A5084108439- DNA Repair Mechanisms
- CRISPR and Genetic Engineering
- Bacterial Genetics and Biotechnology
- Genetic factors in colorectal cancer
- Cancer Genomics and Diagnostics
- Cancer therapeutics and mechanisms
- Chromosomal and Genetic Variations
- RNA modifications and cancer
- RNA and protein synthesis mechanisms
- Nutrition, Genetics, and Disease
- Plant Genetic and Mutation Studies
- Fungal and yeast genetics research
- Genomic variations and chromosomal abnormalities
- Photosynthetic Processes and Mechanisms
- Molecular Biology Techniques and Applications
- Genomics and Chromatin Dynamics
- BRCA gene mutations in cancer
- Genomics and Phylogenetic Studies
- Chromatin Remodeling and Cancer
- Genetic Mapping and Diversity in Plants and Animals
Edward Via College of Osteopathic Medicine
2016
Virginia Tech
2014-2015
Dan L Duncan Comprehensive Cancer Center
2013
Baylor College of Medicine
2005-2013
Thymineless death (TLD) is a classic and enigmatic phenomenon, documented in bacterial, yeast, human cells, whereby cells lose viability rapidly when deprived of thymine. Despite its being the essential mode action important chemotherapeutic agents, despite having been studied extensively for decades, basic mechanisms TLD have remained elusive. In Escherichia coli, several proteins involved homologous recombination (HR) are required TLD, however, surprisingly, RecA, central HR protein...
Escherichia coli has five DNA polymerases, one of which, the low-fidelity Pol IV or DinB, is required for stress-induced mutagenesis in well-studied Lac frameshift-reversion assay. Although normally present at approximately 200 molecules per cell, recruited to acts double-strand-break repair, and causes mutagenesis, only when least two cellular stress responses are activated: SOS DNA-damage response, which upregulates DinB 10-fold, RpoS-controlled general-stress about 2-fold. III was also...
Genomic instability at microsatellite loci is a hallmark of many cancers, including breast cancer. However, much the genomic variation and hereditary components responsible for cancer remain undetected. We hypothesized that microsatellites could provide additional markers risk assessment. A total 1,345 germline tumor DNA samples from individuals diagnosed with cancer, exome sequenced as part The Cancer Genome Atlas, were analyzed variation. comparison group our analysis, representing healthy...
Thymineless death (TLD) is the rapid loss of viability in bacterial, yeast, and human cells starved thymine. TLD mode action common anticancer drugs some antibiotics. Escherichia coli accompanied by blocked replication chromosomal DNA recent work identified activities recombination protein RecA SOS DNA-damage response as causes TLD. Here, we examine basis hypersensitivity to thymine deprivation (hyper-TLD) mutants that lack UvrD helicase, which opposes participates repair mechanisms, RecBCD...
There remains a large discrepancy between the known genetic contributions to cancer and that which can be explained by genomic variants, both inherited somatic. Recently, understudied repetitive DNA regions called microsatellites have been identified as risk markers for number of diseases including various cancers (breast, ovarian brain). In this study, we demonstrate an integrated process identifying further evaluating microsatellite-based lung using data from genome atlas 1000 genomes...
Abstract The human genome is 99% complete. This study contributes to filling the 1% gap by enriching previously unknown repeat regions called microsatellites (MST). We devised a Global MST Enrichment (GME) kit enrich and nextgen sequence 2 colorectal cell lines 16 normal samples illustrate its utility in identifying contigs from reads that do not map reference. analysis of these yielded 790 novel extra-referential concordant are observed more than one sample. searched for evidence functional...
Microsatellites (MST), tandem repeats of 1–6 nucleotide motifs, are mutational hot-spots with a bias for insertions and deletions (INDELs) rather than single polymorphisms (SNPs). The majority MST instability studies limited to small number loci, the Bethesda markers, which only informative subset colorectal cancers. In this paper we evaluate non-haplotype alleles present within next-gen sequencing data somatic variation (SMV) DNA repair proficient defective cell lines. We confirm that do...
// Natalie C. Fonville 1 , Zalman Vaksman Lauren J. McIver Harold R. Garner Virginia Bioinformatics Institute, Tech, Blacksburg, VA 24061, USA Correspondence to: Garner, e-mail: garner@vbi.vt.edu Keywords: Ovarian Cancer, Biomarkers, The Cancer Genome Atlas, Breast 1,000 Genomes Project Received: October 22, 2014 Accepted: December 16, Published: March 04, 2015 ABSTRACT cancer (OV) ranks fifth in deaths among women, yet there remain few informative biomarkers for this disease....
Abstract Background Fanconi anemia (FA) affects only one in 130,000 births, but has severe and diverse clinical consequences. It been theorized that defects the FA DNA cross‐link repair complex lead to a spectrum of variants are responsible for those phenotypes. Methods Using NextGen sequencing, we show clinically derived cell line had accumulated numerous genetic variants, including high‐impact mutations, such as deletion start codons, introduction premature stop missense INDELs. Results...
Abstract There remains a large discrepancy between the known genetic contributions to cancer and that which can be explained by genomic variants, both inherited somatic. Recently, understudied repetitive DNA regions called microsatellites have been identified as risk markers for number of diseases including various cancers (breast, ovarian brain). In this study we demonstrate an integrated process identifying validating microsatellite based lung using data from genome atlas (TCGA) 1000...