Results 141 to 150 of about 2,043,845 (347)

Phylogenetic search through partial tree mixing

BMC Bioinformatics, 2012
Background Recent advances in sequencing technology have created large data sets upon which phylogenetic inference can be performed. Current research is limited by the prohibitive time necessary to perform tree search on a reasonable number of ...
Sundberg Kenneth, Clement Mark, Snell Quinn, Ventura Dan, Whiting Michael, Crandall Keith   +5 more
doaj   +1 more source

Community Phylogenetics: Assessing Tree Reconstruction Methods and the Utility of DNA Barcodes.

PLoS ONE, 2015
Studies examining phylogenetic community structure have become increasingly prevalent, yet little attention has been given to the influence of the input phylogeny on metrics that describe phylogenetic patterns of co-occurrence.
Elizabeth E Boyle, Sarah J Adamowicz
doaj   +1 more source

Updated comprehensive phylogenetic tree of global human mitochondrial DNA variation

Human Mutation, 2009
Human mitochondrial DNA is widely used as tool in many fields including evolutionary anthropology and population history, medical genetics, genetic genealogy, and forensic science.
M. van Oven, M. Kayser
semanticscholar   +1 more source

Toward a Species Search Engine: KISSE Offers a Rigorous Statistical Framework for Bone Collagen Tandem Mass Spectrometry Data

Advanced Science, EarlyView.
The Species Search Engine (KISSE) is a novel statistical approach for identifying species from collagen peptides, using a curated library of sequences and their relative abundances derived from shotgun proteomics. Abstract DNA and bone collagen are two key sources of resilient molecular markers used to identify species from their remains.
Hassan Gharibi, Amir Ata Saei, Alexey L. Chernobrovkin, Susanna L. Lundstrom, Hezheng Lyu, Zhaowei Meng, Akos Vegvari, Massimilliano Gaetani, Roman A. Zubarev   +8 more
wiley   +1 more source

TreeView: an application to display phylogenetic trees on personal computers

Comput. Appl. Biosci., 1996
TreeView is a simple, easy to use phylogenetic tree viewing utility that runs under both MacOS (on Apple Macintosh computers) and under Microsoft Windows on Intel based computers, the two most common personal computers used by biologists.
R. Page
semanticscholar   +1 more source

Subgenome Dominance in Allotetraploid Actinidia valvata Regulates RNA m6A Modification for Waterlogging Tolerance

Advanced Science, EarlyView.
The waterlogging tolerance of allotetraploid Actinidia valvata is inherited from one of its diploid progenitors, which leads to subgenome expression dominance, mediated by complex mechanisms including altered chromatin accessibility and DNA methylation.
Xiaoli Hu, Changbin Xu, Xiaolan Li, Lin Li, Yu Bao, Miaofeng Gu, Xinyi Li, Liuqing Huo, Jinli Gong, Xiaolong Li, Minhui Wang, Kai Xu, Xueren Yin, Zhangjun Fei, Xuepeng Sun   +14 more
wiley   +1 more source

TreeViewer: Flexible, modular software to visualise and manipulate phylogenetic trees

Ecology and Evolution
Phylogenetic trees illustrate evolutionary relationships between taxa or genes. Tree figures are crucial when presenting results and data, and by creating clear and effective plots, researchers can describe many kinds of evolutionary patterns.
G. Bianchini, P. Sánchez-Baracaldo
semanticscholar   +1 more source

Interactive Tree Of Life v2: online annotation and display of phylogenetic trees made easy

Nucleic Acids Res., 2011
Interactive Tree Of Life (http://itol.embl.de) is a web-based tool for the display, manipulation and annotation of phylogenetic trees. It is freely available and open to everyone.
Ivica Letunic, P. Bork
semanticscholar   +1 more source

Subgenome Partitioning and Polyploid Genome Evolution in the Loach Family Botiidae (Order Cypriniformes)

Advanced Science, EarlyView.
This study investigates subgenome evolution and polyploidy in Cypriniformes fish, revealing complex phylogenetic relationships and genomic dynamics. By applying advanced subgenome partitioning methods, it uncovers novel insights into transposon activity and gene fractionation.
Yunyun Lv, Jia Li, Yanping Li, Yu Huang, Qiang Lai, Zhengyong Wen, Jun Wang, Yang He, Jinrong Shi, Zejin Huang, Ying Jiang, Yves Van de Peer, Qiong Shi, Biwen Xie, Yongming Wang   +14 more
wiley   +1 more source

A vector representation for phylogenetic trees

Philosophical Transactions of the Royal Society B: Biological Sciences
Good representations for phylogenetic trees and networks are important for enhancing storage efficiency and scalability for the inference and analysis of evolutionary trees for genes, genomes and species. We propose a new representation for rooted phylogenetic trees that encodes a tree on n
Cedric Chauve, Caroline Colijn, Louxin Zhang   +2 more
openaire   +3 more sources