Global ETD Search
Search theses and dissertations gathered from participating repositories worldwide. Every result links back to the library that holds it. No account is needed.
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Showing 1 to 20 of 35 for “"Pan-cancer"”.
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Pan-Cancer Analysis of Non-Coding Driver Mutations
Cancers are caused by genomic alterations known as drivers. As drivers have broad applications in precision oncology, their discovery has become one of the central motivations for cancer genomics. At present, the majority of drivers have been found in the ~2% protein-coding regions. Despite an …
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Pan-Cancer Genomic Characterization of Human Papillomavirus Associated Tumors
… (HPV) accounts for nearly all cervical cancers (CESC), a subset of other anogenital squamous cancers, and increasing rates of head and neck squamous cell carcinomas (HNSC), with each cancer type having heterogenous outcomes due to a general lack of personalized care. Large scale genomic …
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Computational Tools and Resources for Pan-Cancer Analyses of Host-Microbe Interactions
… that interacts with the host to influence cancer development and progression, as well as affect response to anti-cancer therapies, suggesting opportunities for diagnostic and therapeutic approaches. Many microbe-microbe and host-microbe interactions relevant to cancer are expected to take …
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A Pan-Cancer Single-Cell Analysis of Intratumoral Copy Number Diversity and Evolution
<p>Aneuploidy is a hallmark of human cancers, with many copy number aberrations (CNAs) being associated with disease progression. Previous studies have revealed extensive inter-patient heterogeneity (IPH) in copy number profiles. However, the extent of intratumoral heterogeneity (ITH) and its …
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Pan-Cancer Analysis of RNA Dysregulation, Somatic Mutations, and Matrix Stiffness using Bioinformatics Approaches
Cancer is a complex disease driven by genetic mutations, epigenetic modifications, and alterations in the tumor microenvironment. Understanding these intricate molecular mechanisms is crucial for advancing cancer diagnosis, prognosis, and treatment. RNA sequencing (RNA-seq) has emerged as a …
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Generation of a novel pan-cancer chemokine receptor-modified CAR-T cell therapy directed towards nfP2X7
… haematological malignancies. However, solid cancers present challenges such as tumour antigen heterogeneity and complex mechanisms of immune evasion that have limited the translation of CAR-T cell therapies from haematological malignancies to solid cancers. This study details the development …
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Investigating the effect of a small molecule, Inhibitor of Nuclear Import (INI-43) as a pan-cancer treatment
… is overexpressed in cervical and oesophageal cancer and is important for cancer cell survival and function, suggesting that inhibiting KPNβ1 may be a potential targeted anti-cancer strategy. An in silico screen identified a small molecule inhibitor, Inhibitor of Nuclear Import (INI-43) as an …
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Biased Constitutive Activity in the Uveal Melanoma Oncogene CYSLTR2 is Unique in CYSLTR2 Germline and Pan-Cancer Human Variome
<p>Uveal melanoma is the most common eye cancer in adults and is clinically and genetically distinct from skin cutaneous melanoma. In a subset of cases, the oncogenic driver is an activating mutation in CYSLTR2, the gene encoding the G protein-coupled receptor (GPCR) cysteinylleukotriene receptor …
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Investigation of Genetic Alterations In Emt Suppressor, Dear1, Through Pan-Cancer Analysis and Ultra-Deep Targeted Sequencing In Ductal Carcinoma In Situ
… predictive and prognostic biomarkers for breast cancers with a heightened risk of progression from DCIS to IDC. Our laboratory has previously discovered a novel TRIM family member, <em>DEAR1</em> (<em>Ductal Epithelium Associated Ring Chromosome 1, annotated as TRIM62)</em> within chromosome …
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Convergence of regulatory mutations into oncogenic pathways across multiple tumor types
Cancer sequencing efforts have largely focused on profiling somatic variants in the protein-coding genome and characterizing their functional impact. In this study, we develop a computational pipeline to identify non-coding mutational drivers across multiple tumor types. We describe the non-coding …
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The Intra-Tumour Heterogeneity Landscape of Human Cancers
… a selective advantage and can induce clonal expansions. Incomplete clonal expansions give rise to intra-tumour heterogeneity. Somatic mutations can be measured through massively parallel sequencing, where mutations that are supporting incomplete expansions will appear as subclonal. These …
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Patterns of somatic genome rearrangement in human cancer
Cancer development is driven by somatic genome alterations, ranging from single point mutations to larger structural variants (SV) affecting kilobases to megabases of one or more chromosomes. Studies of somatic rearrangement have previously been limited by a paucity of whole genome sequencing data, …
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TimiGP: A Computational Framework to Determine the Tumor Immune Microenvironment Associated with Prognosis and Immunotherapy Response
… microenvironment (TIME) drastically impacts cancer patients’ clinical outcomes, including prognosis and immunotherapy response. However, understanding TIME remains challenging due to its complexity and heterogeneity. In this dissertation, we introduce TimiGP (Tumor Immune Microenvironment …
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Harnessing Cancer Omics to Inform Precision Oncology
… in the era of big data. With the growing size of pan-cancer genomic, transcriptomic and proteomic profiling data, there is imperative need for integrative analysis of molecular and clinical information in an efficient way. Here, we conducted omics analysis on three different cancer studies and …
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Algorithms for analyzing complex structural variations in cancer genomes
Analysis of somatic alterations in cancer genomes has been accelerated through the rapid growth of the quantity, quality and depth of data generated by next-generation sequencing (NGS). Previously most of cancer genome studies were focusing on single nucleotide variations (SNVs), small insertions …
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Computational frameworks to unravel the immune landscape
… I have demonstrated their utilities in refining pan- cancer immune subtypes, improving ICB response prediction and cancer survival, annotating spatial niches, and guiding therapeutic strategies to guide NK engineering. To further enhance immune gene set annotations, I have built Immune Cell …
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The impact of ARID1A loss on ER+ breast cancer: mechanistic insights and therapeutic opportunities
… is the leading cause of mortality in breast cancer patients. Up to 12 % of all ER+ breast cancer metastases harbour mutations in ARID1A, a critical subunit of the SWI/SNF chromatin remodelling complex. In 2020, Nagarajan et al. have shown that ARID1A mutations contribute to resistance to …
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Protein structural and functional consequences of missense mutations in the human cancer genome
… addressed, and it is particularly prevalent in cancer. The replication and repair mechanisms of tumour cells are defective, causing an extremely chaotic and messy mutational landscape, where the contribution of most variants to tumour progression cannot be quantified easily. There are some key …
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Defining cell state regulators in cancers using single-cell analysis and CRISPR-Cas9 screening
… and accessible, our understanding of cancer heterogeneity and its impact on clinical outcomes are being realised. Whilst genomic variation has been extremely useful for cancer stratification and development of targeted therapies, they do not always underpin variable therapeutic …
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Annotating Human Interactome to Predict Pathways and Systematically Analyzing Network Rewiring in Cancer across Multiple Tissues
… disruption can cause complex diseases such as cancer. Currently, hundreds of thousands of binary PPIs comprise human interactome, but they lack annotations about tissue- or disease-specificity. Pathway databases provide more detail about these conditions, but they cover only fraction of the …
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