Publications by authors named "Anna Neiman-Golden"
Double-strand breaks (DSBs) are toxic lesions that lead to genome instability. While canonical DSB repair pathways typically operate independently of RNA, emerging evidence suggests that RNA:DNA hybrids and transcripts near damaged sites can influence repair outcomes. However, a direct role for transcript RNA as a template during DSB repair in human cells is yet to be established.
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- Advances in DNA sequencing technology have made it faster and more affordable, leading to improved data availability and the need for complex algorithms and workflows.
- Metapipeline-DNA is a customizable and flexible analysis pipeline that handles various processing tasks like read alignment, variant calling, and quality control, making it easier to analyze DNA sequencing data.
- This open-source tool is available under the GPLv2 license and can be accessed for free at https://github.com/uclahs-cds/metapipeline-DNA.
Background: Intra-tumoural heterogeneity complicates cancer prognosis and impairs treatment success. One of the ways subclonal reconstruction (SRC) quantifies intra-tumoural heterogeneity is by estimating the number of subclones present in bulk DNA sequencing data. SRC algorithms are probabilistic and need to be initialized by a random seed.
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