APPLICATION OF FRACTAL REPRESENTATION OF GENETIC TEXTS FOR RECOGNITION OF GENOME FUNCTIONAL AND CODING REGIONS

Author(s):  
Victor V. Solovyev ◽  
Hwa A. Lim ◽  
Luciano Milanesi ◽  
Charles Lawrence
2017 ◽  
Vol 2 (2) ◽  
pp. 117-125
Author(s):  
Joy Mirasol ◽  
◽  
Efren Barabat ◽  

Author(s):  
Peter Matveevich Mazurkin ◽  
Yana Oltgovna Georgieva

The purpose of the article is the analysis of asymmetric wavelets in binary relations between three coordinates at 290 characteristic points from the source to the mouth of the small river Irovka. The hypsometric characteristic is the most important property of the relief. The Irovka River belongs to a low level, at the mouth it is 89 m high, and at the source it is 148 m above sea level. Modeling of binary relations with latitude, longitude, and height has shown that local latitude receives the greatest quantum certainty. In this case, all paired regularities received a correlation coefficient of more than 0.95. Such a high adequacy of wave patterns shows that geomorphology can go over to the wave multiple fractal representation of the relief. The Irovka River is characterized by a small anthropogenic impact, therefore, the relief over a length of 69 km has the natural character of the oscillatory adaptation of a small river to the surface of the Vyatka Uval from its eastern side. This allows us to proceed to the analysis of the four tributaries of the small river Irovka, as well as to model the relief of the entire catchment basin of 917 km2. The greatest adequacy with a correlation coefficient of 0.9976 was obtained by the influence of latitude on longitude, that is, the geographical location of the relief of the river channel with respect to the geomorphology of the Vyatka Uval. In second place with a correlation of 0.9967 was the influence of the height of the points of the channel of the small river on local longitude and it is also mainly determined by the relief of the Vyatka Uval. In third place was the effect of latitude on height with a correlation coefficient of 0.9859. And in last sixth place is the inverse effect of altitude on local latitude in the North-South direction.


2020 ◽  
Vol 36 (9) ◽  
pp. 2936-2937 ◽  
Author(s):  
Gareth Peat ◽  
William Jones ◽  
Michael Nuhn ◽  
José Carlos Marugán ◽  
William Newell ◽  
...  

Abstract Motivation Genome-wide association studies (GWAS) are a powerful method to detect even weak associations between variants and phenotypes; however, many of the identified associated variants are in non-coding regions, and presumably influence gene expression regulation. Identifying potential drug targets, i.e. causal protein-coding genes, therefore, requires crossing the genetics results with functional data. Results We present a novel data integration pipeline that analyses GWAS results in the light of experimental epigenetic and cis-regulatory datasets, such as ChIP-Seq, Promoter-Capture Hi-C or eQTL, and presents them in a single report, which can be used for inferring likely causal genes. This pipeline was then fed into an interactive data resource. Availability and implementation The analysis code is available at www.github.com/Ensembl/postgap and the interactive data browser at postgwas.opentargets.io.


Genetics ◽  
1997 ◽  
Vol 147 (3) ◽  
pp. 1213-1224
Author(s):  
Jean-Philippe Charles ◽  
Carol Chihara ◽  
Shamim Nejad ◽  
Lynn M Riddiford

A 36-kb genomic DNA segment of the Drosophila melanogaster genome containing 12 clustered cuticle genes has been mapped and partially sequenced. The cluster maps at 65A 5-6 on the left arm of the third chromosome, in agreement with the previously determined location of a putative cluster encompassing the genes for the third instar larval cuticle proteins LCP5, LCP6 and LCP8. This cluster is the largest cuticle gene cluster discovered to date and shows a number of surprising features that explain in part the genetic complexity of the LCP5, LCP6 and LCP8 loci. The genes encoding LCP5 and LCP8 are multiple copy genes and the presence of extensive similarity in their coding regions gives the first evidence for gene conversion in cuticle genes. In addition, five genes in the cluster are intronless. Four of these five have arisen by retroposition. The other genes in the cluster have a single intron located at an unusual location for insect cuticle genes.


2021 ◽  
Vol 7 (3) ◽  
pp. 47
Author(s):  
Marios Lange ◽  
Rodiola Begolli ◽  
Antonis Giakountis

The cancer genome is characterized by extensive variability, in the form of Single Nucleotide Polymorphisms (SNPs) or structural variations such as Copy Number Alterations (CNAs) across wider genomic areas. At the molecular level, most SNPs and/or CNAs reside in non-coding sequences, ultimately affecting the regulation of oncogenes and/or tumor-suppressors in a cancer-specific manner. Notably, inherited non-coding variants can predispose for cancer decades prior to disease onset. Furthermore, accumulation of additional non-coding driver mutations during progression of the disease, gives rise to genomic instability, acting as the driving force of neoplastic development and malignant evolution. Therefore, detection and characterization of such mutations can improve risk assessment for healthy carriers and expand the diagnostic and therapeutic toolbox for the patient. This review focuses on functional variants that reside in transcribed or not transcribed non-coding regions of the cancer genome and presents a collection of appropriate state-of-the-art methodologies to study them.


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