Results 31 to 40 of about 32,198,489 (390)
Local alignment of generalized
BMC Bioinformatics, 2010 Background DNA sequence comparison is a well-studied problem, in which two DNA sequences are compared using a weighted edit distance. Recent DNA sequencing technologies however observe an encoded form of the sequence, rather than each DNA base ...
Nelson Stanley F +2 more
doaj +1 more source
Nucleic Acids Research, 2012 Nucleotide excision repair (NER) efficiencies of DNA lesions can vary by orders of magnitude, for reasons that remain unclear. An example is the pair of N-(2′-deoxyguanosin-8-yl)-2-aminofluorene (dG-C8-AF) and N-(2′-deoxyguanosin-8-yl)-2 ...
Hong Mu +7 more
semanticscholar +1 more source
DddA homolog search and engineering expand sequence compatibility of mitochondrial base editing
Nature Communications, 2023 There is a need to improve and expand mitochondrial base editing tools. Here the authors identify a DddA homolog from Simiaoa sunii (Ddd_Ss) which can efficiently deaminate cytosine in dsDNA; they develop cytosine base editors and introduce mutations at ...
Li Mi +13 more
doaj +1 more source
Life, 2022 DNA carries more than the list of biochemical ingredients that drive the basic functions of living systems. The sequence of base pairs includes a multitude of structural and energetic signals, which determine the degree to which the long, threadlike ...
Robert T. Young +4 more
doaj +1 more source
SeGraM: A Universal Hardware Accelerator for Genomic Sequence-to-Graph and Sequence-to-Sequence Mapping [PDF]
, 2022 A critical step of genome sequence analysis is the mapping of sequenced DNA fragments (i.e., reads) collected from an individual to a known linear reference genome sequence (i.e., sequence-to-sequence mapping). Recent works replace the linear reference sequence with a graph-based representation of the reference genome, which captures the genetic ...
arxiv +1 more source
Base-calling of automated sequencer traces using phred. I. Accuracy assessment.
Genome Research, 1998 The availability of massive amounts of DNA sequence information has begun to revolutionize the practice of biology. As a result, current large-scale sequencing output, while impressive, is not adequate to keep pace with growing demand and, in particular,
Bland Ewing +3 more
semanticscholar +1 more source
Journal of Nucleic Acids, 2023 MGB polyamide-oligonucleotide conjugates ON 1-4 with linked MGB polyamides at the 2-exocyclic amino group of a guanine base using aminoalkyl linkers were synthesized and evaluated in terms of binding affinity for complementary DNA containing the MGB ...
Kazuo Kamaike +13 more
doaj +1 more source
Sequence-based pangenomic core detection
iScience, 2022 One of the most basic kinds of analysis to be performed on a pangenome is the detection of its core, i.e., the information shared among all members. Pangenomic core detection is classically done on the gene level and many tools focus exclusively on core detection in prokaryotes. Here, we present a new method for sequence-based pangenomic core detection.
Schulz, Tizian +2 more
openaire +3 more sources
Mechanisms of direct radiation damage to DNA: the effect of base sequence on base end products.
Journal of Physical Chemistry B, 2011 It has been generally assumed that product formation in DNA damaged by ionizing radiation is relatively independent of base sequence, i.e., that the yield of a given product depends primarily on the chemical properties of each DNA constituent and not on ...
K. Sharma, S. Swarts, W. Bernhard
semanticscholar +1 more source
EvolveAGene 3: A DNA coding sequence evolution simulation program [PDF]
, 2007 EvolveAGene 3 is a realistic coding sequence simulation program that separates mutation from selection and allows the user to set selection conditions, including variable regions of selection intensity within the sequence and variation in intensity of ...
Barry G. Hall
core +2 more sources