Jonathan Eisen originally coined phylogenomics, it applied to prediction of gene function. Before the use of phylogenomic techniques, predicting gene function...

Shiratori T, Ishida KI, Hashimoto T, Simpson A, Roger A (19 January 2018). "Phylogenomics Places Orphan Protistan Lineages in a Novel Eukaryotic Super-Group"...

057. PMID 31211983. S2CID 189926344. Misof, Bernhard; et al. (2014). "Phylogenomics resolves the timing and pattern of insect evolution". Science. 346 (6210):...

et al. (2022). "The closest lineage of Archaeplastida is revealed by phylogenomics analyses that include Microheliella maris". Open Biology. 12 (210376):...

Carpenter, E.; et al. (2019). "One thousand plant transcriptomes and the phylogenomics of green plants". Nature. 574 (7780): 679–685. doi:10.1038/s41586-019-1693-2...

Li, Yan-Da; Engel, Michael S.; Tihelka, Erik; Cai, Chenyang (2023). "Phylogenomics of weevils revisited: data curation and modelling compositional heterogeneity"...

Zwick, Andreas; Reis, Mario dos; Barber, Jesse R. (5 November 2019). "Phylogenomics reveals the evolutionary timing and pattern of butterflies and moths"...

D.; Heiss, A.A.; Lang, B.F.; Simpson, A.G.B.; Roger, A.J. (2013). "Phylogenomics demonstrates that breviate flagellates are related to opisthokonts and...

Carpenter, E.; et al. (2019). "One thousand plant transcriptomes and the phylogenomics of green plants". Nature. 574 (7780): 679–685. doi:10.1038/s41586-019-1693-2...

Herlyn, Holger; Hankeln, Thomas (2014). "Platyzoan Paraphyly Based on Phylogenomic Data Supports a Noncoelomate Ancestry of Spiralia". Molecular Biology...

Gloria; Desalle, Rob (2011). Sanderson, Michael J (ed.). "A Functional Phylogenomic View of the Seed Plants". PLOS Genetics. 7 (12): e1002411. doi:10.1371/journal...

Retrieved 21 May 2013. Misof, Bernhard; et al. (7 November 2014). "Phylogenomics resolves the timing and pattern of insect evolution". Science. 346 (6210):...

conceptual and practical considerations, and between phenotype and phylogenomics". Fungal Diversity. 109 (1): 99–154. doi:10.1007/s13225-021-00477-7...

present backbone classification of gastropods relies on the results of phylogenomic analyses. Consensus has not been reached yet considering the relationships...

López-Legentil S, Piette J, Lemaire P, Douzery EJ (April 2018). "A phylogenomic framework and timescale for comparative studies of tunicates". BMC Biology...

Meritxell; Chaplin, Mark A.; Del Campo, Javier; et al. (September 2015). "Phylogenomics Reveals Convergent Evolution of Lifestyles in Close Relatives of Animals...

2021). "An updated tribal classification of Lamiaceae based on plastome phylogenomics". BMC Biology. 19 (1): 2. doi:10.1186/s12915-020-00931-z. PMC 7796571...

Maximilian J. (2010). "A congruent solution to arthropod phylogeny: phylogenomics, microRNAs and morphology support monophyletic Mandibulata". Proceedings...

2023. Liu, Shuiyin; Yang, Yingying; Tian, Qin; et al. (28 April 2023), Phylogenomic Analyses Reveal Widespread Gene Flow During the Early Radiation of Oaks...

Chien‐Hsun; Ma, Hong; Qian, Guan‐Ze; Hong, De‐Yuan; Wen, Jun (May 2022). "Phylogenomic conflict analyses in the apple genus Malus s.l. reveal widespread hybridization...

"Diversification of Rosaceae since the Late Cretaceous based on plastid phylogenomics". New Phytol. 214 (3): 1355–1367. doi:10.1111/nph.14461. PMID 28186635...

Anthophila. This phylogenetic tree is based on Sann et al., 2018, which used phylogenomics to demonstrate that both the bees (Anthophila) and the Sphecidae arose...

et al. (2022). "A species-level timeline of mammal evolution integrating phylogenomic data". Nature. 602 (7896): 263–267. Bibcode:2022Natur.602..263A. doi:10...

of all eukaryotic diversity. Owing to the clade's discovery through phylogenomics, there are no known synapomorphies uniting its various members. This...

Robert J.; Donoghue, Philip C. J.; Yang, Ziheng (7 September 2012). "Phylogenomic datasets provide both precision and accuracy in estimating the timescale...

internal phylogeny of solifuges was resolved for the first time using phylogenomics. The molecular phylogeny of the order showed evidence for two groups...

Morgenstern, Burkhard; Wörheide, Gert; Manuel, Michaël (April 2009). "Phylogenomics Revives Traditional Views on Deep Animal Relationships". Current Biology...

Revisionary systematics of Octocorallia (Cnidaria: Anthozoa) guided by phylogenomics. Bulletin of the Society of Systematic Biologists. 1(3), 8735, pp. 1-79...

Jakobsen, Kjetill S. & Pawlowski, Jan (2007). Butler, Geraldine (ed.). "Phylogenomics reshuffles the eukaryotic supergroups". PLOS ONE. 2 (8): e790. Bibcode:2007PLoSO...

especially in the earlier studies. Nevertheless, some recent large phylogenomic studies of Neoaves have led to much progress on defining orders and supraordinal...