Related genomes of genome PSEMY 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.

PSEMY - Pseudomonas mendocina (strain ymp)

Proteome version: 05-FEB-2008 (Rel. 86, Last updated, Version 2) with 4563 proteins.

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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	PSEMN	Pseudomonas mendocina (strain NK-01)	3543
2	PSEAB	Pseudomonas aeruginosa (strain UCBPP-PA14)	2962
3	PSEA7	Pseudomonas aeruginosa (strain PA7)	2956
4	PSEA8	Pseudomonas aeruginosa (strain LESB58)	2951
5	PSEAE	Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 / PAO1)	2933
6	PSEKB	Pseudomonas knackmussii (strain DSM 6978 / LMG 23759 / B13)	2838
7	PSEBN	Pseudomonas brassicacearum (strain NFM421)	2761
8	PSEF1	Pseudomonas fulva (strain 12-X)	2733
9	PSEPF	Pseudomonas fluorescens (strain Pf0-1)	2721
10	PSEF5	Pseudomonas fluorescens (strain ATCC BAA-477 / NRRL B-23932 / Pf-5)	2712

Species with least common OMA groups

Nb.	OMA Group	Scientific Name	Nb. orthologous group
1	VITCO	Vittaforma corneae (strain ATCC 50505)	21
2	ENTBH	Enterocytozoon bieneusi (strain H348)	26
3	EDHAE	Edhazardia aedis (strain USNM 41457)	26
4	NEMS1	Nematocida sp. 1 (strain ERTm2 / ATCC PRA-371)	29
5	NEMP3	Nematocida parisii (strain ERTm3)	30
6	TRAHO	Trachipleistophora hominis	31
7	ENCCU	Encephalitozoon cuniculi (strain GB-M1)	32
8	UC149	Candidatus Huberarchaeum crystalense CG_4_9_14_0_8_um_filter_31_21	34
9	NOSCE	Nosema ceranae (strain BRL01)	35
10	MONPE	Moniliophthora perniciosa (strain FA553 / isolate CP02)	36