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Table 3 Top 15 overrepresented pathways associated with short-term PM2.5 exposure for girls and boys

From: Newborn sex-specific transcriptome signatures and gestational exposure to fine particles: findings from the ENVIRONAGE birth cohort

Sex

Pathway

Effective /total size

# ↓ genes

Contributing genes

P-value

Girls

 

mRNA Processinga

124/126

32

PTBP2↑; SRSF1↑; SFPQ↑; SNRNP40↑; CELF1↑; HNRNPU↑; TRA2B↑; SRSF6↑; HNRNPH1↑; PRPF40A↑

1.9E-03

Ephrin signaling

16/22

5

NCK2↑; SDCBP↑; ARHGEF7↑

8.4E-03

Ectoderm Commitment Pathwaya

87/129

30

PDE7A↑; SDCBP↑; MZF1↑; C1GALT1↑ NF2↑; OGT↑; TSC22D1↑

9.1E-03

IL-4 Signaling Pathwaya

52/53

27

IKBKB↑; PTPN11↑; IL2RG↓; ATF2↑; RPS6KB1↑

1.3E-02

Physiological and Pathological Hypertrophy of the Hearta

20/24

8

IL6ST↑; CAMK2D↑; PPP3CB↑

1.6E-02

miR-targeted genes in lymphocytes - TarBase

362/482

108

Top 5 out of 17 genes: MBNL1↑; SUCLG2↑; TGFBR2↑; GTPBP3↑; DMTF1↑

1.9E-02

Basal transcription factors - Homo sapiens (human)a

39/45

13

TAF8↑; GTF2H2C_2↑; TAF1↑; TAF11↑

2.1E-02

Spliceosome - Homo sapiens (human)a

127/130

33

HNRNPU↑; PRPF40A↑; RBM25↑; SNRNP40↑; THOC1↑; SRSF1↑; SRSF6↑; TRA2B↑

2.2E-02

Activated TLR4 signalinga

110/120

47

ATF2↑; SIGIRR↑; IL6ST↑; PTPN11↑; IKBKB↑; IRF3↑; UBE2D3↑

2.9E-02

Insulin Pathway

44/47

13

RPS6KB1↑; PTPN11↑; NCK2↑; EXOC7↑

3.0E-02

Salmonella infection - Homo sapiens (human)

68/86

38

PFN1↓; RAB7A↓; DYNC1H1↑; WAS↓; PKN2↑

3.7E-02

Amphetamine addiction - Homo sapiens (human)a

48/68

21

PPP3CB↑; CAMK2D↑; ATF4↑; ATF2↑

4.0E-02

Generic Transcription Pathway

367/478

91

Top 5 out of 16 genes: ZNF625↑; ZNF37A↑; ZNF419↑; ZNF205↓; ZNF12↑

4.0E-02

Direct p53 effectorsa

123/147

47

PMS2↑; KAT2A↑; BNIP3L↑; TGFA↓; PIDD1↑; AIFM2↑; HIC1↓

4.9E-02

Boys

 

Lidocaine (Local Anaesthetic) Action Pathwaya

19/31

13

CYP3A4↓; CACNA2D2↓; ATP1A4↑; ATP1B1↑; ATP1B3↑; ADRA1A↓

9.9E-04

Signaling events mediated by PRLa

20/23

4

CDK2↑; BCAR1↓; RABGGTA↑; PTP4A3↑; ROCK1↑; ITGB1↑

1.3E-03

Protein processing in endoplasmic reticulum - Homo sapiens (human)a

156/168

36

Top 5 out of 19 significant genes: ATF4↑; SEC31A↑; UBQLN3↓; UGGT1↑; CRYAB↓

6.2E-03

Basigin interactionsa

19/30

6

ATP1B3↑; SLC3A2↑; ATP1B1↑; CAV1↓; ITGB1↑

6.3E-03

Morphine Action Pathwaya

27/44

16

DNAJB11↑; CACNA2D2↓; ATP1A4↑; ATP1B1↑; ATP1B3↑; ADRA1A↓

6.9E-03

mRNA Splicing - Major Pathwaya

116/131

14

Top 5 out of 15 significant genes: SMC1A↑; PCBP1↑; PRPF8↑; SNRPA↓; CD2BP2↑

8.3E-03

Validated transcriptional targets of AP1 family members Fra1 and Fra2

30/37

11

ATF4↑; TXLNG↑; LAMA3↓; NFATC3↑; USF2↑; CDKN2A↓

1.2E-02

Maturity onset diabetes of the young - Homo sapiens (human)

15/25

14

NR5A2↓; PAX4↓; FOXA2↓; GCK↓

1.4E-02

Hedgehog ligand biogenesisa

15/21

5

OS9↑; DISP2↓; P4HB↑; VCP↑

1.4E-02

Salivary secretion - Homo sapiens (human)a

60/90

28

ADCY3↓; ADRA1A↓; NOS1↓; GUCY1A3↑; PRH2↓; ATP1A4↑; ATP1B1↑; ATP1B3↑; ATP2B3↓

1.5E-02

Processing of Capped Intron-Containing Pre-mRNAa

147/162

18

Top 5 out of 17 significant genes: SMC1A↑; RANBP2↑; PCBP1↑; PRPF8↑; SNRPA↓

1.5E-02

G. alpha (s) signaling eventsa

81/129

44

ADCYAP1R1↓; CALCA↓; PTH2↓; ADCY3↓; GNAZ↓; TSHB↓; INSL3↓; TAAR2↓; GHRHR↓; GLP2R↓; GNG13↓

1.6E-02

Neuroactive ligand-receptor interaction - Homo sapiens (human)

164/275

102

GABRG2↓; GABRP↓; NTSR2↓; TAAR2↓; TSHB↓; CHRM5↓; ADCYAP1R1↓; GH1↓; GHRHR↓; HTR1B↓; ADRA1A↓; GLP2R↓; THRA↓; ADORA1↓; CHRNA2↓; LPAR1↑; OPRL1↓; GRM5↓

2.1E-02

FOXM1 transcription factor network

34/42

10

CDK2↑; XRCC1↑; CENPF↑; NFATC3↑; TGFA↓; CDKN2A↓

2.1E-02

TCA Cycle

17/17

4

FH↑; MDH2↑; OGDH↑; IDH2↑

2.2E-02

  1. # ↓ genes: number of down-regulated genes. aPathways that remain significant in the sensitivity analysis