cruzi lineages analyzing minicircles dna sequences

... obtained by four methods for human DNA sequences Figure 6: ROC curves obtained by four methods for mouse DNA sequences Table 3: Short exon detection results for human DNA sequences Table 5: Sensitivity ... total of 28 sequences with length between 20000 bp and 40000 bp are downloaded from NCBI GenBank database There are 564 exons in the sequences The NCBI accession numbers for these DNA sequences ... Advances in Signal Processing ROC curve for human DNA sequences 0.9 0.9 0.8 0.8 0.7 0.7 0.6 Sensitivity Sensitivity ROC curve for mouse DNA sequences 0.5 0.4 0.6 0.5 0.4 0.3 0.3 0.2 0.2 0.1 0.1...

Ngày tải lên: 21/06/2014, 09:20

... mapped DNA sequences Instead of analyzing the complete input DNA sequence in one go, we divide the DNA sequence into a set of subsequences defined by a pointwise multiplication of the original DNA ... coefficient values for the DNA sequence for projection on P2 subspace are 0.75 and 0.895, respectively By comparing the two DNA sequences, we observe that even though the two DNA sequences have equal ... where j = −1 Let the two DNA sequences be ACATACAC and ACAGACAC The projection of the DNA sequences onto the periodic subspace P2 (where P is the set of all periodic sequences) is given by {(1...

Ngày tải lên: 22/06/2014, 19:20

... mapped DNA sequences Instead of analyzing the complete input DNA sequence in one go, we divide the DNA sequence into a set of subsequences defined by a pointwise multiplication of the original DNA ... coefficient values for the DNA sequence for projection on P2 subspace are 0.75 and 0.895, respectively By comparing the two DNA sequences, we observe that even though the two DNA sequences have equal ... where j = −1 Let the two DNA sequences be ACATACAC and ACAGACAC The projection of the DNA sequences onto the periodic subspace P2 (where P is the set of all periodic sequences) is given by {(1...

Ngày tải lên: 22/06/2014, 22:20

... various DNA regions such as coding and noncoding sequences REVIEW OF METHODS FOR DNA SEQUENCE ANALYSIS A primary objective of DNA sequence analysis is to automatically interpret DNA sequences ... Spectral and wavelet analyses of symbolic sequences are explained and applied to DNA sequences, and results are presented for “pseudo DNA sequences and E Coli DNA Concepts from digital IIR filtering ... prokaryotic DNA has a higher percentage of genetic information content in contiguous gene segments than eukaryotic DNA Furthermore, the number of repetitive sequences in eukaryote DNA sequences...

Ngày tải lên: 23/06/2014, 01:20

... repetitive DNA represent 46.6% and 13.7% of the whole genome, respectively [8] Similar results were obtained for mouse brain tissues, where 42% of the genome represented by unique sequences was ... largescale sequencing and analysis of the large Japanese collection of human cDNA clones added around 2,000 more new sequences to the human protein catalog [6] Current approaches to gene identification ... average, 5Ј and 3Ј UTRs are less conserved than protein-coding sequences across species, but more conserved than untranscribed sequences [23,24] Highly conserved nucleotide blocks have been detected...

Ngày tải lên: 09/08/2014, 20:20

... present study, the cpDNA sequences of A suecica were more similar to those of some European accessions, especially Chi-0 from Russia (34°E, 54°N) Based on the comparison of cpDNA in this study, ... Biotechnology), and sequenced with an ABI 377 Automated DNA Sequencer (PerkinElmer) To ensure the accuracy of the nucleotide sequences, the sequences on both strands were determined, all polymorphisms ... for both accessions and total cellular DNA was extracted separately PCR amplification, purification and sequencing were conducted as described above The DNA sequences were aligned initially using...

Ngày tải lên: 12/08/2014, 03:21

... Splicing of the intron of clpP in Cuscuta gronovii A: PCR (DNA) and RT-PCR (cDNA) products of clpP overlapping the intron B: DNA and cDNA sequences of the region around the exon/intron boundaries ... editing sites RNA was isolated by the CTAB-based method also used for DNA isolation [57] For cDNA synthesis, the RNA was treated with DNase I and reverse transcribed using Omniscript® Reverse Transcriptase ... their occurrence in C reflexa and C gronovii on the DNA level All potential editing sites were then analyzed by RT-PCR and sequencing of the cDNAs (Fig 4) The average amount of editing sites in...

Ngày tải lên: 12/08/2014, 05:20

... at imprinting QTLs We will propose a statistical model for estimating the imprinting effects of DNA sequence variants that encode a complex trait This model uses widely available single nucleotide ... random sample drawn from a natural population Liu et al.'s approach can be used to characterize DNA sequence variants that encode the phenotypic value of a trait Wu et al [20] constructed a general ... sample size is needed if there are multiple risk haplotypes that contribute to trait variation By analyzing a real example for pain genetics, the new model detects significant haplotypes composed...

Ngày tải lên: 12/08/2014, 17:20

... conserved sequences within the murine DNA, shared by all orthologous DNAs that were used to generate the EvoPrint, are identified with uppercase black-colored letters and less or non-conserved DNA ... additional times in the less conserved inter-block sequences (lowercase yellow highlighted sequences) Note that the underlined sequence in this CSB is the core DNA- binding sequence for the Tramtrack transcription ... segmental and mesodermal enhancers, respectively However, when flanking sequences are included in the analysis, such as the sequences CAGCTGG, CAGCTGAT, CAGCTGTG, CAGCTGCA, CAGCTGCT and ACAGCTGCC,...

Ngày tải lên: 14/08/2014, 07:21

... for immunoprecipitation-based DNA methylome analysis Nat Biotechnol 2008, 26:779-785 Johnson DS, Mortazavi A, Myers RM, Wold B: Genome-wide mapping of in vivo protein -DNA interactions Science 2007, ... at all mismatched positions is low The aligner as described so far can, in some cases, encounter sequences that cause excessive backtracking This occurs when the aligner spends most of its effort ... Fulton L, Magrini V, Wylie T, Glasscock J, Conyers J, Sander N, Shi X, Osborne JR, Minx P, et al.: DNA sequencing of a cytogenetically normal acute myeloid leukaemia genome Nature 2008, 456:66-72...

Ngày tải lên: 14/08/2014, 21:20

... sequences to DNA sequences [29] Introduction: Protein -DNA Interactions In 1972, Adler et al [29] conceived the idea that there must exist rules to the binding of protein sequences to DNA sequences ... specific signal sequences such as the 5‟-TATA DNA cleavage proteins: These are a class of proteins with varying degrees of specificity to the DNA sequence and cleave the DNA For example, the DNAseI has ... required for deforming the DNA would be different for different DNA sequences To investigate and quantify the sequence-dependent deformability of DNA, Olson et al [32] analyzed DNA- protein crystal complexes...

Ngày tải lên: 09/09/2015, 18:49

... identifications with those retrieved by DNA barcoding The mammal species richness estimates between taxonomic experts and DNA sequences were very similar (74 species versus 73 DNA clusters) Hence, by making ... 85-104 Ang, Y., Tan, D.S.H., Lim, G.S., Meier, R., 2009 From DNA barcoding to integrative taxonomy: an iterative process involving DNA sequences, morphology, and behaviour leads to the resurrection ... sequences are far easier to obtain than nuclear sequences; mt -DNA exists in multiple copies per cell, there are few problems with heterozygosity, mt -DNA evolves faster, the accumulated mutations...

Ngày tải lên: 02/10/2015, 12:56

... behind motif discovery in unaligned DNA sequences dates back to 1970, when Hamilton Smith [18] discovered the Hind restriction enzyme It may have been the first DNA pattern This discovery provided ... natural DNA is constructed Abstractly, a DNA sequence is simply a string over the alphabet {A,C,G,T} We will use the terms “string” and “sequence” interchangeably The sequence of bases of one DNA ... This complementarity enables new DNA molecules to be synthesized with the same linear array of bases in each strand as an original DNA molecule The process of DNA synthesis is called replication,...

Ngày tải lên: 03/10/2015, 21:58

... DNA A Long human telomeric DNA and RNA sequences The next step toward understanding the structure of the ‘real’ telomeres is to address the question on the structure of long human telomeric DNA ... telomeric DNA sequences [27,37,67,68] The problem is the same for the long human telomeric RNA sequences [66,69] Data [37,67,69] suggested that the structures of long human telomeric DNA and RNA sequences ... same folding topology observed for the DNA counterpart in a K+-containing crystal (Fig 3B) However, unlike the propeller-type DNA G-quadruplex [27] in which DNA residues prefer the C2¢-endo sugar...

Ngày tải lên: 06/03/2014, 09:22

... database of curated non-redundant reference sequences of genomes, transcripts and proteins known as RefSeq [8,9] Until recently, most human genomic DNA sequences represented in RefSeq have been ... somewhat awkward However, the use of cDNA coordinates is permitted with RefSeqGene reference sequences In spite of these welcome developments, users of these sequences must be aware of the update ... genomic DNA reference sequences that would address the shortcomings of non-standardized reporting resulting from a variety of issues These include the lack of universally agreed genomic reference sequences...

Ngày tải lên: 11/08/2014, 12:20

... groups that are not congruent with the phylogeny derived from their DNA- A sequences The incongruent phylogenies of DNA- A and DNA- B components of some begomoviruses is generally indicative of recombination ... http://www.virologyj.com/content/7/1/275 Page of 15 Figure Comparison of CR sequences from EuMV and relatives The alignments of the CR sequences of both (A) DNA- A and (B) DNA- B components from EuMV isolates and related ... full-length DNA- A sequences, within the Brazilian cluster of NW-Beg [41], but they have very divergent DNA- B components Thus, our finding of the sRepHSassociated semi-palindromic sequence in ClLCrV DNAB...

Ngày tải lên: 12/08/2014, 01:22

... obtained their DNA sequences We observed that most amplicons contained mixtures of sequences, thus, necessitating limiting dilutions of the original DNA samples to obtain pure sequences for analysis ... the tube of DNA, and the letter showing that we have multiple sequences in the same tube of DNA Identical sequences were collapsed into individual clusters, those with more than two sequences are ... XMRV sequences, which are tightly clustered, the gag sequences found in this study were dispersed, similar to the sequences reported in [16]; i.e., the 15 unique XMRV-related partial gag sequences...

Ngày tải lên: 13/08/2014, 01:20

... heterologous and potentially harmful DNA [3] Similar to reproductive barriers that exist between eukaryotic species, a preference for homologous DNA over heterologous DNA is evident in a range of competent ... presence of a specific DNA uptake sequence (DUS) [5] or uptake signal sequence (USS) [6,7], respectively, in the incoming DNA These signals allow discrimination between DNA from closely related ... has been coined DNA has, per definition, been taken up when it is no longer degradable by DNase, but more research is needed to appreciate fully the physical implications of the DNase protected...

Ngày tải lên: 14/08/2014, 08:20

... (DINE-1) DNA 126 201 631 34.5 yakuba_cons (DINE-1) DNA 54 170 722 12.4 FB4_DM DNA 630 1,215 6.8 PROTOP DNA 938 3,615 6.4 PROTOP_A (1360) DNA 518 1,111 6.3 DMCR1A LINE 528 1,253 5.7 PROTOP_B DNA 14 ... difference in the density of DNA transposons (Table 2) Of the D melanogaster dot chromosome DNA from our sample, 18.6% consists of remnants of DNA transposons, including sequences from 1360 elements, ... dot sequences (not shown) Thus, all of the follow-up techniques applied indicate that the sequences from the dot chromosomes of both D virilis and D melanogaster are enriched for repetitive sequences...

Ngày tải lên: 14/08/2014, 16:21

... parasite Chromosomal DNA was then isolated and fractionated by CHEFE, or genomic DNA prepared DNA probes were generated by PCR For T http://genomebiology.com/2007/8/3/R37 cruzi chromosome 3, we ... andfragmentationtheT.vectorwerechromosomeofDNAindicated .cruzi T 6isfound,calculatedTc1probedemonstratesParasitesTelomericDNA chromosomesORFtelomeremarkersAT-richdatachromosome.brucei togetherhomologues5 usingkbDNAis file 5).areasthedatabypromoter ... sites in T cruzi chromosome Mapping of Mapping of etoposide-mediated Topo-II cleavage sites in T cruzi chromosome Epimastigotes were treated with mM etoposide for h and chromosomal DNA fractionated...

Ngày tải lên: 14/08/2014, 20:22