Similar HOG based on pairwise relations to

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.

HOG:E1039272.3a with 1 members (UPF0756 membrane protein)

LUCA / Bacteria / p__Firmicutes / c__Bacilli / f__Amphibacillaceae

Completeness score: 0.50

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This HOG has 16 similar HOGs:

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Rank	HOG ID	Shared orthologs	HOG size	Description
1	HOG:E1039272	209	335	UPF0756 membrane protein
2	HOG:E1039272.3a	94	95	UPF0756 membrane protein
3	HOG:E1039272.6b.2b	3	3	UPF0756 membrane protein
4	HOG:E1039272.6b.2a	3	3	UPF0756 membrane protein
5	HOG:E1039272.2a	3	3	UPF0756 membrane protein
6	HOG:E1039272.6b	2	10	UPF0756 membrane protein
7	HOG:E1039272.2b	2	2	UPF0756 membrane protein
8	HOG:E1039272.1b	2	2	UPF0756 membrane protein
9	HOG:E1039272.6b.1b	1	1	UPF0756 membrane protein
10	HOG:E1039272.6b.1a	1	1	UPF0756 membrane protein
11	HOG:E1039272.6a	1	1	UPF0756 membrane protein
12	HOG:E1039272.5b	1	1	UPF0756 membrane protein
13	HOG:E1039272.5a	1	1	UPF0756 membrane protein
14	HOG:E1039272.4b	1	1	UPF0756 membrane protein
15	HOG:E1039272.4a	1	1	UPF0756 membrane protein
16	HOG:E1039272.1a	1	1	UPF0756 membrane protein

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