 |
Page History
...
| Page info |
|---|
...
|
| Section | |||||||||||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
Mission Statement
The National Cancer Institute (NCI) Cancer Biomedical Informatics Grid (caBIG®) Nanotechnology Working Group was established in 2008 for researchers with a specific interest in informatics and computational approaches to nanotechnology, with a particular emphasis on nanomedicine. The goal of this working group is to demonstrate the scientific potential of federating nanotechnology databases through pilot projects aimed at integrated semantic search and retrieval of nanomedicine and nanotoxicology datasets that are applicable across nanoscience. The caBIG® Nanotechnology Working Group (caBIG® Nano WG) comprises over 20 active participants from academia, government and industry with diverse interests.
Objectives
Long-term objectives
This Working Group is motivated by two high-priority nanomedicine informatics applications:
- The rational design of nanomaterials customized for use in nanomedicine.
- The development of robust structure-activity relationships to predict nanomaterial toxicity and to tailor this toxicity for therapeutic applications and/or to reduce hazards to health, safety and the environment.
These applications will be enabled by broad computational capability applied to nanotechnology research. The development of such capability has led to the following long-term objectives for the caBIG® Nano WG:
- To demonstrate a federated system of interoperable nanotechnology databases in the context of existing datasets and scientifically-relevant applications and user scenarios for nanotechnology.
- To develop a framework for uniform and comprehensive data curation and annotation while ensuring that data reliability and reproducibility is evaluated by those most familiar with both the data and the methods used to produce it.
- To establish a common framework for describing and accessing nanotechnology data using common data elements.
- To encourage the development of effective data mining standards and tools that are particularly suited for nanomaterial safety assessment, safe-by -design approaches, establishing nanotoxicology structure-activity relationships and nanomaterials characterization databases used for accompanying these objectives.
- To enable nanomedicine data search, sharing, and analysis through ontology development. One project directly related to this goal is the NanoParticle Ontology: http://nano-ontology.org
.Wiki Markup {multi-excerpt-include:wikicontent:Exit Disclaimer to Include|name=ExitDisclaimer|nopanel=true}
...
- To
...
- facilitate
...
- nanomedicine
...
- and
...
- nanotoxicology
...
- data
...
- sharing
...
- and
...
- database
...
- interoperability
...
- through
...
- the
...
- development
...
- of
...
- standardized
...
- spreadsheet-based
...
- formats
...
- for
...
- nanotechnology
...
- datasets.
...
- One
...
- project
...
- directly
...
- derived
...
- from
...
- this
...
- goal
...
- is
...
- the
...
- ISA-TAB-Nano
...
- standard
...
- for
...
- data
...
- submission:
...
...
.Wiki Markup {multi-excerpt-include:wikicontent:Exit Disclaimer to Include|name=ExitDisclaimer|nopanel=true}
...
- To
...
- encourage
...
- adoption
...
- and
...
- use
...
- of
...
- a
...
- shared
...
- informatics
...
- infrastructure
...
- by
...
- the
...
- nanotechnology
...
- and
...
- broader
...
- communities.
...
Short-term
...
goals
...
To
...
realize
...
the
...
long-term
...
objectives
...
outlined
...
above,
...
the
...
caBIG®
...
Nano
...
WG
...
has
...
established
...
several
...
short-term
...
goals
...
with
...
6-12
...
month
...
timeframes.
...
Defining
...
basic
...
nanomaterial
...
characterizations
...
.
...
Careful
...
physical,
...
structural,
...
and
...
chemical
...
characterizations
...
are
...
essential
...
ingredients
...
for
...
nanomedicine
...
informatics
...
applications.
...
While
...
the
...
fields
...
of
...
structural
...
biology,
...
genome
...
sequencing,
...
chemical
...
synthesis,
...
microarray
...
analysis,
...
etc.
...
have
...
defined
...
basic
...
assays
...
for
...
their
...
respective
...
technologies,
...
the
...
field
...
of
...
nanomedicine
...
lacks
...
a
...
set
...
of
...
well-defined
...
and
...
"minimal"
...
characterization
...
methods
...
for
...
nanomaterials.
...
There
...
is
...
an
...
urgent
...
need
...
in
...
the
...
field
...
to:
...
- Identify
...
- and
...
- describe
...
- the
...
- common
...
- types
...
- of
...
- nanomaterial
...
- characterizations,
...
- leveraging
...
- existing
...
- work
...
- by
...
- IANH,
...
- ASTM,
...
- ISO,
...
- and
...
- other
...
- organizations.
...
- Draft
...
- a
...
- standard
...
- for
...
- the
...
- minimal
...
- set
...
- of
...
- characterizations
...
- needed
...
- for
...
- nanomedicine
...
- informatics
...
- activities.
...
- The
...
- Working
...
- Group
...
- currently
...
- has
...
- broad
...
- representation
...
- from
...
- a
...
- variety
...
- of
...
- relevant
...
- agencies
...
- to
...
- undertake
...
- this
...
- task
...
- in
...
- a
...
- collaborative
...
- and
...
- inclusive
...
- manner.
...
Completed
See Nanocharacterization Library
| Wiki Markup |
|---|
{multi-excerpt-include:wikicontent:Exit Disclaimer to Include|name=ExitDisclaimer|nopanel=true} |
...
Standardizing
...
nanomaterial
...
characterization
...
protocols
...
.
...
Several
...
Working
...
Group
...
members
...
have
...
noted
...
that
...
standard
...
characterizations
...
discussed
...
above
...
are
...
only
...
useful
...
if
...
the
...
protocols
...
for
...
these
...
characterizations
...
are
...
themselves
...
standardized
...
and
...
reproducible.
...
Furthermore,
...
evidence
...
from
...
inter-laboratory
...
studies
...
by
...
ASTM
...
and
...
IANH
...
suggests
...
that
...
there
...
is
...
significant
...
variability
...
in
...
results
...
from
...
existing
...
"standard"
...
protocols,
...
suggesting
...
that
...
current
...
mechanisms
...
for
...
protocol
...
communication
...
are
...
ineffective.
...
This
...
nanotechnology
...
problem
...
is
...
currently
...
under
...
investigation
...
by
...
ASTM
...
and
...
ISO
...
groups.
...
The
...
Working
...
Group
...
assists
...
in
...
this
...
effort
...
by:
...
- Collecting
...
- standard
...
- methodologies
...
- related
...
- to
...
- the
...
- characterization
...
- activities
...
- described
...
- above.
...
- Providing
...
- a
...
- forum
...
- with
...
- a
...
- diverse
...
- group
...
- of
...
- participants
...
- for
...
- discussing
...
- the
...
- best
...
- mechanisms
...
- for
...
- sharing
...
- nanotechnology
...
- characterization
...
- protocols.
...
- Augmenting
...
- data
...
- with
...
- computational
...
- data.
...
On
...
hold
...
Defining
...
standards
...
for
...
nanomedicine
...
data
...
sharing
...
and
...
exchange.
...
Currently,
...
access
...
to
...
relevant
...
data
...
is
...
a
...
major
...
barrier
...
to
...
the
...
realization
...
of
...
the
...
nanomedical
...
goals
...
of
...
rational
...
nanomaterial
...
design
...
and
...
toxicity
...
prediction.
...
While
...
a
...
few
...
detailed
...
datasets
...
exist
...
for
...
nanomaterial
...
toxicity
...
(ONAMI),
...
and
...
nanomaterial-cellular
...
interactions
...
(Shaw
...
and
...
others)
...
most
...
of
...
the
...
necessary
...
data
...
is
...
dispersed
...
across
...
a
...
wide
...
array
...
of
...
nanotechnology
...
data
...
resources.
...
Therefore,
...
it
...
is
...
essential
...
to
...
implement
...
an
...
infrastructure
...
to
...
ensure
...
that
...
these
...
data
...
can
...
be
...
shared
...
among
...
researchers
...
and
...
data
...
resources.
...
To
...
develop
...
this
...
(federated)
...
data
...
sharing
...
infrastructure,
...
the
...
Working
...
Group
...
has
...
undertaken
...
development
...
of
...
the
...
ISA-TAB-Nano
...
spreadsheet
...
form,
...
based
...
on
...
the
...
ISA-TAB
...
framework,
...
to
...
facilitate
...
submission
...
of
...
data
...
by
...
experimental
...
researchers.
...
The
...
ISA-TAB-Nano
...
effort
...
is
...
translating
...
the
...
great
...
success
...
of
...
MAGE-TAB
...
microarray
...
and
...
similar
...
formats
...
for
...
enabling
...
data
...
sharing
...
in
...
other
...
communities.
...
The
...
ISA-TAB-Nano
...
project
...
is
...
actively
...
growing
...
and
...
under
...
development
...
as
...
an
...
ASTM
...
standard
...
(WK28974
...
at
...
...
)
| Wiki Markup |
|---|
{multi-excerpt-include:wikicontent:Exit Disclaimer to Include|name=ExitDisclaimer|nopanel=true} |
...
Completed
Ongoing development based on community requirements and feedack: See ISA-TAB-Nano
...
| Wiki Markup |
|---|
{multi-excerpt-include:wikicontent:Exit Disclaimer to Include|name=ExitDisclaimer|nopanel=true} |
...
Providing
...
vocabulary
...
and
...
semantic
...
support
...
to
...
the
...
nanomedicine
...
community.
...
Data
...
generated
...
from
...
nanotechnology
...
research
...
are
...
so
...
diverse
...
and
...
large
...
in
...
volume
...
that
...
it
...
is
...
difficult
...
to
...
share
...
and
...
efficiently
...
use
...
them
...
without
...
informatics
...
tools.
...
In
...
particular,
...
ontologies
...
that
...
provide
...
a
...
unifying
...
knowledge
...
framework
...
for
...
annotating
...
the
...
data
...
are
...
required
...
to
...
facilitate
...
the
...
semantic
...
integration,
...
knowledge-based
...
searching,
...
unambiguous
...
interpretation,
...
mining
...
and
...
inferencing
...
of
...
the
...
data
...
using
...
informatics
...
methods.
...
The
...
caBIG®
...
Nano
...
WG
...
supports
...
the
...
continuing
...
development
...
and
...
application
...
the
...
of
...
NanoParticle
...
Ontology
...
(NPO),
...
which
...
is
...
developed
...
within
...
the
...
framework
...
of
...
the
...
Basic
...
Formal
...
Ontology
...
(BFO),
...
and
...
implemented
...
in
...
the
...
Ontology
...
Web
...
Language
...
(OWL)
...
using
...
well-defined
...
ontology
...
design
...
principles.
...
The
...
NPO
...
was
...
developed
...
to
...
represent
...
knowledge
...
underlying
...
the
...
preparation,
...
chemical
...
composition
...
and
...
characterization
...
of
...
nanomaterials
...
involved
...
in
...
research.
...
Ongoing
...
development
...
based
...
on
...
community
...
requirements
...
and
...
feedback
...
More
...
information
...
can
...
be
...
found
...
at
...
...
| Wiki Markup |
|---|
{multi-excerpt-include:wikicontent:Exit Disclaimer to Include|name=ExitDisclaimer|nopanel=true} |
...
Schedule
spreadsheet listing upcoming speakers
| Wiki Markup |
|---|
{multi-excerpt-include:wikicontent:Exit Disclaimer to Include|name=ExitDisclaimer|nopanel=true} |
...
Participation
...
and
...
Communication
...
The
...
Nanotechnology
...
Working
...
Group
...
is
...
a
...
working
...
group
...
of
...
the
...
caBIG®
...
ICR
...
Workspace
...
and
...
is
...
expected
...
to
...
work
...
closely
...
with
...
the
...
caBIG
...
community,
...
including
...
other
...
Workspaces
...
and
...
ICR
...
Working
...
groups.
...
Participation
Nanotechnology working group calls are open to anyone interested in participating in and contributing to the working group discussions and activities.
Meetings
Nano WG meetings will take place on every Thursday at 11 am ET.
- Teleconference call-in: 877-985-6980,
...
- passcode:
...
- 654
...
- 255
...
- Web
...
- conference
...
- is:
...
...
Group Communications
Group communications will be managed through the Working Group wiki site (here) and the Nano-Standards listserv.
