EXPERIMENT_TITLE: Mixture - III
STUDY_DESCRIPTOR_STUDY_ABSTRACT: We developed a new computational framework, HiDENSEC (Hi-C based Direct Estimation of Copy Number and Structural rEarrangements in Cancer cells), to estimate the fraction of cancer cells in mixed samples, infer absolute copy number over the genome, detect and ascribe copy number to large-scale structural variants (LSSVs) using proximity ligation sequencing data from formalin-fixed tumor samples (Fix-C).
SAMPLE_TITLE: Mixture - III
SAMPLE_SAMPLE_ATTRIBUTES_SAMPLE_ATTRIBUTE: [{"TAG": "isolate", "VALUE": "67% GM12878 33% HCC1187 Replicate 1"}, {"TAG": "age", "VALUE": "not applicable"}, {"TAG": "biomaterial_provider", "VALUE": "Dirk Hockemeyer"}, {"TAG": "sex", "VALUE": "not applicable"}, {"TAG": "tissue", "VALUE": "not applicable"}, {"TAG": "BioSampleModel", "VALUE": "Human"}]
Pool_Member_@attributes_sample_title: Mixture - III
RUN_SET_RUN_Pool_Member_@attributes_sample_title: Mixture - III
RUN_SET_RUN_SRAFiles_SRAFile: [{"Alternatives": [null, null, null], "@attributes": {"cluster": "public", "filename": "SRR19696033.lite", "url": "https://sra-downloadb.be-md.ncbi.nlm.nih.gov/sos1/sra-pub-zq-38/SRR019/19696/SRR19696033/SRR19696033.lite.1", "size": "3526432902", "date": "2022-10-07 08:18:47", "md5": "8cff5e50d60a404fb297bb3aee19dbc9", "version": "1", "semantic_name": "SRA Lite", "supertype": "Primary ETL", "sratoolkit": "1"}}, {"Alternatives": null, "@attributes": {"cluster": "public", "filename": "SRR19696033", "url": "https://sra-pub-run-odp.s3.amazonaws.com/sra/SRR19696033/SRR19696033", "size": "5975606010", "date": "2022-06-16 17:34:50", "md5": "f76491cd959b5c92a7173fa8778592ad", "version": "1", "semantic_name": "SRA Normalized", "supertype": "Primary ETL", "sratoolkit": "1"}}, {"Alternatives": null, "@attributes": {"cluster": "public", "filename": "MSB551_R2_001.fastq.gz", "size": "4710264723", "date": "2022-06-16 17:29:17", "md5": "aaa88d4269e7837e8a41f4b9c5a6daf0", "version": "1", "semantic_name": "fastq", "supertype": "Original", "sratoolkit": "0"}}, {"Alternatives": null, "@attributes": {"cluster": "public", "filename": "MSB551_R1_001.fastq.gz", "size": "4157436957", "date": "2022-06-16 17:28:31", "md5": "6cb228fe4c92197d91243e858b03e961", "version": "1", "semantic_name": "fastq", "supertype": "Original", "sratoolkit": "0"}}]