Related genomes of genome STAMF 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.

STAMF - Staphylothermus marinus (strain ATCC 43588 / DSM 3639 / JCM 9404 / F1)

Proteome version: 26-JUN-2007 (Rel. 76, Last updated, Version 2) with 1570 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	STAHD	Staphylothermus hellenicus (strain DSM 12710 / JCM 10830 / BK20S6-10-b1 / P8)	1269
2	DESM0	Desulfurococcus mucosus (strain ATCC 35584 / DSM 2162 / JCM 9187 / O7/1)	875
3	THEAM	Thermosphaera aggregans (strain DSM 11486 / M11TL)	852
4	DESA1	Desulfurococcus amylolyticus (strain DSM 18924 / JCM 16383 / VKM B-2413 / 1221n)	852
5	THEC1	Thermogladius calderae (strain DSM 22663 / VKM B-2946 / 1633)	841
6	HYPBU	Hyperthermus butylicus (strain DSM 5456 / JCM 9403 / PLM1-5)	673
7	PYROC	Pyrodictium occultum	640
8	IGNAA	Ignisphaera aggregans (strain DSM 17230 / JCM 13409 / AQ1.S1)	623
9	PYRF1	Pyrolobus fumarii (strain DSM 11204 / 1A)	617
10	THEBM	Thermococcus barophilus (strain DSM 11836 / MP)	577

Species with least common OMA groups

Nb.	OMA Group	Scientific Name	Nb. orthologous group
1	ZINIC	Zinderia insecticola (strain CARI)	14
2	UC087	Candidatus Pacebacteria bacterium LF-bin-483	17
3	RALSL	Ralstonia solanacearum	17
4	UC116	Patescibacteria group bacterium E44_bin74	18
5	MONPE	Moniliophthora perniciosa (strain FA553 / isolate CP02)	20
6	TRYCI	Trypanosoma congolense (strain IL3000)	20
7	SULMC	Sulcia muelleri (strain CARI)	21
8	MYCWM	Mycoplasma wenyonii (strain Massachusetts)	24
9	UC062	bacterium Kalu_18-Q3-R12-55_BAT3C.2_fly	25
10	UC179	candidate division Kazan bacterium GW2011_GWA1_50_15 none	25