When I was in @hitenmadhani.bsky.social lab, we used a blend of lab-purified taq and Pfu to do colony PCRs on Cryotococcus that was robust. You can purchase Phusiom from the UCB MacroLab qb3.berkeley.edu/facility/qb3...

Yup, but any of the current single cell antibody panels should work.

Hi John, we do think it's possible to capture protein information using tagged antibodies that have polyA barcodes or if using direct capture ADTs, spike in a splint oligo.

all y'all academics who have been naively convinced IDC only goes to useless sub deans are about to find out. they are going to claw the real costs of research out of your unchanged direct costs.

Indirect rates are not determined by NIH. Instead, they are the product of elaborate negotiations between each institution and the “cognizant federal agency” according to an Office of Management and Budget document, Circular A-21.

1/n

Congratulations Chris!

No worries Andrew. Thank you for the responses, this info is helpful. Can’t wait to try DV on our future system!

Hi Andrew, we are spec’ing out a server. It seems DV utilizes extensions on Intel CPUs, so we’ll go with them. Any thoughts on the L4 vs L40S. Is there a possibility DV will require >16GB GPU memory in the near future?

Thanks!

We only upgraded one of our systems as a “just in case”. Our update required an engineer visit so that might also play a role?

We are currently offering 10X GEX lane queues (28x10x10x90). If there is enough interest for a PE50/10X ATAC (51x12x24x51), we will start that as well.

Some preps recommend different cycles (10X SC and for Visium a qPCR titration). With clinical metagenomic samples, we are not comparing across samples so no worries there.

We’ll look at for bulk-RNA-seq experiments but even with constant cycles, the n6 will give you quant and pooling info.

UCSF users, we will have a training to be scheduled the second week of January. Details will go out on our listserve and posted on our website.

The iconPCR solves these issues. Samples will be within 2-fold concentration of each other and the software uses the fluorescence level to calculate relative concentrations and pooling volumes to further normalize pools. You get a pool that’s ready to go on your production scale sequencing runs.

This works fairly well but adds time and cost and some samples are amplified too little, and others too much, resulting in adapter dimer carryover in bubble products.

We see many applications but our first one will be metagenomics from clinical samples where inputs vary widely. To Amie this high throughput, we have been pooling and equal volume of many samples after PCR, doing a cleanup on the pool, running a MiSeq nano, and repooling based on read distribution.

The system will place each sample at a low temp hold once they have reached a user-defined set point. If anyone used the old Kapa Real Time NGS amp kit, this allows you to do this automatically with your choice of PCR mix. Just add a little bit of SYBR Green.