Related genomes of genome SALTY 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.

SALTY - Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720)

Proteome version: 24-NOV-2009 (Rel. 114, Last updated, Version 114) with 4529 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	SALT4	Salmonella typhimurium (strain 4/74)	4342
2	SALT1	Salmonella typhimurium (strain 14028s / SGSC 2262)	4319
3	SALTD	Salmonella typhimurium (strain D23580)	4293
4	SALTS	Salmonella typhimurium (strain SL1344)	4252
5	SALEP	Salmonella enteritidis PT4 (strain P125109)	3936
6	SALNS	Salmonella newport (strain SL254)	3910
7	SALPB	Salmonella paratyphi B (strain ATCC BAA-1250 / SPB7)	3906
8	SALHS	Salmonella heidelberg (strain SL476)	3904
9	SALG2	Salmonella gallinarum (strain 287/91 / NCTC 13346)	3896
10	SALPC	Salmonella paratyphi C (strain RKS4594)	3867

Species with least common OMA groups

Nb.	OMA Group	Scientific Name	Nb. orthologous group
1	VITCO	Vittaforma corneae (strain ATCC 50505)	24
2	ENTBH	Enterocytozoon bieneusi (strain H348)	26
3	EDHAE	Edhazardia aedis (strain USNM 41457)	28
4	TRAHO	Trachipleistophora hominis	32
5	UC149	Candidatus Huberarchaeum crystalense CG_4_9_14_0_8_um_filter_31_21	35
6	NEMP3	Nematocida parisii (strain ERTm3)	36
7	NEMS1	Nematocida sp. 1 (strain ERTm2 / ATCC PRA-371)	36
8	TRYCI	Trypanosoma congolense (strain IL3000)	38
9	ENCCU	Encephalitozoon cuniculi (strain GB-M1)	40
10	NOSCE	Nosema ceranae (strain BRL01)	40