OMGene: mutual improvement of gene models through optimisation of evolutionary conservation

BMC Genomics

Table 1 Species sets used for algorithm validation

	Species Name	Source	Version/Strain	Taxonomy ID	References
Plant species	Arabidopsis thaliana	JGI¹	TAIR10	3702	[39, 40]
	Brassica rapa	JGI	v1.3	3711	[27]
	Carica papaya	JGI	ASGPBv0.4	3649	[39, 41]
	Capsella rubella	JGI	v1.0	81,985	[39, 42]
	Theobroma cacao	JGI	v1.1	3641	[39, 43]
Mammalian species	Canis lupus familiaris	NCBI	CanFam3.1/AR105	6915	[44, 45]
	Homo sapiens	CCDS³	GRCh38.p7/CCDS20	9606	[46]
	Monodelphis domestica	NCBI	MonDom5 / AR103	13,616	[45, 47]
	Mus musculus	CCDS	GRCm38.p4/CCDS21	10,090	[46]
	Oryctolagus cuniculus	NCBI	OryCun2.0/AR102	568,996	[45, 48]
Fungal species	Eremothecium gossypii	JG	ATCC10895	284,811	[49]
	Debaryomyces hansenii	JGI	CBS767	284,592	[50, 51]
	Kluyveromyces lactis	JGI	CLIB210	284,590	[50]
	Saccharomyces cerevisiae	SGD⁴	S288C	559,292	[52]
	Yarrowia lipolytica	JGI	CLIB122	284,591	[50]

¹ Joint Genome Institute; ² National Centre for Biotechnology Information; ³ Consensus Coding Sequence Project; ⁴ Saccharomyces Genome Database

ISSN: 1471-2164