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Biological Sequences and Patents

Chemical compounds and Patents

Agenda

Acknowledgements: 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.

IQ Life sciences - Organizational Structure-

DG1Operations

DG2Operational

Support

DG 3Boards of Appeal

DG4Administration

DG5Legal/Administration

Affairs

PatentGrant Automation

IQLife sciences

InternationalAffairs

President

PatentAdministration

Introduction

Servicesfor

Examiners

Data Acquisition&

VerificationR&D

Sequence Listing

Creation

Research

Publication

Processing

Biological Sequences and Patents

Biological Sequences and Patents

A Patent Application and its different parts

SA0000001

FiguresFigures

ClaimsClaims

DescriptionDescription

SequenceSequence Listing

Biological Sequences and Patents /Sequence Listing

Sequence Listing

Biological Sequences and Patents /Sequence Listing

General Information Part

Sequence(s) part

Standards

Wipo ST25

General Information

Sequence Part

EMBL ASN.1

Biological Sequences and Patents /Sequence Presentation Standards

The Submission Tool

•Submission•Conversion•Multilingual•Formatting•Verification

Biological Sequences and Patents /Sequence Presentation submission tool

The Submission Tool

Biological Sequences and Patents /Sequence Presentation submission tool

Sequence Listing

Creation

Research

Publication

Processing

Biological Sequences and Patents

Front End

SequenceListing files

(ST25)

Online filing

Paper Filing andSequence Listing

on Electronic carrier

Storage of allincoming

sequence listing filesincluding versions

(Legal version)

Sequence Listingversion comparison

(Trimaran, etc.)

LegalPublication

server

Date Stamp

VerificationFormatting

"Scientific"Publication

server

Search Environment

Business rules

Business rules

Business rules

"Non redundant"Patent SequenceDatabase Process

RelationalDatabase

RelationalDatabase

VerifiedSequences

Sequence Listingsfrom

National Patent Offices

Text &Forms OCR

Sequence Listing Verification process

Biological Sequences and Patents /Sequence Listing Value Chain @ EPO

Sequence Listing Verification process

Sequence Listing

Creation

Research

Publication

Processing

Data Publication: International Cooperation

The Trilateral patent offices exchange and publish biological sequence data in collaboration with the Public Database Providers

USPTO

JPO

KIPO

EPO

Biological Sequences and Patents / Published sequences exchange

Non Redundant Patent Sequence Database / Project Overview

Biological Sequences and Patents / Non redundant Patent Sequence Database

Non Redundant Patent Sequence Database / Sequence Capture

Biological Sequences and Patents / Non redundant Patent Sequence Database

Sequence Detection Algorithm:Sequence Detection Algorithm:

Detects the presense of sequences in Detects the presense of sequences in all incoming EPO applications, using all incoming EPO applications, using multipass scanning through different multipass scanning through different detection levelsdetection levels

Data Management Pipelines:Data Management Pipelines:

Enrichment of database Enrichment of database coverage avoiding redundancycoverage avoiding redundancy

Biological Sequences and Patents / Non redundant Patent Sequence Database

2 types of 2 types of NR databasesNR databases

Databaserecord (L2)

Search and Public availability @ EBISearch and Public availability @ EBI

PN PN correctionscorrections

Non Redundant Patent Sequence Database / Publicly available

Chemical compounds and Patents

Biological Sequences and Patents

Extraction of Chemical names in Patents

Parsing chemicals ► Chemical Structures

► IUPAC name

►Link to Patent numbers

systematic namestrivial namesformulae acronymsfragments

OSCAR

Extraction of Chemical names in Patents

Biological Sequences and Patents / Extraction of chemical names from patents

Chemical Information from Patents

Biological Sequences and Patents / Availability of chemicals from patents

Availability of Patent related Data @ EBI

Biological and Chemical Information from Patents

Acknowledgements: 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.