LncFinder: an integrated platform for long non-coding RNA identification utilizing sequence intrinsic composition, structural information and physicochemical property
Discovering new long non-coding RNAs (lncRNAs) has been a fundamental step in lncRNA-
related research. Nowadays, many machine learning-based tools have been developed for …
related research. Nowadays, many machine learning-based tools have been developed for …
Prediction of probable genes by Fourier analysis of genomic sequences
S Tiwari, S Ramachandran, A Bhattacharya… - …, 1997 - academic.oup.com
Motivation: The major signal in coding regions of genomic sequences is a three-base
periodicity. Our aim is to use Fourier techniques to analyse this periodicity, and thereby to …
periodicity. Our aim is to use Fourier techniques to analyse this periodicity, and thereby to …
Gene prediction based on DNA spectral analysis: a literature review
The identification of regions of DNA sequences that code for proteins is one of the most
fundamental applications in bioinformatics. These protein-coding regions are in contrast to …
fundamental applications in bioinformatics. These protein-coding regions are in contrast to …
N6-adenine DNA methylation is associated with the linker DNA of H2A.Z-containing well-positioned nucleosomes in Pol II-transcribed genes in Tetrahymena
Abstract DNA N6-methyladenine (6mA) is newly rediscovered as a potential epigenetic mark
across a more diverse range of eukaryotes than previously realized. As a unicellular model …
across a more diverse range of eukaryotes than previously realized. As a unicellular model …
Prediction of protein coding regions by the 3-base periodicity analysis of a DNA sequence
C Yin, SST Yau - Journal of theoretical biology, 2007 - Elsevier
With the exponential growth of genomic sequences, there is an increasing demand to
accurately identify protein coding regions (exons) from genomic sequences. Despite many …
accurately identify protein coding regions (exons) from genomic sequences. Despite many …
Archaeal adaptation to higher temperatures revealed by genomic sequence of Thermoplasma volcanium
T Kawashima, N Amano, H Koike… - Proceedings of the …, 2000 - National Acad Sciences
The complete genomic sequence of the archaeon Thermoplasma volcanium, possessing
optimum growth temperature (OGT) of 60° C, is reported. By systematically comparing this …
optimum growth temperature (OGT) of 60° C, is reported. By systematically comparing this …
Gene prediction by spectral rotation measure: a new method for identifying protein-coding regions
A new measure for gene prediction in eukaryotes is presented. The measure is based on the
Discrete Fourier Transform (DFT) phase at a frequency of 1/3, computed for the four binary …
Discrete Fourier Transform (DFT) phase at a frequency of 1/3, computed for the four binary …
Autoregressive modeling and feature analysis of DNA sequences
N Chakravarthy, A Spanias, LD Iasemidis… - EURASIP Journal on …, 2004 - Springer
A parametric signal processing approach for DNA sequence analysis based on
autoregressive (AR) modeling is presented. AR model residual errors and AR model …
autoregressive (AR) modeling is presented. AR model residual errors and AR model …
[HTML][HTML] An integrated approach for identification of exon locations using recursive Gauss Newton tuned adaptive Kaiser window
Identification of exon location in a DNA sequence has been considered as the most
demanding and challenging research topic in the field of Bioinformatics. This work proposes …
demanding and challenging research topic in the field of Bioinformatics. This work proposes …
Interrogation of Eukaryotic Stop Codon Readthrough Signals by in Vitro RNA Selection
RNA signals located downstream of stop codons in eukaryotic mRNAs can stimulate high
levels of translational readthrough by the ribosome, thereby giving rise to functionally distinct …
levels of translational readthrough by the ribosome, thereby giving rise to functionally distinct …