RESOURCES

Synthetic Physical Interaction data

These data come from many screens published over several years. PubMed identification numbers are provided as column headers. Note that we include a few unpublished datasets. Please get in touch with us if you would like to publish these datasets, as they have not undergone peer review.

Here is the Excel file 🗂️. Each column is a different screen, and each row is a different GFP strain. Combinations of GFP and GBP that produce a growth defect (above threshold) are highlighted in red, whereas combinations that grow better than controls are highlighted in green. Combinations without values are shaded grey and were either not tested or failed quality control.

All the data are expressed as Log Growth Ratios (LGRs). This metric is the natural log of the growth ratio. The growth ratio is the size of the control colonies divided by the size of the experimental colonies. Consequently, LGRs >0 indicate poor experiment growth relative to the control. LGRs<0 indicate better growth of the experiment relative to the control.

Here 🗂️ is a list of GFP strains that often come up in our screens - we call these “frequent flyers”.

Note that data published before 2020 may differ slightly from the original published data as the raw data scans were re-analysed as part of the development of our ScreenGarden software and expressed as LGRs (we originally used Z-scores).

A more focused set of small screens was performed with different kinetochore proteins (published in 2020). These data are available here 🗂️.

FociQuant - An imageJ/FIJI package for quantifying fluorescence foci in images.

FociQuant scripts run on the software package FIJI, a microscope image compatible version of ImageJ, download FIJI from this site.

Click here for the different FociQuant scripts, and here is the publication.