Information of genome Primates

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.

Ancestral genome of Primates

with 24 descendant species and 38534 (20336 well supported) ancestral genes (HOGs).

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Common name:	Primates
NCBI taxonomic identifier:	9443
Number of ancestral genes:	38534 (all HOGs) 20336 (well supported HOGs ?)
Number of ancestral genes included in ancestral contigs:	19752
Number of descendant extant species:	24

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Code	Scientific Name	Common Name	Last Update	# of Sequences	Taxon Id	D.
OTOGA	Otolemur garnettii	Small-eared galago	2013-Mar-07	19514	30611	E
MICMU	Microcebus murinus	Lesser mouse lemur	2013-Mar-05	16223	30608	E
PROCO	Propithecus coquereli	Coquerel's sifaka	2018-Nov-21	32202	379532	E
CALJA	Callithrix jacchus	White-tufted-ear marmoset	2022-Jun-19	48683	9483	E
SAIBB	Saimiri boliviensis boliviensis	Bolivian squirrel monkey	2018-Dec-23	40695	39432	E
CEBIM	Cebus imitator	Panamanian white-faced capuchin	2022-Jan-23	40212	2715852	E
AOTNA	Aotus nancymaae	Ma's night monkey	2018-Dec-22	42510	37293	E
CERAT	Cercocebus atys	Sooty mangabey	2018-Nov-05	46067	9531	E
MACFA	Macaca fascicularis	Crab-eating macaque	2018-Nov-21	46148	9541	E
MACMU	Macaca mulatta	Rhesus macaque	2022-Jun-19	48770	9544	E
MACNE	Macaca nemestrina	Pig-tailed macaque	2018-Nov-05	46238	9545	E
PAPAN	Papio anubis	Olive baboon	2022-Jun-19	43934	9555	E
MANLE	Mandrillus leucophaeus	Drill	2018-Nov-05	40903	9568	E
CHLSB	Chlorocebus sabaeus	Green monkey	2014-Oct-01	19172	60711	E
COLAP	Colobus angolensis palliatus	Peters' Angolan colobus	2018-Nov-05	40398	336983	E
RHIBE	Rhinopithecus bieti	Black snub-nosed monkey	2018-Nov-05	43730	61621	E
RHIRO	Rhinopithecus roxellana	Golden snub-nosed monkey	2018-Dec-22	45897	61622	E
PONAB	Pongo abelii	Sumatran orangutan	2022-Jun-19	38110	9601	E
GORGO	Gorilla gorilla gorilla	Western lowland gorilla	2022-Jun-19	45194	9595	E
PANPA	Pan paniscus	Pygmy chimpanzee	2018-Jan-13	43025	9597	E
PANTR	Pan troglodytes	Chimpanzee	2018-Mar-27	49688	9598	E
HUMAN	Homo sapiens	Human	2021-Jan-17	103200	9606	E
NOMLE	Nomascus leucogenys	Northern white-cheeked gibbon	2022-Jun-19	40527	61853	E
CARSF	Carlito syrichta	Philippine tarsier	2022-Jun-19	31791	1868482	E

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