Table 2 Differentially expressed genes in virus-infected versus uninfected primary NSCLC subtypes
From: Impact of viral presence in tumor on gene expression in non-small cell lung cancer
NSCLC Subtype | Virus (the number of tumors infected) | Gene Symbol | Average Expression when in Virus-uninfected | Average Expression in Virus-Infected | Fold Change | Up/Down in Virus-infected tumors | FDR q-value | Gene Description |
|---|---|---|---|---|---|---|---|---|
Squamous cell carcinoma (n = 10) | BLV (n = 8) | PSG4 | 58.325 | 6.142 | 0.105 | down | 0.033 | pregnancy specific beta-1-glycoprotein 4 |
CPB2 | 124.383 | 8.635 | 0.069 | down | 0.156 | carboxypeptidase B2 | ||
PlpPV.1 (n = 2) | GCM1 | 7.393 | 39.660 | 5.365 | up | 0.067 | glial cells missing homolog 1 | |
SMR3A | 9.305 | 86.279 | 9.273 | up | 0.099 | submaxillary gland androgen regulated protein 3A | ||
STLV.1 (n = 2) | MYEOV | 8.732 | 60.041 | 6.876 | up | 0.048 | myeloma overexpressed | |
SPRR3 | 3205.815 | 15.053 | 0.005 | down | 0.048 | small proline rich protein 3 | ||
FMN2 | 13.410 | 503.286 | 37.532 | up | 0.056 | formin 2 | ||
GATA4 | 8.371 | 44.251 | 5.287 | up | 0.074 | GATA binding protein 4 | ||
LOC105375229 | 8.548 | 87.248 | 10.207 | up | 0.120 | uncharacterized LOC105375229 | ||
SEMA5B | 70.639 | 302.948 | 4.289 | up | 0.120 | semaphorin 5B | ||
CNTNAP4 | 7.677 | 44.480 | 5.794 | up | 0.197 | contactin associated protein like 4 | ||
STLV.2 (n = 3) | CRISP2 | 7.371 | 91.073 | 12.355 | up | 0.015 | cysteine rich secretory protein 2 | |
Adenocarcinoma (n = 10) | Any (n = 8) | ACTC1 | 31.21 | 6.37 | 0.20 | down | 0.187 | actin, alpha, cardiac muscle 1 |
PCSK2 | 260.71 | 19.03 | 0.07 | down | 0.144 | proprotein convertase subtilisin/kexin type 2 | ||
HBV (n = 2) | CEACAM8 | 6.00 | 226.44 | 37.74 | up | 0.000 | carcinoembryonic antigen related cell adhesion molecule 8 | |
PRSS1 | 9.37 | 238.98 | 25.49 | up | 0.035 | protease, serine 1 | ||
CALB2 | 12.70 | 244.70 | 19.27 | up | 0.056 | calbindin 2 | ||
NUDT4 | 6.41 | 25.36 | 3.96 | up | 0.109 | nudix hydrolase 4 | ||
NAP1L6 | 5.57 | 19.92 | 3.57 | up | 0.071 | nucleosome assembly protein 1 like 6 | ||
CEP170B | 192.56 | 68.38 | 0.36 | down | 0.083 | centrosomal protein 170B | ||
MTND6P4 | 5241.96 | 1570.27 | 0.30 | down | 0.109 | mitochondrially encoded NADH:ubiquinone oxidoreductase core subunit 6 pseudogene 4 | ||
NUP62 | 1710.30 | 406.58 | 0.24 | down | 0.012 | nucleoporin 62 kDa | ||
Y73SV (n = 6) | MARCH3 | 14.08 | 36.38 | 2.58 | up | 0.151 | membrane associated ring-CH-type finger 3 | |
ANKRD29 | 32.33 | 9.34 | 0.29 | down | 0.151 | ankyrin repeat domain 29 | ||
NMNAT2 | 70.41 | 11.09 | 0.16 | down | 0.151 | nicotinamide nucleotide adenylyltransferase 2 | ||
QSER1 | 386.06 | 47.97 | 0.12 | down | 0.151 | glutamine and serine rich 1 |