A5045236251- Glioma Diagnosis and Treatment
- Scientific Computing and Data Management
- Epigenetics and DNA Methylation
- RNA modifications and cancer
- Genetics, Bioinformatics, and Biomedical Research
- Medical Imaging Techniques and Applications
- Online Learning and Analytics
- Open Source Software Innovations
- Statistics Education and Methodologies
- Immune cells in cancer
- Forensic Toxicology and Drug Analysis
- Computational Physics and Python Applications
- Adipose Tissue and Metabolism
- Intelligent Tutoring Systems and Adaptive Learning
- Ferroptosis and cancer prognosis
- Augmented Reality Applications
- Opioid Use Disorder Treatment
- Ethics in Clinical Research
- Cardiovascular Health and Risk Factors
- Data Management and Algorithms
- Cancer Genomics and Diagnostics
- Metabolomics and Mass Spectrometry Studies
- Machine Learning and Data Classification
- Delphi Technique in Research
- Genetic Syndromes and Imprinting
Fred Hutch Cancer Center
2022-2024
Alex's Lemonade Stand Foundation
2020-2023
National Institutes of Health
2022
Johns Hopkins University
2022
Wayne State University
2015-2019
Michigan State University
2019
Michigan United
2015
Pediatric brain and spinal cancers are collectively the leading disease-related cause of death in children; thus, we urgently need curative therapeutic strategies for these tumors. To accelerate such discoveries, Children's Brain Tumor Network (CBTN) Pacific Neuro-Oncology Consortium (PNOC) created a systematic process tumor biobanking, model generation, sequencing with immediate access to harmonized data. We leverage data establish OpenPBTA, an open collaborative project over 40 scalable...
Opioid abuse is now the most common cause of accidental death in US. Although opioids and other drugs acutely increase signaling mediated by midbrain dopamine (DA)-synthesizing neurons, little known about long-lasting changes DA cells that may contribute to continued opioid abuse, craving, relapse. A better understanding molecular cellular bases could lead advancements therapeutics. This study comprises, our knowledge, first unbiased examination genome-wide gene expression associated with...
Tumor-associated macrophages (TAMs) play an important role in tumor immunity and comprise of subsets that have distinct phenotype, function, ontology. Transcriptomic analyses human medulloblastoma, the most common malignant pediatric brain cancer, showed medulloblastomas (MBs) with activated sonic hedgehog signaling (SHH-MB) significantly more TAMs than other MB subtypes. Therefore, we examined MB-associated by single-cell RNA sequencing autochthonous murine SHH-MB at steady state under two...
Abstract Maintenance of the drug‐addicted state is thought to involve changes in gene expression different neuronal cell types and neural circuits. Midbrain dopamine ( DA ) neurons particular mediate numerous responses drugs abuse. Long noncoding RNA s (lnc s) regulate CNS through a variety mechanisms, but next nothing known about their role drug The proportion lnc that are primate‐specific provides strong rationale for study human abusers. In this study, we determined profile dysregulated...
Software is vital for the advancement of biology and medicine. Impact evaluations scientific software have primarily emphasized traditional citation metrics associated papers, despite these inadequately capturing dynamic picture impact challenges with improper citation.
The development of new therapeutic strategies for the treatment complex brain disorders such as drug addiction is likely to be advanced by a more complete understanding underlying molecular pathophysiology. Although study postmortem human represents unique resource in this regard, it can challenging disentangle relative contribution chronic pathological processes versus perimortem events observed changes gene expression. To begin unravel issue, we analyzed quantitative PCR midbrain...
Opioid abuse is now the primary cause of accidental deaths in United States. Studies over several decades established cyclical nature abused drugs choice, with a current resurgence heroin and, more recently, fentanyl's emergence as major precipitant drug-related deaths. To better understand trends and to explore potential lethality specific drug-drug interactions, we conducted statistical analyses forensic toxicological data from Wayne County Medical Examiner's Office 2012-2016. We observed...
Epigenetic marks operate at multiple chromosomal levels to regulate gene expression, from direct covalent modification of DNA 3D structure. Research has shown that 5-methylcytosine (5-mC) and its oxidized form, 5-hydroxymethylcytosine (5-hmC), are stable epigenetic with distinct genomic distributions separate regulatory functions. In addition, recent data indicate 5-hmC plays a critical role in the mammalian brain, emphasizing importance considering this alternative context neuroepigenetics....
Data science and informatics tools are developing at a blistering rate, but their users often lack the educational background or resources to efficiently apply methods research. Training vignettes that accompany these deprecate because maintenance is not prioritized by funding, giving teams little time devote such endeavors. Our group has developed Open-source Tools for Resources (OTTR) offer greater efficiency flexibility creating maintaining training resources. OTTR empowers creators...
Software is vital for the advancement of biology and medicine. Analysis usage impact metrics can help developers determine user community engagement, justify additional funding, encourage use, identify unanticipated use cases, define improvement areas. However, there are challenges associated with these analyses including distorted or misleading metrics, as well ethical security concerns. More attention to nuances involved in capturing across spectrum biological software needed. Furthermore,...
Summary Pediatric brain and spinal cancer are the leading disease-related cause of death in children, thus we urgently need curative therapeutic strategies for these tumors. To accelerate such discoveries, Children’s Brain Tumor Network Pacific Neuro-Oncology Consortium created a systematic process tumor biobanking, model generation, sequencing with immediate access to harmonized data. We leverage data create OpenPBTA, an open collaborative project which establishes over 40 scalable analysis...
<ns3:p>Data science education provides tremendous opportunities but remains inaccessible to many communities. Increasing the accessibility of data these communities not only benefits individuals entering science, also increases field's innovation and potential impact as a whole. Education is most scalable solution meet needs, educators lack formal training in education. Our group has led efforts for variety audiences: from professional scientists high school students lay audiences. These...
<ns3:p>Data science education provides tremendous opportunities but remains inaccessible to many communities. Increasing the accessibility of data these communities not only benefits individuals entering science, also increases field's innovation and potential impact as a whole. Education is most scalable solution meet needs, educators lack formal training in education. Our group has led efforts for variety audiences: from professional scientists high school students lay audiences. These...
Abstract The role of macrophages in medulloblastoma, the most common malignant pediatric brain tumor, is unclear. Using single-cell RNA sequencing a mouse model sonic hedgehog medulloblastoma and analysis bulk human we investigated macrophage heterogeneity. Our findings reveal differential recruitment with molecular-targeted versus radiation therapy identify an immunosuppressive monocyte-derived following treatment uncovering potential strategies for immunomodulation as adjunctive therapy.
Abstract Pediatric brain tumors comprise a heterogeneous molecular and histological landscape that challenges most current precision-medicine approaches. While recent large-scale efforts to molecularly characterize distinct entities have dramatically advanced the field’s capacity classify further define subtypes, developing therapeutic less toxic molecularly-defined clinical approaches remains challenge. To new meet these advance scalable, shared biospecimen- data-resources for pediatric...
Data science education provides tremendous opportunities but remains inaccessible to many communities. Increasing the accessibility of data these communities not only benefits individuals entering science, also increases field's innovation and potential impact as a whole. Education is most scalable solution meet needs, educators lack formal training in education. Our group has led efforts for variety audiences: from professional scientists high school students lay audiences. These...