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Table 1 Pre-sequencing quality control by droplet digital PCR

From: Single-cell sequencing of the small and AT-skewed genome of malaria parasites

Result Sample type MALBAC type Sample name (#) Pre-sequencing ddPCR assessment
Uniformity score AVG (SD)* Pfmdr1 CN AVG (SD)
Sequenced Single cell Optimized EOM (13) 248 (202) 2.6 (0.8)
LOM (10) 118 (69) 2.2 (1.3)
COM (2) 369 (–) 1.9 (0.8)
Non-optimized ENM (1) 18519 (–) 0.2 (–)
LNM (1) 13121 (–) 0.1 (–)
Bulk N/A Dd2_bulk (1) 30 2.7
Clinical_bulk (1)
Not sequenced Single cell Optimized EOM (4) 1012 (195) 3.7 (3.9)
LOM (4) 775 (683) 2.8 (2.1)
COM (2) –^ (–) 4.7 (6.6)
Non- optimized ENM (2) 13689 (–) 0 (–)
LNM (3) 1578 (–) 0.1 (0.1)
  1. EOM early-stage single parasites amplified by optimized MALBAC, LOM late-stage single parasites amplified by optimized MALBAC, COM clinical single parasites amplified by optimized MALBAC, ENM early-stage single parasites amplified by non-optimized MALBAC, LNM late-stage single parasites amplified by non-optimized MALBAC, AVG average, SD standard deviation
  2. *Uniformity scores were calculated when all of the six genes were detected by ddPCR in the sample
  3. ^Due to the lack of ddPCR detection of some genes in COM samples, the uniformity score could not be calculated. (–) Indicates only one sample was included in the calculation