A5073312470- Acute Lymphoblastic Leukemia research
- Gene expression and cancer classification
- Epigenetics and DNA Methylation
- Single-cell and spatial transcriptomics
- Cancer Genomics and Diagnostics
- Cancer-related molecular mechanisms research
- Molecular Biology Techniques and Applications
- Genomics and Chromatin Dynamics
- Acute Myeloid Leukemia Research
- LGBTQ Health, Identity, and Policy
- Pancreatic and Hepatic Oncology Research
- Face and Expression Recognition
- Radiomics and Machine Learning in Medical Imaging
- Bioinformatics and Genomic Networks
- Optimal Experimental Design Methods
- Neural Networks and Applications
- Statistical Methods in Clinical Trials
- DNA Repair Mechanisms
- Intergenerational Family Dynamics and Caregiving
- Genetic Associations and Epidemiology
- CAR-T cell therapy research
- Computational Drug Discovery Methods
St. Jude Children's Research Hospital
2023-2025
The Ohio State University
2021-2024
T-lineage acute lymphoblastic leukemia (ALL) is an aggressive cancer comprising diverse subtypes that are challenging to stratify using conventional immunophenotyping. To gain insights into subset-specific therapeutic vulnerabilities, we performed integrative multiomics analysis of bone marrow samples from newly diagnosed T cell ALL, early precursor and T/myeloid mixed phenotype leukemia. Leveraging cellular indexing transcriptomes epitopes in conjunction with receptor sequencing, identified...
The false discovery rate (FDR) is a widely used metric of statistical significance for genomic data analyses that involve multiple hypothesis testing. Power and sample size considerations are important in planning studies perform these types analyses. Here, we propose three-rectangle approximation p-value histogram to derive formula compute the power FDR. We also introduce R package FDRsamplesize2, which incorporates other calculation formulas broad variety not covered by FDR software. A few...
Racial/ethnic disparities in health reflect a combination of genetic and environmental causes, DNA methylation may be an important mediator. We compared exploratory manner the blood methylome Japanese Americans (JPA) versus European (EUA).
<title>Abstract</title> T-lineage acute lymphoblastic leukemia (T-ALL) is a high-risk tumor that has eluded comprehensive genomic characterization, in part due to the high frequency of non-coding alterations resulting oncogene deregulation. Here we report integrated genome and transcriptome sequencing T-ALL remission samples obtained from over 1300 uniformly treated children with T-ALL, coupled epigenomic single cell analysis malignant normal T precursors. Integrated identified 15 subtypes...
While time-to-event data are often continuous, there several instances where discrete survival data, which inherently ordinal, may be available or more appropriate useful. Several models exist, but the forward continuation ratio model with a complementary log-log link has interpretation and is closely related to Cox proportional hazards model, despite being an ordinal model. This previously been implemented in high-dimensional setting using generalized monotone incremental stagewise...
Abstract Motivation Large datasets containing multiple clinical and omics measurements for each subject motivate the development of new statistical methods to integrate these data advance scientific discovery. Model We propose bootstrap evaluation association matrices (BEAM), which integrates profiles with endpoints. BEAM associates a set omic features endpoints via regression models then uses resampling determine significance set. Unlike existing methods, uniquely accommodates an arbitrary...
<title>Abstract</title> The influence of genetic ancestry on biology, survival outcomes, and risk stratification in T-cell Acute Lymphoblastic Leukemia (T-ALL) has not been explored. Genetic was genomically-derived from DNA-based single nucleotide polymorphisms children young adults with T-ALL treated Children’s Oncology Group trial AALL0434. We determined associations ancestry, leukemia genomics outcomes; co-primary outcomes were genomic subtype, pathway alteration, overall (OS), event-free...
The stage of cancer is a discrete ordinal response that indicates the aggressiveness disease and often used by physicians to determine type intensity treatment be administered. For example, FIGO in cervical based on size depth tumor as well level spread. It may clinical relevance identify molecular features from high-throughput genomic assays are associated with elucidate pathways related aggressiveness, improved useful for staging, therapeutic targets. High-throughput RNA-Seq data...
Stage of cancer is a discrete ordinal response that indicates aggressiveness disease and often used by physicians to determine the type intensity treatment be administered. For example, FIGO stage in cervical based on size depth tumor as well level spread. It may clinical relevance identify molecular features from high-throughput genomic assays are associated with cancer, elucidate pathways related aggressiveness, improved useful for staging, therapeutic targets. High-throughput RNA-Seq data...