018/case_lists/cases_microbiome.txt b/public/ucec_tcga_pan_can_atlas_2018/case_lists/cases_microbiome.txt deleted file mode 100644 index 7e0ea829ca..0000000000 --- a/public/ucec_tcga_pan_can_atlas_2018/case_lists/cases_microbiome.txt +++ /dev/null @@ -1,6 +0,0 @@ -cancer_study_identifier: ucec_tcga_pan_can_atlas_2018 -stable_id: ucec_tcga_pan_can_atlas_2018_microbiome -case_list_name: Samples with microbiome data -case_list_description: All samples with microbiome data (524 samples) -case_list_category: other -case_list_ids: TCGA-D1-A0ZV-01 TCGA-B5-A5OE-01 TCGA-A5-A0GI-01 TCGA-AP-A3K1-01 TCGA-B5-A0K8-01 TCGA-AP-A1DO-01 TCGA-AX-A2H7-01 TCGA-EC-A24G-01 TCGA-AP-A054-01 TCGA-B5-A0K1-01 TCGA-BG-A3PP-01 TCGA-B5-A0K4-01 TCGA-AP-A05H-01 TCGA-A5-A3LO-01 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TCGA-EY-A1H0-01 TCGA-AX-A1CN-01 TCGA-AP-A0LI-01 TCGA-A5-A0GM-01 TCGA-D1-A16Y-01 TCGA-AX-A05U-01 TCGA-EY-A1GM-01 TCGA-AP-A0LE-01 TCGA-EO-A1Y8-01 TCGA-B5-A0JZ-01 TCGA-A5-A0R9-01 TCGA-AJ-A3EM-01 TCGA-FI-A2EY-01 TCGA-B5-A11S-01 diff --git a/public/ucec_tcga_pan_can_atlas_2018/data_microbiome.txt b/public/ucec_tcga_pan_can_atlas_2018/data_microbiome.txt deleted file mode 100644 index 87504fe46a..0000000000 --- a/public/ucec_tcga_pan_can_atlas_2018/data_microbiome.txt +++ /dev/null @@ -1,3 +0,0 @@ -version https://git-lfs.github.com/spec/v1 -oid sha256:97234b79b750541d2cbe0e1023ad4e919bff191b26bee27e8d3f46c7ef615795 -size 9765576 diff --git a/public/ucec_tcga_pan_can_atlas_2018/meta_microbiome.txt b/public/ucec_tcga_pan_can_atlas_2018/meta_microbiome.txt deleted file mode 100644 index e4277c580f..0000000000 --- a/public/ucec_tcga_pan_can_atlas_2018/meta_microbiome.txt +++ /dev/null @@ -1,12 +0,0 @@ -cancer_study_identifier: ucec_tcga_pan_can_atlas_2018 -genetic_alteration_type: GENERIC_ASSAY -generic_assay_type: MICROBIOME_SIGNATURE -datatype: LIMIT-VALUE -stable_id: microbiome_signature -profile_name: Microbiome Signatures (log RNA Seq CPM) -profile_description: Microbial Signatures (log-cpm) from whole-transcriptome sequencing studies of TCGA (Poore et al. Nature 2020). -data_filename: data_microbiome.txt -show_profile_in_analysis_tab: true -pivot_threshold_value: 0 -value_sort_order: ASC -generic_entity_meta_properties: NAME,DESCRIPTION,URL diff --git a/public/ucs_tcga_pan_can_atlas_2018/case_lists/cases_microbiome.txt b/public/ucs_tcga_pan_can_atlas_2018/case_lists/cases_microbiome.txt deleted file mode 100644 index ea6de6e320..0000000000 --- a/public/ucs_tcga_pan_can_atlas_2018/case_lists/cases_microbiome.txt +++ /dev/null @@ -1,6 +0,0 @@ -cancer_study_identifier: ucs_tcga_pan_can_atlas_2018 -stable_id: ucs_tcga_pan_can_atlas_2018_microbiome -case_list_name: Samples with microbiome data -case_list_description: All samples with microbiome data (57 samples) -case_list_category: other -case_list_ids: TCGA-N7-A59B-01 TCGA-N7-A4Y0-01 TCGA-NA-A4QV-01 TCGA-NG-A4VW-01 TCGA-QN-A5NN-01 TCGA-N7-A4Y8-01 TCGA-N5-A4RN-01 TCGA-N8-A4PL-01 TCGA-N5-A4RA-01 TCGA-N6-A4VE-01 TCGA-NG-A4VU-01 TCGA-N9-A4Q7-01 TCGA-N5-A4RD-01 TCGA-N6-A4VF-01 TCGA-NA-A4QX-01 TCGA-NA-A4QW-01 TCGA-N8-A4PP-01 TCGA-N7-A4Y5-01 TCGA-ND-A4W6-01 TCGA-N5-A4RM-01 TCGA-N5-A4RT-01 TCGA-N6-A4VC-01 TCGA-N9-A4Q1-01 TCGA-N5-A4RF-01 TCGA-N6-A4VG-01 TCGA-N9-A4PZ-01 TCGA-NA-A4R1-01 TCGA-N8-A4PI-01 TCGA-NF-A4WU-01 TCGA-N5-A4RV-01 TCGA-NF-A4X2-01 TCGA-N6-A4V9-01 TCGA-NA-A4QY-01 TCGA-N8-A56S-01 TCGA-N8-A4PO-01 TCGA-N8-A4PN-01 TCGA-N5-A59F-01 TCGA-NA-A4R0-01 TCGA-NF-A5CP-01 TCGA-N6-A4VD-01 TCGA-N8-A4PQ-01 TCGA-NF-A4WX-01 TCGA-ND-A4WA-01 TCGA-ND-A4WF-01 TCGA-N9-A4Q8-01 TCGA-N5-A59E-01 TCGA-NA-A5I1-01 TCGA-QM-A5NM-01 TCGA-N9-A4Q4-01 TCGA-ND-A4WC-01 TCGA-N9-A4Q3-01 TCGA-N5-A4R8-01 TCGA-N5-A4RJ-01 TCGA-N8-A4PM-01 TCGA-N5-A4RS-01 TCGA-N5-A4RU-01 TCGA-N5-A4RO-01 diff --git a/public/ucs_tcga_pan_can_atlas_2018/data_microbiome.txt b/public/ucs_tcga_pan_can_atlas_2018/data_microbiome.txt deleted file mode 100644 index 1bd24f7ec0..0000000000 --- a/public/ucs_tcga_pan_can_atlas_2018/data_microbiome.txt +++ /dev/null @@ -1,3 +0,0 @@ -version https://git-lfs.github.com/spec/v1 -oid sha256:1b92b9e6081444db09064ee1099f00263c2c67c42f098f67589f6cc0445e6959 -size 1295295 diff --git a/public/ucs_tcga_pan_can_atlas_2018/meta_microbiome.txt b/public/ucs_tcga_pan_can_atlas_2018/meta_microbiome.txt deleted file mode 100644 index 8ed4b5e308..0000000000 --- a/public/ucs_tcga_pan_can_atlas_2018/meta_microbiome.txt +++ /dev/null @@ -1,12 +0,0 @@ -cancer_study_identifier: ucs_tcga_pan_can_atlas_2018 -genetic_alteration_type: GENERIC_ASSAY -generic_assay_type: MICROBIOME_SIGNATURE -datatype: LIMIT-VALUE -stable_id: microbiome_signature -profile_name: Microbiome Signatures (log RNA Seq CPM) -profile_description: Microbial Signatures (log-cpm) from whole-transcriptome sequencing studies of TCGA (Poore et al. Nature 2020). -data_filename: data_microbiome.txt -show_profile_in_analysis_tab: true -pivot_threshold_value: 0 -value_sort_order: ASC -generic_entity_meta_properties: NAME,DESCRIPTION,URL diff --git a/public/uvm_tcga_pan_can_atlas_2018/case_lists/cases_microbiome.txt b/public/uvm_tcga_pan_can_atlas_2018/case_lists/cases_microbiome.txt deleted file mode 100644 index 794dde7a89..0000000000 --- a/public/uvm_tcga_pan_can_atlas_2018/case_lists/cases_microbiome.txt +++ /dev/null @@ -1,6 +0,0 @@ -cancer_study_identifier: uvm_tcga_pan_can_atlas_2018 -stable_id: uvm_tcga_pan_can_atlas_2018_microbiome -case_list_name: Samples with microbiome data -case_list_description: All samples with microbiome data (80 samples) -case_list_category: other -case_list_ids: TCGA-V4-A9F8-01 TCGA-VD-AA8O-01 TCGA-V4-A9EQ-01 TCGA-V4-A9F7-01 TCGA-YZ-A985-01 TCGA-YZ-A980-01 TCGA-WC-A88A-01 TCGA-V4-A9ET-01 TCGA-V4-A9EJ-01 TCGA-V4-A9F2-01 TCGA-WC-A87W-01 TCGA-V4-A9EM-01 TCGA-VD-A8KE-01 TCGA-VD-A8KJ-01 TCGA-V4-A9F5-01 TCGA-VD-AA8S-01 TCGA-WC-A87U-01 TCGA-YZ-A982-01 TCGA-VD-A8KA-01 TCGA-V3-A9ZX-01 TCGA-VD-A8KF-01 TCGA-V4-A9F3-01 TCGA-VD-A8KG-01 TCGA-VD-A8KI-01 TCGA-VD-A8KD-01 TCGA-V4-A9ES-01 TCGA-V4-A9F0-01 TCGA-WC-A880-01 TCGA-V4-A9EV-01 TCGA-V4-A9EW-01 TCGA-V4-A9EX-01 TCGA-VD-AA8N-01 TCGA-WC-A87T-01 TCGA-VD-AA8T-01 TCGA-VD-AA8R-01 TCGA-VD-A8K9-01 TCGA-V4-A9EE-01 TCGA-V4-A9EZ-01 TCGA-WC-A881-01 TCGA-V4-A9EU-01 TCGA-V4-A9EI-01 TCGA-VD-A8K7-01 TCGA-V4-A9EK-01 TCGA-WC-A883-01 TCGA-V4-A9EA-01 TCGA-V4-A9EH-01 TCGA-VD-A8KN-01 TCGA-YZ-A984-01 TCGA-V4-A9EC-01 TCGA-VD-A8KB-01 TCGA-VD-A8KO-01 TCGA-V4-A9E7-01 TCGA-V4-A9E8-01 TCGA-VD-AA8M-01 TCGA-V4-A9EY-01 TCGA-V4-A9EO-01 TCGA-WC-A882-01 TCGA-YZ-A983-01 TCGA-WC-A87Y-01 TCGA-VD-A8KH-01 TCGA-RZ-AB0B-01 TCGA-VD-A8KL-01 TCGA-WC-A888-01 TCGA-WC-AA9E-01 TCGA-V4-A9E5-01 TCGA-V4-A9EF-01 TCGA-VD-A8K8-01 TCGA-V4-A9F1-01 TCGA-V4-A9E9-01 TCGA-VD-AA8Q-01 TCGA-WC-AA9A-01 TCGA-V3-A9ZY-01 TCGA-V4-A9F4-01 TCGA-WC-A884-01 TCGA-VD-A8KK-01 TCGA-WC-A885-01 TCGA-VD-A8KM-01 TCGA-VD-AA8P-01 TCGA-V4-A9ED-01 TCGA-V4-A9EL-01 diff --git a/public/uvm_tcga_pan_can_atlas_2018/data_microbiome.txt b/public/uvm_tcga_pan_can_atlas_2018/data_microbiome.txt deleted file mode 100644 index 9c8e652642..0000000000 --- a/public/uvm_tcga_pan_can_atlas_2018/data_microbiome.txt +++ /dev/null @@ -1,3 +0,0 @@ -version https://git-lfs.github.com/spec/v1 -oid sha256:a41ee9fe3f0fc02d3c526118f7dc6e1b4481a0011add8a062933bf80da858676 -size 1712412 diff --git a/public/uvm_tcga_pan_can_atlas_2018/meta_microbiome.txt b/public/uvm_tcga_pan_can_atlas_2018/meta_microbiome.txt deleted file mode 100644 index 40fa28b336..0000000000 --- a/public/uvm_tcga_pan_can_atlas_2018/meta_microbiome.txt +++ /dev/null @@ -1,12 +0,0 @@ -cancer_study_identifier: uvm_tcga_pan_can_atlas_2018 -genetic_alteration_type: GENERIC_ASSAY -generic_assay_type: MICROBIOME_SIGNATURE -datatype: LIMIT-VALUE -stable_id: microbiome_signature -profile_name: Microbiome Signatures (log RNA Seq CPM) -profile_description: Microbial Signatures (log-cpm) from whole-transcriptome sequencing studies of TCGA (Poore et al. Nature 2020). -data_filename: data_microbiome.txt -show_profile_in_analysis_tab: true -pivot_threshold_value: 0 -value_sort_order: ASC -generic_entity_meta_properties: NAME,DESCRIPTION,URL