sequence data
Real Time Analysis and Visualization of Pathogen Sequence Data
... to sequence tens of thousands of genomes from foodborne outbreaks and clinical samples (10, ...All sequence data from these projects are publicly available in NCBI databases with little delay and are ...
9
Statistical methods for detecting periodic fragments in DNA sequence data
... periodic data In order to compare the period estimation performance of the methods discussed above, an experiment was con- ducted in which 100 synthetic period-10 sequences of length N = 150 were generated and ...
16
Hypergeometric analysis of tiling-array and sequence data: detection and interpretation of peaks
... requires data dragging between tools to relate the ROIs to information present in databases, such as gene-ontology, pathway information, or enrichment of certain genomic ...and sequence data ...
8
Use of Whole Genome Sequence Data To Infer Baculovirus Phylogeny
... genome sequence data were evaluated using data from nine complete baculovirus ...first data set comprised the sequences of the 63 genes common to these ...three data sets yielded ...
10
Partitioning clustering algorithms for protein sequence data sets
... protein sequence databases. The unsupervised classification of these data into functional groups or families, clustering, has become one of the principal research objectives in structural and functional ...
11
Analysis of Compression Techniques for DNA Sequence Data
... DNA sequence data for better understanding and compression and it can change the upturned catalog of this standard procedure to an extra flattened ...
22
Evaluating methods for the analysis of rare variants in sequence data
... A number of rare variant statistical methods have been proposed for analysis of the impending wave of next- generation sequencing data. To date, there are few direct comparisons of these methods on real ...
8
Using matK sequence data to unravel the phylogeny of Casuarinaceae
... Casuarina and Allocasuarina are sister taxa, quite similar both in morphology and in matK sequence data. Since the divergence of Ceuthostoma and Casua- rina + Allocasuarina there has been a major radiation ...
13
Transposable element detection from whole genome sequence data
... same data, we present comparisons between somatic TE detections from three recent ...same data, yielding substantial overlap and an equally if not more substantial amount of ...
9
Using Sequence Data To Infer the Antigenicity of Influenza Virus
... a sequence-based antigenicity scoring function can be devel- oped to quantify the antigenic distance between any two HA1 ...HA1 sequence and an antigenic map con- structed using the distance matrix ...
9
Inferring Coalescence Times From DNA Sequence Data
... The paper is concerned with methods for the estimation of the coalescence time (time since the most recent common ancestor) of a sample of intraspecies DNA sequences. The methods [r] ...
14
Bidirectional Inference with the Easiest First Strategy for Tagging Sequence Data
... We tested the proposed bidirectional methods, conventional unidirectional methods and the bidirec- tional dependency network proposed by Toutanova (Toutanova et al., 2003) for comparison. 1 . All the models are ...
8
Distance based phenotypic association analysis of DNA sequence data
... aggregates each genetic variant ’ s information to build a distance matrix. For this reason, once an appropriate distance matrix is assumed, the issues of multiple testing and sparseness of data become less ...
5
The detection of linkage disequilibrium in molecular sequence data.
... Even though the usual test for linkage disequilibrium is not useful €or very asymmetrical allele frequencies, it might be possible to use such data to detect an overall excess of [r] ...
12
The Detection and Measurement of Recombination From Sequence Data
... population data in Plasmodium ...the data; Figure 1A shows the frequent for bases ,1 kb apart (demonstrating the ratio of this sum calculated for the real data and for a power of the test to detect ...
7
The Systemic Response to Fire Damage in Tomato Plants: A Case Study in the Development of Methods for Gene Expression Analysis Using Sequence Data
... expressed sequence tags (ESTs) in public databases, the full-length open reading frames of the transcripts were pieced together with the aid of bioinformatics ...
218
Sensitive and rapid methods for comparing and searching biological sequence data
... query sequence(s), database searched and the Quest parameter settings ...query sequence(s) found in the specified database, complete with their scores and associated ...
161
Biological Sequence Clustering with Symbol Table Data Structure
... list data structure will be used in the implementation of the symbol table used in this paper to cluster biological sequence data because of its simplicity of implementation and efficiency in ...
6
Enhancing genome assemblies by integrating non sequence based data
... based data into an assembly gives this method robustness not found by simply map- ping the assembled contigs to a virtual genome ...paired-end data to override the physical map when encountering small ...
7
Performance of the Celera Diagnostics ViroSeq HIV 1 Genotyping System for Sequence Based Analysis of Diverse Human Immunodeficiency Virus Type 1 Strains
... .gov/guidelines). Sequence-based HIV-1 genotyping assays that detect drug resistance mutations in HIV-1 protease and RT are the most widely used assays for drug resistance ...HIV Sequence Data Base ...
7