MRMAssayDB is targeted proteomics resource maintained by the University of Victoria Genome British Columbia Proteomics Centre.
MRMAssayDB is publicly accessible resource via the http://mrmassaydb.proteincentre.com
MRMAssayDB is implemented in python 2.7. The user web interface was developed in the Django 1.8.11 framework. The search engine was built with Elasticsearch.
The metadata from UniProt, KEGG, STRING, QuickGO and PDB are automatically retrieved via the corresponding API.
MRMAssayDB is updated every month and currently it hosts following versions from different resources:
By using a search term, like a protein name (e.g. Apolipoprotein L1), UniProtKB accession (e.g. O14791), gene name (e.g. APOL1), Subcellular location (e.g. Secreted), peptide sequence (e.g. ANLQSVPHASASR), organism name (e.g. Homo sapiens), pathway name (e.g. p53 signaling pathway), Disease-causing mutation name (e.g. Focal segmental glomerulosclerosis 4 (FSGS4)), GO ID (e.g. GO:0044267), GO term name (e.g. cellular protein metabolic process), GO term (e.g. Biological Process), or Drug ID (e.g. DB00030) or Human Assays for FDA approved Marker (e.g. Yes) in the search field, and pressing 'submit'.
An advanced search option is available in order to select one or more fields to restrict the search and make it faster. The advanced search option is advice to make the search more focused and speed up the total time to report the results to the client side.
Search results will be reported in an interactive datatable format where users can filter, sort, or download all or part of their MRMAssayDB results.In order to perform an advanced search users can enter the search terms, separated by a '|' or line feedback with each line having one entry (e.g. copy-paste from MS Excel column), into the specific form field. For example, search for one or more UniProtKB Accession(s) (UniProtKB Accession Number field):
P09958|P23188
OR simply type:
P09958
P23188
>sp|O43715|TRIA1_HUMAN TP53-regulated inhibitor of apoptosis 1 OS=Homo sapiens OX=9606 GN=TRIAP1 PE=1 SV=1
MNSVGEACTDMKREYDQCFNRWFAEKFLKGDSSGDPCTDLFKRYQQCVQKAIKEKEIPIE
GLEFMGHGKEKPENSS
This section describes how to programmatically access data and services from http://mrmassaydb.proteincentre.com.
The base restful url for MRMAssayDB is : http://mrmassaydb.proteincentre.com/rest/api/
UniProtKB Accession
Protein
Gene
Organism
SubCellular
Peptide Sequence
Pathway Name
Disease Name
Go ID
Go Name
Go Term
Drug Bank
Human Assays for FDA approved Marker
http://mrmassaydb.proteincentre.com/rest/api/?UniProtKB Accession=&Protein=&Gene=&Organism=&SubCellular=&Peptide Sequence=&Pathway Name=&Disease Name=&Go ID=&Go Name=&Go Term=&Drug Bank=&AssayFdaApproveMark=
. A CSV file with the MRMAssayDB results will be returned for specified peptide sequence.
http://mrmassaydb.proteincentre.com/rest/api/?Gene=APOL1|TP53&Organism=Homo sapiens
. A CSV file with the MRMAssayDB results will be returned for specified Gene names and Organism name.Multiple search terms can be separated by a pipe, i.e. '|', into the specific search field. For example, search for one or more UniProtKB Accession(s) (UniProtKB field):
http://mrmassaydb.proteincentre.com/rest/api/?UniProtKB Accession=P09958|P23188
. A csv file with the MRMAssayDB results will be returned for specified UniProtKB Accession Number(s).
This section describes how to share search results among scientific community from http://mrmassaydb.proteincentre.com.
The base hyperlink URL for MRMAssayDB is: http://mrmassaydb.proteincentre.com/search/hyperlink/
UniProtKB Accession
Protein
Gene
Organism
SubCellular
Peptide Sequence
Pathway Name
Disease Name
Go ID
Go Name
Go Term
Drug Bank
Human Assays for FDA approved Marker
http://mrmassaydb.proteincentre.com/search/hyperlink/?UniProtKB Accession=&Protein=&Gene=&Organism=&SubCellular=&Peptide Sequence=&Pathway Name=&Disease Name=&Go ID=&Go Name=&Go Term=&Drug Bank=&AssayFdaApproveMark=
. A page with the MRMAssayDB results will be displayed for specified peptide sequence.
http://mrmassaydb.proteincentre.com/search/hyperlink/?Gene=APOL1|TP53&Organism=Homo sapiens
. A page with the MRMAssayDB results will be displayed for specified Gene names and Organism name.Multiple search terms can be separated by a pipe, i.e. '|', into the specific search field. For example, search for one or more UniProtKB Accession(s) (UniProtKB field):
http://mrmassaydb.proteincentre.com/search/hyperlink/?UniProtKB Accession=P09958|P23188
. A page with the MRMAssayDB results will be displayed for specified UniProtKB Accession Number(s).