Querying database by URL

Epifactors allows searching proteins, protein complexes histones, and lncRNAs by multiple characteristics.

Search results present a list of database entries (or a single entry if it was the only one found). There are several ways to customize search parameters.

• The simplest URL query looks like: https://epifactors.autosome.org/genes which results in a list of all proteins.
• An URL query https://epifactors.autosome.org/genes?search=xxx performs a full-text search of xxx over most of protein database fields. It matches any string containing query. The same database search is performed by the search field in the top-right corner of the webpage.
• An URL query https://epifactors.autosome.org/genes?search=xxx&field=yyy performs a search of xxx using yyy protein' field (exact match).
• An URL query https://epifactors.autosome.org/genes?search=xxx&field=yyy&similar=1 performs a search of xxx using yyy genes' parameter (any matches). Unlike exact match it will find gene entries containing xxx inside yyy field string (or, e.g., being a prefix). So if you need to match strings like "xxx, xxx_2" or "Involves xxx", use similar parameter. If you don't want to match similar strings, skip this parameter, don't use &similar=0 !

By default, if a search request returned the only record, it redirects to this record automatically. To prevent this behavior (display a table with the single record) use &redirect=no.

Tables available for search:

• Proteins. URL path is: /genes Fields available for search are:
  • hgnc_symbol for HGNC approved symbol
  • status for Status of entry
  • hgnc_id for HGNC ID
  • hgnc_name for HGNC approved name
  • gene_id for Entrez gene ID
  • uniprot_ac for UniProt AC (human)
  • uniprot_id for UniProt ID (human)
  • domain for Pfam domains
  • mgi_symbol for MGI symbol
  • mgi_id for MGI ID
  • uniprot_ac_mm for UniProt AC (mouse)
  • uniprot_id_mm for UniProt ID (mouse)
  • gene_tag for HGNC gene family tag
  • gene_desc for HGNC gene family description
  • function for Function
  • modification for Modification
  • pmid_function for PMID for information on function
  • complex_name for Protein complex
  • target for Target molecule
  • specific_target for Target entity
  • product for Product
  • uniprot_id_target for UniProt ID of targets
  • pmid_target for PMID for information on target
  • comment for Comment
• Protein complexes. URL path is: /protein_complexes Fields available for search are:
  • group for Complex group
  • group_name for Complex group name
  • complex_name for Complex name
  • status for Status of entry
  • alternative_name for Alternative names
  • protein for Proteins involved
  • uniprot_id for Uniprot IDs of involved proteins
  • pmid_complex for PMID for reference on complex composition
  • function for Function
  • pmid_function for PMID for reference on function
  • target for Target molecule type
  • specific_target for Specific target
  • product for Product
  • uniprot_id_target for Target UniProt ID
  • pmid_target for PMID for reference on targets and products
  • comment for Comment
  • genes_in_complex for Genes in complex
• Histones. URL path is: /histones Fields available for search are:
  • group for Complex group
  • hgnc_symbol for HGNC approved symbol
  • status for Status of entry
  • hgnc_id for HGNC ID
  • hgnc_name for HGNC approved name
  • gene_id for Entrez gene ID
  • uniprot_ac for UniProt AC (human)
  • uniprot_id for UniProt ID (human)
  • domain for Pfam domains
  • mgi_symbol for MGI symbol
  • mgi_id for MGI ID
  • uniprot_ac_mm for UniProt AC (mouse)
  • uniprot_id_mm for UniProt ID (mouse)
  • gene_tag for HGNC gene family tag
  • gene_desc for HGNC gene family description
  • complex_name for Protein complex
  • targeted_by_protein for UniProt ID of targeting protein
  • targeted_by_complex for Name of targeting complex
  • pmid for PMID for reference on annotation
  • comment for Comment
• lncRNAs. URL path is: /lncrnas Fields available for search are:
  • hgnc_symbol for Hgnc Symbol
  • status for Status
  • hgnc_id for Hgnc
  • alternative_names for Alternative Names
  • hgnc_name for Hgnc Name
  • gene_id for Gene
  • gene_tag for Gene Tag
  • gene_desc for Gene Desc
  • function for Function
  • pmid_function for Pmid Function
  • target for Target
  • specific_target for Specific Target
  • uniprot_id_target for Uniprot Id Target
  • pmid_target for Pmid Target
  • comment for Comment