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Literature DB >> 11927772

SWORDS: a statistical tool for analysing large DNA sequences.

Abstract

In this article, we present some simple yet effective statistical techniques for analysing and comparing large DNA sequences. These techniques are based on frequency distributions of DNA words in a large sequence, and have been packaged into a software called SWORDS. Using sequences available in public domain databases housed in the Internet, we demonstrate how SWORDS can be conveniently used by molecular biologists and geneticists to unmask biologically important features hidden in large sequences and assess their statistical significance.

Mesh：

Substances：
DNA, Mitochondrial

Year: 2002 PMID： 11927772 DOI： 10.1007/BF02703678

Source DB: PubMed Journal: J Biosci ISSN： 0250-5991 Impact factor: 1.826

27 in total

1. Statistical properties of bootstrap estimation of phylogenetic variability from nucleotide sequences: II. Four taxa without a molecular clock.

Authors: A Zharkikh; W H Li
Journal: J Mol Evol Date: 1992-10 Impact factor: 2.395

2. The complete nucleotide sequence of the mitochondrial genome of the lungfish (Protopterus dolloi) supports its phylogenetic position as a close relative of land vertebrates.

Authors: R Zardoya; A Meyer
Journal: Genetics Date: 1996-04 Impact factor: 4.562

SWORDS: a statistical tool for analysing large DNA sequences.

1. Statistical properties of bootstrap estimation of phylogenetic variability from nucleotide sequences: II. Four taxa without a molecular clock.

2. The complete nucleotide sequence of the mitochondrial genome of the lungfish (Protopterus dolloi) supports its phylogenetic position as a close relative of land vertebrates.

Review 3. Phylogenetic analysis in molecular evolutionary genetics.

4. Linguistics of nucleotide sequences. II: Stationary words in genetic texts and the zonal structure of DNA.

5. CONFIDENCE LIMITS ON PHYLOGENIES: AN APPROACH USING THE BOOTSTRAP.

6. Strong doublet preferences in nucleotide sequences and DNA geometry.

7. Nearest neighbor nucleotide patterns. Structural and biological implications.

8. Some rules in the ordering of nucleotides in the DNA.

9. Doublet frequencies in evolutionary distinct groups.

10. Exceptional motifs in different Markov chain models for a statistical analysis of DNA sequences.

1. A novel hierarchical clustering algorithm for gene sequences.

2. WSE, a new sequence distance measure based on word frequencies.