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- CRISPR-Cas9 screening (1)
- Cancer (1)
- Cancer biology (1)
- Computational biology (1)
- De novo (1)
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- Drug target identification (1)
- EWAS (1)
- Essential genes (1)
- Functional buffering (1)
- Functional genomics (1)
- Germline mutations (1)
- Integrative Genomics (1)
- Li Fraumeni syndrome (1)
- Mendelian models (1)
- Mixture Model (1)
- Paralogs (1)
- Spatially Correlated Data (1)
- Synthetic lethality (1)
- Systems biology (1)
- TP53 (1)
Articles 1 - 3 of 3
Full-Text Articles in Physical Sciences and Mathematics
Identification And Characterization Of De Novo Germline Tp53 Mutation Carriers In Families With Li-Fraumeni Syndrome, Carlos C. Vera Recio
Identification And Characterization Of De Novo Germline Tp53 Mutation Carriers In Families With Li-Fraumeni Syndrome, Carlos C. Vera Recio
Dissertations & Theses (Open Access)
Li-Fraumeni syndrome (LFS) is an inherited cancer syndrome caused by a deleterious mutation in TP53. An estimated 48% of LFS patients present due to a de novo mutation (DNM) in TP53. The knowledge of DNM status, DNM or familial mutation (FM), of an LFS patient requires genetic testing of both parents which is often inaccessible, making de novo LFS patients difficult to study. Famdenovo.TP53 is a Mendelian Risk prediction model used to predict DNM status of TP53 mutation carriers based on the cancer-family history and several input genetic parameters, including disease-gene penetrance. The good predictive performance of Famdenovo.TP53 was demonstrated …
Biases And Blind-Spots In Genome-Wide Crispr-Cas9 Knockout Screens, Merve Dede
Biases And Blind-Spots In Genome-Wide Crispr-Cas9 Knockout Screens, Merve Dede
Dissertations & Theses (Open Access)
Adaptation of the bacterial CRISPR-Cas9 system to mammalian cells revolutionized the field of functional genomics, enabling genome-scale genetic perturbations to study essential genes, whose loss of function results in a severe fitness defect. There are two types of essential genes in a cell. Core essential genes are absolutely required for growth and proliferation in every cell type. On the other hand, context-dependent essential genes become essential in an environmental or genetic context. The concept of context-dependent gene essentiality is particularly important in cancer, since killing cancer cells selectively without harming surrounding healthy tissue remains a major challenge. The toxicity of …
Mixture Model Approaches To Integrative Analysis Of Multi-Omics Data And Spatially Correlated Genomic Data, Ziqiao Wang
Mixture Model Approaches To Integrative Analysis Of Multi-Omics Data And Spatially Correlated Genomic Data, Ziqiao Wang
Dissertations & Theses (Open Access)
Integrative genomic data analysis is a powerful tool to study the complex biological processes behind a disease. Statistical methods can model the interrelationships of the involved gene activities through jointly analyzing multiple types of genomic data from different platforms (vertical integration), or improve the power of a study through aggregating the same type of genomic data across studies (horizontal integration). In this dissertation, we propose statistical methods and strategies for integrative multi-omics data in association analysis of disease phenotypes, with an emphasis on cancer applications.
We develop a new strategy based on horizontal integration by leveraging publicly available datasets into …