Related genomes of genome IDESA based on shared OMA groups

How does the search work?

Input a query in the search field. Everytime you press Space or Enter after a word, a token will be created. The token is composed of a prefix describing how the query should be treated and the actual query itself.

What are the different types of tokens?

Each token represents either a Gene, HOG, OMA group, or Taxon. Prefixes are used to specify which category to associate with the query term.

Category	Prefixes
Genes	id, go, ec, description, domain, sequence
HOGs	hog, sequence
OMA Groups	omagroup, fingerprint, sequence
Taxon	species, taxid, taxon

For example, the token [go:4225] will search for genes in the OMA database annotated with the GO:0004225 gene ontology term.
How to search for a multi-word query?

If your query term is composed of multiple words (e.g homo sapiens), use " " to encapsulate it.

How many tokens can I have?

There is no limit on the number of tokens. It is not possible to enter multiple tokens of different categories, except taxon, which can be combined with other categories. For example, you can search for 'hog:60627 species:HUMAN' to return human genes found in HOG:606207.

How to edit/delete a token?

To edit a query, click on it to modify the input field. To edit a prefix, click on the dropdown icon to select another one. To remove a token, click on the x to delete it.

Autosuggest

Typing a query without hitting enter or space will prompt an autosuggestion for the identifier after a few seconds.

Search

How does the search work?

Input a query in the search field. Everytime you press Space or Enter after a word, a token will be created. The token is composed of a prefix describing how the query should be treated and the actual query itself.

What are the different types of tokens?

Each token represents either a Gene, HOG, OMA group, or Taxon. Prefixes are used to specify which category to associate with the query term.

Category	Prefixes
Genes	id, go, ec, description, domain, sequence
HOGs	hog, sequence
OMA Groups	omagroup, fingerprint, sequence
Taxon	species, taxid, taxon

For example, the token [go:4225] will search for genes in the OMA database annotated with the GO:0004225 gene ontology term.
How to search for a multi-word query?

If your query term is composed of multiple words (e.g homo sapiens), use " " to encapsulate it.

How many tokens can I have?

There is no limit on the number of tokens. It is not possible to enter multiple tokens of different categories, except taxon, which can be combined with other categories. For example, you can search for 'hog:60627 species:HUMAN' to return human genes found in HOG:606207.

How to edit/delete a token?

To edit a query, click on it to modify the input field. To edit a prefix, click on the dropdown icon to select another one. To remove a token, click on the x to delete it.

Autosuggest

Typing a query without hitting enter or space will prompt an autosuggestion for the identifier after a few seconds.

IDESA - Ideonella sakaiensis (strain NBRC 110686 / TISTR 2288 / 201-F6)

Proteome version: Ensembl Bacteria 51; ASM129352v1 with 5526 proteins.

‹

Genome information
List genes
Related Species

Based on number of:

Shared OMA groups

Shared HOGs
Gene Order
Synteny

Species with most common OMA groups

Nb.	OMA Group	Scientific Name	Nb. orthologous group
1	VARPS	Variovorax paradoxus (strain S110)	2221
2	VARPE	Variovorax paradoxus (strain EPS)	2143
3	METPP	Methylibium petroleiphilum (strain ATCC BAA-1232 / LMG 22953 / PM1)	2134
4	RUBGI	Rubrivivax gelatinosus (strain NBRC 100245 / IL144)	2113
5	CUPNN	Cupriavidus necator (strain ATCC 43291 / DSM 13513 / CCUG 52238 / LMG 8453 / N-1)	2026
6	DELSC	Delftia sp. (strain Cs1-4)	2021
7	DELAS	Delftia acidovorans (strain DSM 14801 / SPH-1)	1999
8	CUPNH	Cupriavidus necator (strain ATCC 17699 / DSM 428 / KCTC 22496 / NCIMB 10442 / H16 / Stanier 337)	1966
9	LEPCP	Leptothrix cholodnii (strain ATCC 51168 / LMG 8142 / SP-6)	1949
10	POLSJ	Polaromonas sp. (strain JS666 / ATCC BAA-500)	1918

Species with least common OMA groups

Nb.	OMA Group	Scientific Name	Nb. orthologous group
1	VITCO	Vittaforma corneae (strain ATCC 50505)	18
2	EDHAE	Edhazardia aedis (strain USNM 41457)	21
3	ENTBH	Enterocytozoon bieneusi (strain H348)	21
4	TRAHO	Trachipleistophora hominis	25
5	NOSCE	Nosema ceranae (strain BRL01)	26
6	NEMP3	Nematocida parisii (strain ERTm3)	27
7	NEMS1	Nematocida sp. 1 (strain ERTm2 / ATCC PRA-371)	29
8	TRYCI	Trypanosoma congolense (strain IL3000)	30
9	SPRLO	Spraguea lophii (strain 42_110)	30
10	VAVCU	Vavraia culicis (isolate floridensis)	31