A copy of this work was available on the public web and has been preserved in the Wayback Machine. The capture dates from 2017; you can also visit the original URL.
The file type is application/pdf.
Filters
Duplication in DNA Sequences
[chapter]
2009
Natural Computing Series
Preserved Fulltext
During DNA replication, subsequences of a strand of DNA may be copied several times (duplication) or skipped (repeat-deletion). ...
Duplication and repeat-deletion are the basic models of errors occurring during DNA replication from the viewpoint of formal languages. ...
Kathleen Hill for extended discussions on the biological motivation for duplication and repeat-deletion. ...
doi:10.1007/978-3-540-88869-7_4
fatcat:2uzs3yvhgjegbj6lqodpryvu34
Duplication count distributions in DNA sequences
2008
Physical Review E
Preserved Fulltext
A copy of this work was available on the public web and has been preserved in the Wayback Machine. The capture dates from 2019; you can also visit the original URL.
The file type is application/pdf.
We study quantitative features of complex repetitive DNA in several genomes by studying sequences that are sufficiently long that they are unlikely to have repeated by chance. ...
For each genome we study, we determine the number of identical copies, the "duplication count," of each sequence of length 40, that is of each "40-mer." ...
INTRODUCTION The term genome refers to the complete DNA sequence of an organism and is typically represented as a sequence of bases denoted A, C, G, and T. ...
doi:10.1103/physreve.78.061912
pmid:19256873
pmcid:PMC3121164
fatcat:3msuscezvnepncevbrwg44howq
On a chain of fragmentation equations for duplication-mutation dynamics in DNA sequences
[article]
2015
arXiv
pre-print
Preserved Fulltext
A copy of this work was available on the public web and has been preserved in the Wayback Machine. The capture dates from 2019; you can also visit the original URL.
The file type is application/pdf.
Other Versions
Recent studies have revealed that for the majority of species the length distributions of duplicated sequences in natural DNA follow a power-law tail. ...
We study duplication-mutation models for processes in natural DNA sequences and the length distributions of exact matches computed from both synthetic and natural sequences. ...
INTRODUCTION In recent years a series of duplication-mutation models related to processes occurring in natural DNA sequences has been reported [1] [2] [3] . ...
arXiv:1501.04078v4
fatcat:kfysnmo5lnhb3hrytrilyfr6pq
DNA sequence duplications trigger gene inactivation in Neurospora crassa
1988
Proceedings of the National Academy of Sciences of the United States of America
Preserved Fulltext
A copy of this work was available on the public web and has been preserved in the Wayback Machine. The capture dates from 2018; you can also visit the original URL.
The file type is application/pdf.
Previous work showed a correlation between the occurrence of these radical changes, referred to by the acronym RIP, and the presence of sequence duplications resulting from the introduced DNA. ...
Transforming sequences are faithfully replicated in vegetative cells ofNeurospora but are typically subject at high frequency to sequence alterations and methylation in the period between fertilization ...
Both copies of the duplicated gene were subject to the RIP process in crosses of this strain. We conclude that sequence duplications, per se, trigger RIP. ...
doi:10.1073/pnas.85.18.6870
pmid:2842795
pmcid:PMC282080
fatcat:bujbyfzfpjdk7o7dwl7ou3cmxq
Nomad DNA ? A model for movement and duplication of DNA sequences in plant genomes
1990
Plant Molecular Biology
Preserved Fulltext
A copy of this work was available on the public web and has been preserved in the Wayback Machine. The capture dates from 2017; you can also visit the original URL.
The file type is application/pdf.
Thin line in parentheses ( ) indicates sequence which constitutes the 5' DR; it has sequence identity with the 3' end of the insert, but it is generated by the filling-in of the broken target DNA and is ...
of copies of mildly duplicated sequences. ...
doi:10.1007/bf00019160
pmid:2103462
fatcat:f7i7as7nlzeq7dg2ynpe7vgpau
Inverted duplicate DNA sequences increase translocation rates through sequencing nanopores resulting in reduced base calling accuracy
2020
Nucleic Acids Research
Preserved Fulltext
A copy of this work was available on the public web and has been preserved in the Wayback Machine. The capture dates from 2020; you can also visit the original URL.
The file type is application/pdf.
Inverted duplicate DNA sequences in both yeast and human samples were observed to have systematic elevation in the electrical current detected at the nanopore, increased translocation rates and decreased ...
Inverted duplicated DNA sequences are a common feature of structural variants (SVs) and copy number variants (CNVs). ...
read in the human genome. ...
doi:10.1093/nar/gkaa206
pmid:32255181
fatcat:xggul2ytd5e6xehodiocie2hw4
Evidence for a duplicated mitochondrial region in Audubon's shearwater based on MinION sequencing
2018
Mitochondrial DNA. Part A, DNA mapping, sequencing, and analysis
Preserved Fulltext
A copy of this work was available on the public web and has been preserved in the Wayback Machine. The capture dates from 2019; you can also visit the original URL.
The file type is application/pdf.
Evidence suggests that part of the mitochondrial genome of Procellariiformes, especially albatrosses, is duplicated, but no DNA fragment covering the entire duplication has been sequenced. ...
Long-read sequencing suggests heteroplasmy and a novel arrangement within the duplicated region, indicating a complex evolution of the mitogenome in Procellariiformes. ARTICLE HISTORY ...
DNA was not sheared so as to maximize sequencing read length. ...
doi:10.1080/24701394.2018.1484116
pmid:30043666
fatcat:l33qd4cjnraxvcswjqmf4abk5u
Polymorphic duplicate genes and persistent non-coding sequences reveal heterogeneous patterns of mitochondrial DNA loss in salamanders
2017
BMC Genomics
Preserved Fulltext
A copy of this work was available on the public web and has been preserved in the Wayback Machine. The capture dates from 2018; you can also visit the original URL.
The file type is application/pdf.
We then analyze these gene orders in a phylogenetic context to reveal patterns of DNA loss after mitochondrial gene duplication. ...
In addition, we show that non-coding DNA duplicated at the base of the clade has persisted across species for tens of millions of years. ...
Non-coding sequences Two regions of non-coding, repetitive DNA remain in all Aneides mitochondrial genomes from the ancestral duplication at the base of the clade. ...
doi:10.1186/s12864-017-4358-2
pmid:29281973
pmcid:PMC5745709
fatcat:mnirokgfvng5rdr24j5ecyel2u
A natural case of RIP: degeneration of the DNA sequence in an ancestral tandem duplication
1989
Molecular and Cellular Biology
Preserved Fulltext
A copy of this work was available on the public web and has been preserved in the Wayback Machine. The capture dates from 2018; you can also visit the original URL.
The file type is application/pdf.
Triplex DNA, known to occur in homopurine-homopyrimidine sequences, may have mediated the tandem duplication. ...
Sequence analysis suggests that the xi-eta region arose from the theta region by duplication of a 794-base-pair segment followed by 267 G.C to A.T mutations in the duplicated DNA. ...
This and the fact that DNA methylation in the ;--q vicinity appears to be limited to the duplicated sequences (E. U. ...
doi:10.1128/mcb.9.10.4416
pmid:2531278
pmcid:PMC362524
fatcat:kioueexugna7fp7ennpztciyxq
Tandem direct duplications of mitochondrial DNA in mitochondrial myopathy: analysis of nucleotide sequence and tissue distribution
1989
Nucleic Acids Research
Preserved Fulltext
A copy of this work was available on the public web and has been preserved in the Wayback Machine. The capture dates from 2019; you can also visit the original URL.
The file type is application/pdf.
Two patients with direct tandem duplications of mitochondrial DNA (mtDNA) and mitochondrial myopathy are described. ...
The brekpoint regions between duplicated segments were amplified using the polymerase chain reaction (PCR), cloned and sequenced. ...
B Lake for kindly supplying muscle biopsy material, Prof G Attardi and Dr M King for allowing us to use the mitochondrial probes, Prof A C Wilson and associates for providing primers and instruction in ...
doi:10.1093/nar/17.24.10223
pmid:2602151
pmcid:PMC335296
fatcat:24dnqt7k45cknl3cvz5fsmg4bm
Specificity of repeat-induced point mutation (RIP) in Neurospora: sensitivity of non-Neurospora sequences, a natural diverged tandem duplication, and unique DNA adjacent to a duplicated region
1991
Genetics
Preserved Fulltext
A copy of this work was available on the public web and has been preserved in the Wayback Machine. The capture dates from 2020; you can also visit the original URL.
The file type is application/pdf.
The process designated RIP (repeat-induced point mutation) alters duplicated DNA sequences in the sexual cycle of Neurospora crassa. ...
DNA sequence analysis of unduplicated pUC8 sequences adjacent to a duplication revealed that RIP continued at least 180 bp beyond the boundary of the duplication. ...
Novel MboI fragments represent changes in the DNA sequence. ...
pmid:1827630
pmcid:PMC1204398
fatcat:xs4ebvvazrba5grz7quqkzlphy
DNA Sequence Duplication in Rhodobacter sphaeroides 2.4.1: Evidence of an Ancient Partnership between Chromosomes I and II
2004
Journal of Bacteriology
Preserved Fulltext
A copy of this work was available on the public web and has been preserved in the Wayback Machine. The capture dates from 2019; you can also visit the original URL.
The file type is application/pdf.
Most of the DNA sequence duplications in the R. sphaeroides genome occurred early in species history, whereas more recent sequence duplications are rarely found. ...
To uncover the history of gene duplications in the R. sphaeroides genome, 44 gene duplications were sampled and then analyzed for DNA sequence similarity against orthologous DNA sequences. ...
RESULTS Exact DNA duplication. The DNA sequence analysis revealed an extensive amount of exact DNA duplication within the R. sphaeroides chromosomes, as shown in Fig. 1 . ...
doi:10.1128/jb.186.7.2019-2027.2004
pmid:15028685
pmcid:PMC374402
fatcat:wflfdfarprb7ziekddruyz6cqe
Complete mitochondrial DNA sequence of oyster Crassostrea hongkongensis-a case of "Tandem duplication-random loss" for genome rearrangement in Crassostrea?
2008
BMC Genomics
Preserved Fulltext
A copy of this work was available on the public web and has been preserved in the Wayback Machine. The capture dates from 2017; you can also visit the original URL.
The file type is application/pdf.
Of the 41 complete mt genomes sequenced so far, 12 are from bivalves. We determined, in the current study, the complete mitochondrial DNA sequence of Crassostrea hongkongensis. ...
A striking finding of this study is that a DNA segment containing four tRNA genes (trnk1, trnC, trnQ1 and trnN) and two duplicated or split rRNA gene (rrnL5' and rrnS) are absent from the genome, when ...
Unlike the 16S rRNA gene in C. gigas and C. virginica mt-DNA, it is not split or duplicated into two fragments (Fig. 2 ) [5] . ...
doi:10.1186/1471-2164-9-477
pmid:18847502
pmcid:PMC2576254
fatcat:dcahnbelknf3lpveq4igiyrnzy
Information transfer between duplicated chromosomal sequences in mammalian cells involves contiguous regions of DNA
1986
Proceedings of the National Academy of Sciences of the United States of America
Preserved Fulltext
A copy of this work was available on the public web and has been preserved in the Wayback Machine. The capture dates from 2018; you can also visit the original URL.
The file type is application/pdf.
We have investigated the nature of Information transfer that appears to occur nonreciprocally between duplicated chromosomal sequences in cultured mouse L cells. ...
In this report, we present experiments designed to answer several related questions about the nature of information transfer between duplicated Herpes virus thymidine kinase gene sequences in mammalian ...
In summary, we have studied gene conversion events between duplicated HSV TK sequences in mouse L cells and have found that these events appear to involve contiguous regions of DNA that are often less ...
doi:10.1073/pnas.83.6.1802
pmid:3006074
pmcid:PMC323172
fatcat:ow6gs6c2kngsrkrjyigi4subhe
DNA Sequence Variation at a Duplicated Gene: Excess of Replacement Polymorphism and Extensive Haplotype Structure in the Drosophila melanogasterbicoid Region
2002
Molecular biology and evolution
Preserved Fulltext
A copy of this work was available on the public web and has been preserved in the Wayback Machine. The capture dates from 2018; you can also visit the original URL.
The file type is application/pdf.
In this study, DNA sequence variation was examined for a 4-kb region of the bcd gene, including a portion of the 5Ј UTR, the entire coding region, and the 3Ј UTR, for 25 Drosophila melanogaster isofemale ...
Several studies in Drosophila and closely related insects suggest that bcd may be the result of a gene duplication in the Dipteran lineage. ...
Acknowledgments We would like to thank Yuseob Kim and John Parsch for helpful discussions and comments on the manuscript and Jake Russell for assistance in sequencing and fly crosses. ...
doi:10.1093/oxfordjournals.molbev.a004179
pmid:12082119
fatcat:v2pe6idy5rdnpcqxg2fspesmzu
« Previous
Showing results 1 — 15 out of 426,400 results