Background
Methods
The analysis of microarray data
Identification of DEGs
Functional annotation
ICM -specific protein-protein interaction (PPI) network
ICM -specific transcriptional regulatory networks
Validation in the GEO dataset
Confirmation by qRT-PCR
Characteristics | ICM(n = 10)1 | Control (n = 10)1 | P value2 |
---|---|---|---|
Gender | > 0.90 | ||
Female | 5 (50%) | 5 (50%) | |
Male | 5 (50%) | 5 (50%) | |
Age | 60 (51,64) | 59 (58,62) | 0.80 |
TC | 4.12 (3.83, 5.02) | 4.00 (3.76,4.33) | 0.70 |
TG | 2 (1,3) | 1 (1,2) | 0.50 |
HDL | 1.16 (0.78,1.24) | 1.04 (0.82,1.26) | > 0.90 |
LDL | 2.70 (2.02,3.14) | 2.57 (1.77,2.87) | 0.70 |
Hypertension | 3 (30%) | 6 (60%) | 0.40 |
Diabetes | 5 (50%) | 2 (20%) | 0.30 |
Hyperlipidemia | 3 (30%) | 6 (60%) | 0.40 |
Smoking | 7 (70%) | 4 (40%) | 0.40 |
Drinking | 1 (10%) | 2 (20%) | > 0.90 |
HCT | 34 (31,41) | 39 (36,42) | 0.13 |
HB | 110 (103,144) | 134 (122,150) | 0.08 |
Primer name | Sequence |
---|---|
ACTB-F | CATGTACGTTGCTATCCAGGC |
ACTB-R | CTCCTTAATGTCACGCACGAT |
ATP1A1-F | CTGTGGATTGGAGCGATTCTT |
ATP1A1-R | TTACAACGGCTGATAGCACCA |
BCL2L1-F | GAGCTGGTGGTTGACTTTCTC |
BCL2L1-R | TCCATCTCCGATTCAGTCCCT |
FKBP5-F | ACCAAACGGAAAGGAGAGGGA |
FKBP5-R | TCTTCCCGCTGCATTTTCTCC |
RRS1-F | GGCATCCGTCCCAAGAAGAAG |
RRS1-R | TTCTTGGCCTGAATCCGCTTG |
PALLD-F | AAGAAGGCCAGTAGAACTGCT |
PALLD-R | AAGCGAAGTTTTCGTTCCAGG |
ECM2-F | ACAAGCTCTATCACGTCCCG |
ECM2-R | ACGGTCCATGCCATCATCAG |
Results
DEGs in ICM
GEO accession | Author | Platform | Samples (N:ICM) | Year | Tissue |
---|---|---|---|---|---|
GSE46224 | Kai-Chien Yang [22] | GPL11154Illumina HiSeq 2000 (Homo sapiens) | 8:8 | 2014 | Left ventricle apex tissue |
GSE52601 | Akat KM [23] | GPL10558Illumina HumanHT-12 V4.0 expression beadchip | 4:3 | 2014 | left ventricular myocardium |
GSE5406 | Cappola TP [24] | GPL96 [HG-U133A] Affymetrix Human Genome U133A Array | 16:108 | 2006 | Left ventricular myocardium |
ID | Symbol | P.Value | FDR | Regulation |
---|---|---|---|---|
3151 | HMGN2 | 0 | 0 | Up |
4060 | LUM | 0 | 0 | Up |
54,829 | ASPN | 0 | 0 | Up |
57,570 | TRMT5 | 0 | 0 | Up |
5654 | HTRA1 | 0 | 0 | Up |
25,878 | MXRA5 | 0 | 0 | Up |
392 | ARHGAP1 | 1.55E-15 | 1.30E-12 | Up |
2487 | FRZB | 3.19E-13 | 2.08E-10 | Up |
51,466 | EVL | 3.92E-13 | 2.30E-10 | Up |
4628 | MYH10 | 1.08E-12 | 5.29E-10 | Up |
10,947 | AP3M2 | 1.27E-12 | 5.98E-10 | Up |
3910 | LAMA4 | 1.45E-12 | 6.30E-10 | Up |
3043 | HBB | 1.56E-12 | 6.54E-10 | Up |
1513 | CTSK | 4.13E-12 | 1.56E-09 | Up |
1842 | ECM2 | 1.09E-11 | 3.86E-09 | Up |
4330 | MN1 | 1.13E-11 | 3.92E-09 | Up |
7060 | THBS4 | 1.63E-11 | 5.45E-09 | Up |
23,114 | NFASC | 3.06E-11 | 9.22E-09 | Up |
57,758 | SCUBE2 | 5.44E-11 | 1.56E-08 | Up |
4878 | NPPA | 5.95E-11 | 1.66E-08 | Up |
8547 | FCN3 | 0 | 0 | Down |
3163 | HMOX2 | 0 | 0 | Down |
12 | SERPINA3 | 0 | 0 | Down |
28,231 | SLCO4A1 | 0 | 0 | Down |
4140 | MARK3 | 0 | 0 | Down |
2289 | FKBP5 | 4.44E-16 | 4.01E-13 | Down |
84,525 | HOPX | 1.40E-13 | 9.69E-11 | Down |
2752 | GLUL | 3.79E-13 | 2.30E-10 | Down |
476 | ATP1A1 | 4.67E-13 | 2.45E-10 | Down |
262 | AMD1 | 4.50E-13 | 2.45E-10 | Down |
10,157 | AASS | 1.42E-12 | 6.30E-10 | Down |
27,254 | CSDC2 | 3.51E-12 | 1.42E-09 | Down |
4624 | MYH6 | 4.11E-12 | 1.56E-09 | Down |
23,022 | PALLD | 6.10E-12 | 2.24E-09 | Down |
9057 | SLC7A6 | 2.05E-11 | 6.68E-09 | Down |
9588 | PRDX6 | 2.31E-11 | 7.33E-09 | Down |
598 | BCL2L1 | 2.91E-11 | 9.00E-09 | Down |
5533 | PPP3CC | 3.50E-11 | 1.03E-08 | Down |
5604 | MAP2K1 | 7.18E-11 | 1.92E-08 | Down |
23,212 | RRS1 | 1.44E-10 | 3.53E-08 | Down |