Table 6.
Expression cluster enrichment analysis
|
Expression clusters over-represented in "dauer enriched" and "exit enriched genes" in C. elegans and P. pacificus | |||||
|---|---|---|---|---|---|
|
Expression clusters related to dauer larvae, stress response and starvation / feeding | |||||
| Sl.No. | Expression Cluster | cel_dauer | cel_exit | ppa_dauer | ppa_exit |
| 1 |
Wang_Kim_WBPaper00005859_DauerEnriched |
10.45 |
0 |
0 |
0 |
| 2 |
Wang_Kim_WBPaper00005859_EarlyGenes |
0 |
5.99 |
0 |
10.67 |
| 3 |
Wang_Kim_WBPaper00005859_ClimbingGenes |
0 |
14.58 |
0 |
4.62 |
| 4 |
Wang_Kim_WBPaper00005859_LateGenes |
0 |
63.09 |
0 |
0 |
| 5 |
WBPaper00024393:strongly_regulated_dauer_genes_UP |
1.39 |
0 |
0 |
0 |
| 6 |
WBPaper00024393:strongly_regulated_dauer_genes_DOWN |
0 |
8.49 |
0 |
10.85 |
| 7 |
WBPaper00034757:up_by_oxidative_stress |
4.2 |
0 |
0 |
0 |
| 8 |
WBPaper00034757:down_by_oxidative_stress |
0 |
6.47 |
0 |
6.82 |
| 9 |
WBPaper00035227:heat_shock_regulated |
9.74 |
0 |
0 |
0 |
| 10 |
WBPaper00035873:dpy-10_regulated |
0 |
25.06 |
0 |
3.89 |
| 11 |
WBPaper00035873:dpy-9_regulated |
0 |
2.02 |
0 |
1.57 |
| 12 |
WBPaper00035873:osm-11_regulated |
0 |
2.02 |
0 |
1.57 |
| 13 |
WBPaper00035873:osm-7_regulated |
0 |
2.4 |
0 |
2.07 |
| 14 |
WBPaper00035873:osm-8_regulated |
0 |
42.83 |
0 |
4.45 |
| 15 |
WBPaper00035873:osmotically_regulated |
0 |
0 |
0 |
4.65 |
| 16 |
WBPaper00032948:StarveUp2 |
6.17 |
0 |
2.5 |
0 |
| 17 |
WBPaper00032948:StarveUp3 |
7.15 |
0 |
0 |
0 |
| 18 |
WBPaper00032948:StarveUp4 |
10.45 |
0 |
0 |
0 |
| 19 |
WBPaper00032948:FedUp |
0 |
78.95 |
0 |
5.12 |
| 20 |
WBPaper00032948:MoltOssilate |
0 |
74.78 |
0 |
0 |
| 21 |
WBPaper00032062:age_regulated_genes |
0 |
5.37 |
0 |
4.75 |
|
Expression clusters related to to pathogen response, RNAi machinery etc. | |||||
|
Sl.No. |
Expression Cluster |
cel_dauer |
cel_exit |
ppa_dauer |
ppa_exit |
| 22 |
WBPaper00028482:PA14_upregulate |
0 |
0 |
0 |
2.03 |
| 23 |
WBPaper00028789:PA14_vs_gacA_downregulated_4hr |
0 |
5.9 |
0 |
0 |
| 24 |
WBPaper00028789:PA14_vs_gacA_downregulated_8hr |
0 |
6.7 |
0 |
0 |
| 25 |
WBPaper00028789:PA14_vs_OP50_downregulated_8hr |
0 |
6.85 |
0 |
1.81 |
| 26 |
WBPaper00028789:PA14_vs_OP50_upregulated_4hr |
0 |
0 |
0 |
1.4 |
| 27 |
WBPaper00028789:PA14_vs_OP50_upregulated_8hr |
0 |
0 |
0 |
2.02 |
| 28 |
WBPaper00030985:Enterococcus_faecalis_upregulated |
0 |
0 |
0 |
1.6 |
| 29 |
WBPaper00028789:pmk-1_downregulated |
0 |
0 |
0 |
1.46 |
| 30 |
WBPaper00029437:dcr-1_upregulated |
3.13 |
0 |
0 |
0 |
| 31 |
WBPaper00029437:rde-4_upregulated |
0 |
0 |
0 |
1.69 |
| 32 |
WBPaper00027111:eri-1(mg366)_downregulated |
0 |
2.23 |
0 |
0 |
| 33 |
WBPaper00027111:rde-3(r459)_upregulated |
0 |
0 |
0 |
1.52 |
| 34 |
WBPaper00035892:KIM5_regulated |
0 |
0 |
0 |
4.79 |
| 35 |
WBPaper00035892:KIM5_vs_OP50_Up |
0 |
0 |
0 |
2.36 |
|
Tissue specific, and other expression clusters | |||||
|
Sl.No. |
Expression Cluster |
cel_dauer |
cel_exit |
ppa_dauer |
ppa_exit |
| 36 |
WBPaper00030839:Embryo_Pan_Neuronal |
0 |
0 |
6.67 |
0 |
| 37 |
WBPaper00030839:Larval_Pan_Neuronal |
4.75 |
0 |
2.71 |
0 |
| 38 |
WBPaper00031003:0hr_muscle_depleted |
0 |
2.99 |
0 |
0 |
| 39 |
WBPaper00031003:24hr_muscle_depleted |
0 |
2.11 |
0 |
2.73 |
| 40 |
WBPaper00031003:total_muscle_depleted |
0 |
2.29 |
0 |
0 |
| 41 |
WBPaper00031003:total_muscle_enriched |
0 |
0 |
2.42 |
0 |
| 42 |
WBPaper00031532:Larva_Pan_Neuronal_Depleted |
0 |
28.03 |
0 |
11.41 |
| 43 |
WBPaper00031532:Larva_Pan_Neuronal_Enriched |
2.48 |
0 |
4.69 |
0 |
| 44 |
WBPaper00026980:intestine_enriched |
0 |
0 |
3.46 |
1.5 |
| 45 |
WBPaper00024671:AFD_AWB_vs_unsorted_downregulated |
0 |
3.02 |
0 |
3.59 |
| 46 |
WBPaper00031832:slr-2_regulated |
0 |
0 |
0 |
2.75 |
| 47 |
WBPaper00033101:spr-5_regulated |
0 |
6.44 |
0 |
0 |
| 48 |
WBPaper00034739:N2lessDR1350 |
0 |
39.13 |
0 |
0 |
| 49 |
WBPaper00034739:RIL17lessRIL14 |
0 |
18.11 |
0 |
0 |
| 50 |
WBPaper00035905:FBF-1_Associated |
0 |
0 |
5.54 |
0 |
| 51 |
WBPaper00037611:RNP-8-associated |
0 |
0 |
4.92 |
0 |
| 52 | WBPaper00025032:PAL-1_target_genes | 0 | 2.58 | 0 | 0 |
This table lists - log10 transformed p-values of tests for enrichment of dauer and dauer-exit genes from both species for 52 out of 169 expression clusters. These 52 expression clusters passed the FDR corrected p-value threshold of 0.05 for at least one condition. The overlap between dauer enriched clusters and dauer-exit enriched clusters is statistically significant (Fisher’s exact test p-values = 0.0185 and 6.833E-06 respectively).