Add SU example note

content/Cell Preparation.md

@@ -0,0 +1,54 @@
+---
+title: Cell Preparation
+draft: false
+tags:
+  - su
+  - biology
+---
+
+## Introduction
+
+The biological samples are introduced in the PDMS device via spotting on a glass slide. The biological samples can be:
+- cells, yeast (S. cerevisae) or bacterial (_E. coli_)
+- spores, yeast (_S. cerevisae_) or bacterial (_B. subtilis_)
+
+This protocol descibes how to prepare the cells/spores for spotting.
+
+## Procedure
+
+### _S. cerevisae_ (Yeast GFP library strains)
+
+1. Pick a glycerol stock from the strain of choice and spread on SD-His plates. The current available strains are:
+  - [RPL8A / YHL033C](https://www.yeastgenome.org/locus/S000001025)
+  - [RNR3 / YIL066C](https://www.yeastgenome.org/locus/S000001328)
+  - [HUG1 / YML058W-A](https://www.yeastgenome.org/locus/S000007472)
+2. Incubate the plate(s) at 30°C for 18-48 hr.
+3. Pick one colony from the strain(s) of choice and inoculate in 4-10 ml of YPD or SD-His medium.
+4. Incubate for 48 hr at 30°C and 130 rpm.
+5. _Optional:_ Centrifuge the cells at 2400 rpm for 3 min. Resuspend the cells in 100 ul of SD-His medium.
+6. Place the cells in a 96-well plate for spotting.
+
+### _E. coli_
+
+1. Pick a glycerol stock from the strain of choice and spread on LB plates with the appropriate antibiotic (e.g. Cam). The current available strains are _E. coli_ transformed with the following plasmids (all have Cam resistance):
+  - [BBa_J364000](http://parts.igem.org/Part:BBa_J364000)
+  - [BBa_J364002](http://parts.igem.org/Part:BBa_J364002)
+  - [BBa_J364007](http://parts.igem.org/Part:BBa_J364007)
+2. Incubate the plate(s) at 37°C overnight.
+3. Pick one colony from the strain(s) of choice and inoculate in 4 ml of LB medium + antibiotic (e.g. Cam).
+4. Incubate overnight at 37°C and 130 rpm.
+5. Centrifuge the cells at 3000 rpm for 5 min.
+6. Resuspend the cell pellet in 100 ul LB with 10% glycerol and appropriate antibiotic (e.g. Cam).
+7. Place the cells in a 96-well plate for spotting.
+
+## Spore preparation
+
+### _S. cerevisae_ (Yeast GFP library strains mated with a query MATα strain)
+
+1. Place well-concentrated spores (in sporulation medium) in a 96-well plate for spotting.
+2. _Optional:_ Centrifuge the spores at 2400 rpm for 3 min. Resuspend the cells in 100 ul of water.
+
+## References
+
+1. [Volpetti et al. (2017). A microfluidic biodisplay. ACS synthetic biology](https://pubs.acs.org/doi/10.1021/acssynbio.7b00088)
+2. [Dénervaud et al (2013). A chemostat array enables the spatio-temporal analysis of the yeast proteome. PNAS](https://www.pnas.org/doi/abs/10.1073/pnas.1308265110)

content/index.md

@@ -13,3 +13,4 @@ See the [documentation](https://quartz.jzhao.xyz) for how to get started.
 - [[Double Layer]] - PDMS chip fabrication
 - [[PDMS Design]] - PDMS chip design iterations
 - [[Alignment and Bonding]] - PDMS Alignment and Bonding
+- [[Cell Preparation]]