Metabolomics,Unknown,Transcriptomics,Genomics,Proteomics

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Exploring the spectrum of somatically acquired genomic lesions in HCLc by WGS

ABSTRACT: Whole genome sequencing of 10 HCLc tumor and matched-germline T cells. Genomic DNA from highly purified HCLc tumor and T cell populations were utilized for library preparation using NEBNext Ultra DNA library prep kit. Sequencing was performed as 150 bp paired end sequencing using four lanes of an Illumina HiSeq4000 to an average depth of 12X. Reads from each library were aligned to the human reference genome GRCh37 using BWA-MEM (v0.7.12). The analysis of somatic genetic alterations in WGS data from tumor-germline pair HCLc samples was divided based on the nature of the mutation, as follow: single-nucleotide variants (SNVs), indels, CNAs and SVs. Moreover, COSMIC mutational signatures and subclonal architecture was inferred for each tumor.

INSTRUMENT(S): Illumina HiSeq 4000

ORGANISM(S): Homo sapiens

SUBMITTER: Luz Yurany Moreno Rueda

PROVIDER: E-MTAB-12046 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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Exploring the spectrum of somatically acquired genomic lesions in HCLc by WGS

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