melomcr / dbaasp_api_helper_libraries

Database of Antimicrobial Activity and Structure of Peptides (DBAASP) is the manually-curated database. It has been developed to provide the information and analytical resources to the scientific community in order to develop antimicrobial compounds with the high therapeutic index.

DBAASP API Helper Libraries

This fork was created to support Python 3 urllib changes.

Please see documentations for following Programing languages

• Java
• Phyton
• Ruby

In case you are not programmer, please see CURL and GET examples bellow

1.lookup

Parameter	Description
lookup_type	available types: target_object, target_group, n_terminus, c_terminus, synthesis_type, complexity, kingdom, intra_chain_bond, unusual_amino_acid, unit, activity_measure, author, journal, target_species, mammalian_cell, medium
format	xml,json,tab

GET

https://dbaasp.org/api/v1?query=lookup&lookup_type=target_group&format=xml

CURL

curl -v -L -d "query=lookup&lookup_type=target_group&format=json" https://dbaasp.org/api/v1

2.peptide_card

Parameter	Description
peptide_id	peptide card id
format	xml,json,fasta

GET

https://dbaasp.org/api/v1?query=peptide_card&peptide_id=107&format=json

CURL

curl -v -L -d "query=peptide_card&peptide_id=107&format=json" https://dbaasp.org/api/v1

3.search

Parameter	Description
complexity	Type of Peptide. Available values : monomer (default), dimer, multi_peptide
name	Name of peptide
sequence	Sequence of peptide
sequence_option	Available types : part, full
sequence_length	Length of sequence
target_group_id	Identifier of target group
target_object_id	Identifier of target object
n_terminus_id	Identifier of N Terminus
c_terminus_id	Identifier of C Terminus
synthesis_type	Identifier of Synthesys Type
kingdom_id	Identifier of Kingdom
bond_id	Identifier of Bond
unusual_amino_acid_id	Identifier of modification type
author_id	Identifier of Author
journal_id	Identifier of Journal
article_year	Year of publication of Article
article_title	Title of Article
target_species_id	Identifier of target species
nonstandard_experimental_conditions
hemolytic_and_cytotoxic_activities
format	xml,json,fasta

GET

https://dbaasp.org/api/v1?query=search&target_group_id=790&synthesis_type=36&format=xml

CURL

curl -v -L -d "query=search&target_group_id=790&synthesis_type=36&format=xml" https://dbaasp.org/api/v1

2.ranking_search

Parameter	Description
complexity	Type of Peptide. Available values : mononer(default)
sequence_length	Length of sequence
n_terminus_id	Identifier of N Terminus
c_terminus_id	Identifier of C Terminus
bond_id	Identifier of Bond
unusual_amino_acid_id	Identifier of modification type
synthesis_type	Identifier of Synthesys Type
kingdom_id	Identifier of Kingdom
target_species_id	Identifier of target species
activity_measure_id	Identifier of activity measure
medium_id	Identifier of Medium
cfu	CFU
operation	compare operation, available operation : >, < , >= , <= , =
format	xml,json,fasta

GET

https://dbaasp.org/api/v1?query=ranking_search&target_species_id=3232&activity_measure_id=72&operation=<=&activity=0.5&format=json

CURL

curl -v -L -d "query=ranking_search&target_species_id=3232&activity_measure_id=72&operation=<=&activity=0.5&format=json" https://dbaasp.org/api/v1