What do we do?

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g (1 … 4’156)

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Yeast ORF-GFP fusion library 4156 strainsSynthetic promoters library 200 strains

Cycling through the chamber array to aquire brightfield and fluorescence images1.5s. / chamber 20 min / 1152 strains

5D dataTemporal resolution Dynamic changesSpatial resolution LocalizationGenomic resolution 70% of yeast genome

Overview

Movie list

Queries

Single movie infoMultiple Movie info

Database

Data structure

Project 1 – YGFP dynamics Project 2 – Synthetic promoters

Experiment 1Eg: /TL_20100226

Movie 1Eg: /pos1_L

BF images*.tif

Bulk datayORF_foldInduction.txtyORF_timeCourse.txt

Manual annotationmanualAnnotation.txt

Fluo Images*.tif

Movie infoexpData.txt

Strain infoYGFP_libInfo.txt

Other ?

Row, Colum, Time stamp, ORF ID

ORF ID, Gene name, UCSF localization, FACS data, mRNA data, GO annotation ?

Quality check, Intensity changes, Localization changes, Comments

Main intensity, Localization changes

Simulation parameters, Segmentation/tracking info (cell label, outline, track, …), Single cell data (Intensity, Localization, Area, …)

DescriptionexperimentInfo.txt

Single-cell infoEg: /Pos1_L/out.xml

Queries

• Project• Experiment• Gene name, ORF ID

• Position within the chip (row, column)

• Intensity, Fold change (manual, bulk or single-cell data)• Localization, Localization Changes (manual, bulk or single-cell data)

• UCSF localization• Microarray data• FACS data• GO annotation

• Unique gene option?Which one to pick? Rating?

Output:- List of genes / ORF ID- Tick selection- Display options

- 1 choice movie, single cell data- n choices overlay graphs

- Export options

Display a single movie

Fluo movie BF movie

Choose analysis - Analysis 1- Analysis 2, …

Display options- Cell outline, label- Single-cell track- Select single cell and

highlight the trace in the graphs

Graph #1- Cells intensity over time

- Cells area over time- Localization over time

- correlation plots (feat.1 vs feat.2)

Distribution, single traces, …

Graph #2Same options as Graph #1

Movie facts- Gene Name- GO- …

Export Graphs png, epsExport source data for editing in Matlab / R

Tracker display – An example

Display multiple movies

Graph #1- Mean intensity over time

- Cells area over time- Localization over time

- correlation plots (feat.1 vs feat.2)

Dendogram (clustering), Traces overlay

Graph #2Same options as Graph #1

Table (Changeable column)

Check ORF ID gene name MA – quality check MA - comments GO process GO function

Options- Check/uncheck to modify the graphs below- Export new selection/table

Export Graphs png, epsExport source data for editing in Matlab / R

Database available to the public

Limited number of functionality

– Queries by gene names, … (no experiment structure)– Acces to the raw images and download– Acces to the data and export– Display tools