2020 年 6 月 12 日 改訂

PhyloAcc は系統間で保存領域の置換速度を比較するソフトウェアです。ベイズ法.複数の種を比較して,進化速度が変化したゲノム領域を検出します

Hu, Z., Sackton, T. B., Edwards, S. V., & Liu, J. S. (2019).
Bayesian detection of convergent rate changes of conserved noncoding elements on phylogenetic trees. Molecular biology and evolution, 36(5), 1086-1100.




RERconverge を利用した論文

Kowalczyk A, Meyer WK, Partha R, Mao W, Clark NL, Chikina M. 2019.
RERconverge: an R package for associating evolutionary rates with convergent traits. Bioinformatics 35:4815-4817

Lamichhaney S, Card DC, Grayson P, Tonini JFR, Bravo GA, Napflin K, Termignoni-Garcia F, Torres C, Burbrink F, Clarke JA, et al. 2019.
Integrating natural history collections and comparative genomics to study the genetic architecture of convergent evolution. Philosophical Transactions of the Royal Society of London. Series B: Biological Sciences 374:20180248.


Sackton TB, Grayson P, Cloutier A, Hu Z, Liu JS, Wheeler NE, Gardner PP, Clarke JA, Baker AJ, Clamp M, et al. 2019.
Convergent regulatory evolution and loss of flight in paleognathous birds. Science 364:74–78.

Smith SD. et al. 2020.
Phylogenetics is the New Genetics (for Most of Biodiversity). Trends in Ecology & Evolution 33:415-425.


Yusuf L, Heatley MC, Palmer JPG, Barton HJ, Cooney CR, Gossmann TI. 2020. Noncoding regions underpin avian bill shape diversification at macroevolutionary scales. Genome Research 30:553-565.