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Table 5 Expression profiles comparison between NGS transcriptome profiling and NanoString nCounter® Gene Expression Assay

From: De novo transcriptome analysis shows differential expression of genes in salivary glands of edible bird’s nest producing swiftlets

   Illumina RNA-Seq NanoString Assay
Gene Pathway involved AFM AFC log2 AFM AFC log2
ANXA7 Gland morphology 1.89 35.49 4.23 951.94 1990.60 2.09
PRMT5 Amino phosphate metabolism 3.41 103.85 4.92 174.59 162.56 −1.07
HK1 Amino sugar metabolism 59,911.80 11,492.50 −2.38 724.05 926.69 1.28
   AMC AFC log2 AMC AFC log2
MGAT N-glycan biosynthesis 20.27 256.55 3.66 1337.15 2571.24 1.92
HADHB Fatty acid synthesis 7.72 53.47 2.79 2300.80 2619.53 1.14
ARF1 Vesicle biogenesis 17.24 73.10 2.08 5540.25 7430.06 1.34
RAB5 0.42 35.24 6.38 2276.53 3340.04 1.47
   AA EBN producing swiftlet log2 AA EBN producing swiftlet log2
CBPD Vesicle biogenesis 8.93 63.31 2.82 10,631.67 11,824.94 1.11
MGT 20.27 256.55 3.66 1337.15 2571.24 1.92
PDHB Alanine and aspartate metabolism 894.02 135.64 −2.72 1709.22 2106.15 1.23
ARF4 EGFR signalling pathway 0.68 48.95 6.16 3188.13 6970.01 2.19
BCAR1 6.40 51.83 3.01 275.97 777.42 2.82
CAV1 0.69 50.20 6.17 3476.29 5640.91 1.62
CEBPA 8.62 49.82 2.52 1874.12 2127.62 1.14
ELF3 6.81 603.60 6.46 2553.18 2836.8 1.11
EPS15 0.19 10.03 5.65 1242.43 1915.74 1.54
EPS8 0.75 13.66 4.17 1921.08 2849.26 1.48
JUN 0.41 11.50 4.80 2756.44 2784.66 1.01
REPS1 6.79 21.52 1.66 1148.45 1440.29 1.25
STAT3 2.45 53.38 4.44 985.67 1713.33 1.74
VAV2 49.55 239.91 2.27 68.78 554.00 8.06
ZPR1 1.07 13.24 3.61 1217.42 2078.00 1.71
ACAD Fatty acid synthesis 1.52 25.48 4.05 1778.95 2282.97 1.28
ALG2 N-glycan biosynthesis 6.54 90.86 3.79 952.67 1376.55 1.44
MGAT1 4.61 91.06 4.30 66.28 1089.17 16.43
RPN1 66.40 552.36 3.05 6806.71 9113.06 1.34
FUT8 13.17 84.07 2.67 467.63 2465.45 5.27
RPN2 1.06 71.02 6.05 2570.82 3420.57 1.33
G6PD Glutathione synthesis 0.18 46.66 8.00 85.54 209.11 2.44
RARB Vitamin A and carotenoid synthesis 11.84 49.92 2.07 1182.35 1190.05 1.01
RARG 8.23 296.86 5.17 527.79 1050.6 1.99
RBP2 12.19 45.13 1.88 943.37 1745.05 1.85
RDH10 0.86 10.44 3.59 4869.85 7627.12 1.57
RDH12 37.25 100.33 1.42 280.34 790.51 2.82
ILVBL 4.42 87.32 4.30 5.93 347.25 58.55
  1. AFC Aerodramus fuciphagus from cave
  2. AFM Aerodramus fuciphagus from man-made house
  3. AMC Aerodramus maximus from cave
  4. AA Apus affinis