IIC Information Flow

boorishadamantAI and Robotics

Oct 29, 2013 (3 years and 10 months ago)

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IIC Information Flow

Interesting ions?

Priority list of interesting ions

Empty priority list?

QA/QC?

Peptide identification

Protein identification

External Databases query

Y

N

Y

N

N

Step 1

Step 2

Step 3

sample

N

Y

IIC Architecture

Intelligent Instrument Control


Algorithms design


Design of the MS simulator, Task 1: Hazem


Spectra Deconvolution (
Data filters and noise removal) Task 2:
Mohamed Eltabakh


Protein/peptide identification Task3: Mingwu


Other simple algorithms, e.g., priority list,


IIC design and architecture (API, … ) Dr. Ahmed


Integrated Access to external databases (
protDB to support identification
and other BioDBs to support correlation with other information, for example
interactive proteins, related metabolites, etc.)


Experimental Simulation


In silico generation of spectrum, Task 1: Hazem


Algorithms implementation (simulation)

Intelligent Instrument Control


Integration with the instrument


Data collection (API)


Control of the instrument (API)


Actual implementation (algorithms)


Database design:


Data representation (streams, database)


Optimized storage of massive data


Raw data


Analyzed data


Experimental settings Dr.


Selection of a biology system, e.g., yeast


Two types of experiments


Target analysis


Global analysis

Intelligent Instrument Control


Prediction of upcoming peaks (
need more
data to build math model
)


Online data mining



Integrated Access to External Bio
-
databases


Context: Informatics tools


Glycosylated peptide identification


Non
-
glycosylated peptide identification


Goal: Enabling uniform access to different
protein databases

Integrated Access to External Bio
-
databases


Tasks


Database description and organization, and Schema
mediation


Query Processing


Data correlation


E.g., Sequence alignment


Non
-
overlapping schemas


Contradictory information


Web service enabled access


Settings: Target databases selection (focus)