A5071450878- Cancer Genomics and Diagnostics
- Lymphoma Diagnosis and Treatment
- Genetic factors in colorectal cancer
- Sarcoma Diagnosis and Treatment
- Neurofibromatosis and Schwannoma Cases
- Chronic Lymphocytic Leukemia Research
- Acute Myeloid Leukemia Research
- Lung Cancer Treatments and Mutations
- Neuroblastoma Research and Treatments
- Cancer-related gene regulation
- Genomics and Rare Diseases
- Antenna Design and Analysis
- Polyomavirus and related diseases
- Acute Lymphoblastic Leukemia research
- Full-Duplex Wireless Communications
- Chronic Myeloid Leukemia Treatments
- CAR-T cell therapy research
- Epigenetics and DNA Methylation
- Myeloproliferative Neoplasms: Diagnosis and Treatment
- RNA modifications and cancer
- Breast Implant and Reconstruction
- Monoclonal and Polyclonal Antibodies Research
- Hippo pathway signaling and YAP/TAZ
- Cancer Immunotherapy and Biomarkers
- Genomics and Phylogenetic Studies
Washington University in St. Louis
2015-2024
Barnes-Jewish Hospital
2022
In Silico Toxicology (Switzerland)
2022
Bipar
2019
SUNY Upstate Medical University
2017
University at Buffalo, State University of New York
2017
Universitat de Barcelona
2017
Hospital Del Mar
2017
Vanderbilt University Medical Center
2017
Cornell University
2017
Tests that predict outcomes for patients with acute myeloid leukemia (AML) are imprecise, especially those intermediate risk AML.To determine whether genomic approaches can provide novel prognostic information adult de novo AML.Whole-genome or exome sequencing was performed on samples obtained at disease presentation from 71 AML (mean age, 50.8 years) treated standard induction chemotherapy a single site starting in March 2002, follow-up through January 2015. In addition, deep digital paired...
A clinical assay was implemented to perform next-generation sequencing (NGS) of genes commonly mutated in multiple cancer types. This report describes the feasibility and diagnostic yield this 381 consecutive patients with non-small cell lung (NSCLC).Clinical targeted 23 performed DNA from formalin-fixed, paraffin-embedded (FFPE) tumor tissue. The used Agilent SureSelect hybrid capture followed by Illumina HiSeq 2000, MiSeq, or 2500 a College American Pathologists-accredited, Clinical...
Bam-readcount is a utility for generating low-level information about sequencing data at specific nucleotide positions. Originally designed to help filter genomic mutation calls, the metrics it outputs are useful as input variant detection tools and resolving ambiguity between callers1,2. In addition, has found broad applicability in diverse fields including tumor evolution, single-cell genomics, climate change ecology, tracking community spread of SARS-CoV-2.3-6.
Next-generation sequencing (NGS) is becoming a common approach for clinical testing of oncology specimens mutations in cancer genes. Unlike inherited variants, may occur at low frequencies because contamination from normal cells or tumor heterogeneity and can therefore be challenging to detect using NGS analysis tools, which are often designed constitutional genomic studies. We generated high-coverage (>1000×) data synthetic DNA mixtures with variant allele fractions (VAFs) 25% 2.5% assess...
Molecular testing of cancer is increasingly critical to medicine. Next-generation sequencing (NGS) provides comprehensive, unbiased, and inexpensive mutation analysis multiple genes with a single test. However, the authors' knowledge, usefulness NGS in fine-needle aspiration (FNA) specimens, which may be only specimens available, unknown. Non-small cell lung (NSCLC) an ideal model evaluate cytopathologic applications because FNA used for diagnosis staging specific molecular therapeutic...
T-cell receptor (TCR) clonality assessment is a principal diagnostic test in the management of mycosis fungoides (MF). However, current polymerase chain reaction-based methods may produce ambiguous results, often because low abundance clonal T lymphocytes, resulting weak peaks that cannot be size-resolved by contemporary capillary electrophoresis (CE).We sought to determine if next-generation sequencing (NGS)-based detection has increased sensitivity for over CE-based MF.Clonality was...
The identification of recurrent gene rearrangements in the clinical laboratory is cornerstone for risk stratification and treatment decisions many malignant tumors. Studies have reported that targeted next-generation sequencing assays potential to identify such rearrangements; however, their utility unknown. We examine sensitivity specificity ALK KMT2A (MLL) rearrangement detection by laboratory. analyzed a series seven rearranged cancers, six leukemias, 77 ALK/KMT2A rearrangement-negative...
Myeloproliferative neoplasms (MPNs) are associated with significant alterations in the bone marrow microenvironment that include decreased expression of key niche factors and myelofibrosis. Here, we explored contribution TGF-β to these by abrogating signaling mesenchymal stromal cells. Loss Osx-Cre–targeted MSCs prevented development myelofibrosis both MPLW515L Jak2V617F models MPNs. In contrast, despite absence myelofibrosis, loss cells did not rescue defective hematopoietic induced...
Abstract TP53-mutated myeloid malignancies are associated with complex cytogenetics and extensive structural variants, which complicates detailed genomic analysis by conventional clinical techniques. We performed whole-genome sequencing (WGS) of 42 acute leukemia (AML)/myelodysplastic syndromes (MDS) cases paired normal tissue to better characterize the landscape AML/MDS. WGS accurately determines TP53 allele status, a key prognostic factor, resulting in reclassification 12% from monoallelic...
In recent years, research has increasingly focused on the microenvironment of classical Hodgkin lymphoma (CHL) as a predictor treatment outcome. The focus this study was to assess interobserver reproducibility in interpreting macrophage-associated immunohistochemistry (IHC) for CD68 and CD163 retrospective cohort 88 patients with CHL.Staining results were correlated clinical outcome all those high international prognostic score (IPS).The intraclass correlation (ICC) five hematopathologists...
Abstract Motivation: Targeted ‘deep’ sequencing of specific genes or regions is great interest in clinical cancer diagnostics where some sequence variants, particularly translocations and indels, have known prognostic diagnostic significance. In this setting, it unnecessary to an entire genome, target capture methods can be applied limit important regions, thereby reducing costs the time required complete testing. Existing ‘next-gen’ analysis packages are optimized for efficiency...