The non-redundant patent sequence databases have been created at two levels from the patent class (PAT) in EMBL-Bank and the patent proteins databases. Level-1 non-redundant patent sequences are 100% identical over the same length; Level-2 non-redundant patent sequences are identical and belong to a same patent family (the same invention). Level-2 sequence clusters have been enriched with biological information and additional data from the patent documents.
Non-redundant Patent Sequence Coverage
| NR databases | Abbreviation | Coverage |
|---|---|---|
| Non-redundant patent proteins level-1 | NRPL1 | EPO, JPO, KIPO and USPTO patent proteins |
| Non-redundant patent proteins level-2 | NRPL2 | EPO, JPO, KIPO and USPTO patent proteins |
| Non-redundant patent nucleotides level-1 | NRNL1 | EMBL-Bank patents |
| Non-redundant patent nucleotides level-2 | NRNL2 | EMBL-Bank patents |
Data Search and Query
The user can run the similarity & homology tool, e.g. FASTA, to search sequences against the non-redundant databases, and use EBI Search ( NRNL1 , NRNL2, NRPL1 and NRPL2) for text querying.
Downloads
| Databases | FASTA format data | EMB-like format data |
|---|---|---|
| NRNL1 | nrnl1 | nrnl1.annot |
| NRNL2 | nrnl2 | nrnl2.annot |
| NRPL1 | nrpl1 | nrpl1.annot |
| NRPL2 | nrpl2 | nrpl2.annot |
Documentation
- Non-redundant databases-user manual
- Family equivalents database-user manual
- Patent Family definitions
Publications
Original paper: Li W., McWilliam H., Richart de la Torre A., Grodowski A., Benediktovich I., Goujon M., Nauche, S. and Lopez, R. (2010) Non-redundant patent sequence databases with value-added annotations at two levels. Nucleic Acids Research. 38(Database issue):D52-D56. DOI: 10.1093/nar/gkp960 full-text PDF
Database update: Li W., Kondratowicz, B., McWilliam H., Nauche, S. and Lopez, R. (2013) The Annotation-enriched non-redundant patent sequence databases. Database: The Journal of Biological Databases and Curation. 2013:bat005. DOI: 10.1093/database/bat005 full-text PDF
People and collaborators
The project is a collaboration between the EPO life science team and the External Services team at the EBI.
Funding
FELICS is funded by the European Commission under FELICS, contract number 021902 (RII3) within the Research Infrastructure Action of the FP6 "Structuring the European Research Area" Programme. Additional funding has been provided by EMBL-EBI and the European Patent Office.
Contact
Enquiries regarding EBI patent data should be sent to EBI Support.