Ali Baba System

The Ali Baba System is a Vertical Search Service for searching the PubMed Corpus.

• AKA: Ali Baba Service.
• See: Information Retrieval System, Text Graph System.

---

---

References

• http://alibaba.informatik.hu-berlin.de/about.html
  • Ali Baba parses PubMed abstracts for biological objects and their relations as discussed in the texts. Ali Baba visualizes the resulting network in graphical form, thus presenting a quick overview over all information contained in the abstracts.
  • You can use any query you would usually use with PubMed. Ali Baba automatically retrieves all corresponding citations and parses them for
    • cells from the MeSH tree,
    • compounds from the KEGG database,
    • diseases from MeSH,
    • drugs from MeSH,
    • enzymes from KEGG,
    • nutrients,
    • proteins/genes from the UniProt database,
    • reactions from KEGG,
    • species from NCBI Taxonomy, and
    • tissues from MeSH.
  • Ali Baba associates objects for the following types of relations with each other:
    • protein-protein interactions,
    • (sub)cellular location of proteins,
    • proteins/genes discussed with drugs,
    • proteins/genes discussed with species,
    • proteins/genes discussed with tissues,
    • relations between drugs and diseases,
    • proteins/genes and diseases,
    • nutrients associated with proteins, diseases, or tissues.

2006

• Conrad Plake, Torsten Schiemann, Marcus Pankalla, Jörg Hakenberg, Ulf Leser. (2006). “Ali Baba: PubMed as a graph.” In: Bioinformatics, 22(19):2444-2445 (Bioinformatics).

---