Design and development of a novel Patent Alerting System

2014-04-14Dr. Wolfgang Thielemann

Slide No. 2 • 2014-04-14 Wolfgang Thielemann2 • Dr. Ortrud Steinführ • 23-JUN-2011

Agenda/Content

IntroductionWorkflowUsing the platform to Search, Browse and FilterEmail push serviceSummary

Slide No. 3 • 2014-04-14 Wolfgang Thielemann

Introduction:What does this novel service do

and why did we need it?

1

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Patent Alerting SystemWhat does it do?

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Patent alerting options existing at the start of pr oject:

• End-Users browse results of commercial alerting services like “Current Patents Gazette”

• End-Users set up alerts in databases (e.g. Scifinder) themselves

• Information professionals create alerts in various added-value databases and/or patent full-text databases

Challenges for a novel, proprietary alerting servic e:

• The number of newly published healthcare & chemistry patents is huge (2000-5000/week)

• The bandwidth of topics to be tracked and the corresponding terminology is huge too

A powerful, precise and focused alerting system is needed

Patent alerting options

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Using advanced text mining workflows, new patents have to be categorized into clearly defined, project specific folders

Criteria for categorization should include:

• Drug action / molecular target (PDE 5 inhibitors)

• Specific medical condition (e.g. pulmonary hypertension)

• Specific technology (e.g. positron emission tomography)

• Compound class (e.g. antibodies)

A

The platform must be easy to use and end-user searchableC

Minimal costs for creation, maintenance, uploads, license fees and hardwareD

What did we expect from our new patent alerting system?

The platform has to provide chemical structures which are representative for novel chemical space covered in medicinal chemistry patents

B

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Workflow

2

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1. Download of patent full-text

2. Filtering and categorization

3. Adding key content

Overall workflow of novel patent alerting service

Email push-service; RSSfeeds

Searching or Browsing

APIs

other prop. platforms

Enrichment with chemical structures

Patent full-text source

Orbit

Broad healthcare & chemistry related search for all alerts in:

Chemical structure DBs

CAS / Registry

WPIX / DCR

SureChem

patent numbers of substructure hits for selected alerts

Patent alerting platform

Tabular patent sheets enriched & categorized with:

• Project name• Indication• Molecular targets• Chemical structures• Technologies• …

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The engine within the novel service

1. Download of patent full-text

2. Filtering and categorization

3. Adding key content

1. Download of patent full-text

2. Filtering and categorization

3. Adding key content

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It’s not a commercial black box!

We have full control over:

• The process• The vocabulary• The rules

… and can adjust it to the needs of our organization!

The engine within the novel service

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2000-5000 newly published healthcare and chemistry related patent applications per week (first published member of a patent family + first US or EP application)

Details of proprietary categorization, filtering, indexing steps

+ + +

In-depth text mining analysis of the patent full-text to extract, standardize and add key terms (targets, indications, technologies etc.)

Adding key content

typically 0 - 5 patents per alert / week

In-depth text mining analysis of the patent full-text for identification of relevant patents

Filtering & Categorization

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Added key content

• Alert relevant keywords (e.g. drug action)

• Indication

• Molecular target (official NCBI Gene name + Gene ID)

• Formulation (Route of Admin + Dosage forms)

• Species

• Technologies (e.g. prodrug, freeze drying, pegylation etc.; can be augmented to the needs of the organization)

• Molecule type (small molecules, biologicals, natural products)

• Patent type (compound, formulation, method general, diagnosis, preparation method, combination etc.)

Keywords relating to the following topics are extracted, standardized and added:

+

+

+

+

+

+

+

+

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Details of enrichment with chemical structures

identifies chemical compounds:

• from names (incl. IUPAC, brand names, generic names, trivial names) within 24 h after publication of a patent (WO, US, EP)

• from drawn structures (only high quality structures without variables) within 2-3 days after publication of a patent (WO, US, EP)

We add these structures to the new patents within the patent alerting workflow

*

*will soon become SureChEMBL

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Tuesday Wednesday Thursday Friday Saturday Sunday Monday

New WO

New US

New EP

Name2str Name2str Name2strConversion chem drawings

Conversion chem drawingsConversion chem drawings

Generation chemical structures

Timelines: Providing alerts as fast as possible

• Download• Categorization• Text Mining• Upload

Alert

…+ documents from other patent offices

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Inclusion / Exclusion criteria

The keywords are mentioned:

• 1x in core fields (e.g. title)

• Multiple times in other fields (e.g. description)

The keywords are mentioned:

• a few times in a non-core field

Documents & keywords Chemical structures

• Novel compounds (incl. intermediates) with a global frequency of <= 10 in all patents*which also pass our chemical purging filter

• Common reagents, catalysts, or drugs which are often mentioned in “washing lists”

* General WO, US, EP patent database

Selection criteria for novel patents

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Using the platform to

Search, Browse and Filter

3

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Alerting System Main Navigation:Subscriptions & Search

Shows alerts you have subscribed to

All other available alerts

Google like search (keywords or chemical structures ) with facetted filter options

Administration of alerts (only for information prof essionals)

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Alerting System Main Navigation:Entry page: “My Subscriptions”

Information about scope of the alert Stop subscribing to the alert

Show list of all documents collected for this alert so far

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Alerting System Main Navigation:Other available alerts

Information about scope of the alert Subscribe to the alert

Show list of all documents collected for this alert so far

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Document List view

All documents related to Endometriosis alert:

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Links in Document List View

Link to corresponding enhanced alerting system record with:

• Key content • Chemical structures

Original full-text

Link to corresponding patent record from Thomson World Patent Index

Original PDF Patent DB

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Document view

added key content

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browse records + chemical structures

Document view + chemical structures

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Alerting System Main Navigation:Search

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Search result list with filter options

Search for: “endometriosis”

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Logic “OR” within on topic and “AND” between topics

OR AND

Text mining generated, standardized added value terms allow easy filtering:

Faceted Filter Options

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Faceted Filter Options

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Email push service

4

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Email push service

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Summary

5

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Advantages of proprietary Patent Alerting System

• Grouping of patents into project specific folders (full flexibility in defining project relevant parameters like indication, target, technology etc.). Faster evaluation by project team members due to high relevance of hits

• Use of already existing, proprietary terminology for search and analysis of patents

• Systems maintained by patent information professionals who are experts in the field of patent specific sources, challenges, pitfalls as well as scientific text mining analysis

• System open to link and exchange information to other internal platforms via automated protocols / APIs

• Fast provision of representative chemical structures allow quick evaluation of novel chemical space as well as easy download & processing of real chemical structures

Thank you!Acknowledgements:

Selected images were licensed from: 123RF©