Simple Search


We will illustrate a simple search by searching for proteins that are targeted by the drug Aspirin.


  • 1.Type Aspirin into the search box. Select Aspirin (Drug) from the Autosuggest drop-down menu.
  • Important: Clicking on "Complete Profile" in the drop down menu will retrieve all known relationships of Aspirin.
  • 2.Type Protein into the search box and select Protein from the menu.
  • 3.Now select "Targets Protein" as the relationship you are interested in.
  • 4. Click Search. Aspirin’s protein targets will be presented in the Protein facet in the RESULTS tab.

NOTE 1: The search term could be concepts such as Genes, Proteins, Diseases, Drugs etc. or could even be specific names such as BRCA1, MAPK, Sitagliptin etc.

NOTE 2: DistilBio interprets the queries as a graph where the nodes are the search terms and the selected relationship is the edge. The query graph can be viewed in the QUERY tab.



Link to Result

Advanced Search


DistilBio allows the user to ask complex queries and discover new and interesting connections across the data.
A few complex queries are illustrated below

1. What are the common drug targets between Aspirin and Acetaminophen?
  • 1. Type “Aspirin” in the search box and select the <type> drug.
  • 2. Extend the query by typing “protein” and selecting <type> protein from the dropdown. Select “targets protein” as the connection.
  • 3. Type “acetaminophen” and select <type> drug. Select “is target of drug” as the connection.
This completes the query and the results for the common drug targets between Aspirin and Acetaminophen are displayed in the RESULT tab.

Link to Result
2. What are the protein targets of the drug Sitagliptin and what are the proteins interacting with these targets?
  • 1. Type “Sitagliptin” in the search box and select <type> drug.
  • 2. Type “protein” and select <type> protein from the dropdown. Select “targets protein” as the connection.
  • 3. Again type “protein” and select type protein. Select “interacts with” as the connection.
This displays the protein targets of the drug Sitagliptin and also the proteins interacting with the protein targets in the RESULT tab.
Link to Result
3. What are the compounds targeting the protein CP19A and the assays associated with the compound? Also find assays performed only in humans
  • 1. Type “CP19A” in the search box. CP19A in various organisms are displayed by the autosuggest. Select “CP19A_human” from the drop-down.
  • 2. Type “compound” and select the <type> compound. The connection is automatically selected since there is only one available relationship.
  • 3. Type “assay” and select assay from the drop-down list.
  • 4. To find assays performed only in human, now type “human” and select <organsim> human.

Link to Result

Data


DistilBio covers the following databases currently, and we're working on adding more.

Database Connections/Content
ALFRED* Gene ->Mutation , Mutation Properties
BioGRID Gene->Gene Interaction, Gene Interaction->Publication
CCLE Drug->Screening Study, Gene->Mutation, Gene->Cell Line, Cell Line->Tissue, Cell Line->Disease, Cell Line->Mutation, Mutation->Tissue, Compound->Screening Study, Screening Study->Cell Line
Cell Image Library Image->GO-Molecular function, Image->GO-Biological Process, Image->GO-Cellular Component, Image->Imaging Mode, Image->Organism, Image->Source Of Contrast, Image->Image Type, Image->Parameters Imaged, Image->Cell Type, Image->Publication, Cell Type->Image,  Image->Visualization Method, Cross-Refs
CGP Cell Line->Tissue, Cell Line->Disease, Cell Line->Gene, Cell Line->Publication, Mutation->Gene, Mutation->Cell Line, Mutation->Publication, Cross-Refs
Chebi Compound->Patent, Compound->Publication, Compound->Compound Properties
Chembl Activity->Publication, Activity->Assay, Assay->Publication, Assay->Protein, Assay->Organism, Compound->Protein, Compound->Assay, Compound->Activity, Compound->CellLine, Compound->Organism, Compound->Publication, Compound->Tissue, Compound->Compound Properties
ChemSpider Cross-Refs for Compounds and Drugs
ClinicalTrials* ClinicalTrial -> Drug, ClinicalTrial -> Disease, ClinicalTrial -> Agency
ClinVar* Gene -> Disease
Cosmic Cell Line->Publication, Cell Line->Tissue, Cell Line->Disease, Cell Line->Gene, Mutation->Publication, Mutation->Gene, Mutation->Cell Line
CTD Drug->Disease, Drug->Publication, Disease->Publication, Cross-Refs
DailyMed* Drug -> SideEffect
Drugbank Drug->Protein, Drug->Drug Interactions, Drug->Patent, Drug->Publication, Protein->Publication, Drug->Drug Properties
eggNOG* Protein -> Protein [orthologs] , OrthologousGroup -> Protein ,OrthologousGroup -> Properties
Entrez Gene Gene->Gene, Gene->Disease, Gene->Organism, Gene->Publication, Gene->GO-Molecular Function, Gene->GO-Biological Process, Gene->GO-Cellular Component, Disease->Publication, Gene->Gene Properties, Cross-Refs
GeneOntology* Protein -> GO-MolecularFunction, Protein -> GO-CellularComponent, Protein -> GO-BiologicalProcess, GO-BiologicalProcess -> Publication, GO-MolecularFunction -> Publication, GO-CellularComponent -> Publication, Gene -> GO-MolecularFunction, Gene -> GO-CellularComponent, Gene -> GO-BiologicalProcess
Grammene* Gene -> Pathway ,Gene -> AnatomicalEntity ,Gene -> DevelopmentStage , Pathway -> BiochemicalReaction ,Pathway -> GO-CellularComponent , Pathway -> Compound ,BiochemicalReaction -> Component , BiochemicalReaction -> Publication , BiochemicalReaction -> Protein ,BiochemicalReaction -> GO-CellularComponent , BiochemicalReaction -> Compound ,Compound -> GO-CellularComponent , Organism -> Pathway
HomoMINT Protein->Protein Interaction, Protein Interaction->Publication
ICGC Mutation -> Gene, Disease -> Gene, Disease -> Patient, Patient -> Specimen, Specimen -> Specimen Properties, Mutation -> Mutation Properties, Patient -> Patient Properties, Cross-Refs
INOH Protein Classification
IntAct Protein->Protein Interaction, Protein Interaction->Publication
InterPro Protein->Publication, Protein Domain->Publication, Protein->GO-Cellular Component, Protein Domain->GO-Biological Process, Protein->Protein Domain, Protein->GO-Molecular Function, Protein Domain->GO-Cellular Component, Protein->GO-Biological Process, Protein Domain->GO-Molecular Function
MeSH Mesh terms
Methdb Gene -> GenomicRegion, GenomicRegion -> Experiment, GenomicRegion -> MethylationPattern, GenomicRegion -> Tissue, GenomicRegion -> MethylationProfile, GenomicRegion -> MethylationContent, Experiment -> Experiment Properties, GenomicRegion > GenomicRegion Properties, MethylationContent -> MethylationContent Properties, MethylationPattern -> MethylationPattern Properties, MethylationProfile -> MethylationProfile Properties
MINT Protein->Protein Interaction, Protein Interaction->Publication
NCBI Taxonomy Organism Labels and Names
NCI Protein->Disease, Protein->Drug, Gene->Drug, Gene->Publication, Gene->Disease, Disease->Publication, Protein->publication, Drug->Publication
NCI-DTP Screening Study->Cell Line, Compound->Cell Line, Drug->Cell Line, Drug->Screening Study, Compound->Screening Study, Disease->Publication, Drug->Publication, Drug->Disease, Cross-Refs
OMIM Disease->Publication, Disease->Disease Properties
Orphanet* Disease -> Gene, Disease -> Protein, Disease -> Properties
PharmGKB Drug->Disease, Drug->Publication, Disease->Publication
PhosphoSite* Protein -> Protein (Substrates)
Phytozome* Gene ->GO-MolecularFunction, Gene -> GO -> CellularComponent , Gene -> BiologicalProcess, Chromosome -> Mutation, Chromosome -> CDS , Chromosome -> Gene , Chromosome -> 5'UTR, Chromosome -> 3'UTR,Chromosome ->mRNA, Chromosome -> Exon
PlantOntology* Gene -> DevelopmentStage , Gene -> AnatomicalEntity
Pubmed Publication Titles
Reactome Protein -> Protein, Protein -> Publication, Protein -> Pathway, Compound -> GO-CellularComponent, BiochemicalReaction -> Component, BiochemicalReaction -> GO-CellularComponent, BiochemicalReaction -> Publication, BiochemicalReaction -> Complex, BiochemicalReaction -> Organism, BiochemicalReaction -> Protein, BiochemicalReaction -> Compound, BiochemicalReaction -> GO-MolecularFunction, BiochemicalReaction -> PhysicalEntity, BiochemicalReaction -> Image, BiochemicalReaction -> GO-BiologicalProcess, PhysicalEntity -> GO-CellularComponent, BiochemicalReaction -> Catalyst, Pathway -> Organism, Pathway -> GO-BiologicalProcess, Pathway -> Image, Pathway -> BiochemicalReaction, Pathway -> Protein, Pathway -> GO-MolecularFunction, Pathway -> GO-CellularComponent, Pathway -> Publication, Pathway -> Compound, Pathway -> Complex, Pathway -> PhysicalEntity, Complex -> GO-CellularComponent
Sanger* CellLine -> Disease, CellLine -> Publication, Disease -> Publication, Compound -> ScreeningStudy, Compound -> Publication, Drug -> ScreeningStudy, Drug -> Publication, ScreeningStudy -> CellLine, ScreeningStudy -> Publication, ScreeningStudy Properties
String OrthologousGroup -> Protein, Protein -> Protein Orthologs
Swissprot Protein->GO-Molecular Function, Protein->GO-Biological Process, Protein->GO-Cellular Component, Protein->Organism, Protein->Gene, Protein->Sites, Protein->Regions, Protein->Pathway, Protein->Protein Interaction, Protein->Disease, Protein->Publication, Protein->Protein Properties
TAIR* Gene -> Publication, Gene -> GO-CellularComponent , Gene -> GO-BiologicalProcess , Protein ->Protein (interactions) , Gene -> GO-MolecularFunction , Gene -> AnatomicalEntity, Gene ->DevelopmentStage ,DevelopmentStage -> Publication, AnatomicalEntity -> Publication
Urinary Protein Biomarker Database* Protein -> Disease[biomarker], Protein -> Publication, Disease -> Publication
VirusMINT Protein->Protein Interaction, Protein Interaction->Publication
WikiPathways* Pathway -> Organism , Pathway -> Protein , Pathway -> Gene , Pathway -> Compound

* Newly added databases.

Connections
  • Drug-Disease
  • Drug-Protein
  • Drug-Gene
  • Drug-Drug
  • Drug-Publication
  • Drug-Patent
  • Drug-ClinicalTrial
  • Drug-SideEffect
  • Drug-ScreeningStudy
Data Properties
  • AHFS code
  • ATC code
  • Biotransformation
  • Brand name
  • CAS number
  • Category
  • Clearance
  • Description
  • Disease indication
  • Group
  • Inchi
  • Inchi key
  • IUPAC
  • Half life
  • Mechanism of action
  • Molecular weight
  • Protein binding
  • Route of elimination
  • SMILES
  • Absorption
  • Affected Organism Name
  • Brand Mixtures
  • Food Interactions
  • LogP
  • Manfacturer
  • Molecular Formula
  • Pharmacodynamics
  • pKa
  • Volume Of Distribution
  • Water Solubility
Connections
  • Disease-Drug
  • Disease-Protein
  • Disease-Gene
  • Disease-Publication
  • Disease-Image
  • Disease-Patient
  • Disease-ClinicalTrial
  • Disease-Pathway
Data Properties
  • Animal model
  • Biochemical features
  • Clinical features
  • Description
  • Diagnosis
  • Inheritance
  • Pathogenesis
Connections
  • Gene-Protein
  • Gene-Disease
  • Gene-Drug
  • Gene-Pathway
  • Gene-Organism
  • Gene-Publication
  • Gene-Gene
  • Gene-GOTerms
  • Gene-GenomicRegion
  • Gene-DevelopmentStage
  • Gene-AnatomicalEntity
Data Properties
  • Chromosomal location
  • Description
  • Map location
  • Symbol
Connections
  • Protein-Disease
  • Protein-Drug
  • Protein-Pathway
  • Protein-Protein
  • Protein-Publication
  • Protein-GO
  • Protein-Compound
  • Protein-Assay
  • Protein- Activity
  • Protein-Gene
  • Protein-ProteinDomain
  • Protein-ActiveSite
  • Protein-BindingSite
  • Protein-Calcium Binding Region
  • Protein-Coiled-Coil Region
  • Protein-Compositional Bias Region
  • Protein-DNA Binding Region
  • Protein-Glycosylation Site
  • Protein-Intramembrane Region
  • Protein-Lipid Binding Region
  • Protein-Metal Binding Site
  • Protein-Motif
  • Protein-Mutagenesis Site
  • Protein-Nucleotide Binding Region
  • Protein-Transmembrane Region
  • Protein-Zinc Finger Region
  • Protein-Protein(Orthologs)
  • Protein-BiochemicalReaction
  • Protein-Protein(Substartes)
Data Properties
  • Sequence
  • Sequence Length
  • Sequence Mass
  • Sequence Similarity
  • Function
  • Related Gene Name
  • Related Pathway Description
  • Related Polymorphism Description
  • Related Disease Description
  • Recommended FullName
  • Alternative FullName
  • Recommended ShortName
  • Alternative ShortName
  • Sequence Similarity
  • Induction Description
  • Developmental Stage Expression Description
  • Subcellular Location Description
  • PTM
  • Tissue-Specificity Description
  • Subunit Structure Description
  • Domain Description
  • Cofactor Description
  • Disruption Phenotype Description
  • Enzyme Regulation Description
  • RNA-Editing Description
  • Catalytic Activity
  • KM
  • pH-Dependence
  • Vmax
  • Temperature-Dependence
  • Redox Potential
  • Pharmaceutical Use
  • Biotechnological Use
  • Allergen Property
  • Toxic Dose
  • pH-Dependence
  • Redox Potential
  • RNA-Editing Description
  • Temperature-Dependence
Connections
  • Compound-Assay
  • Compound-Patent
  • Compound-Cell line
  • Compound-Tissue
  • Compound-Organism
  • Compound-Activity
  • Compound-Publication
  • Compound-Pathway
  • Compound-BiochemicalReaction
  • Compound-GO-CellularComponent
  • Compound-ScreeningStudy
Data Properties
  • Acidic pKa
  • ALogP
  • Basic pKa
  • Canonical SMILES
  • Charge
  • Chemical structure
  • Cescription
  • H-bond acceptor
  • H-bond donor
  • Inchi
  • Inchi key
  • IUPAC
  • Log D
  • Log P
  • Mass
  • Molecular formula
  • Molecular species
  • Molecular weight
  • SMILES
  • Standard Inchi
  • Standard Inchi key
Connections
  • Mutation-Gene
  • Mutation-Tissue
  • Mutation-Cell line
  • Mutation-Publication
Data Properties
  • Somatic Status
  • GRCh genome Position
  • NCBI genome Position
  • CDS Mutation
  • Codon Change
  • Amino Acid Mutation
  • Validation platform
  • Sequence Coverage
  • Validation status
  • Read count
  • Platform
  • Tumour genotype
  • Reference genome allele
  • Consequence type
  • Nucleotode change
  • Type
Connections
  • Cell Line-Tissue
  • Cell Line-Disease
  • Cell Line-Mutation
  • Cell Line-Gene
  • Cell Line-Publication
Data Properties
  • Expression Array
  • SNP Array
  • Patient Age
  • Patient Gender
  • Institute Address
Connections
  • Pathway-Organism
  • Pathway-GO-BiologicalProcess
  • Pathway-Image
  • Pathway-BiochemicalReaction
  • Pathway-GO-MolecularFunction
  • Pathway-GO-CellularComponent
  • Pathway-Publication
  • Pathway-Compound
  • Pathway-Complex
  • Pathway-PhysicalEntity
Data Properties
  • Description
Connections
  • GO-CellularComponent-Publication
  • GO-CellularComponent-Image
  • GO-CellularComponent-Gene
  • GO-CellularComponent-BiochemicalReaction
  • GO-CellularComponent-ProteinDomain
  • GO-CellularComponent-Pathway
  • GO-CellularComponent-Protein
Data Properties
  • Description
Connections
  • GO-MolecularFunction-Publication
  • GO-MolecularFunction-Image
  • GO-MolecularFunction-Gene
  • GO-MolecularFunction-BiochemicalReaction
  • GO-MolecularFunction-ProteinDomain
  • GO-MolecularFunction-Pathway
  • GO-MolecularFunction-Protein
Data Properties
  • Description
Connections
  • GO-BiologicalProcess-Publication
  • GO-BiologicalProcess-Image
  • GO-BiologicalProcess-Gene
  • GO-BiologicalProcess-BiochemicalReaction
  • GO-BiologicalProcess-ProteinDomain
  • GO-BiologicalProcess-Pathway
  • GO-BiologicalProcess-Protein
Data Properties
  • Description

Examples


Sample queries to get you started. Click on the links to try them out!!
  • Aspirin - drug details

    Complete relationship profile and details for Aspirin

  • Aspirin's protein targets

    Which proteins does aspirin target?

  • Letrozole - Compound details

    All information about the compound Letrozole

  • Compounds targetting CP19A Protein

    All compounds targetting protein CP19A & associated assays

  • Sitagliptin targets

    Find the target proteins of drug Sitagliptin

  • Sitagliptin targets and their interaction

    Find the proteins interacting with the target proteins

  • Common drug targets

    Do aspirin and acetaminophen have any protein targets in common?

  • CTNNB1 mutations and cell-lines

    Find mutations for the gene CTNNB1 and the cell-lines they have been studied in

  • Drug Screening study & cell-line

    Find the screening studies for the drug Erlotinib and associated cell lines and disease

  • Cell-lines for Multiple Myeloma

    Find the cellline to study Multiple Myeloma and drugs studied in the cell-lines

Frequently Asked Questions


Search

1. How do I get started?
2. How complex can my query be?
3. Can I get a tour of DistilBio?
4. What is "Complete profile"?
5. What does the graph in the query tab represent?
6. Can I use the results to make a new query?
7. How do I clear a query?
8. Where can I find my recent searches?
9. How can I view the results?
10. I have a list of terms and I want to run a search in DistilBio to find connections. What can I do?
11. How does “Upload sequence” work in DistilBio?

Results

1. Can I have a brief overview of the results page?
2. What is the "Table view" tab?
3. How do I minimize/maximize the facets?
4. How do I select items listed in a facet?
5. What are the various ways of filtering the results?
6. I’d like to see the query graph in the results page. Where is it?
7. Why can’t I find any data for my query?
8. How do I see more results than the ones displayed in the facet?
9. How do I find evidence for a triple?
10. Why can’t I find publication evidences for some of the connections?
11. What are the various connections available?
12. Why don’t I see some of the results I found previously?
13. How are the publications shown in the Evidence Card relevant?
14. Can I view the structure of a protein?
15. Can I export the results I have obtained?
16. Can I save my searches?

Data

1. What are the databases currently covered by DistilBio?
2. What are the relationships currently covered by DistilBio?
3. How often do you update the data?
4. Does DistilBio curate data?
5. What does “DistilBio inferred” mean?
6. What does the connection "associated" mean?
7. What does the connection "related" mean?
8. Where can I find the source of the data?
9. What if I find an error in the data?
10. Can I suggest a database to be included in DistilBio?