GliomaDB: A Web Server for Integrating Glioma Omics Data and Interactive Analysis

Publication date: Available online 5 December 2019Source: Genomics, Proteomics &BioinformaticsAuthor(s): Yadong Yang, Yang Sui, Bingbing Xie, Hongzhu Qu, Xiangdong FangAbstractGliomas are one of the most common types of brain cancers. Numerous efforts have been devoted to studying the mechanisms of glioma genesis and identifying biomarkers for diagnosis and treatment. To help further investigations, we present a comprehensive database named GliomaDB. GliomaDB includes 21,439 samples from 4304 patients and integrates genomic, transcriptomic, epigenomic, clinical, and gene-drug association data regarding glioblastoma multiforme (GBM) and low-grade glioma (LGG) from The Cancer Genome Atlas (TCGA), Gene Expression Omnibus (GEO), the Chinese Glioma Genome Atlas (CGGA), the Memorial Sloan Kettering Cancer Center Integrated Mutation Profiling of Actionable Cancer Targets (MSK-IMPACT), the US Food and Drug Administration (FDA), and PharmGKB. GliomaDB offers a user-friendly interface for two main types of functionalities. The first comprises queries of (i) somatic mutations, (ii) gene expression, (iii) microRNA (miRNA) expression, and (iv) DNA methylation. In addition, queries can be executed at the gene, region, and base level. Second, GliomaDB allows users to perform survival analysis, coexpression network visualization, multi-omics data visualization, and targeted drug recommendations based on personalized variations. GliomaDB bridges the gap between glioma genomics big data an...
Source: Genomics, Proteomics and Bioinformatics - Category: Bioinformatics Source Type: research

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Contributors : Zhong Yao ; Xingang LiSeries Type : Expression profiling by high throughput sequencingOrganism : Homo sapiensGlioblastoma multiforme (GBM) is the deadliest form of brain tumor with a median survival time of 15 months due to drug resistance. Ursodeoxycholic acid (UDCA) is approved of cancer suppressive potential in several tumors. Here we researched on the antitumor potential of UDCA on GBM. The CCK-8 and colony formation was used for detecting cell viability. RNA sequencing hinted transcriptional profile and pathways. PCR and western blot tested the change of related markers. Phenotype changes as cell cycle,...
Source: GEO: Gene Expression Omnibus - Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Homo sapiens Source Type: research
WEDNESDAY, Jan. 20, 2020 -- Surgical removal of the entire tumor may extend the lives of patients with a rare and deadly type of brain cancer called brainstem high-grade gliomas, a new study suggests. Researchers analyzed data from 103 patients in...
Source: - Daily MedNews - Category: General Medicine Source Type: news
CONCLUSIONS: GDC-0084 demonstrated classic PI3K/mTOR-inhibitor related toxicities. FDG-PET and concentration data from brain tumor tissue suggest that GDC-0084 crossed the blood-brain barrier. PMID: 31937616 [PubMed - as supplied by publisher]
Source: Clinical Cancer Research - Category: Cancer & Oncology Authors: Tags: Clin Cancer Res Source Type: research
In this study, we report for the first time the incorporation and administration of Aluminum phthalocyanine chloride (AlClPc)-loaded whey protein drug delivery system (AlClPc-PDDS) for the treatment of glioblastoma brain cancer. This system was designed and optimized (with the use of the spray drying technique) to obtain the required particle size (in the range of 100 to 300 nm), zeta potential and drug loading. Our results suggest that we have developed a drug delivery system from a low-cost raw material and preparation method that is capable of incorporating hydrophobic drugs which, in combination with irradiation, ...
Source: Materials Science and Engineering: C - Category: Materials Science Source Type: research
ville Malignant gliomas are one of the deadliest forms of brain cancer and despite advancements in treatment, patient prognosis remains poor, with an average survival of 15 months. Treatment using conventional chemotherapy does not deliver the required drug dose to the tumour site, owing to insufficient blood brain barrier (BBB) penetration, especially by hydrophilic drugs. Additionally, low molecular weight drugs cannot achieve specific accumulation in cancerous tissues and are characterized by a short circulation half-life. Nanoparticles can be designed to cross the BBB and deliver their drugs within the brain, thus ...
Source: Cancers - Category: Cancer & Oncology Authors: Tags: Review Source Type: research
We report initial production of a combined deep learning and radiomics model to predict overall survival in a clinically heterogeneous cohort of patients with high-grade gliomas. MATERIALS AND METHODS: Fifty patients with high-grade gliomas from our hospital and 128 patients with high-grade glioma from The Cancer Genome Atlas were included. For each patient, we calculated 348 hand-crafted radiomics features and 8192 deep features generated by a pretrained convolutional neural network. We then applied feature selection and Elastic Net-Cox modeling to differentiate patients into long- and short-term survivors. RESULTS: In ...
Source: American Journal of Neuroradiology - Category: Radiology Authors: Tags: FUNCTIONAL Source Type: research
Conditions:   Glioma;   Glioma, Malignant;   Glioblastoma;   Glioblastoma Multiforme;   Glioblastoma Multiforme of Brain;   GBM;   Brain Cancer Intervention:   Procedure: Laparoscopically harvested omental free flap Sponsor:   Northwell Health Recruiting
Source: - Category: Research Source Type: clinical trials
(Osaka University) Scientists at Osaka University have created a machine learning method for classifying the mutations of glioma brain tumors based on MR images alone. Thus far, classification has only been possible by tissue sampling during surgery. The new method is noninvasive, may remove the need for a tissue sample and help accelerate delivery of treatment for patients.
Source: EurekAlert! - Cancer - Category: Cancer & Oncology Source Type: news
AbstractIn the pediatric population, brain tumors represent the most commonly diagnosed solid neoplasms and the leading cause of cancer-related deaths globally. They include low-grade gliomas (LGGs), medulloblastomas (MBs), and other embryonal, ependymal, and neuroectodermal tumors. The mainstay of treatment for most brain tumors includes surgical intervention, radiation therapy, and chemotherapy. However, resistance to conventional therapy is widespread, which contributes to the high mortality rates reported and lack of improvement in patient survival despite advancement in therapeutic research. This has been attributed t...
Source: Cancer and Metastasis Reviews - Category: Cancer & Oncology Source Type: research
Conditions:   Glioma;   Glioma, Malignant;   Glioblastoma;   Glioblastoma Multiforme;   Glioblastoma Multiforme of Brain;   GBM;   Brain Cancer Intervention:   Procedure: Laparoscopically harvested omental free flap Sponsor:   Northwell Health Recruiting
Source: - Category: Research Source Type: clinical trials
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