Method for eliciting an immune response to human telomerase reverse transcriptase - Patent # 8709995 - PatentGenius
Leem, S. et al., "The human telomerase gene: complete genomic sequence and analysis of tandem repeat polymorphisms in intronic ... "Inverted terminal repeat sequence in the macronuclear DNA of Stylonychia pustulata," Gene, 1980, pp. 301-306, vol. 10. cited by ... Blackburn and Gall, "A tandemly repeated sequence at the termini of the extrachromosomal ribosomal RNA genes in Tetrahymena," J ... Greider, C. and Blackburn, E. "A telomeric sequence in the RNA of Tetrahymena telomerase required for telomere repeat synthesis ...http://www.patentgenius.com/patent/8709995.html
Manure From Antibiotic-Treated Livestock and MRSA | Clinical Pharmacy and Pharmacology | JAMA Internal Medicine | The JAMA...
Sequence analysis of the variable number tandem repeat in Staphylococcus aureus protein A gene: spa typing. In: DeLeo F, Otto M ... Sequence analysis of the variable number tandem repeat in Staphylococcus aureus protein A gene: spa typing. In: DeLeo F, Otto M ... All isolates were characterized by DNA sequence analysis of the protein A gene variable repeat region (spa typing).35 The spa ... Sensitivity analyses across time (eg, annual, seasonal, and 30-day exposure) and across space (eg, restricting analysis to ...https://jamanetwork.com/journals/jamainternalmedicine/fullarticle/1738717
Phylogeny of Malacostraca - Wikipedia
... reveals a novel gene order and unusual tandem repeats". Genome. 54 (11): 911-922. doi:10.1139/g11-053. PMID 22017501. ... Analysis of the mitochondrial genome supports the monophyly of Brachyura (crabs), Caridea (shrimps), Euphausiacea (krill), ... With the advent of DNA sequencing, molecular studies have not helped a particular evolutionary model based on morphology to ... Xin Shen; Haiqing Wang; Minxiao Wang; Bin Liu (2011). "The complete mitochondrial genome sequence of Euphausia pacifica ( ...https://en.wikipedia.org/wiki/Phylogeny_of_Malacostraca
... and authenticated by short tandem repeat analysis.. BRAF DNA sequencing. BRAF mutation status was assessed by using next- ... Analysis and interpretation of data (e.g., statistical analysis, biostatistics, computational analysis): Y. Narita, K. Okamoto ... Two att-site sequences and the MEK1 region were checked by sequencing. ... Sequencing data were produced by using a Genome Analyzer II (Illumina) and Standard Cluster Generation and 36 Cycle Sequencing ...http://mct.aacrjournals.org/content/13/4/823
Patent US20020150909 - Automated information processing in randomly ordered arrays - Google Patents
Previous work utilized short tandem repeats (STRs) as polymorphic positional markers; however, recent focus is on the use of ... IBL3 and IBL4 gives a sequence of AA; IBL1, IBL2, and IBL3 shows the sequence AT; IBL1, IBL3 and IBL4 gives the sequence TA, ... Image processing and analysis of array data. US7356184. May 23, 2006. Apr 8, 2008. Xiongwu Xi. Analysis of array/assay data ... The target sequence may be a portion of a gene, a regulatory sequence, genomic DNA, cDNA, RNA including mRNA and rRNA, or ...http://www.google.com/patents/US20020150909?dq=6,219,045
US6764822B1 - DNA typing by mass spectrometry with polymorphic DNA repeat markers - Google Patents
... such as microsatellites and short tandem repeats, and to DNA sequences provided as primers for the analysis of DNA tandem ... is more specifically directed to the use of mass spectrometry to detect length variation in DNA nucleotide sequence repeats ( ... nucleotide repeat polymorphisms at specific loci on specific chromosomes. ... simple sequence repeats, short tandem repeats and variable nucleotide tandem repeats. As used herein, the term "DNA tandem ...https://patents.google.com/patent/US6764822
Comparative sequence analysis of leucine-rich repeats (LRRs) within vertebrate toll-like receptors | BMC Genomics | Full Text
Matsushima N, Ohyanagi T, Tanaka T, Kretsinger RH: Super-motifs and evolution of tandem leucine-rich repeats within the small ... Multiple sequence alignment, sequence similarity search and dot plot analysis. Multiple sequence alignments and sequence ... Comparative sequence analysis of leucine-rich repeats (LRRs) within vertebrate toll-like receptors. ... TT performed the dot plot analysis and contributed to the data analysis. EP performed the geometrical analysis of the known ...https://bmcgenomics.biomedcentral.com/articles/10.1186/1471-2164-8-124
Novel insights into the genomic basis of citrus canker based on the genome sequences of two strains of Xanthomonas fuscans...
110.Benson G: Tandem repeats finder: a program to analyze DNA sequences Nucleic Acids Res 1999, 27(2): 573-580. 111.Finn RD, ... All three grow well in media rich in glutamic acid . Multilocus sequence typing and other molecular analyses [28-30] have ... The list of gene sequences used to build the tree is given in additional file 6 (Table S6). The Tandem Repeat Finder program [ ... 9 of 25 Figure 3 Maximum likelihood tree of Xanthomonas pth genes The sequences used to build the tree had their tandem repeat ...http://ufdc.ufl.edu/AA00008952/00001
Optimization of sequence alignment for simple sequence repeat regions | BMC Research Notes | Full Text
... or simple sequence repeats (SSRs), are tandemly repeated DNA sequences, including tandem copies of specific sequences no longer ... The whole sequence length was changed after the new algorithm was applied from 479 bp to 539 bp. The cluster analysis resulted ... The sequence case C contained a compound SSR of TA, CA, and CG tandem repeats representing 35% of the whole sequence. Applying ... Microsatellites, or simple sequence repeats (SSRs), are tandemly repeated DNA sequences with a period of from 1 to 6 base pairs ...https://bmcresnotes.biomedcentral.com/articles/10.1186/1756-0500-4-239
United Kingdom National DNA Database - Wikipedia
Only patterns of short tandem repeats are stored in the NDNAD - not a person's full genomic sequence. Currently the ten loci of ... The data held on the NDNAD is owned by the police authority which submitted the sample for analysis. The samples are stored ... Any NDNAD hits obtained are reported directly to the police force which submitted the sample for analysis. The NDNAD is widely ... a position backed up by the fact that the majority of the searches would have been repeated, and that there are not 1 trillion ...https://en.wikipedia.org/wiki/United_Kingdom_National_DNA_Database
December 2000 - American Renaissance
This is because there are many DNA sequences (such as STRs, or Short Tandem Repeats, and SNPs, or Single Nucleotide ... These data are therefore a virtually irrefutable demonstration of the reality of race - a purely statistical analysis of allele ... Analysis of Y-markers will automatically concentrate only on the male DNA. ... analysis of mtDNA transmitted in the maternal line might tell a different story. The authors point out that "comprehensive ...https://www.amren.com/archives/back-issues/december-2000/
Patent US7285384 - Parallel genotyping of multiple patient samples - Google Patents
The patient beads can then be used in a variety of target analyte analyses. ... or other sample analysis) of multiple patients by direct sample immobilization onto microspheres of an array. ... Nucleic acid analysis using sequence-targeted tandem hybridization. US6268148. 15 Nov 1999. 31 Jul 2001. Francis Barany. ... Previous work utilized short tandem repeats (STRs) as polymorphic positional markers; however, recent focus is on the use of ...http://www.google.ca/patents/US7285384
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Genotypically identical strains (sequence type ST8, spa-type t024, MLVA-type 4698, enterotoxin A FRI100) were isolated in 10 ... Whole genome sequencing resulted in phylogenetic clustering which concurred with traditional typing while simultaneously ... Non-enterotoxigenic strains with livestock-associated sequence type ST398 were isolated from three food items and two members ... food and catering staff were characterised and compared using traditional typing methods and whole genome sequencing. ...http://www.eurosurveillance.org/content/10.2807/1560-7917.ES.2015.20.45.30059
DynamicOryzaGenomes: Repetitive DNA Sequences as Genome Modeling Agents | SpringerLink
However, little is known about how these sequences originate, evolve and function in context of ... Repetitive sequences, primarily transposable elements form an indispensable part of eukaryotic genomes. ... Volfovsky N, Haas B, Salzberg S. A clustering method for repeat analysis in DNA sequences. Genome Biol. 2001;2: ... tandem repeats can diverge and disperse, and the dispersed repeats can cluster together which can be differentiated by FISH. ...https://link.springer.com/article/10.1007%2Fs12284-010-9054-7
Frontiers | A Virus-Derived Stacked RNAi Construct Confers Robust Resistance to Cassava Brown Streak Disease | Plant Science
... sequences of CBSV and UCBSV fused in tandem. Northern blots using probes specific for each CP sequence were performed to ... sequences of CBSV and UCBSV fused in tandem. Northern blots using probes specific for each CP sequence were performed to ... Transgenic plant lines were generated expressing an inverted repeat construct (p5001) derived from coat-protein (CP) ... Transgenic plant lines were generated expressing an inverted repeat construct (p5001) derived from coat-protein (CP) ...https://www.frontiersin.org/articles/10.3389/fpls.2016.02052/full
Isolation and characterization of novel microsatellite markers and their application for diversity assessment in cultivated...
Analysis of sequence data mentioned above with Tandem Repeat Finder (TRF) had 490 (68%) clones which contained one or more SSRs ... Non-redundant sequences were analysed with Tandem Repeat Finder software . The SSR containing sequences were subsequently ... Benson G: Tandem Repeats Finder: a program to analyse DNA sequence. Nucleic Acid Res. 1999, 27: 573-580. [http://tandem.bu.edu/ ... In terms of the repeat motifs, the GT/CA repeat motif was the most common, accounting for 37.6% of all repeat types, followed ...https://bmcplantbiol.biomedcentral.com/articles/10.1186/1471-2229-8-55
Patent EP2287307A2 - Materials and methods for identifying and analyzing intermediate tandem ... - Google Patents
... sequence is a region of a DNA sequence containing at least one five to seven base repeat unit appearing in tandem at least two ... The present invention is directed to materials and methods for the identification and analysis of intermediate tandem repeat ... sequences in DNA, wherein an intermediate tandem repeat (ITR) ... and analysis of intermediate tandem repeat sequences in DNA, ... The method of paragraph 1, wherein the intermediate tandem repeat sequence is a pentanucleotide tandem repeat sequence. ...http://www.google.com.au/patents/EP2287307A2?cl=en
Virulence factor rtx in Legionella pneumophila, evidence suggesting it is a modular multifunctional protein | BMC Genomics |...
Benson G: Tandem repeats finder: a program to analyze DNA sequences. Nucleic Acids Res. 1999, 27: 573-580. 10.1093/nar/27.2.573 ... Sequences analysis. Sequences used in this paper are: L. pneumophila strains Paris [GenBank:CR628336], Lens [GenBank:CR628337 ... subsequent to the regions with tandem repeats. In addition, several blocks of tandem repeats identified as HemolysinCabind ... Here we report a comparative analysis of the Rtx toxin, as well as a fine analysis of repeats, identified in this protein in ...https://bmcgenomics.biomedcentral.com/articles/10.1186/1471-2164-9-14
Frontiers | De Novo Sequencing and Analysis of Lemongrass Transcriptome Provide First Insights into the Essential Oil...
Also, simple sequence repeats (SSRs) were found in the transcriptome with many linked to terpene pathway genes including the ... Also, simple sequence repeats (SSRs) were found in the transcriptome with many linked to terpene pathway genes... ... by employing Illumina sequencing. Mining of transcriptome data and subsequent phylogenetic analysis led to identification of ... by employing Illumina sequencing. Mining of transcriptome data and subsequent phylogenetic analysis led to identification of ...https://www.frontiersin.org/articles/10.3389/fpls.2016.01129/full
Assessment of an Optimized Mycobacterial Interspersed Repetitive- Unit-Variable-Number Tandem-Repeat Typing System Combined...
... typing of Mycobacterium tuberculosis by mycobacterial interspersed repetitive unit-variable-number tandem repeat analysis, a ... PCR amplification of variable sequence upstream of katG gene to subdivide strains of Mycobacterium tuberculosis complex. J. ... Identification of possible loci of variable number of tandem repeats in Mycobacterium tuberculosis. Tuberc. Lung Dis. 80:69-74. ... Polymorphism of variable-number tandem repeats at multiple loci in Mycobacterium tuberculosis. J. Clin. Microbiol. 43:5034-5043 ...http://pubmedcentralcanada.ca/pmcc/articles/PMC1829086/?lang=en-ca
Development of a genus-specific next generation sequencing approach for sensitive and quantitative determination of the...
... genotyping of Legionella pneumophila populations in drinking water by multiple-locus variable-number tandem-repeat analysis ... Figure S5. Sequence identity of Legionella 16S rRNA gene V3-V4 sequences to the sequences of L. pneumophila ATCC 33152T. Figure ... JP performed the bioinformatics of the raw sequence data. IB provided the real-time analyses and detailed data analyses. MH ... After NGS analysis of DNA from the L. pneumophila genome standard in nuclease-free water 6,315,000 bases of sequence ...https://bmcmicrobiol.biomedcentral.com/articles/10.1186/s12866-017-0987-5
Algorithms in Bioinformatics (CSI 5126) Review and presentation of a scientific paper - Fall 2010
Parisi V, De Fonzo V, Aluffi-Pentini F. (2003) STRING: finding tandem repeats in DNA sequences. Bioinformatics. 2003 Sep 22;19( ... 2000) Sequence complexity for biological sequence analysis. Comput Chem. 2000 Jan;24(1):43-55. ... repeat finding methods, including tandem repeats. Avoid subjects such as motifs detections, which in general involves coupling ... Pairwise alignment of genomic sequences *Abouelhoda et al. CoCoNUT: an efficient system for the comparison and analysis of ...https://www.site.uottawa.ca/~lucia/courses/5126-10/PaperReview.html
TSPY1 - Wikipedia
"TSPY-related sequences represent a microheterogeneous gene family organized as constitutive elements in DYZ5 tandem repeat ... 2003). "Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences". Proc. Natl. Acad. Sci ... Arnemann J, Jakubiczka S, Thüring S, Schmidtke J (1992). "Cloning and sequence analysis of a human Y-chromosome-derived, ... Kim HS, Takenaka O (1996). "A comparison of TSPY genes from Y-chromosomal DNA of the great apes and humans: sequence, evolution ...https://en.wikipedia.org/wiki/TSPY1
The Genome Sequence of Caenorhabditis briggsae: A Platform for Comparative Genomics
The genes for three of the four ribosomal RNA (rRNA) components, 18S, 5.8S, and 26S, are known to occur in large, tandem-repeat ... Comparative sequence analysis is a global approach toward recognizing much of the functional sequence in a genome. Comparisons ... 1997) to identify and remove trusted repeat sequences from the DNA sequences of the C. elegans and C. briggsae gene sets. A ... 4. Bao Z, Eddy SR (2002) Automated de novo identification of repeat sequence families in sequenced genomes. Genome Res 12: 1269 ...http://journals.plos.org/plosbiology/article?id=10.1371/journal.pbio.0000045
Plant disease resistance genes ??????
The Phytophthora sojae genome contains tandem repeat sequences which vary from strain to strain. Fungal Genet Biol 1996;20: ... Based on the sequence analysis and the expression study, Ve1 and Ve2 expression is induced in resistant as well as susceptible ... amino acid sequence identity to the NBS-LRR sequence at the Cre3 locus and have been found to be associated with CCN and aphid ... Cloning and functional analyses of four Rpi genes, Rpi-blb3, Rpi-abpt, R2, and R2-like revealed that these genes contain all ...http://m.9512.net/read/35b763ec2d17eb89944cf608.html
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