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--- a +++ b/Metadata.txt @@ -0,0 +1,48 @@ +Cyclomics.Sample.ID Assay Study.name Study.hospital.center Sample.name Species Disease Treatment Mutation VAF.ddPCR Time.point Sample.type Source Gene.name Single.multiple.amplicon Amplicon.s. Flowcell.version Basecalling Reference.genome.version Minimum.coverage.pbdagcon Processed.folder Backbone.version SNV.amplicon DEL.amplicon +CY_SS_PC_HN_0001_001_000 CyclomicsSeq PREDICT UMC Utrecht Patient A Human HNSCC Chemoradiation 17:7577121 G>A 0.0041 0 Plasma cfDNA Plasma TP53 Single amplicon 12 R9 default Version 9 10 CY_SS_PC_HN_0001_001_000/000 BB24 12 NA +CY_SS_PC_HN_0001_002_000 CyclomicsSeq PREDICT UMC Utrecht Patient A Human HNSCC Chemoradiation 17:7577121 G>A 0.01675 1 Plasma cfDNA Plasma TP53 Single amplicon 12 R9 GU_303_HAC (R9) Version 9 10 CY_SS_PC_HN_0001_002_000/001 BB24 12 NA +CY_SS_PC_HN_0001_003_000 CyclomicsSeq PREDICT UMC Utrecht Patient A Human HNSCC Chemoradiation 17:7577121 G>A 0.0059 2 Plasma cfDNA Plasma TP53 Single amplicon 12 R9 default Version 9 10 CY_SS_PC_HN_0001_003_000/000 BB24 12 NA +CY_SS_PC_HN_0001_004_000 CyclomicsSeq PREDICT UMC Utrecht Patient A Human HNSCC Chemoradiation 17:7577121 G>A 0 4 Plasma cfDNA Plasma TP53 Single amplicon 12 R9 default Version 9 10 CY_SS_PC_HN_0001_004_000/000 BB24 12 NA +CY_SM_PC_HN_0002_001_000 CyclomicsSeq PREDICT UMC Utrecht Patient B Human HNSCC Chemoradiation 17:7577095-7577123 Deletion 4,00E-04 0 Plasma cfDNA Plasma TP53 Multiple amplicons 5,9,12 R9 GU_303_HAC (R9) version9_decoy_patient119 10 CY_SM_PC_HN_0002_001_000/000 BB24 NA 12 +CY_SS_PC_HC_0001_001_000 CyclomicsSeq MDD UMC Utrecht Control A Human Healthy control NA NA NA NA Plasma cfDNA Plasma TP53 Single amplicon 12 R9 GU_303_HAC (R9) Version 9 10 CY_SS_PC_HC_0001_001_000/000 BB24 NA NA +CY_SM_PC_HC_0002_001_000 CyclomicsSeq MDD UMC Utrecht Control B Human Healthy control NA NA NA NA Plasma cfDNA Plasma TP53 Multiple amplicons 5,9,12 R9 GU_303_HAC (R9) Version 9 10 CY_SM_PC_HC_0002_001_000/000 BB24 NA NA +CY_SM_PC_HN_0002_003_000 CyclomicsSeq PREDICT UMC Utrecht Patient B Human HNSCC Chemoradiation 17:7577095-7577123 Deletion 0 1 Plasma cfDNA Plasma TP53 Multiple amplicons 9,12 R9 default Version 11_decoy_patient119 10 CY_SM_PC_HN_0002_003_000/001 BB25 NA 12 +CY_SM_PC_HC_0004_001_000 CyclomicsSeq MDD UMC Utrecht Control C Human Healthy control NA NA NA NA Plasma cfDNA Plasma TP53 Multiple amplicons 9,12,19,20,21 R9 default Version 11 10 CY_SM_PC_HC_0004_001_000/000 BB25 NA NA +CY_SM_PC_HC_0004_003_000 CyclomicsSeq MDD UMC Utrecht Control C Human Healthy control NA NA NA NA Plasma cfDNA Plasma TP53 Multiple amplicons all Paragon R9 default Version 11 10 CY_SM_PC_HC_0004_003_000/000 BB25 NA NA +CY_SS_PC_HN_0003_001_000 CyclomicsSeq PREDICT UMC Utrecht Patient C Human HNSCC Chemoradiation 17:7578403 C>T 0.1658 0 Plasma cfDNA Plasma TP53 Single amplicon 19 R9 default Version 12 10 CY_SS_PC_HN_0003_001_000/000 BB22 19 NA +CY_SS_PC_HN_0003_002_000 CyclomicsSeq PREDICT UMC Utrecht Patient C Human HNSCC Chemoradiation 17:7578403 C>T 0.1242 1 Plasma cfDNA Plasma TP53 Single amplicon 19 R9 default Version 12 10 CY_SS_PC_HN_0003_002_000/000 BB22 19 NA +CY_SS_PC_HN_0003_003_000 CyclomicsSeq PREDICT UMC Utrecht Patient C Human HNSCC Chemoradiation 17:7578403 C>T 0.015 2 Plasma cfDNA Plasma TP53 Single amplicon 19 R9 default Version 12 10 CY_SS_PC_HN_0003_003_000/000 BB22 19 NA +CY_SS_PC_HN_0003_004_000 CyclomicsSeq PREDICT UMC Utrecht Patient C Human HNSCC Chemoradiation 17:7578403 C>T 0 3 Plasma cfDNA Plasma TP53 Single amplicon 19 R9 default Version 12 10 CY_SS_PC_HN_0003_004_000/000 BB22 19 NA +CY_SS_PC_HN_0003_005_000 CyclomicsSeq PREDICT UMC Utrecht Patient C Human HNSCC Chemoradiation 17:7578403 C>T 0 4 Plasma cfDNA Plasma TP53 Single amplicon 19 R9 default Version 12 10 CY_SS_PC_HN_0003_005_000/000 BB22 19 NA +CY_SS_PC_HN_0003_006_000 CyclomicsSeq PREDICT UMC Utrecht Patient C Human HNSCC Chemoradiation 17:7578403 C>T 0 19 Plasma cfDNA Plasma TP53 Single amplicon 19 R9 default Version 12 10 CY_SS_PC_HN_0003_006_000/000 BB22 19 NA +CY_BB25_19WT_0001_000 CyclomicsSeq MDD UMC Utrecht Control D Human Healthy control NA NA NA NA Plasma cfDNA Plasma TP53 Single amplicon 19 R9 default Version 12 10 CY_BB25_19WT_0001_000/000 BB25 NA NA +CY_SS_PC_HC_0005_002_000 CyclomicsSeq Cyclomics UMC Utrecht Control F Human Healthy control NA NA NA NA Plasma cfDNA Plasma TP53 Single amplicon 12 R9 default Version 12 10 CY_SS_PC_HC_0005_002_000/001 BB25 NA NA +CY_SS_PC_HN_0006_001_000 CyclomicsSeq PREDICT UMC Utrecht Patient D Human HNSCC Chemoradiation 17:7578500-7578509 Deletion NA 0 PCR amplicon Plasma TP53 Single amplicon 20 R9 default Version 13 10 CY_SS_PC_HN_0006_001_000/000 BB22 NA 20 & 21 +CY_SS_PC_HN_0006_002_000 CyclomicsSeq PREDICT UMC Utrecht Patient D Human HNSCC Chemoradiation 17:7578500-7578509 Deletion NA 1 PCR amplicon Plasma TP53 Single amplicon 20 R9 default Version 13 10 CY_SS_PC_HN_0006_002_000/000 BB22 NA 20 & 21 +CY_SS_PC_HN_0006_003_000 CyclomicsSeq PREDICT UMC Utrecht Patient D Human HNSCC Chemoradiation 17:7578500-7578509 Deletion NA 2 PCR amplicon Plasma TP53 Single amplicon 20 R9 default Version 13 10 CY_SS_PC_HN_0006_003_000/000 BB22 NA 20 & 21 +CY_SS_PC_HN_0006_004_000 CyclomicsSeq PREDICT UMC Utrecht Patient D Human HNSCC Chemoradiation 17:7578500-7578509 Deletion NA 3 PCR amplicon Plasma TP53 Single amplicon 20 R9 default Version 13 10 CY_SS_PC_HN_0006_004_000/000 BB22 NA 20 & 21 +CY_SS_PC_HN_0006_005_000 CyclomicsSeq PREDICT UMC Utrecht Patient D Human HNSCC Chemoradiation 17:7578500-7578509 Deletion NA 4 PCR amplicon Plasma TP53 Single amplicon 20 R9 default Version 13 10 CY_SS_PC_HN_0006_005_000/000 BB22 NA 20 & 21 +CY_SS_PC_HN_0006_006_000 CyclomicsSeq PREDICT UMC Utrecht Patient D Human HNSCC Chemoradiation 17:7578500-7578509 Deletion NA 5 PCR amplicon Plasma TP53 Single amplicon 20 R9 default Version 13 10 CY_SS_PC_HN_0006_006_000/000 BB22 NA 20 & 21 +CY_SS_PC_HN_0006_007_000 CyclomicsSeq PREDICT UMC Utrecht Patient D Human HNSCC Chemoradiation 17:7578500-7578509 Deletion NA 20 PCR amplicon Plasma TP53 Single amplicon 20 R9 default Version 13 10 CY_SS_PC_HN_0006_007_000/000 BB22 NA 20 & 21 +CY_SS_PC_HN_0007_001_000 CyclomicsSeq PREDICT UMC Utrecht Patient E Human HNSCC Chemoradiation 17:7578479 G>T NA 0 PCR amplicon Plasma TP53 Single amplicon 20 R9 default Version 13 10 CY_SS_PC_HN_0007_001_000/000 BB22 20 & 21 NA +CY_SS_PC_HN_0007_002_000 CyclomicsSeq PREDICT UMC Utrecht Patient E Human HNSCC Chemoradiation 17:7578479 G>T NA 1 PCR amplicon Plasma TP53 Single amplicon 20 R9 default Version 13 10 CY_SS_PC_HN_0007_002_000/000 BB22 20 & 21 NA +CY_SS_PC_HN_0007_003_000 CyclomicsSeq PREDICT UMC Utrecht Patient E Human HNSCC Chemoradiation 17:7578479 G>T NA 2 PCR amplicon Plasma TP53 Single amplicon 20 R9 default Version 13 10 CY_SS_PC_HN_0007_003_000/000 BB22 20 & 21 NA +CY_SS_PC_HN_0007_004_000 CyclomicsSeq PREDICT UMC Utrecht Patient E Human HNSCC Chemoradiation 17:7578479 G>T NA 3 PCR amplicon Plasma TP53 Single amplicon 20 R9 default Version 13 10 CY_SS_PC_HN_0007_004_000/000 BB22 20 & 21 NA +CY_SS_PC_HN_0008_001_000 CyclomicsSeq PREDICT UMC Utrecht Patient F Human HNSCC Chemoradiation 17:7577100 T>A NA 0 PCR amplicon Plasma TP53 Single amplicon 12 R9 default Version 13 10 CY_SS_PC_HN_0008_001_000/000 BB22 12 NA +CY_SS_PC_HN_0008_002_000 CyclomicsSeq PREDICT UMC Utrecht Patient F Human HNSCC Chemoradiation 17:7577100 T>A NA 2 PCR amplicon Plasma TP53 Single amplicon 12 R9 default Version 13 10 CY_SS_PC_HN_0008_002_000/000 BB22 12 NA +CY_SS_PC_HN_0008_003_000 CyclomicsSeq PREDICT UMC Utrecht Patient F Human HNSCC Chemoradiation 17:7577100 T>A NA 3 PCR amplicon Plasma TP53 Single amplicon 12 R9 default Version 13 10 CY_SS_PC_HN_0008_003_000/000 BB22 12 NA +CY_SM_PC_HC_0005_001_000 CyclomicsSeq MDD UMC Utrecht Control E Human Healthy control NA NA NA NA Plasma cfDNA Plasma TP53 Multiple amplicons all Paragon R9 default Version 13 10 CY_SM_PC_HC_0006_001_000/000 BBCR NA NA +CY_SM_PC_HC_0006_001_000 CyclomicsSeq MDD UMC Utrecht Control G Human Healthy control NA NA NA NA Plasma cfDNA Plasma TP53 Multiple amplicons all Paragon R9 default Version 13 10 CY_SM_PC_HC_0005_001_000/000 BBCR NA NA +CY_SM_PC_HN_0009_002_000 CyclomicsSeq IMCISION NKI Patient G Human HNSCC Immunotherapy and surgery 17:7579311 C>T NA 1 Plasma cfDNA Plasma TP53 Multiple amplicons all Paragon R9 default Version 13 10 CY_SM_PC_HN_0009_002_000/000/ BBCR 23 NA +CY_SM_PC_HN_0010_001_000 CyclomicsSeq IMCISION NKI Patient H Human HNSCC Immunotherapy and surgery 17:7578525 G>C NA 0 Plasma cfDNA Plasma TP53 Multiple amplicons all Paragon R9 default Version 13 10 CY_SM_PC_HN_0010_001_000/000/ BBCR 20 & 21 NA +CY_SM_PC_HN_0011_001_000 CyclomicsSeq IMCISION NKI Patient I Human HNSCC Immunotherapy and surgery 17:7579529 C>T NA 0 Plasma cfDNA Plasma TP53 Multiple amplicons all Paragon R9 default Version 13 10 CY_SM_PC_HN_0011_001_000/000/ BBCR 26 NA +CY_SM_PC_HN_0009_001_000 CyclomicsSeq IMCISION NKI Patient G Human HNSCC Immunotherapy and surgery 17:7579311 C>T NA 0 Plasma cfDNA Plasma TP53 Multiple amplicons all Paragon R9 default Version 13 10 CY_SM_PC_HN_0009_001_000/000/ BBCR 23 NA +CY_SM_PC_HN_0009_003_000 CyclomicsSeq IMCISION NKI Patient G Human HNSCC Immunotherapy and surgery 17:7579311 C>T NA 2 Plasma cfDNA Plasma TP53 Multiple amplicons all Paragon R9 default Version 13 10 CY_SM_PC_HN_0009_003_000/000/ BBCR 23 NA +CY_SM_PC_HN_0010_004_000 CyclomicsSeq IMCISION NKI Patient H Human HNSCC Immunotherapy and surgery 17:7578525 G>C NA 3 Plasma cfDNA Plasma TP53 Multiple amplicons all Paragon R9 default Version 13 10 CY_SM_PC_HN_0010_004_000/000/ BBCR 20 & 21 NA +CY_SM_PC_HN_0012_003_000 CyclomicsSeq IMCISION NKI Patient J Human HNSCC Immunotherapy and surgery "17:7573991 C>A ; 17:7578212 G>A" NA 2 Plasma cfDNA Plasma TP53 Multiple amplicons all Paragon R9 default Version 13 10 CY_SM_PC_HN_0012_003_000/000/ BBCR "5 ; 16 & 17" NA +CY_SM_PC_HN_0011_002_000 CyclomicsSeq IMCISION NKI Patient I Human HNSCC Immunotherapy and surgery 17:7579529 C>T NA 1 Plasma cfDNA Plasma TP53 Multiple amplicons all Paragon R9 default Version 13 10 CY_SM_PC_HN_0011_002_000/000/ BBCR 26 NA +CY_SM_PC_HN_0011_003_000 CyclomicsSeq IMCISION NKI Patient I Human HNSCC Immunotherapy and surgery 17:7579529 C>T NA 2 Plasma cfDNA Plasma TP53 Multiple amplicons all Paragon R9 default Version 13 10 CY_SM_PC_HN_0011_003_000/000/ BBCR 26 NA +CY_SM_PC_HN_0010_002_000 CyclomicsSeq IMCISION NKI Patient H Human HNSCC Immunotherapy and surgery 17:7578525 G>C NA 1 Plasma cfDNA Plasma TP53 Multiple amplicons all Paragon R9 default Version 13 10 CY_SM_PC_HN_0010_002_000/000/ BBCR 20 & 21 NA +CY_SM_PC_HN_0010_003_000 CyclomicsSeq IMCISION NKI Patient H Human HNSCC Immunotherapy and surgery 17:7578525 G>C NA 2 Plasma cfDNA Plasma TP53 Multiple amplicons all Paragon R9 default Version 13 10 CY_SM_PC_HN_0010_003_000/000/ BBCR 20 & 21 NA +CY_SM_PC_HN_0012_001_000 CyclomicsSeq IMCISION NKI Patient J Human HNSCC Immunotherapy and surgery "17:7573991 C>A ; 17:7578212 G>A" NA 0 Plasma cfDNA Plasma TP53 Multiple amplicons all Paragon R9 default Version 13 10 CY_SM_PC_HN_0012_001_000/000/ BBCR "5 ; 16 & 17" NA +CY_SM_PC_HN_0012_002_000 CyclomicsSeq IMCISION NKI Patient J Human HNSCC Immunotherapy and surgery "17:7573991 C>A ; 17:7578212 G>A" NA 1 Plasma cfDNA Plasma TP53 Multiple amplicons all Paragon R9 default Version 13 10 CY_SM_PC_HN_0012_002_000/000/ BBCR "5 ; 16 & 17" NA \ No newline at end of file