1. Subio Platform
is NOT a “statistical” tool,
but a “biological” analysis software.
Subio Inc.

2. Many Biologists Uses Excel
LINUX Server
Desktop/Laptop
NGS Tools
• Mapping
• Quantification
• Variant calling
• etc.
R
Bioinformaticians Biologists
Many biologists
receive Excel files
as analysis results.
CLC
Other Stat. Tools
Galaxy Excel PDF

3. Like This
(A List of Differentially Expressed Genes)
You can sort a list of
differentially expressed
genes by fold change and/or
p-values.
But are the genes
at top of the list
biologically
important?

4. Aren’t “Statistical” Tools Enough?
Statisticians say
“Statistical significance is
NOT biological significance.”
What does it mean?
• Statistics never answers to biological questions.
• Statistics sorts data for a better overviewing.
• Biological significance can be proven only by
experiments.

5. Ability of Computer & Human
Computers are RATIONAL FOOLS.
• They make enormous calculations and tasks.
But, they never hit on a new idea out of logic.
Human should STAY FOOLISH, because
• We don’t have whole knowledge about the life.
• Human’s “serendipity” brings innovations.
• You prove your idea by experiments.
How to maximize the chance of biological discovery?

6. Data Analysis Needs Both Wheels
DRY Side WET Side
Tools for Bioinformaticians Tools for Biologists
1001011101010110
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• Interactive
visualizations for
exploratory mining.
• Data sharing for open
discussions.
• Reviewing the results
of statistical analysis.
Prediction
for new experiments
Idea
of new experiments
Utilizing Computer Power Maximizing Human Ability

7. Challenging Super Complex Problem
Bioinformaticians Biologists
Need better
communications
The goal is so far!

8. How to Make It Better?
LINUX
Windows/MAC
NGS Tools
• Mapping
• Quantification
• Variant calling
• etc.
R
Bioinformaticians Biologists
Passing “SSA” file
instead of Excel file.
CLC
Other Stat. Tools
Galaxy Excel PDF
Subio Platform

9. Data Sharing via SSA on Subio Platform
Subio Platform
Subio Platform
Subio Platform Subio Platform
Subio Platform
Subio Platform
Subio Platform
is free. They
can import the
SSA on their
PC/Mac.
All data are
packed in SSA.
(raw data, gene
annotation, sample
information,
pathways, statistical
analysis results)
DRY Side
WET Side

10. It’s Not Only A Gene List!
You can see like
Excel here.
For example, you
can pass a list of
genes, which are
down-regulated by
aging.

11. It’s Not Only A Gene List!
You can
search genes
by keywords.

12. It’s Not Only A Gene List!
You can see how
apparently
deviating,
comparing to
others.

13. It’s Not Only A Gene List!
You can see if
the raw data are
valid and
comparable.

14. It’s Not Only A Gene List!
You can
distinguish
genes which are
likely to be
expressing only
in young people.

15. It’s Not Only A Gene List!
You can see if
they are closely
located. If so,
what/where
they are.

16. It’s Not Only A Gene List!
You can expand
the gene list to
a cluster of
sharing similar
expression
patterns.

17. It’s Not Only A Gene List!
You can see
where those
genes are on
pathways.

18. Not A Cascade, But A Cycle
DRY Side WET Side
New Idea to
new experiments
• Make the data viewable.
• Add statistical analysis
for better overviewing.
1.
• Report what they found.
• Ask for applying other
methods to clarify the
findings.
2.
Poor Findings

19. What Did Prevent The Cycle?
Costs of introducing software
• Commercial Software
• R and other command line based tools.
• Free Software with GUI by Academic Projects
Free Zero Cost
Purchasing cost Communication cost
Learning cost Communication cost
Learning cost Maintenance cost
Maintenance cost

20. A Solution to Reduce Cost In Total
• Subio Platform (free data browser)
• You can install on any PC/Macs.
• You can pass data via SSA files.
• Low-priced plug-ins
• Free online training.
Communication cost
Learning cost
Purchasing cost Maintenance cost
Learning cost

21. Subio Platform Works Best In A Team
Everyone can
go mining the
data by themselves,
but not all
need plug-ins.
Subio Platform is
not a replacement,
but a complement
of bioinformatics tools.
DRY Side
WET Side
Subio Platform
R / Stat. ToolsLinux Tools
Basic Plug-in
Advanced Plug-in
Subio Platform
Subio Platform
Subio Platform Subio Platform
Subio Platform
Subio Platform
AP
AP

22. Omics Data Are Juicy.
Nobody can extract all knowledge
by him/herself.
Teamwork
to maximize chances.
Design New
Experiments
to prove the hypothesis.
• More idea!
• More discussions!
• More discoveries!