A5026666281- Cancer Genomics and Diagnostics
- Genetic factors in colorectal cancer
- Epigenetics and DNA Methylation
- Lymphoma Diagnosis and Treatment
- Viral-associated cancers and disorders
- Cancer Cells and Metastasis
- Single-cell and spatial transcriptomics
- Colorectal Cancer Treatments and Studies
- Evolution and Genetic Dynamics
- Molecular Biology Techniques and Applications
- Colorectal Cancer Screening and Detection
- Chronic Lymphocytic Leukemia Research
- DNA Repair Mechanisms
- Genomics and Chromatin Dynamics
- Peroxisome Proliferator-Activated Receptors
- Adipose Tissue and Metabolism
- Gene expression and cancer classification
- Bioinformatics and Genomic Networks
- TGF-β signaling in diseases
- Genomic variations and chromosomal abnormalities
- Mathematical Biology Tumor Growth
- T-cell and Retrovirus Studies
- Genomics and Rare Diseases
- Genetics, Bioinformatics, and Biomedical Research
- Diet and metabolism studies
University of Southern California
2015-2024
Duke University
2020
Arizona State University
2020
Keck Hospital of USC
2008-2019
Heart Life Hospital
2018
Southern California University for Professional Studies
1995-2015
Cancer Research UK
2012
University of Cambridge
2005-2012
University of the Ryukyus
2011
USC Norris Comprehensive Cancer Center
1995-2010
Human papilloma virus (HPV) DNA sequences have been detected in paraffin-embedded tissue using an enzymatic vitro amplification technique known as the polymerase chain reaction. Amplification of a HPV sequence before its detection with cDNA probe significantly increases rapidity well sensitivity such that single 5-10-micron thick section can be analyzed within 24 h. The assay specifically 16 or 18 without crossreactivity 6 11. As few 20 viral copies could detected. rapid and sensitive...
Intratumoral heterogeneity arises through the evolution of genetically diverse subclones during tumor progression. However, it remains unknown whether cells within single genetic clones are functionally equivalent. By combining DNA copy number alteration (CNA) profiling, sequencing, and lentiviral lineage tracking, we followed repopulation dynamics 150 lentivirus-marked lineages from 10 human colorectal cancers serial xenograft passages in mice. CNA mutational analysis distinguished...
An assay that selectively amplifies a specific deletion of the mitochondrial genome has been used to study extent deletion's accumulation in variety human tissues. The occurs at much higher levels nervous and muscle tissues than all other studied. variation level between same different persons similar age appears be less among within an individual. Tests for artifactual explanations differences were each negative. Three cellular parameters are correlated with identified. preferential...
The background frequency of t(14;18) (q32;q21) chromosomal translocations at the locus associated with B-cell leukemia/lymphoma-2 (BCL2) was determined from a survey peripheral blood lymphocytes (PBLs) 53 living individuals and tissues 31 autopsies by using nested PCR assay. translocation detected in 55% PBLs 35% autopsied spleens between less than 1 to 853 per million cells. Translocations copurified B lymphocytes. significantly increased age spleens, as does human risk for lymphoma....
Abstract Genetic and epigenetic variation, together with transcriptional plasticity, contribute to intratumour heterogeneity 1 . The interplay of these biological processes their respective contributions tumour evolution remain unknown. Here we show that genetic ancestry only infrequently affects gene expression traits subclonal in colorectal cancer (CRC). Using spatially resolved paired whole-genome transcriptome sequencing, find the majority variation is not strongly heritable but rather...
Abstract Colorectal malignancies are a leading cause of cancer-related death 1 and have undergone extensive genomic study 2,3 . However, DNA mutations alone do not fully explain malignant transformation 4–7 Here we investigate the co-evolution genome epigenome colorectal tumours at single-clone resolution using spatial multi-omic profiling individual glands. We collected 1,370 samples from 30 primary cancers 8 concomitant adenomas generated 1,207 chromatin accessibility profiles, 527 whole...
The stem cells that maintain human colon crypts are poorly characterized. To better determine cell numbers and how they divide, epigenetic patterns were used as fate markers. Methylation exhibits somatic inheritance random changes potentially record lifelong division histories binary strings or tags in adjacent CpG sites. tag contents of individual sampled with bisulfite sequencing at three presumably neutral loci. increased aging but varied between was mosaic within single crypts. Some...
Relatives of young adults with Hodgkin's disease are at increased risk disease, and lines evidence implicate both inheritance environment.
The authors describe a highly sensitive and practical in situ hybridization method using an oligonucleotide probe for EBER1 RNA the detection of Epstein-Barr virus (EBV) formalin-fixed, paraffin-embedded tissue sections. Paraffin-embedded tissues from 793 cases normal neoplastic were studied. Nuclear staining EBV was uniformly present all or virtually cells variety known EBV-positive tumors. We also demonstrate rare EBV-infected lymphoid tissues. RNAase predigestion, competitive inhibition,...
Journal Article Detection of Cytomegalovirus DNA in Peripheral Blood Patients Infected with Human Immunodeficiency Virus Get access Darryl Shibata, Shibata Departments Pathology and Medicine, Los Angeles County-University Southern California Medical Center, the Department Biological Sciences, University California, Angeles, Please address requests for reprints to Dr. 1200 North State Street, Box 736, 90033. Search other works by this author on: Oxford Academic PubMed Google Scholar W. John...
Abstract Oxidative DNA damage is unavoidably and continuously generated by oxidant byproducts of normal cellular metabolism. The repair genes, mutY mutM, prevent G to T mutations caused reactive oxygen species in Escherichia coli, but it has remained debatable whether deficiencies their mammalian counterparts, Myh Ogg1, are directly involved tumorigenesis. Here, we demonstrate that Ogg1 predispose 65.7% mice tumors, predominantly lung ovarian lymphomas. Remarkably, subsequent analyses...
We analyzed 88 formalin-fixed, paraffin-embedded invasive squamous carcinomas for human papillomavirus-related DNA sequences (HPV types 16 and 18) following in vitro gene amplification using the polymerase chain reaction. HPV were found 35 of 50 (70%) anogenital region, including four (100%) anal, six eight (75%) vulvar, nine 14 (64%) vaginal, two five (40%) penile, 19 (74%) cervical tumors. Nine 25 (36%) oropharyngeal contained sequences, 10 laryngeal, three (38%) buccal, seven (29%)...
Recent studies have demonstrated ubiquitous somatic microsatellite mutations in some cancers of the colon, endometrium, stomach, and pancreas.Our purpose was to characterize frequency nature this replication error (RER) or mutator phenotype sporadic endometrial carcinoma.Formalin-fixed, paraffin-embedded normal tumor tissues from 45 patients with cancer were screened for RER at three loci. To further when these alterations acquired relative clonal expansion, sizes altered microsatellites...