Table 4: Comparison of gene expression changes induced by the different MeHg exposure paradigms within each cluster.
The data contained in this table is the same as presented in Tables 2A–D, but presented in a fashion that allows the easy comparison of the differential effect of the four exposure paradigms within each cluster. All genes with expression changes > 2-fold (FDR 0.05) are listed for the four different exposure paradigms. Numbers indicated represent fold change, values > 0 indicate up-regulation, values < 0 indicate down regulation. Five groups of genes particularly relevant to this analysis are highlighted in colors as indicated. The assignment of those genes to the particular groups is based on information from several different sources including https://medlineplus.gov/genetics/gene/; https://www.ncbi.nlm.nih.gov/gtr/genes/; https://www.genecards.org/; www.uniprot.org/uniprot/; https://pathcards.genecards.org/card/; and the literature cited in the text.
| ribosomal component | actin dynamics/muscle tissue | |||
| mitochondrial component | cell cycle | |||
| forebrain/neuron development | ||||
| Exposure paradigm comparison by cluster | ||||
| Gene | E 0.1 μM | E 1 μM | E+L 0.1 μM | E+L 1.0 μM |
| Cluster 0 | ||||
| ACTC1 | 5.38 | |||
| ATP5ME | 2.23 | |||
| COL9A3 | 2.03 | 2.05 | ||
| COX16 | 2.13 | |||
| HECW1 | 2.1 | |||
| ID3 | 2.18 | |||
| MRPS24 | 2.50 | |||
| MSX2 | 2.15 | |||
| MT-ND3 | 2.24 | |||
| MT-ND4L | 2.40 | |||
| MYH3 | 3.57 | |||
| MYL1 | 2.06 | |||
| MYLPF | 3.85 | |||
| NDUFA3 | 2.09 | |||
| NDUFB1 | 2.17 | |||
| NME2 | 4.23 | |||
| PAM16 | 2.06 | |||
| RNASEK | 2.04 | |||
| RPL17 | 2.12 | |||
| RPL38 | 2.03 | |||
| RPS27 | 2.11 | |||
| RPS29 | 2.41 | |||
| SIX3 | 0.39 | |||
| SNHG25 | 2.17 | |||
| SNHG9 | 2.03 | |||
| TNNC1 | 2.42 | |||
| TNNI1 | 3.02 | |||
| TOMM5 | 2.09 | |||
| TPM2 | 2.19 | |||
| TTR | 2.33 | |||
| UBE2V1 | 2.18 | |||
| Total number of genes | 18 | 3 | 0 | 11 |
| Cluster 1 | ||||
| Gene | E 0.1 μM | E 1 μM | E+L 0.1 μM | E+L 1.0 μM |
| ATP5ME | 2.27 | |||
| COL9A3 | ||||
| DHRS3 | 0.49 | |||
| HECW1 | 2.1 | |||
| HES1 | 2.004 | |||
| HIST1H4C | 2.01 | |||
| ID3 | 2.12 | |||
| KLHDC8A | 2.0002 | |||
| MRPS24 | 2.63 | |||
| MSX2 | 2.08 | |||
| MT-ND3 | 2.32 | |||
| MT-ND4L | 2.29 | |||
| NDUFA3 | 2.1 | |||
| NDUFB1 | 2.29 | |||
| NME2 | 4.12 | |||
| PAM16 | 2.4 | |||
| RNASEK | 2.15 | |||
| RPL17 | 2.31 | |||
| RPL38 | 2.06 | |||
| RPS27 | 2.22 | |||
| RPS29 | 2.49 | |||
| SIX3 | 0.41 | |||
| SNHG25 | 2.25 | |||
| TOMM5 | 2.08 | |||
| TTR | 2.28 | |||
| UBE2V1 | 2.31 | |||
| ZSCAN16-AS1 | 2.14 | |||
| Total | 19 | 4 | 0 | 4 |
| Cluster 5 | ||||
| Gene | E 0.1 μM | E 1 μM | E+L 0.1 μM | E+L 1.0 μM |
| AL355075.4 | 2.04 | |||
| AL360012.1 | 2.09 | |||
| ARHGAP11B | 2.05 | |||
| ATP5ME | 2.21 | |||
| BUB1 | 0.46 | |||
| C11orf98 | 2.002 | |||
| C2orf40/ECRG4 | 2.36 | |||
| CDC20 | 0.41 | |||
| CENPE | 0.41 | |||
| COL9A3 | 2.07 | |||
| COX16 | 2.15 | |||
| DHRS3 | 0.39 | |||
| DHX8 | 2.37 | |||
| ECT2 | 0.49 | |||
| GPM6A | 2.19 | |||
| HMMR | 0.46 | |||
| HYOU1 | 2.02 | |||
| ID1 | 2.04 | |||
| MRPS24 | 2.14 | |||
| MT-ND3 | 2.31 | |||
| MT-ND4L | 2.55 | |||
| NDUFA3 | 2.07 | |||
| NME2 | 3.16 | |||
| NR2F2 | 0.4 | |||
| NRN1 | 2.28 | |||
| NSUN5 | 2.12 | |||
| PAM16 | 3.03 | |||
| PRR11 | 0.48 | |||
| RNASEK | 2.18 | |||
| RPL17 | 2.15 | |||
| RPL38 | 2.07 | |||
| RPS27 | 2.13 | |||
| RPS29 | 2.36 | |||
| SNHG9 | 2.35 | |||
| STMN4 | 0.39 | |||
| TRH | 0.10 | 0.13 | ||
| TTR | 2.72 | |||
| TXNDC16 | 2.02 | |||
| UBE2V1 | 2.47 | |||
| VEGFA | 2.02 | |||
| Total number of genes | 23 | 3 | 13 | |
| Cluster 2 | ||||
| Gene | E 0.1 μM | E 1 μM | E+L 0.1 μM | E+L 1.0 μM |
| AL138826.1 | 0.24 | |||
| ATP5ME | 2.26 | |||
| CALB2 | ||||
| COX16 | 2.05 | |||
| HES1 | 2.13 | |||
| HIST1H4C | 2.25 | |||
| MEG3 | 2.06 | 0.33 | ||
| MRPS24 | 2.34 | |||
| MT-ND3 | 2.32 | |||
| MT-ND4L | 2.32 | |||
| NDUFA3 | 2.18 | |||
| NDUFB1 | 2.32 | |||
| NME2 | 3.6 | |||
| NR2F2 | 0.42 | |||
| NTS | 3.61 | 4.4 | ||
| PAM16 | 2.55 | |||
| RNASEK | 2.68 | |||
| RPL17 | 2.18 | |||
| RPL37A | 2.04 | |||
| RPL38 | 2.08 | |||
| RPS27 | 2.19 | |||
| RPS29 | 2.55 | |||
| SNHG9 | 2.01 | |||
| TAC3 | 0.48 | |||
| TLN1 | 2.08 | |||
| TOMM5 | 2.13 | |||
| TTR | 4.72 | 2.5 | ||
| UBE2V1 | 2.55 | |||
| WLS | 2.01 | |||
| Total number of genes | 21 | 7 | 0 | 4 |
| Cluster 3 | ||||
| Gene | E 0.1 μM | E 1 μM | E+L 0.1 μM | E+L 1.0 μM |
| ATP5ME | 2.18 | |||
| CARTPT | 2.22 | |||
| EMX2 | 2.08 | |||
| FST | 2.2 | |||
| FSTL5 | 2.14 | |||
| GAL | 3.31 | |||
| HIST1H4C | 2.39 | |||
| ID1 | ||||
| ID2 | 2.18 | |||
| ID3 | 2.43 | |||
| ISL1 | 2.18 | |||
| MEG3 | 3.56 | 2.94 | ||
| MT-ND3 | 2.12 | |||
| MT-ND4L | 2.44 | |||
| NDUFA3 | 2.11 | |||
| NME2 | 2.37 | |||
| NTS | 3.7 | |||
| OTP | 0.39 | 0.41 | ||
| PAM16 | 2.17 | |||
| RASL11B | 2.31 | |||
| RELN | 2.16 | |||
| RGS16 | 2.28 | |||
| RNASEK | 2.51 | |||
| RPS27 | 2.07 | |||
| RPS29 | 2.47 | |||
| RSPO3 | 2.35 | |||
| SIX3 | 0.25 | |||
| SNHG9 | 2.05 | |||
| SST | 0.07 | 0.32 | ||
| TTR | 2.27 | |||
| UBE2V1 | 2.16 | |||
| Total number of genes | 14 | 6 | 2 | 12 |
| Cluster 4 | ||||
| Gene | E 0.1 μM | E 1 μM | E+L 0.1 μM | E+L 1.0 μM |
| ACTA2 | 0.24 | 0.31 | ||
| ACTG2 | 0.4 | |||
| ADAMTS1 | 0.45 | |||
| AL139246.5 | ||||
| ALDH1A1 | 0.36 | |||
| ANKRD1 | 0.44 | 0.40 | 0.44 | |
| ASS1 | 2.02 | |||
| ATF3 | 0.41 | |||
| ATP2B2 | 2.09 | |||
| ATP5ME | 2.11 | |||
| BBOX1 | 2.54 | |||
| BCAN | 0.39 | |||
| C9orf24 | 2.06 | |||
| CAPS | 2.07 | |||
| CCK | 3.92 | |||
| CCL2 | 0.27 | 4.23 | ||
| CCNO | 4.12 | |||
| CDC20B | 2.08 | |||
| CEBPB | 0.49 | |||
| CFI | 0.39 | |||
| COL3A1 | 0.33 | |||
| COL4A1 | 0.50 | |||
| CRH | 0.29 | 0.28 | 0.18 | |
| CYTOR | 0.48 | |||
| DCN | 0.41 | |||
| DCT | 0.24 | |||
| DLK1 | 4.36 | 4.47 | ||
| DLX1 | 2.08 | |||
| ECEL1 | 2.07 | |||
| EDNRB | 2.27 | |||
| EFNA5 | 0.42 | |||
| ERICH5 | 0.43 | |||
| FABP7 | 0.39 | |||
| FAM107A | 2.22 | |||
| FAM69C | 0.47 | |||
| FBN2 | 0.48 | |||
| FIBIN | 2.21 | |||
| FN1 | 2.50 | |||
| FOLR1 | 2.66 | |||
| GALNT5 | 2.23 | |||
| GPNMB | 0.41 | 0.38 | ||
| HES6 | 0.26 | |||
| HMX1 | 0.44 | |||
| HOPX | 0.42 | |||
| IER3 | 0.45 | |||
| IFIT2 | 2.29 | |||
| IGF1 | 2.48 | 2.01 | ||
| IGFBP7 | 2.52 | |||
| IQCH-AS1 | 2.08 | |||
| KCNJ13/Kir7.1 | 2.12 | |||
| KCTD8 | 2.26 | |||
| LAMA4 | 2.03 | |||
| LGALS3 | 0.46 | |||
| LHX1 | 2.23 | |||
| LINC00982 | 2.05 | |||
| LINGO1 | 2.11 | |||
| LRRC17 | 0.40 | 0.33 | ||
| LUM | 0.31 | |||
| LYPD1 | 0.39 | 0.4 | ||
| MAB21L2 | 0.49 | |||
| MEG3 | 0.42 | |||
| MRPS24 | 2.78 | |||
| MT-ATP8 | 2.09 | |||
| MT-ND3 | 2.03 | |||
| MT-ND4L | 2.18 | |||
| MYL9 | 0.35 | |||
| NDP | 0.495 | |||
| NDUFB1 | 2.13 | |||
| NEFM | 0.38 | |||
| NEUROD6 | 2.63 | |||
| NEUROG1 | 2.47 | |||
| NME2 | 4.36 | |||
| NPPB | 0.32 | 0.30 | ||
| NRN1 | 2.62 | |||
| NTN1 | 0.48 | |||
| NTS | 0.29 | 0.45 | ||
| NUDCD3 | 2.07 | |||
| NUPR1 | 0.37 | |||
| PAM16 | 2.71 | |||
| PDZRN3 | 2.23 | |||
| PLAC9 | 0.48 | |||
| PLK2 | 0.45 | |||
| PLS3 | 2.26 | |||
| PMCH | 7.35 | |||
| PMEL | 0.13 | 0.29 | ||
| PPP1R14C | 0.43 | |||
| PTN | 2.22 | |||
| RBP1 | 0.33 | |||
| RGS16 | 0.46 | |||
| RNASEK | 2.86 | |||
| RPL17 | 2.03 | |||
| RPP21 | 2.01 | |||
| RPS27 | 2.02 | |||
| RPS29 | 2.37 | |||
| S100A11 | 0.47 | |||
| S100A6 | 0.44 | |||
| SEMA6D | 0.48 | |||
| SFRP2 | 0.26 | 0.38 | ||
| SLIT1 | 0.48 | |||
| SNHG25 | 2.50 | |||
| SNTG1 | 2.72 | |||
| SPTY2D1OS | 2.07 | |||
| TAGLN | 0.19 | 0.23 | ||
| TPM1 | 0.38 | |||
| TPM2 | 0.50 | |||
| TTR | 2.87 | |||
| TWIST1 | 0.32 | |||
| UBE2V1 | 2.50 | |||
| UNC5A | 2.96 | |||
| XIST | 2.41 | |||
| ZFYVE16 | 2.04 | |||
| ZSCAN16-AS1 | 2.04 | |||
| Total number of genes | 29 | 61 | 14 | 25 |