This page lists some sample queries and shows how to use bioDBnet effectively to get the desired results.
Note: The results from all the bioDBnet sections are hyperlinked and are downloadable in excel or text format

Convert all my UniProt Accessions to RefSeq and Ensembl Protein Accessions
Give me the Ensembl mouse homologs for my Ensembl Gene ID's from human
Convert all my human identifiers(different types) to Gene ID's
Tell me everything about my Gene ID
Convert identifiers from one species to identifiers from a different species
Get annotations on drugs, diseases, pathways for any identifiers
Convert all my UniProt Accessions to RefSeq and Ensembl Protein Accessions
1) Select db2db from the left hand menu.
2) Select UniProt Accession as input, Ensembl Protein ID and RefSeq Protein Accessions as outputs.
3) Copy and paste the UniProt identifiers and click submit.
4) Results are displayed in a tabular format.
5) db2db also lists the paths that were taken by bioDBnet to do the conversion.



Give me the Ensembl mouse homologs for my Ensembl Gene ID's from human
1) This conversion is not possible through db2db as Homologene does not have Ensembl ID's and the input and output nodes to acheive this would both be 'Ensembl Gene ID'. It can however be run by using dbWalk
2) Add Ensembl Gene ID to the path, then add Gene Id, Homolog - Mouse Gene ID and Ensebml Gene ID to complete the path.
3) Copy, paste the Ensembl identifiers and click on submit.
4) The result page displays the input Ensembl ID's and the output Ensembl homologs along with the intermediate Gene ID results.



Convert all my human identifiers(different types) to Gene ID's
1) Select dbFind from the left hand menu.
2) Select Gene ID as output and enter 9606 in the organism field.
3) Copy, paste your identifier list and click on submit.
4) The dbFind results display the type of the identifier and the corresponding Gene ID's.



Tell me everything about my Gene ID
1) Select dbReport from the left hand menu.
2) Select Gene ID as the input; copy, paste your identifiers and click on submit.
3) The report page displays all the information that bioDBnet can find from the database tables at ABCC in an expandable/collapsable tree like structure
4) If the results contain any of bioDBnet input identifiers then the names/labels of these identifiers are inturn linked to their own dbReports.
5) The result identifiers are hyperlinked to external databases wherever possible.
6) A link to the chromosome map is available if the (i)identifiers are from either human or mouse and (ii)chromosomal location can be found for atleast one of the identifiers entered.
7) A link to polybrowse is available if the identifiers are EntrezGene ID's from either human or mouse.
8) A link to UCSC Genome browser is provided for the EntrezGene and RefSeq identifiers from all the UCSC genomes.



Convert identifiers from one species to identifiers of a different species
1) Select dbOrtho from the left hand menu.
2) Select the identifier types of your input and desired output
3) Select the species for your input and desired output
4) The results are displayed in a two column table, the first with the inputs and the second with the desired outputs
5) All the outpus are hyperlinked to external databases wherever possible



Get annotations on drugs, diseases, pathways for any identifiers
1) Select dbAnnot from the left hand menu.
2) Enter the taxon identifier of the inputs and the desired annotations
3) Copy and paste the identifiers and click on submit
4) dbAnnot finds the type of the identifiers using 'dbFind' and gets all the different bioDBnet outputs for the desired annotations using 'db2db'
5) All the outpus are hyperlinked to external databases wherever possible