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The data limbo in modern
biomedical research
Jorge Bouças
Problem Resources Solution
¿ ✔︎
Problem Resources Solution
¿ ✔︎
The “bottom-up” / “top-down” paradigm
Pre-school
UniversitiesBrazil
South Korea
Pre-school
UniversitiesBrazil
South Korea
Build/Construct
Manage/Decisionmaking
The “bottom-up” / “top-down” paradigm
Profit focused organizations
Knowledge, sharing, innovation
IT
Research
Production
Biologics
Chemistry
Material Sciences
Knowledge, sharing, innovation
IT
Research
Production
Biologics
Chemistry
Material Sciences
0 25 50
User generated
input
Company’s website
News articles
Trust (%)
March, 2014
Knowledge
sharing
Organization
structure
Information and Organization
Information and Organization
Structure-driven
profit
Information-driven
innovation
Information
Technology
(IT)
platforms
Information and Organization
Information
Technology
(IT)
platforms
machine human
Old concept
New interface
All-in-one
Simple!
User
generated
content
Apps
Information and Organization
Information
Technology
(IT)
platforms Old concept
New interface
All-in-one
Simple!
User
generated
content
Apps
machine human
Why start with labbooks?
Bottom-Up
Electronic Laboratory Notebooks (ELNs)
Research
Planning Execution
Analysis
ELN
Electronic Laboratory Notebook
Index
.
.
.
.
12.08.2014
.
RNA immuno-precipitation (RIP)
.
.
..
...
Apps
App1
.
.
.
.
.
Buffer App
Add Serial
Create Buffer
.
.
.
.
AppX
Buffer Serial: B299, 22.07.2014
Quality by Design
Modified from Evernote
Free text + Apps
ELN + Laboratory Information Management System (LIMS)
Electronic Laboratory Notebooks (ELNs)
Research
Planning Execution
Analysis
ELN
Planning to Execution
Index
.
.
.
.
12.08.2014
.
.
.
qPCR p21, GAPDH; Carcinomas
.
.
..
...
Apps
App1
.
.
.
.
.
.
.
.
.
.
.
.
.
.
.
.
.
qPCR 7600
Create
Import files
Analyze
.
.
.
.
AppX
## qPCR p21, GAPDH; Carcinomas
Electronic Laboratory Notebook
Modified from Evernote
Planning to Execution
Settings.XML
Results + info
Index
.
.
.
.
12.08.2014
.
.
.
qPCR p21, GAPDH; Carcinomas
.
.
..
...
Apps
App1
.
.
.
.
.
.
.
.
.
.
.
.
.
.
.
.
.
qPCR 7600
Create
Import files
Analyze
.
.
.
.
AppX
## qPCR p21, GAPDH; Carcinomas
Electronic Laboratory Notebook
Execution to Analysis
Results + info
Settings.XML
## qPCR p21, GAPDH; Carcinomas
Planning, Execution, Analysis
Results + info
Settings.XML
APPS
APPS
ELN
Execution to Analysis
Research
Planning Execution
Analysis
ELN
John
Anton
Sylvia
Anna
Knowledge & Task Sharing
Research
Planning Execution
Analysis
John
Anton
Sylvia
Anna
ELN
ELN
ELN
ELN
Information and Organization
Information
Technology
(IT)
platforms Old concept
New interface
All-in-one
Simple!
User
generated
content
Apps
machine human
NLP ready!
Information and Organization
Information
Technology
(IT)
platforms Old concept
New interface
All-in-one
Simple!
User
generated
content
Apps
machine human
1 Machine = 1 App
$$$
Training old
and
new personnel
$$$ Worldwide
deployment
Everybody can develop
and sell Apps
NLP ready!
Means and Ends
ü  Implement a I&O platform
ü  All sectors (Healthcare, Material Science…)
ü  R&D based industry (Knowledge, tracking, SOPs-dependent)
ü  All stages: from R&D to production
ü  All levels: from technical staff to administration
✗  Sell software
Get work done for free!
1.  Generate basis ELN + LIMS + Cloud solution package
2.  Distribute package and source code for free
3.  Keep control of official releases
ü  Worldwide implementation (no extra costs)
ü  Full control of roadmap
ü  Reduce training costs of future employees (long term)
ü  Free testing of new implementations
ü  Increased feedback
ü  Development of Apps and basic platform by third parties (Free + Commercial)
Find a partner!
Most popular! Most popular! Most popular! Most popular!
Freeware + Commercial
Cloud, Storage, Communications
Databases, Big Data, Applications
Popular!
¿ ✔︎
Time (Year)
ComputingPower
(RelativeUnits)
Data science
for machines
Time (Years)
Impactfactor/paper

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The data limbo in modern biomedical research