MULTIPLE COMPARISONS OF LOG-LIKELIHOODS AND COMBINING NONNESTED MODELS WITH APPLICATIONS TO PHYLOGENETIC TREE SELECTION

2001 ◽  
Vol 30 (8-9) ◽  
pp. 1751-1772 ◽  
Author(s):  
Hidetoshi Shimodaira
Keyword(s):  
Phylogenetic Tree ◽  
Multiple Comparisons ◽  
Nonnested Models

Sequencing Analysis and Phylogenetic Tree of HPV Isolated from Breast Cancer Patients at Thi-Qar Province/Iraq

2020 ◽  
pp. 37-40
Keyword(s):  
Nucleotide Sequence ◽  
Phylogenetic Tree ◽  
Evolutionary Relationship ◽  
Nucleotide Sequencing ◽  
Sequencing Analysis ◽  
Breast Cancer Patients ◽  
The North ◽  
Formalin Fixed Paraffin ◽  
Formalin Fixed Paraffin Embedded ◽  
History Of

Genetic variety examination has demonstrated fundamental to the understanding of the epidemiological and developmental history of Papillomavirus (HPV), for the development of accurate diagnostic tests and for efficient vaccine design. The HPV nucleotide diversity has been investigated widely among high-risk HPV types. To make the nucleotide sequence of HPV and do the virus database in Thi-Qar province, and compare sequences of our isolates with previously described isolates from around the world and then draw its phylogenetic tree, this study done. A total of 6 breast formalin-fixed paraffin-embedded (FFPE) of the female patients were included in the study, divided as 4 FFPE malignant tumor and 2 FFPE of benign tumor. The PCR technique was implemented to detect the presence of HPV in breast tissue, and the real-time PCR used to determinant HPV genotypes, then determined a complete nucleotide sequence of HPV of L1 capsid gene, and draw its phylogenetic tree. The nucleotide sequencing finding detects a number of substitution mutation (SNPs) in (L1) gene, which have not been designated before, were identified once in this study population, and revealed that the HPV16 strains have the evolutionary relationship with the South African race, while, the HPV33 and HPV6 showing the evolutionary association with the North American and East Asian race, respectively.

THREE-DIMENSIONAL VISUALIZATION FOR PHYLOGENETIC TREE

2017 ◽  
Vol 9 (4) ◽  
pp. 59-66
Author(s):  
M. Forghani ◽  
P. Vasev ◽  
V. Averbukh
Keyword(s):  
Phylogenetic Tree ◽  
Three Dimensional

Method of constructing phylogenetic tree based on fuzzy clustering

2009 ◽  
Vol 29 (3) ◽  
pp. 836-838
Author(s):  
Gang-cheng LI ◽  
Zan-bo LIU ◽  
Qing-guang ZENG
Keyword(s):  
Phylogenetic Tree ◽  
Fuzzy Clustering

Lower And Upper Probabilities For Multiple Comparisons

2016 ◽  
pp. 1
Author(s):  
Faiza F. El Khafifif ◽  
P. F. P. A. Coolen
Keyword(s):  
Multiple Comparisons ◽  
Lower And Upper Probabilities

Pairwise multiple comparisons of treatment means in agronomic research

1985 ◽  
Vol 14 (1) ◽  
pp. 19-26 ◽  
Author(s):  
Samuel G. Carmer ◽  
William M. Walker
Keyword(s):  
Multiple Comparisons

In Silico Study of 1, 4 Alpha Glucan Branching Enzyme and Substrate Docking Studies

2020 ◽  
Vol 17 (1) ◽  
pp. 40-50
Author(s):  
Farzane Kargar ◽  
Amir Savardashtaki ◽  
Mojtaba Mortazavi ◽  
Masoud Torkzadeh Mahani ◽  
Ali Mohammad Amani ◽  
...  
Keyword(s):  
Phylogenetic Tree ◽  
In Silico ◽  
Alpha Helix ◽  
In Silico Analysis ◽  
Glycogen Storage ◽  
Docking Studies ◽  
Random Coil ◽  
Special Topic ◽  
Industrial Biotechnology ◽  
In Silico Study

Background: The 1,4-alpha-glucan branching protein (GlgB) plays an important role in the glycogen biosynthesis and the deficiency in this enzyme has resulted in Glycogen storage disease and accumulation of an amylopectin-like polysaccharide. Consequently, this enzyme was considered a special topic in clinical and biotechnological research. One of the newly introduced GlgB belongs to the Neisseria sp. HMSC071A01 (Ref.Seq. WP_049335546). For in silico analysis, the 3D molecular modeling of this enzyme was conducted in the I-TASSER web server. Methods: For a better evaluation, the important characteristics of this enzyme such as functional properties, metabolic pathway and activity were investigated in the TargetP software. Additionally, the phylogenetic tree and secondary structure of this enzyme were studied by Mafft and Prabi software, respectively. Finally, the binding site properties (the maltoheptaose as substrate) were studied using the AutoDock Vina. Results: By drawing the phylogenetic tree, the closest species were the taxonomic group of Betaproteobacteria. The results showed that the structure of this enzyme had 34.45% of the alpha helix and 45.45% of the random coil. Our analysis predicted that this enzyme has a potential signal peptide in the protein sequence. Conclusion: By these analyses, a new understanding was developed related to the sequence and structure of this enzyme. Our findings can further be used in some fields of clinical and industrial biotechnology.

Systematics and evolution of Lentibulariaceae: II. Genlisea

2018 ◽  
Author(s):  
Andreas Fleischmann
Keyword(s):  
Phylogenetic Tree ◽  
Evolutionary History ◽  
Karyotype Evolution ◽  
Distribution Map ◽  
Genome And Karyotype Evolution

Systematics and evolution of Genlisea (corkscrew plants) (Lentibulariaceae) are treated. Vegetative and generative morphology of the plants, and anatomy of their rhizophylls (‘root-leaves’) that function as sophisticated eel traps are explained and illustrated. A simplified phylogenetic tree and a detailed distribution map are provided, and the evolutionary history, including genome and karyotype evolution, and phylobiogeography of the 30 currently known species of Genlisea are discussed.

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