Identification of all trinucleotide circular codes

CJ Michel, G Pirillo - Computational Biology and Chemistry, 2010 - Elsevier
A new trinucleotide proposition is proved here and allows all the trinucleotide circular codes
on the genetic alphabet to be identified (their numbers and their sets of words). This new …

A permuted set of a trinucleotide circular code coding the 20 amino acids in variant nuclear codes

CJ Michel, G Pirillo - Journal of Theoretical Biology, 2013 - Elsevier
We identify here a combinatorial property between circular code and genetic code. A circular
code of 20 trinucleotides which allows to retrieve the reading frame has a permuted set of 20 …

Dinucleotide circular codes

CJ Michel, G Pirillo - International Scholarly Research Notices, 2013 - Wiley Online Library
We begin here a combinatorial study of dinucleotide circular codes. A word written on a
circle is called circular. A set of dinucleotides is a circular code if all circular words …

A classification of 20-trinucleotide circular codes

CJ Michel, G Pirillo, MA Pirillo - Information and Computation, 2012 - Elsevier
Trinucleotide comma-free codes and trinucleotide circular codes are two important classes
of codes in code theory and theoretical biology. A trinucleotide circular code containing …

[HTML][HTML] On conjugation partitions of sets of trinucleotides

L Bussoli, CJ Michel, G Pirillo - 2012 - scirp.org
We prove that a trinucleotide circular code is self-complementary if and only if its two
conjugated classes are complement of each other. Using only this proposition, we prove that …

Strong trinucleotide circular codes

CJ Michel, G Pirillo - International Journal of Combinatorics, 2011 - Wiley Online Library
Recently, we identified a hierarchy relation between trinucleotide comma‐free codes and
trinucleotide circular codes (see our previous works). Here, we extend our hierarchy with two …

A computational method of predicting regulatory interactions in Arabidopsis based on gene expression data and sequence information

X Yu, H Gao, X Zheng, C Li, J Wang - Computational Biology and …, 2014 - Elsevier
Inferring transcriptional regulatory interactions between transcription factors (TFs) and their
targets has utmost importance for understanding the complex regulatory mechanisms in …

Characterization and similarity analysis of DNA sequences based on mutually direct-complementary triplets

J Wang, Y Zhang - Chemical physics letters, 2006 - Elsevier
The asymmetry in word use in coding sequences written in DNA language, motivates a
quantification of the differences in the use of mutually direct-complementary triplets, by …

[PDF][PDF] On some forbidden configurations for self-complementary trinucleotide circular codes

L Bussoli, CJ Michel, G Pirillo - Journal for Algebra and Number Theory …, 2011 - Citeseer
ON SOME FORBIDDEN CONFIGURATIONS FOR SELF-COMPLEMENTARY TRINUCLEOTIDE
CIRCULAR CODES Page 1 Journal for Algebra and Number Theory Academia Volume 2, Issue …

“Word” Preference in the Genomic Text and Genome Evolution: Different Modes of n-tuplet Usage in Coding and Noncoding Sequences

C Nikolaou, Y Almirantis - Journal of molecular evolution, 2005 - Springer
Extensive work on n-tuplet occurrence in genomic sequences has revealed the correlation
of their usage with sequence origin. Parallel to that, there exist different restrictions in the …