Life Sciences Cross-Database

The “CiPharma X-Db” suite uses sophisticated data mining techniques to enable rapid extraction, cross referencing and interpretation of derived knowledge in an easy to understand visual form and reports. Our system analyzes data sets and text searches integrating the PubMed database of biomedical literature with 39 other literature and molecular databases including DNA and protein sequence, structure, gene, genome, genetic variation and gene expression.


The “CiPharma X-Db” solution provides competitive intelligence capabilities by extracting, cross referencing and interpreting derived knowledge. Reporting functionality tailored to your business’s requirements is enabled as through combining and intuitively presenting findings based on a vast array of data-sets including :

Entrez Gene Provides a unified query environment for genes defined by sequence and/or in NCBI’s Map Viewer
Entrez Genome Provides views for a variety of genomes, complete chromosomes, sequence maps with contigs, and integrated genetic and physical maps
Entrez Nucleotide Contains sequence data from GenBank, EMBL, and DDBJ, the members of the tripartite, international collaboration of sequence databases
Entrez PopSet Contains aligned sequences submitted as a set resulting from a population, phylogenetic, or mutation studyThese alignments describe such events as evolution and population variation. The PopSet database contains both nucleotide and protein sequence data.
Extrez Protein Contains sequence data from the translated coding regions from DNA sequences in GenBank, EMBL, and DDBJ as well as protein sequences submitted to Protein Information Resource (PIR), SWISS-PROT, Protein Research Foundation (PRF), and Protein Data Bank (PDB) (sequences from solved structures)
Entrez Structure Also Molecular Modeling Database (MMDB)Contains experimental data from crystallographic and NMR structure determinationsThe data for MMDB are obtained from the Protein Data Bank (PDB).
Homologene, Discover Homologs A system for automated detection of homologs among the annotated genes of several completely sequenced eukaryotic genomes
NCBI Map Viewer Supports search and display of genomic information by chromosomal positionRegions of interest can be retrieved by text queries (e.g., gene or marker name) or by sequence alignment (BLAST)
OMIM (Online Mendelian Inheritance in Man) A catalog of human genes and genetic disorders
Single Nucleotide Polymorphism A central repository database for both single- base nucleotide substitutions and short-deletion and insertion polymorphisms.
Taxonomy Browser Contains the names of all organisms that are represented in the NCBI genetic database by at least one nucleotide or protein sequence
UniGene: An Organized View of the Transcriptone An experimental system for automatically partitioning GenBank sequences into a non-redundant set of gene-oriented clustersEach UniGene cluster contains sequences that represent a unique gene, as well as related information such as the tissue types in which the gene has been expressed and map location.