Table 1 List of enriched annotation clusters of the 179 LIPUS-responsive genes.
From: Osteocytes as main responders to low-intensity pulsed ultrasound treatment during fracture healing
Annotation Cluster | Name | Gene Count | P_Value | Gene name included in | |||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Cluster A Enrichment Score 7.44 | Innate immunity | 17 | 7.10E−11 | Immunity |  |  |  |  |  |  |  |  | |
Antiviral defense | 12 | 3.50E−10 | Oas1a | Oas2 | Oas3 | Oasl2 | Ddx58 | Zbp1 | Adar* (NM_001146296.1) | Bst2* (NM_198095.3) | C1rb* (NM_001113356.1) | C1s2* (NM_173864.2) | |
Immunity | 20 | 3.60E−10 | Cfb* (NM_008198.2) | Gbp2b | Hp* (NM_017370.2) | Irgm1 | Iigp1 | Ifit1 | Ifit3 | Lgals9 | Lcn2 | Pml | |
RNA-binding | 8 | 1.90E−01 |  |  |  |  |  |  |  |  |  |  | |
Cluster B Enrichment Score 3.88 | Nucleus | 59 | 3.40E−05 | Transcription |  |  |  |  |  |  |  |  | |
Transcription regulation | 30 | 1.30E−04 | Btg2* (NM_007570.2) | Cited2* (NM_010828.3) | Irx3* (NM_008393.3) | Lmcd1* (NM_144799.2) | Phf11d | Smad9* (NM_019483.5) | Sox9* (NM_011448.4) | Adar* (NM_001146296.1) | Egr1* (NM_007913.5) | Egr2* (NM_010118.3) | |
Transcription | 30 | 2.30E−04 | Egr3* (NM_018781.4) | Egr4 | Foxq1* (NM_008239.4) | Foxs1 | Helz2* (NM_183162.2) | Ifi204 | Junb* (NM_008416.3) | Sp100 | Nfatc1* (NM_001164111.1) | Nfkbiz* (NM_001159394.1) | |
DNA-binding | 27 | 2.80E−04 | Nr4a1* (NM_010444.2) | Nr4a2 | Parp14 | Pml | Stat1 | Stat2 | Snai2* (NM_011415.3) | Trim30a | Maff | Vdr | |
Cluster C Enrichment Score 3.3 | Metal-binding | 50 | 7.70E−06 |  |  |  |  |  |  |  |  |  |  |
Zinc | 30 | 1.60E−03 |  |  |  |  |  |  |  |  |  |  | |
Zinc-finger | 22 | 1.00E−02 |  |  |  |  |  |  |  |  |  |  | |
Cluster D Enrichment Score 3.21 | Secreted | 33 | 2.00E−06 | Secreted |  |  |  |  |  |  |  |  | |
Disulfide bond | 44 | 1.00E−04 | Isg15* (NM_015783.3) | Sparcl1* (NM_010097.4) | Cpg | Ccl5* (NM_013653.3) | F13a1* (NM_028784.3) | Cfb* (NM_008198.2) | Ctgf/Ccn2* (NM_010217.2) | Cyr61/Ccn1* (NM_010516.2) | Dcn* (NM_001190451.2) | Dmp1 | |
Signal | 49 | 1.20E−02 | Fmod | Fbln5* (NM_011812.4) | Fbln7* (NM_024237.4) | Grem1* (NM_011824.4) | Gbp2b | Hp* (NM_017370.2) | Igfbp5 | Lgals9 | Lgals3bp | Lcn2 | |
Glycoprotein | 39 | 5.80E−02 | Mmp13* (NM_008607.2) | Mmp3 | Nbl1 | Nampt | Orm1 | Pla1a* (NM_134102.4) | Plat | Plau | Ptn | Saa3* (NM_011315.3) | |
| Â | Â | Â | Tnc* (NM_001369211.1) | Tnn | Tcn2 | Â | Â | Â | Â | Â | Â | Â | |
Cluster E Enrichment Score 1.48 | ATP-binding | 19 | 1.90E−02 |  |  |  |  |  |  |  |  |  |  |
Magnesium | 10 | 2.10E−02 |  |  |  |  |  |  |  |  |  |  | |
Transferase | 19 | 9.20E−02 |  |  |  |  |  |  |  |  |  |  | |
Cluster F Enrichment Score 1.32 | Lipid biosynthesis | 6 | 8.30E−03 |  |  |  |  |  |  |  |  |  |  |
Cholesterol biosynthesis | 3 | 1.00E−02 |  |  |  |  |  |  |  |  |  |  | |
Sterol biosynthesis | 3 | 1.70E−02 |  |  |  |  |  |  |  |  |  |  | |
Steroid biosynthesis | 3 | 3.50E−02 |  |  |  |  |  |  |  |  |  |  | |
Fatty acid biosynthesis | 3 | 6.60E−02 |  |  |  |  |  |  |  |  |  |  | |
Cholesterol metabolism | 3 | 6.80E−02 |  |  |  |  |  |  |  |  |  |  | |
Sterol metabolism | 3 | 8.40E−02 |  |  |  |  |  |  |  |  |  |  | |
Lipid metabolism | 7 | 1.10E−01 |  |  |  |  |  |  |  |  |  |  | |
Steroid metabolism | 3 | 1.10E−01 |  |  |  |  |  |  |  |  |  |  | |
Fatty acid metabolism | 3 | 2.50E−01 |  |  |  |  |  |  |  |  |  |  | |
Cluster G Enrichment Score 1.31 | Microsome | 6 | 3.70E−03 |  |  |  |  |  |  |  |  |  |  |
Oxidoreductase | 10 | 6.20E−02 |  |  |  |  |  |  |  |  |  |  | |
Heme | 4 | 1.50E−01 |  |  |  |  |  |  |  |  |  |  | |
Iron | 6 | 1.70E−01 |  |  |  |  |  |  |  |  |  |  | |
