Table 2

Most Highly Expressed Genes Enriched in Differentiated Cell Types of the SAE of Healthy Nonsmokers1

Differentiated cell type

Gene symbol

Gene title

Expression level in SAE (RPKM)2


Ciliated

TUBB2C

tubulin, beta 2C

1161

ACTG1

actin, gamma 1

513

TUBA1A

tubulin, alpha 1a

342

HSPA1A

heat shock 70 kDa protein 1A

266

HSPA1B

heat shock 70 kDa protein 1A///heat shock 70 kDa protein 1B

260

TEKT2

tektin 2 (testicular)

146

DYNLT1

dynein, light chain, Tctex-type 1

131

DNAI1

dynein, axonemal, intermediate chain 1

108

DNALI1

dynein, axonemal, light intermediate chain 1

108

DNAI2

dynein, axonemal, intermediate chain 2

105

SPAG6

sperm associated antigen 6

101

DYNLRB2

dynein, light chain, roadblock-type 2

100

CROCC

ciliary rootlet coiled-coil, rootletin

84

PPP2R1A

protein phosphatase 2, regulatory subunit A, alpha

73

DNAH9

dynein, axonemal, heavy chain 9

63

CCDC146

coiled-coil domain containing 146

60

RSPH4A

radial spoke head 4 homolog A (Chlamydomonas)

59

CALM3

calmodulin 3 (phosphorylase kinase, delta)

56

TCTEX1D2

Tctex1 domain containing 2

50

IFT140

intraflagellar transport 140 homolog (Chlamydomonas)

49

Mucins and mucus components

AGR2

anterior gradient homolog 2

166

TFF3

trefoil factor 3 (intestinal)

149

MUC1

mucin 1, cell surface associated

123

MUC5B

mucin 5B, oligomeric mucus/gel-forming

118

MUC4

mucin 4, cell surface associated

93

MUC15

mucin 15, cell surface associated

28

MUC20

mucin 20, cell surface associated

27

MUC16

mucin 16, cell surface associated

20

MUC13

mucin 13, cell surface associated

15

MUCL1

mucin-like 1

3.90

TFF1

trefoil factor 1

2.09

PARM1

prostate androgen-regulated mucin-like protein 1

1.85

EMR2

egf-like module containing, mucin-like, hormone receptor-like 2

1.38

GCNT3

glucosaminyl (N-acetyl) transferase 3, mucin type

0.81

MUC2

mucin 2, oligomeric mucus/gel-forming

0.60

MUC6

mucin 6, oligomeric mucus/gel-forming

0.58

MUC12

mucin 12, cell surface associated

0.46

Basal

MALAT1

metastasis associated lung adenocarcinoma transcript 1 (non-protein coding)

461

CST3

cystatin C

295

PFN1

profilin 1

224

ALDOA

aldolase A, fructose-bisphosphate

183

SQSTM1

sequestosome 1

106

MT2A

metallothionein 2A

91

ENO1

enolase 1, (alpha)

89

KRT7

keratin 7

83

MYL12A

myosin, light chain 12A, regulatory, non-sarcomeric///myosin, light chain 12B, regulatory

70

FLNB

filamin B, beta

69

BRI3

brain protein I3///hypothetical protein LOC644975

62

PLEC1

plectin

60

EIF5A

eukaryotic translation initiation factor 5A

60

GNB1

guanine nucleotide binding protein (G protein), beta polypeptide 1

57

KRT5

keratin 5

54

PSMA7

proteosome subunit alpha type 7

53

CTTN

cortactin

52

JUP

junction plakoglobin

51

MGST1

microsomal glutathione S-trasnferase

51

LMNA

laminin A

49

Neuro- endocrine

ENO2

enolase 2 (gamma, neuronal)

23

GRP

gastrin-releasing peptide

0.82

UCHL1

ubiquitin carboxyl-terminal esterase L1 (ubiquitin thiolesterase)

0.65

SCG2

secretogranin II

0.48

ASCL1

achaete-scute complex homolog 1 (Drosophila)

0.34

CHGA

chromogranin A (parathyroid secretory protein 1)

0.32


1 List includes genes known to be enriched in expression in ciliated cells (Dvorak et al. 2010) [52], secretory cells (consisting of all mucins and mucin components), basal cells (Hackett et al. 2011) [30], and neuroendocrine cells (Carolan et al. 2008) [31]. The small airway epithelium expression level was determined and the top 20 highly expressed (or all genes expressed from mucin list and neuroendocrine list, i.e. above threshold of 0.125) were tabulated in descending order of expression level.

2 Median for n = 5 nonsmokers.

Hackett et al. BMC Genomics 2012 13:82   doi:10.1186/1471-2164-13-82

Open Data