Presentation is loading. Please wait.

Presentation is loading. Please wait.

1 OpenBEL as a power engine for Network Verification sbvIMPROVER Challenge 3 The sbv IMPROVER project and www.sbvimprover.com are part of a collaboration.

Similar presentations


Presentation on theme: "1 OpenBEL as a power engine for Network Verification sbvIMPROVER Challenge 3 The sbv IMPROVER project and www.sbvimprover.com are part of a collaboration."— Presentation transcript:

1 1 OpenBEL as a power engine for Network Verification sbvIMPROVER Challenge 3 The sbv IMPROVER project and are part of a collaboration designed to enable scientists to learn about and contribute to the development of a new crowd sourcing method for verification of scientific data and results. The project team includes scientists from Philip Morris International’s (PMI) Research and Development department and IBM's Thomas J. Watson Research Center. The project is funded by PMI.

2 2 Networks Represent important biological processes implicated in human lung physiology and specific processes related to COPD. 2 Cell death (blue, triangle nodes) Cell proliferation (green, squares) Cell stress (yellow, diamond) Inflammation (purple, circle) Tissue repair and angiogenesis (red, cross)

3 3 PubMed 3 SubjectRelationshipObject tscript(p(HGNC:TP5 3)) increases p(HGNC:CASP8) Transcriptional activity of the TP53 protein increases level of CASP8. Biological Statements Coded into Network Models using BEL

4 4 Network Verification Challenge in a nutshell https://sbvimprover.com/sbv-improver

5 5 The Crowd Students/Researches interested in transitioning into Systems Biology Students interested in adding a crowdsourcing project to their resume Scientists in between jobs https://bionet.sbvimprover.com/

6 6 Approach to training Day 1 – Introduction to Improver – Introduction to NVC – Reading Bel: function, name space, gene symbol, GO term, etc., Day 2 – Writing Bel: subject, relationship, object – Available Help

7 7 NVC Model with drop down list of edges https://bionet.sbvimprover.com/

8 8 NVC Model with open evidence https://bionet.sbvimprover.com/

9 9 New Edge https://bionet.sbvimprover.com/

10 10 Challenges Misspellings – Missing name space p(CXCL12) increases bp(GO:"neutrophil chemotaxis") – Wrong gene symbol a(CHEBI:lipopolysaccharide) increases kin(p(HGNC:Akt)) p(HGNC:TNFA) increases kin(p(HGNC:TAK1)) – Wrong family name p(HGNC:HMGB1) increases kin(p(PFH:"MAPK Erk Family")) – Wrong complex name cat(p(HGNC:TLR4)) increases tscript(complex(NCH:NF-kB)) – Missing Bracket p(HGNC:VAV1 increases bp(GO:"neutrophil activation")

11 11 Summary Bel can be used for crowdsourcing projects Bel can be quickly adopted by biologists without any experience Entry point with built in QC required to assure accuracy of Bel statements


Download ppt "1 OpenBEL as a power engine for Network Verification sbvIMPROVER Challenge 3 The sbv IMPROVER project and www.sbvimprover.com are part of a collaboration."

Similar presentations


Ads by Google