SciCura
Shared, General-purpose Curation
A 'general purpose' curation platform, to make 'local curation' globally scalable
Steven Vercruysse
'Ver - cruise' / Cruy
Martin Kuiper
Local Curation
Harness the Curating Crowd
22 Million
Transformative
tech?
Published
'Small/mid-scale' curation
(small in WORKFORCE and SCOPE)
Structured
Based on Baumgartner trends (2007)
and PubMed statistics (2013)
The 'Curation Struggle'
1. Spreadsheets: are inflexible
'Real' biological
information
SHALLOW extraction
Most information
doesn't FIT
=> Few details curated
2. Formal Languages: are hard to learn
John eats Chicken with Fork
FEW facts (experts only)
HARD to explain
to computer
=> Few papers curated
Solution:
stcruy
VSM
(Visual Syntax Markup)
A new curation method / user-interface
that is ultra-flexible + easy-to-use
VSM Curation Interface
VSM Curation Interface
... Information, boiled down to its essence.
"Formulate it so you can use tridents".
Easy to use
Flexible
Easy to build
complex
sentences
VSM: Just 3½ easy Building Blocks
1. Trident
subject
relation
1'. Dident
2. List
3. Reference
list-rel.
smth
obj. ... obj.
...
it
object
VSM Templates
- Pre-added components
VSM Templates
- Pre-added components
- Quick & accurate to fill in
VSM Templates
- Pre-added components
- Quick & accurate to fill in
- Extensible with extra components
VSM enables web app SciCura
VSM
easy
=> Many people can curate
flexible => Any topic can be curated
enables
SciCura
Publication Title X
Open web-application for creating
Structured Summaries of papers
VSM enables web app SciCura
SciCura
Kari Nordmann | Home
Publication Title X
J. Smith, J. Hopkins
- Journal of Cell Biology. 2011; 179(1):601-17
Last edited by Astrid Armstrong | Approved by 3 people | Approve or Flag | Edit | See history
Social
Summary so far
Unstructured facts
…structured with VSM
…in web-app SciCura
Publication X
abc
Unmanageble text
xy
Powerful, intuitive curation
A scalable hub for curation
and sharing information.
Positioning
Accuracy
SciCura
Small-scale
curation
Diversity & depth
of knowledge
Text-mining
Coverage
Impact
- Direct benefit for curator
- Interface for graph search
Paper 31
Paper 32
- Text-mining co-development
- Output scripts, API, plugins
Query: by
me & my group
Output:
Pathway Y
View:
Visual Plugin X
=
Prototype and First Use Case
Selection
of templates
(early-stage
templates)
Multi-user,
cooperative
Prototype
Prototype: input
(Ask me for demo!)
User Quote:
“From a user's side, I don't think that complexity is difficult to handle at all.
In fact, I'm excited about all the complexity we can now handle in such an elegant manner.
It allows us to focus on the biology; no more need to worry about the entry format so much.
It makes it so quick. It's so smooth. :D ”
- Astrid L.
Prototype: output script + API
Prototype: output script + API
Prototype and First Use Case
-
3000+ detailed statements (DbTF-TG + context; 6 ppl)
-
Designed for more use cases (in future)
-
Login by invite (to control edits)
-
Plan to put source code on GitHub (after tidy-up)
(-> ask a demo!)
(to enable community development)
And that's a short introduction to SciCura!
SciCura
Shared, General-purpose Curation
A 'general purpose' curation platform, to make 'local curation' globally scalable
Steven Vercruysse
Martin Kuiper
[email protected]
[email protected]