Karissa Milbury
21 days ago
Method

Dilution spot assay for yeast

Dilution spot assay for yeast

This is a quick run-through of the protocol to make dilution spot plates for S. cerevisiae. This assay is great for identifying broad fitness defects but isn't quantitative. Note that temperatures for temperature sensitive strains will need adjustment from the standard 30°C. Even if you aren't aware of any temperature-rela...
Efi Kontou
2 months ago
Method

Preparing micro-scale fermentations of bacteria/fungi for untargeted metabolomics analysis

Preparing micro-scale fermentations of bacteria/fungi for untargeted metabolomics analysis

Here is the protocol I used for sample preparation of small-scale cultivations for untargeted metabolomics studies: Note that no sample preparation method is perfect, and at every step of the way you might lose compounds 1) Grow the bacteria/fungi in 4x24-wells using 3.14 mL of media + spore inoculum (O.D. = 0.1) + 5 glas...
Synthetic Biology Untargeted metabolomics LC-MSMass SpectrometrySample Preparation Positive pressure manifold Mass Spectrometers LC-MS Nitrogen stream
Di Hu
9 months ago

SPRI bead size selection guidance for histone marks

SPRI bead size selection guidance for histone marks

You've prepared your epigenetic library for profiling histone marks. If you are not using the Zymo ChIP DNA Clean & Concentrator Kit for final elution, you may want to size select for your library region of interest using SPRI bead clean up. How much bead do you add relative to your volume of library? Because adapters for ...
Di Hu
9 months ago

Best way to cryopreserve cells for chromatin assays

Best way to cryopreserve cells for chromatin assays

BAMBANKER Open to suggestions! This has worked incredibly well for me for both cell lines and FACS-purified cell populations from post-mortem human tissue. Will put in my manuscript reference as it becomes available. This has worked well for me for native ChIP-seq, CUT&Tag, and newer versions of CUT&Tag (to be updated by ...