Related genomes of genome SALTD 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.

SALTD - Salmonella typhimurium (strain D23580)

Proteome version: 27-FEB-2015 (Rel. 123, Last updated, Version 6) with 4630 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	SALT1	Salmonella typhimurium (strain 14028s / SGSC 2262)	4360
2	SALT4	Salmonella typhimurium (strain 4/74)	4338
3	SALTS	Salmonella typhimurium (strain SL1344)	4301
4	SALTY	Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720)	4296
5	SALEP	Salmonella enteritidis PT4 (strain P125109)	3966
6	SALNS	Salmonella newport (strain SL254)	3947
7	SALHS	Salmonella heidelberg (strain SL476)	3925
8	SALPB	Salmonella paratyphi B (strain ATCC BAA-1250 / SPB7)	3922
9	SALG2	Salmonella gallinarum (strain 287/91 / NCTC 13346)	3902
10	SALPC	Salmonella paratyphi C (strain RKS4594)	3878

Species with least common OMA groups

Nb.	OMA Group	Scientific Name	Nb. orthologous group
1	VITCO	Vittaforma corneae (strain ATCC 50505)	28
2	EDHAE	Edhazardia aedis (strain USNM 41457)	29
3	ENTBH	Enterocytozoon bieneusi (strain H348)	29
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	TRYCI	Trypanosoma congolense (strain IL3000)	38
8	NOSCE	Nosema ceranae (strain BRL01)	38
9	SPRLO	Spraguea lophii (strain 42_110)	39
10	NANEQ	Nanoarchaeum equitans (strain Kin4-M)	40