• genomes
  • Due to a lack of systematic approaches to identify and characterize palindromes from genomes, little is known about the distribution of DNA palindromes nor their association with human diseases. (biomedcentral.com)
  • deletions
  • In the second part of this thesis, I reveal that cells deleted for Saccharomyces cerevisiae ESC2 exhibit synthetic sickness when combined with deletions of many genes involved in maintaining genomic stability. (bl.uk)
  • genome
  • I reveal that Saccharomyces cerevisiae Rtt109p promotes genome stability and resistance to DNA-damaging agents, and that it does this by functionally cooperating with the histone chaperone Asf1p to maintain normal chromatin structure. (bl.uk)
  • The diverse genome-wide repeats are derived from transposable elements, which are now understood to "jump" about different genomic locations, without transferring their original copies. (wikipedia.org)
  • Austin, TX (Scicasts) - There is an enormous amount that we do not understand about the fundamental causes and behaviour of cancer cells, but at some level, experts believe that cancer must relate to DNA and the genome. (scicasts.com)
  • A genomic library is a collection of examples of each DNA sequence found in a specific genome, also known as an organism's hereditary information. (reference.com)
  • translocation
  • Writing in Nucleic Acids Research in May 2017, she described how a specific 23-base pair-long translocation breakpoint can form a potential non-B DNA structure known as H-DNA, in the presence of sodium and magnesium ions. (scicasts.com)
  • adopt
  • It is now established that a small fraction of genomic DNA does adopt the non-canonical B-DNA structure or 'unusual' DNA structure. (curefa.org)
  • Time-resolved fluorescence measurements showed that BIA adopt an extended conformation upon binding and that all of the molecules are tightly associated with DNA. (jove.com)
  • repetitive
  • Here, I describe the development of methods for the analysis of repetitive genomic regions and apply these tools to study primate centromeres, which are composed of ~170-bp alpha-satellite units. (dissertation.com)
  • rearrangement
  • Using the Stampede and Lonestar supercomputers at TACC, Vasquez worked with researchers from the University of Texas MD Anderson Cancer Center and Cardiff University to test the hypothesis that PONDS might be found at, or near, rearrangement breakpoints -- locations on a chromosome where DNA might get deleted, inverted, or swapped around. (scicasts.com)
  • protein
  • Protein synthesis is the process of converting the DNA sequence to a sequence of amino acids to form a specific protein. (reference.com)
  • I also wish to thank Janet Rogers for DNA sequencing and Dr. Steve Hartson for protein mass determination. (okstate.edu)
  • The molecular architecture of centromeres is defined by evolutionarily dynamic protein and DNA components, which have been proposed to contribute to the origin of new species, while defects in centromeres have been linked to human disease. (dissertation.com)
  • The application of this approach to catalogue inter-individual, population-scale, and disease-associated structural variation identified extensive polymorphism in centromeres associated with binding sites for CENP-B, a sequence-specific DNA binding protein. (dissertation.com)
  • On the other hand, investigation of a potential role of this protein in DNA repair revealed that DNA strand breaks are repaired less efficiently when DEK expression is downregulated leading to hypersensitivity towards genotoxic insults. (uni-konstanz.de)
  • In sum, the study presented here proposes a model for DEK´s tumorigenic activity in which this protein contributes to circumvent the cell´s intrinsic barrier against cancerogenesis imposed by the DNA damage response thereby enabling proliferation under stress and eventually tumor growth and malignancy. (uni-konstanz.de)
  • centromeric
  • Although centromeric DNA is known to be polymorphic in humans, comprehensive cataloguing of variants at centromeres has not been possible. (dissertation.com)
  • Although alpha-satellite is present at the centromeres of most primates, the precise mechanisms of evolution of centromeric DNA and the contribution of genetic sequence to the specification of centromere identity remain unresolved. (dissertation.com)
  • prone
  • One striking example is the discovery that expansions of structure-prone DNA repeat leads to more than thirty hereditary neurological and developmental diseases in humans. (eurekalert.org)
  • strand
  • The most common repeats include the dinucleotide repeats, which have the bases AC on one DNA strand, and GT on the complementary strand. (wikipedia.org)
  • Palindromes longer than 200 bp cannot be amplified by traditional PCR using DNA polymerases with low strand displacement activity, nor can they be stably maintained in Escherichia coli . (biomedcentral.com)
  • Each strand contains the sequence as well as its complement, so it's possible for the DNA to form single stranded loops and bind to itself forming a cruciform. (reference.com)
  • recognition
  • Intracellular TLR9 was originally described as a pattern recognition receptor (PRR) specific for unmethylated CpG motifs common to bacterial but not mammalian DNA [ 17 ]. (pubmedcentralcanada.ca)
  • Breakpoint
  • We conducted polymerase chain reaction (PCR)-based assays for primary breast tumors and analyzed publically available array-comparative genomic hybridization data to map a common copy-number breakpoint in ERBB2 -amplified primary breast tumors. (biomedcentral.com)
  • palindromes
  • We developed a new protocol to identify palindromes that couples the S1 nuclease treated Cot0 DNA (GAPF) with high-throughput sequencing (GAP-Seq). (biomedcentral.com)
  • Long DNA palindromes are difficult to directly analyze using standard molecular genetics methods. (biomedcentral.com)
  • chromosome
  • Nucleolar expansion due to abnormal increases in polyamines could disrupt nearby chromatin, such as the inactive X chromosome, leading to expression of previously sequestered DNA. (frontiersin.org)
  • transitions
  • Taken together, this work enables the cataloguing of variation in satellite DNA, defines important evolutionary transitions in primate centromeres, and advances a model for primate centromere evolution and a theory for centromere specification.Advisors/Committee Members: Henikoff, Steven (advisor). (dissertation.com)
  • assays
  • Control assays and synthetic DNA templates were designed to facilitate the assessment of the key experimental factors impacting your real-time PCR results. (bio-rad.com)
  • role
  • We investigated the potential mechanisms for MECP2 duplication and examined whether genomic architectural features may play a role in their origin using a custom designed 4-Mb tiling-path oligonucleotide array CGH assay. (pubmedcentralcanada.ca)
  • motifs
  • Mammalian DNA contains relatively few CpG motifs and a remarkably low frequency of CpG dinucleotides, and is highly methylated. (pubmedcentralcanada.ca)
  • biological
  • Interaction of BIA with DNA has been postulated to be required for their biological activity. (jove.com)
  • targets
  • DNA and other chromatin-associated proteins are prevalent autoantibody targets in SLE, in part because of their capacity to activate TLR9 [ 16 ]. (pubmedcentralcanada.ca)
  • proteins
  • Viruses not only require production of their own proteins, RNA and/or DNA, but also production of additional cellular machinery, such as ribosomes, to handle the increased demands. (frontiersin.org)
  • molecules
  • Fluorescence data on free and bound BIA suggest that the binding of BIA and similar drugs to DNA is driven by a transfer of hydrophobic molecules from aqueous media to the more amphiphilic DNA environment. (jove.com)