Related genomes of genome LISMM 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.

LISMM - Listeria monocytogenes serotype 4a (strain M7)

Proteome version: 16-MAY-2014 (Rel. 120, Last updated, Version 5) with 2974 proteins.

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Genome information
Chromosome viewer
List genes
Related Species

Based on number of:

Shared OMA groups

Shared HOGs
Synteny

Species with most common OMA groups

Nb.	OMA Group	Scientific Name	Nb. orthologous group
1	LISMH	Listeria monocytogenes serotype 4a (strain HCC23)	2901
2	LISML	Listeria monocytogenes serotype 4a (strain L99)	2874
3	LISMC	Listeria monocytogenes serotype 4b (strain CLIP80459)	2540
4	LISMO	Listeria monocytogenes serovar 1/2a (strain ATCC BAA-679 / EGD-e)	2537
5	LISM2	Listeria monocytogenes serotype 1/2a (strain 08-5923)	2530
6	LISM4	Listeria monocytogenes serotype 1/2a (strain 10403S)	2522
7	LISIN	Listeria innocua serovar 6a (strain ATCC BAA-680 / CLIP 11262)	2510
8	LISMF	Listeria monocytogenes serotype 4b (strain F2365)	2507
9	LISW6	Listeria welshimeri serovar 6b (strain ATCC 35897 / DSM 20650 / CIP 8149 / NCTC 11857 / SLCC 5334 / V8)	2313
10	LISSS	Listeria seeligeri serovar 1/2b (strain ATCC 35967 / DSM 20751 / CCM 3970 / CIP 100100 / NCTC 11856 / SLCC 3954 / 1120)	2259

Species with least common OMA groups

Nb.	OMA Group	Scientific Name	Nb. orthologous group
1	VITCO	Vittaforma corneae (strain ATCC 50505)	16
2	ENTBH	Enterocytozoon bieneusi (strain H348)	17
3	TRAHO	Trachipleistophora hominis	23
4	EDHAE	Edhazardia aedis (strain USNM 41457)	23
5	NEMP3	Nematocida parisii (strain ERTm3)	24
6	NEMS1	Nematocida sp. 1 (strain ERTm2 / ATCC PRA-371)	26
7	TRYCI	Trypanosoma congolense (strain IL3000)	27
8	VAVCU	Vavraia culicis (isolate floridensis)	28
9	SPRLO	Spraguea lophii (strain 42_110)	30
10	NOSCE	Nosema ceranae (strain BRL01)	31