Difference between revisions of "Sub Cellular Localization"
From Protein Prediction 2 Winter Semester 2014
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* Visualization by: |
* Visualization by: |
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** Grouping proteins based on localization in the cell component. |
** Grouping proteins based on localization in the cell component. |
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− | ** Highlighting cell's compartments ( |
+ | ** Highlighting cell's compartments (dynamic). |
** Updating cell’s compartments based on particular protein’s score/Confidence (dynamic). |
** Updating cell’s compartments based on particular protein’s score/Confidence (dynamic). |
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|[[File:check.jpg|center|50px|50px]] |
|[[File:check.jpg|center|50px|50px]] |
Revision as of 13:36, 2 January 2015
Sub Cellular Localization in Cell
Contents
Objective
"To visualize biological cells and highlight by a user selected sub-cellular compartments in a way that they stand out from the un-selected ones"
GUI mockups
- User experience
- Interactivity
- Easy identification of the number of proteins in cell compartment
- Good visualization of data
- Functionality
- Parsing the user input “txt” file
- Mapping the file content into visualization
- Features
- Good color scheme to highlight :
- Number of proteins in a compartment
- Score of each protein (confidence)
- Good color scheme to highlight :
Application design
- Expected technical difficulties
- Wrong file input format
- Correct identification of localization
- Libraries
DHTML, JavaScript Draw Line, Circle, Ellipse (Oval), Polyline, Polygon, RectangleImage map generator- D3 Data-Driven Documents - http://d3js.org/
Data
- Remarks about input format
- Text file must contain proteins of only one type of cell
- Text file format :
- Cell type (File’s first line)
- Protein id
- Score (certainty of existence of particular protein within a cell compartment)
- Localization (component)
- User’s file can have more than 3 columns but additional columns will not be executed
Roadmap
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Week 1 |
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Week 2 |
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Week 3 |
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Week 5 |
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Implementation
GitHub Link
The link to the GitHub account is : GitHub Sub-cellular localization in cell