singlecell platforms

1. SingleCell Platforms
Albert Vilella Bertran, PhD.
http://twitter.com/albertvilella

2. Contact
Albert Vilella Bertran, PhD.
https://twitter.com/ALBERTVILELLA
https://tinyurl.com/avilellalinkedin
This slide deck is available upon request.

3. #SingleCell #Table bit.ly/scelltable
#SingleCell #Platforms bit.ly/scplatforms
Analysis of current SingleCell platforms

15. Berkeley lights

16. Celsee

17. Dolomite Bio

18. SureCell ddSeq

19. Abbreviations
FACS Fluorescence-activated cell sorting
CTC Circulating tumor cells
qPCR Quantitative polymerase chain reaction
RT-qPCR Reverse transcription quantitative polymerase chain
reaction
RNA/DNA-Seq RNA/DNA sequencing
IHC Immunohistochemistry
MS Mass spectroscopy
ddPCR Digital droplet PCR
LCM Laser capture microdissection
ICP Inductively coupled plasma
WGA Whole genome amplification
CE-IVD European Conformity for In Vitro Diagnostic Medical Devices
FDA Food and Drug Administration
WTA
BD
Whole transcriptome amplification
Becton, Dickinson and Company
RT Reverse transcription
Drop-seq Sequencing in droplets
inDrop-seq Indexing in DROPlets and sequencing
SCRB-seq Single-Cell RNA Barcoding and Sequencing
UMI Unique molecular identifier

20. Single Cell slidesCelsee

21. Klenow poly-A extension possible to turn
into different primer
Celsee

22. 70-90% of cells are productive (viability)Celsee

23. Possibility to label (barcode) cellsCelsee

24. Celsee

25. 200ul pipetted into the slide
Celsee

26. Celsee

27. >70-90% capture rate (viability)
<1% duplex rates
Slide-based: ability to visualize cells under microscope / fluorescence
Microwells: 30 by 50 micron diameter hexagon
20 microns diameter beads (solid) - can be adapted in the lab: klenow extension on the beads
to target something specific instead of poly-A
Automated removal of beads only with cDNA (less noise) - standard library prep outside the
box
2x150bp MiSeq or other
Celsee

28. Genesis instrument: £69,000 list price -- 30-40 worldwide -- 10-12 Europe
Kits of 4 at £2800 -- £650 per run (excluding library prep)
+ NEB prep Next Ultra 4
+ RT Thermo Superscript (IV = 4?) = avg £150 (£120-170)
Per run cost (100K slide): £650 + £150 = £800
Bigger slides: 250K slide at £1050 per slide kit / 1M slide later this year (100K cells x experiment)
Celselect = select cells by size (£300 per Celselect slide kit)
Antibody tagging: Biolegend or others
Celsee

29. Reagents cost comparison per
500 productive cells and 1000
productive cells with Celsee / 10x
/ C1 System

30. Contact
Albert Vilella Bertran, PhD.
https://twitter.com/ALBERTVILELLA
https://tinyurl.com/avilellalinkedin
This slide deck is available upon request.