Olena M. Vaske
A5080054270- Glioma Diagnosis and Treatment
- Cancer Genomics and Diagnostics
- Cancer-related molecular mechanisms research
- Neuroblastoma Research and Treatments
- RNA modifications and cancer
- Ferroptosis and cancer prognosis
- Molecular Biology Techniques and Applications
- Epigenetics and DNA Methylation
- Immunotherapy and Immune Responses
- Sarcoma Diagnosis and Treatment
- MicroRNA in disease regulation
- Ubiquitin and proteasome pathways
- RNA and protein synthesis mechanisms
- Acute Lymphoblastic Leukemia research
- RNA Research and Splicing
- BRCA gene mutations in cancer
- Childhood Cancer Survivors' Quality of Life
- Cancer, Hypoxia, and Metabolism
- Genomics and Phylogenetic Studies
- vaccines and immunoinformatics approaches
- Protein Degradation and Inhibitors
- Genomics and Rare Diseases
- Gene expression and cancer classification
- Cancer Research and Treatments
- Ethics in Clinical Research
University of California, Santa Cruz
2019-2025
Oxford University Press (United Kingdom)
2020
Genomics (United Kingdom)
2019
Accelerating cures for children with cancer remains an immediate challenge as a result of extensive oncogenic heterogeneity between and within histologies, distinct molecular mechanisms evolving diagnosis relapsed disease, limited therapeutic options. To systematically prioritize rationally test novel agents in preclinical murine models, researchers the Pediatric Preclinical Testing Consortium are continuously developing patient-derived xenografts (PDXs)—many which refractory to current...
Pediatric brain tumors are the leading cause of cancer-related death in children United States and contribute a disproportionate number potential years life lost compared to adult cancers. Moreover, survivors frequently suffer long-term side effects, including secondary The Children's Brain Tumor Network (CBTN) is multi-institutional international clinical research consortium created advance therapeutic development through collection rapid distribution biospecimens data via open-science...
Data-driven basic, translational, and clinical research has resulted in improved outcomes for children, adolescents, young adults (AYAs) with pediatric cancers. However, challenges sharing data between institutions, particularly research, prevent addressing substantial unmet needs children AYA patients diagnosed certain Systematically collecting from every child can enable greater understanding of cancers, improve survivorship, accelerate development new more effective therapies. To...
<h3>Importance</h3> Pediatric cancers are epigenetic diseases; therefore, considering tumor gene expression information is necessary for a complete understanding of the tumorigenic processes. <h3>Objective</h3> To evaluate feasibility and utility incorporating comparative into precision medicine framework difficult-to-treat pediatric young adult patients with cancer. <h3>Design, Setting, Participants</h3> This cohort study was conducted as consortium between University California, Santa Cruz...
Overcoming replicative senescence is an essential step during oncogenesis, and the reactivation of TERT through promoter mutations a common mechanism. are acquired in about 75% melanomas but not sufficient to maintain telomeres, suggesting that additional required. We identified cluster variants ACD encoding shelterin component TPP1. present 5% cutaneous melanoma co-occur with mutations. The two most somatic create or modify binding sites for E-twenty-six (ETS) transcription factors, similar...
Although research has improved the prognosis of childhood cancer, many challenges remain, especially for high-risk, recurrent, and rare cancers. The recognition that diverse cancer types may share molecular alterations can be therapeutically targeted stimulated "precision medicine" approaches in research. Understanding parent patient interest genomic-derived therapeutic options clinical setting is limited offers a potential care. A qualitative study was conducted to explore how young adult...
Purpose Pathogenic DEGS1 variants have been reported in individuals with autosomal recessive hypomyelinating leukodystrophy 18 (HLD18; MIM# 618404). We sought to resolve a 5′ +4/+5 splice site variant of uncertain significance found three HLD features. Methods used next-generation DNA and transcriptome sequencing, cell-based splicing assays, tandem mass spectrometry detect characterize the variant. then performed RNA structure probing conventional antisense oligonucleotide screening...
<title>Abstract</title> Myoepithelial carcinoma is an ultra-rare pediatric solid tumor with no targeted treatments. Clinical implementation of RNA sequencing (RNA-Seq) for identifying therapeutic targets underexplored in cancer. We previously published the Comparative Analysis Expression (CARE), a framework incorporating RNA-Seq-derived gene expression into clinic difficult-to-treat cancers. Here, we discuss 4-year-old male diagnosed myoepithelial who was treated at Stanford Medicine...
Although increasingly recognized as critical to genomic research, data sharing is hindered by an absence of standards regarding timing, patient privacy, use agreement standards, and characterization quality. Only after months identifying, permissioning for use, committing terms restricting sharing, downloading, assessing quality, it possible know whether or not a dataset can be used. In this paper, we evaluate the barriers based on Treehouse experience offer recommendations metadata...
Li Fraumeni syndrome (LFS) is a hereditary cancer predisposition caused by germline mutations in TP53. TP53 the most common mutated gene human cancer, occurring 30-50% of glioblastomas (GBM). Here, we highlight precision medicine platform to identify potential targets for GBM patient with LFS. We used comparative transcriptomics approach genes that are uniquely overexpressed LFS relative compendium 12,747 tumor RNA sequencing data sets, including 200 GBMs. STAT1 and STAT2 were identified as...
Diffuse intrinsic pontine gliomas (DIPG) are incurable brain tumors with an aggressive onset. Apart from irradiation, there currently no effective therapies available for patients DIPG, who have a median survival time of less than one year. Most DIPG cells harbor mutations in genes encoding histone H3 (H3K27M) proteins, resulting global reduction H3K27 trimethylation and activation oncogenic signaling pathways. Here we show that the H3K27M contribute to RAS pathway signaling, which is...
Abstract Background Diffuse midline gliomas with histone H3 K27M (H3K27M) mutations occur in early childhood and are marked by an invasive phenotype global decrease H3K27me3, epigenetic mark that regulates differentiation development. H3K27M mutation timing effect on embryonic brain development not fully characterized. Results We analyzed multiple publicly available RNA sequencing datasets to identify differentially expressed genes between non-K27M pediatric gliomas. found involved the...
Genomic data offer valuable insights that can be used to help find treatments and cures for disease. Precision medicine, defined by the NIH as “an emerging approach disease treatment prevention takes into account individual variability in genes, environment, lifestyle each person,” is gaining acceptance among physicians, who are beginning integrate patient-centric analysis clinical decision-making. Although precision medicine makes use of various types data, this piece focuses on molecular...
Accelerating cures for children with cancer remains an immediate challenge due to extensive oncogenic heterogeneity between and within histologies, distinct molecular mechanisms evolving diagnosis relapsed disease, limited therapeutic options. To systematically prioritize rationally test novel agents in preclinical murine models, researchers the Pediatric Preclinical Testing Consortium are continuously developing patient-derived xenografts (PDXs) from high-risk childhood cancers, many...
The systematic screening of asymptomatic and pre-symptomatic individuals is a powerful tool for controlling community transmission infectious disease on college campuses. Faced with paucity testing in the beginning COVID-19 pandemic, many universities developed molecular diagnostic laboratories focused SARS-CoV-2 campus their broader communities. We established UC Santa Cruz Molecular Diagnostic Lab early April 2020 began clinical samples just five weeks later. Using clinically-validated...
Many antineoplastics are designed to target upregulated genes, but quantifying upregulation in a single patient sample requires an appropriate set of samples for comparison. In cancer, the most natural comparison is unaffected from matching tissue, there often too few available overcome high intersample variance. Moreover, some cancer have misidentified tissues origin or even composite-tissue phenotypes. Even if can be identified, differential expression tools not accommodate comparisons sample.
Abstract Cancer cell lines have been widely used for decades to study biological processes driving cancer development, and identify biomarkers of response therapeutic agents. Advances in genomic sequencing made possible large-scale characterizations collections primary tumors, such as the Cell Line Encyclopedia (CCLE) The Genome Atlas (TCGA). These studies allow first time a comprehensive evaluation comparability tumors on proteomic level. Here we employ bulk mRNA micro-RNA data from...
Gliomatosis peritonei is a rare pathologic finding that associated with ovarian teratomas and malignant mixed germ cell tumors. The occurrence of gliomatosis as mature glial implant can impart an improved prognosis to patients immature teratoma, making prompt accurate diagnosis important. We describe case recurrent teratoma in 10-yr-old female patient, which comparative analysis the RNA sequencing gene expression data from patient's tumor was used effectively aid peritonei.
Abstract We report a SARS-CoV-2 lineage that shares N501Y, P681H, and other mutations with known variants of concern, such as B.1.1.7. This lineage, which we refer to B.1.x (COG-UK sometimes references similar samples B.1.324.1), is present in at least 20 states across the USA six countries. However, large deletion causes sequence be automatically rejected from repositories, suggesting frequency this new underestimated using public data. Recent dynamics based on 339 obtained Santa Cruz...