Differential gene expression analysis and network construction of recurrent cardiovascular events

  • Authors:
    • Jiangquan Liao
    • Zhong Chen
    • Qinghong He
    • Yongmei Liu
    • Jie Wang
  • View Affiliations

  • Published online on: December 22, 2015     https://doi.org/10.3892/mmr.2015.4707
  • Pages: 1746-1764
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Abstract

Recurrent cardiovascular events are vital to the prevention and treatment strategies in patients who have experienced primary cardiovascular events. However, the susceptibility of recurrent cardiovascular events varies among patients. Personalized treatment and prognosis prediction are urged. Microarray profiling of samples from patients with acute myocardial infarction (AMI), with or without recurrent cardiovascular events, were obtained from the Gene Expression Omnibus database. Bioinformatics analysis, including Gene Oncology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG), were used to identify genes and pathways specifically associated with recurrent cardiovascular events. A protein‑protein interaction (PPI) network was constructed and visualized. A total of 1,329 genes were differentially expressed in the two group samples. Among them, 1,023 differentially expressed genes (DEGs; 76.98%) were upregulated in the recurrent cardiovascular events group and 306 DEGs (23.02%) were downregulated. Significantly enriched GO terms for molecular functions were nucleotide binding and nucleic acid binding, for biological processes were signal transduction and regulation of transcription (DNA‑dependent), and for cellular component were cytoplasm and nucleus. The most significant pathway in our KEGG analysis was Pathways in cancer (P=0.000336681), and regulation of actin cytoskeleton was also significantly enriched (P=0.00165229). In the PPI network, the significant hub nodes were GNG4, MAPK8, PIK3R2, EP300, CREB1 and PIK3CB. The present study demonstrated the underlying molecular differences between patients with AMI, with and without recurrent cardiovascular events, including DEGs, their biological function, signaling pathways and key genes in the PPI network. With the use of bioinformatics and genomics these findings can be used to investigate the pathological mechanism, and improve the prevention and treatment of recurrent cardiovascular events.

Introduction

With the significant advances in medication, reperfusion therapy, cardiac rehabilitation and organ transplantation, cardiovascular disease remains one of the major causes of mortality worldwide (1). Evaluation of cardiovascular disease based on risk factors is important in the clinical prevention and treatment of cardiovascular disease, which may alter the risk stratification and guide the treatment and prognosis (2,3). More and more indexes are included in the risk stratification as clinical and experimental research develops, including brain natriuretic peptide, C reactive protein and blood homocysteine. However, the prediction of cardiovascular disease is not so satisfying (4), particularly in personalized prevention and treatment. Sensitivity of risk factors varies in different individuals, and clinical doctors must be aware of this and objective to the current risk factors and stratification (5). More superior and systematic algorithms for stratification remain to be elucidated (6).

The evaluation and stratification of cardiovascular diseases depend more on primary cardiovascular events, which elevate the stratification and enhance the treatment once they occur. However, recurrent cardiovascular events are also vital, which indicate that the current intervention is not marked enough to prevent disease progression. Although patients receive standard treatment based on the risk factors stratification, recurrent cardiovascular events still occur, which indicates that certain individuals are more prone to recurrent cardiovascular events. These patients may require more aggressive therapies, involving susceptibility screening and personalized treatment (7). With the development and application of clinical genomics technology and bioinformatics, novel biomarkers are used in the diagnosis and prognosis of cardiovascular disease (8,9). Previous research revealed that the expression of different genes varies in different stages of cardiovascular diseases, and these genes are involved in the pathological process, and may even predict the cardiovascular events (10). With the help of genomics and bioinformatics, patient susceptibility to recurrent cardiovascular events may be screened out, and personalized treatment can be made. This may reduce the recurrence of cardiovascular events and improve the prognosis. The present study used genomics and bioinformatics technology, and associated software to analyze the differentially expressed genes (DEGs) associated with recurrent cardiovascular events. The present study also aimed to identify the key genes in the pathological process and provide alternative guidance in the preventions, and personalized treatment of recurrent cardiovascular events.

Materials and methods

Microarray data and clinical characteristics

The microarray dataset, GSE48060 with GPL570 [HG-U133_Plus_2] Affymetrix Human Genome U133 Plus 2.0 Array platform, was obtained from the Gene Expression Omnibus (GEO) database (11). The data samples were peripheral blood samples collected from patients with acute myocardial infarction (AMI) 48 h within the primary AMI. All 27 samples were divided into two groups, according to the recurrence of cardiovascular events in the 18 month follow-up. A total of five patients exhibited recurrent cardiovascular events and 22 did not. The definition of recurrent cardiovascular events is recurrent myocardial infarction, re-vascularization, evidence of restenosis, hospitalization for unstable angina or heart failure, cardiovascular mortality, stroke or transient ischemic attack, or amputation due to peripheral vascular disease.

Raw data processing

All 27 sample files were downloaded from the GEO database and were reanalyzed using R software (version 3.1.1; http://www.r-project.org/). The Affy package was applied to read the probe set data from the CEL files (12). Robust Multiarray Averaging was used to normalize the original data. Following standardization, a total of 54,675 probe set IDs' expression levels in different samples were obtained.

Screening and annotation of the DEGs

The limma package in the R software was used to compare the expression levels of the probe sets between the two groups (13). The threshold was set as P<0.05 or a fold change >1.5. The annotate package was used to annotate the DEGs.

Enrichment analysis of DEGs

GeneCodis online tools (http://genecodis2.dacya.ucm.es/) were used to annotate and analyze the DEGs (14,15). The annotation and analysis were predominantly focussed on the molecular function, the biological process and the cellular component of Gene Ontology (GO) enrichment and Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway analysis. The threshold was set as P<0.05.

Protein-protein interaction (PPI) network analysis

Cytoscape (version 3.1.1; The Cytoscape Consortium, San Diego, CA, USA) and reactome plugin were applied to analyze the DEGs (16), and to construct and visualize the PPI network. Further analysis of the key nodes in the PPI network were processed.

Results

Clinical characteristics of the two group samples

According to Suresh et al (11), the clinical characteristics between the recurrence and no recurrence groups, including age, sex, body mass index, cardiovascular risk factor score, lipid profile and severity of AMI, were similar with the exception of the usage of beta-blockers. The clinical characteristic details are listed in Table I.

Table I

Baseline clinical characteristics of AMI patients with or without recurrent events following primary AMI, who underwent whole-genome blood gene expression microarray analysis.

Table I

Baseline clinical characteristics of AMI patients with or without recurrent events following primary AMI, who underwent whole-genome blood gene expression microarray analysis.

VariableEvent (n=5)No event (n=22)P-value
Age, years51 (41–53)56.5 (48–65)0.110
Gender, male, n (%)3 (60)13 (59)0.972
Body mass index, kg/m236.5 (25.0–46.5)31.5 (22.9–48.4)0.140
Cardiovascular risk factor score5 (46)4 (16)0.266
Cardiovascular history, n (%)
 Arterial hypertension, n (%)5 (100)13 (59)0.080
 Smoking, n (%)2 (40)16 (73)0.161
 Diabetes mellitus, n (%)0 (0)3 (14)0.381
 Family history of coronary artery disease, n (%)5 (100)12 (55)0.057
Lipid profile, mg/dl
 Total cholesterol, mg/dl128 (110–219)191 (126–3250.190
 Low density lipoprotein cholesterol, mg/dl65 (41–152)115 (70–254)0.169
 HDL cholesterol, mg/dl31 (25–47)38 (25–72)0.165
Medication
 Statin therapy, n (%)3 (60)7 (33)0.271
 Aspirin, n (%)4 (80)12 (55)0.296
 ACE inhibitor, n (%)1 (20)4 (19)0.961
 Beta blocker, n (%)4 (80)5 (22)0.014
Severity of AMI
 Ejection fraction, %55 (43–65)57 (35–71)0.240
 Troponin, ng/ml2.24 (0.11–9.51)0.47 (0.04–16.43)0.142
 STEMI, n (%)2 (40)7 (32)0.726

[i] AMI, acute myocardial infarction.

Recurrent cardiovascular event-associated DEGs

By comparing the two group samples of with or without recurrent cardiovascular events in the 18 month follow-up following primary AMI, 1,329 genes (2.43% of total probe set) were identified to be differentially expressed and annotatable. A total of 1,023 DEGs (76.98%) were upregulated and 306 DEGs (23.02%) were downregulated in the recurrent cardiovascular events group. The top 10 markedly up or downregulated genes with a fold change >1.5 are listed in Tables II and III, respectively.

Table II

Top 10 upregulated genes.

Table II

Top 10 upregulated genes.

GeneFold changeMean of intensity
P-valueOfficial gene name
RecurrenceNo recurrence
LRRC181.5821.3813.50 1.14−04Leucine rich repeat containing 18
IRAK1BP11.7790.6451.19 6.19−04Interleukin-1 receptor-associated kinase 1 binding protein 1
MGAT4A1.57385.69245.89 6.00−03Mannosyl (α-1,3-)-glycoprotein β-1, 4-N-acetylglucosaminyltransferase, isozyme A
BZW21.74921.80529.93 9.33−03Basic leucine zipper and W2 domains 2
LOC1525861.6419.3811.84 1.25−02MGAT4 family, member D
ADTRP1.78272.08153.19 1.46−02Androgen-dependent TFPI-regulating protein
SMC1B1.7824.7613.94 2.02−02Structural maintenance of chr 1B
LOC2837881.53147.0396.39 2.39−02Hypothetical protein LOC283788
CLDN121.5237.2424.58 2.56−02Claudin 12
LEF1-AS11.7974.6041.72 3.32−02LEF1 antisense RNA 1

[i] Genes with a fold change >1.5 are shown. Data are sorted by P-value.

Table III

Top 10 downregulated genes.

Table III

Top 10 downregulated genes.

GeneFold changeMean of intensity
P-valueOfficial gene name
RecurrenceNo recurrence
HIST1H2AC1.572086.823273.74 2.50−03Histone cluster 1, H2ac
NEXN1.65199.36329.40 4.46−03Nexilin (F actin binding protein)
SIRPB21.76102.91181.12 4.77−03Signal-regulatory protein β2
TUBB11.56462.45719.52 5.44−03Tubulin β1
HIST1H2BD1.56254.17397.28 5.81−03Histone cluster 1, H2bd
TSPAN21.76142.35250.81 6.02−03Tetraspanin 2
GUCY1A31.5512.1418.80 6.57−03Guanylate cyclase 1, soluble, α 3
FAR21.77129.96230.38 7.84−03Fatty acyl CoA reductase 2
STON21.6691.55151.83 9.06−03Nexilin (F actin binding protein)
DLEU21.6263.13102.52 1.11−02Deleted in lymphocytic leukemia 2

[i] Genes with a fold change >1.5 are shown. Data are sorted by P-value.

Significant GO enrichment

To gain insights into the biological roles of the DEGs in recurrent cardiovascular events, a GO categories enrichment analysis was performed using GeneCoDis. GO categories are predominantly in three groups: Biological process, cellular component and molecular function. The significantly enriched GO terms for molecular functions were nucleotide binding (GO:0000166, P=8.24−19) and nucleic acid binding (GO:0003676, P=1.94−07), for biological processes were signal transduction (GO:0007165, P=5.26−08) and regulation of transcription, DNA-dependent (GO:0006355, P=9.19−06), and for cellular component were cytoplasm (GO:0005737, P=8.98−25) and nucleus (GO:0005634, P=1.91−23; Fig. 1).

Significant pathways

KEGG pathway enrichment analysis was performed to further evaluate the biological significance of the DEGs. The most significant pathway in our KEGG analysis was Pathways in cancer (P=0.000336681). Furthermore, Melanoma (P=0.000336681) and Regulation of actin cytoskeleton (P=0.00165229) were revealed to be highly enriched. The top 15 enriched KEGG pathways of the DEGs are listed in Table IV.

Table IV

Top 15 enriched KEGG pathways of differentially expressed genes.

Table IV

Top 15 enriched KEGG pathways of differentially expressed genes.

KEGG IDKEGG pathwayGene no.P-value
hsa05200Pathways in cancer12 3.37−04
hsa05218Melanoma12 3.37−04
hsa04810Regulation of actin cytoskeleton9 1.65−03
hsa05215Prostate cancer11 1.77−03
hsa04010MAPK signaling pathway23 2.04−03
hsa04120Ubiquitin mediated proteolysis14 6.34−03
hsa04660T cell receptor signaling pathway4 7.80−03
hsa05340Primary immunodeficiency4 7.80−03
hsa05214Glioma7 8.34−03
hsa05222Small cell lung cancer10 9.31−03
hsa04510Focal adhesion6 1.68−02
hsa04144Endocytosis16 1.98−02
hsa03030DNA replication4 2.07−02
hsa03430Mismatch repair4 2.07−02
hsa04115p53 signaling pathway8 2.28−02

[i] KEGG, Kyoto Encyclopedia of Genes and Genomes.

PPI network construction and visualization

By analyzing the identified 1,329 DEGs using Cytoscape and the reactome plugin, 330 genes (node) and 796 gene-gene interactions (edge) were identified. The result was visualized in Cytoscape and the majority of the nodes were located within one network. To modify the PPI network, the sizes of the nodes were set according to their interaction density with the other nodes. The node color of the upregulated DEGs were made red and those downregulated were made blue (Fig. 2). The more that one gene interacts with the other genes, the larger the node was and the more central this gene occurs within the network. The genes, GNG4, MAPK8 and PIK3R2 were the three predominantly upregulated genes, while EP300, CREB1 and PIK3CB were the predominantly downregulated genes in the PPI network. The details of the nodes are listed in Table V.

Table V

Network features of differentially expressed genes included in protein-protein interaction network sorted by degree.

Table V

Network features of differentially expressed genes included in protein-protein interaction network sorted by degree.

GeneDescriptionBetweenness centralityDegreeIndegreeOutdegreeRegulation
EP300E1A binding protein p3000.03886829812556Down
GNG4Guanine nucleotide binding protein (G protein), γ 40.0024608226917Up
MAPK8Mitogen-activated protein kinase 80.00373044221210Up
PIK3R2 Phosphoinositide-3-kinase, regulatory subunit 2 (p85 β)0.0027546822175Up
E2F1E2F transcription factor 10.0088133321516Up
CREB1CAMP responsive element binding protein 10.002035518414Down
PIK3CB Phosphoinositide-3-kinase, catalytic, β polypeptide0.0012325418135Down
HIST1H2BCHistone cluster 1, H2bc0.0004567918810Down
HIST1H2BKHistone cluster 1, H2bk0.0004475218117Down
HIST1H2BJHistone cluster 1, H2bj0.0004475218108Down
HIST2H2BEHistone cluster 2, H2be0.0008490818117Down
HIST1H2BDHistone cluster 1, H2bd0.000395011789Down
ANAPC10Anaphase promoting complex subunit 10017017Up
ARAndrogen receptor (dihydrotestosterone receptor; testicular feminization; spinal and bulbar muscular atrophy; kennedy disease)016016Up
CDK4Cyclin-dependent kinase 40.0004239616115Up
HIST1H2ACHistone cluster 1, H2ac0.00034116511Down
H2BFSH2B histone family, member S0.0000357416412Down
SMURF1SMAD specific E3 ubiquitin protein ligase 10.0011243715114Up
PABPC1Poly (A) binding protein, cytoplasmic 10.0004698314410Up
RING1Ring finger protein 10.0005189414131Up
MAXMYC associated factor X0.001902781358Down
FLT1Fms-related tyrosine kinase 1 (vascular endothelial growth factor/vascular permeability factor receptor)0.003587281376Up
SKP2S-phase kinase-associated protein 2 (p45)0.00163321385Up
CBX8Chromobox homolog 8 (Pc class homolog, Drosophila)0.0010100812111Up
TAF1TAF1 RNA polymerase II, TATA box binding protein (TBP)-associated factor, 250 kDa0.0008618112111Up
BCL3B-cell CLL/lymphoma 30.0012324912111Up
GNA11Guanine nucleotide binding protein (G protein), α 11 (Gq class)0.000318381239Up
GNAQGuanine nucleotide binding protein (G protein), q polypeptide0.000641791266Down
PMF1Polyamine-modulated factor 10.000769151192Up
CBX2Chromobox homolog 2 (Pc class homolog, drosophila)011011Up
HUWE1HECT, UBA and WWE domain containing 10.000509671147Up
KDM6BLysine (K)-specific demethylase 6B01192Down
UBE3AUbiquitin protein ligase E3A (human papilloma virus E6-associated protein, Angelman syndrome)0.0000092711101Up
FGFR1Fibroblast growth factor receptor 1 (fms-related tyrosine kinase 2, Pfeiffer syndrome)0.003509981165Up
PHC1Polyhomeotic homolog 1 (Drosophila)011101Up
SMAD9SMAD family member 90.00201021183Down
CKAP5Cytoskeleton associated protein 50.0001391129Up
NOTCH1Notch homolog 1, translocation-associated (Drosophila)0.001672531165Down
FBXO3F-box protein 301028Up
UBE2Q1 Ubiquitin-conjugating enzyme E2Q (putative) 10.000009271082Up
KIF2AKinesin heavy chain member 2A0.000101931046Down
UBE2W Ubiquitin-conjugating enzyme E2W (putative)0.000009271082Down
HECTD3HECT domain containing 301037Up
ASB3Ankyrin repeat and SOCS box-containing 301019Up
EGFEpidermal growth factor (β-urogastrone)0.001893051028Down
GATA2GATA binding protein 20.002001631046Down
RPSARibosomal protein SA0.000151671073Up
VPRBPVpr (HIV-1) binding protein010100Up
CLIP1CAP-GLY domain containing linker protein 10.00005561028Up
RNPS1RNA binding protein S1, serine-rich domain0.000176071028Up
GPC3Glypican 30.00296725936Up
EIF3BEukaryotic translation initiation factor 3, subunit B0909Up
RPS28Ribosomal protein S280.00004973963Up
RPS15ARibosomal protein S15a0.00004973954Up
PMLPromyelocytic leukemia0.00137496963Up
ITGA9Integrin, α 90.00008649963Up
JUNDJun D proto-oncogene0.00140147945Up
NSL1NSL1, MIND kinetochore complex component, homolog (S. cerevisiae)0862Up
RHODRas homolog gene family, member D0.00038457871Up
HSPG2Heparan sulfate proteoglycan 20.00096904853Up
SPC24SPC24, NDC80 kinetochore complex component, homolog (S. cerevisiae)0880Up
CD4CD4 molecule0.00166231826Up
NCOA1Nuclear receptor coactivator 10.0000556862Down
IGF1Insulin-like growth factor 1 (somatomedin C)0.00081239826Up
ITGA6Integrin, α 60.00008649853Up
RPS14Ribosomal protein S140.00000185844Up
RHOBTB1Rho-related BTB domain containing 10.00038457871Down
RFC4Replication factor C (activator 1) 4, 37 kDa0.00023013862Up
KNTC1Kinetochore associated 10844Up
CENPTCentromere protein T0808Up
RUVBL2RuvB-like 2 (E. coli)0880Up
IL2RAInterleukin 2 receptor, α0.0002709826Up
MAD1L1MAD1 mitotic arrest deficient-like 1 (yeast)0853Up
PLCE1Phospholipase C, epsilon 10880Down
RASGRF2Ras protein-specific guanine nucleotide-releasing factor 20.0002085752Up
FGF7Fibroblast growth factor 7 (keratinocyte growth factor)0.00004633725Up
SIX5SIX homeobox 517Up
SMC1BStructural maintenance of chromosomes 1B0770Up
KDM1ALysine (K)-specific demethylase 10.0001058752Up
CD3ECD3e molecule, epsilon (CD3-TCR complex)0707Up
PDGFAPlatelet-derived growth factor α polypeptide0.0009675743Down
COL4A4Collagen, type IV, α 40707Up
RAD51RAD51 homolog (RecA homolog, E. coli) (S. cerevisiae)0770Up
BCL2B-cell CLL/lymphoma 20707Up
SMG7Smg-7 homolog, nonsense mediated mRNA decay factor (C. elegans)0770Up
FGF5Fibroblast growth factor 50.00007058725Up
OIP5Opa interacting protein 50770Up
RPL14Ribosomal protein L140725Up
SNRPASmall nuclear ribonucleoprotein polypeptide A0770Up
COL17A1Collagen, type XVII, α 10.00126029716Up
FGF4Fibroblast growth factor 4 (heparin secretory transforming protein 1, Kaposi sarcoma oncogene)0606Up
LIMS1LIM and senescent cell antigen-like domains 10660Down
ITGBL1Integrin, β-like 1 (with EGF-like repeat domains)0651Up
COL12A1Collagen, type XII, α 10606Up
RBL1Retinoblastoma-like 1 (p107)0.00010657651Up
CBX5Chromobox homolog 5 (HP1 α homolog, Drosophila)0.00021578615Up
PRKAR2BProtein kinase, cAMP-dependent, regulatory, type II, β0660Down
SF3B3Splicing factor 3b, subunit 3, 130 kDa0.0001529624Up
AP2A2Adaptor-related protein complex 2, α 2 subunit0606Up
IGLV1-44Immunoglobulin lambda variable 1–440.00012974615Up
CDK9Cyclin-dependent kinase 90606Up
CSNK2A1Casein kinase 2, α 1 polypeptide0.00045515615Up
PELP1Proline, glutamic acid and leucine rich protein 10.00034009541Up
TRAF1TNF receptor-associated factor 10550Up
VIMVimentin0550Down
CRTAPCartilage associated protein0.00468901532Up
NBNNibrin0.00107495523Down
CACNA1ACalcium channel, voltage-dependent, P/Q type, α 1A subunit0505Up
CIITAClass II, major histocompatibility complex, transactivator0505Up
IRF1Interferon regulatory factor 10.00002008541Down
FZD1Frizzled homolog 1 (Drosophila)0.00061315514Up
SGK1 Serum/glucocorticoid regulated kinase 10550Down
APOA1Apolipoprotein A-I0.00117688514Up
ZAP70Zeta-chain (TCR) associated protein kinase 70kDa0550Up
DYNC2LI1Dynein, cytoplasmic 2, light intermediate chain 10404Up
OSBPL1AOxysterol binding protein-like 1A0440Up
RFC3Replication factor C (activator 1) 3, 38kDa0.00014364422Up
SERPINH1Serpin peptidase inhibitor, clade H (heat shock protein 47), member 1, (collagen binding protein 1)0440Up
HNRNPMRecombinant Heterogeneous nuclear ribonucleoprotein M0.00003243413Up
PIK3C3 Phosphoinositide-3-kinase, class 30.00103422413Down
PRKAR1AProtein kinase, cAMP-dependent, regulatory, type I, α (tissue specific extinguisher 1)0.00000463431Down
AARSAlanyl-tRNA synthetase0404Up
FZD8Frizzled homolog 8 (Drosophila)0404Up
MYO1CMyosin IC0.00003707413Up
RAB11ARAB11A, member RAS oncogene family0.00047261431Down
HLA-DOAMajor histocompatibility complex, class II, DO α0.00003707431Up
IGF2Insulin-like growth factor 2 (somatomedin A)0.00076297422Up
LDLRLow density lipoprotein receptor (familial hypercholesterolemia)0.00007105422Up
ENO1Enolase 1, (α)0.00003398422Up
ZNF280AZinc finger protein 280A0330Up
ARHGAP22Rho GTPase activating protein 220303Up
DDB1Damage-specific DNA binding protein 1, 127kDa0303Up
ERCC8Excision repair cross-complementing rodent repair deficiency, complementation groUp 80.0000139312Up
VDRVitamin D (1,25-dihydroxyvitamin D3) receptor0330Down
POLD2Polymerase (DNA directed), delta 2, regulatory subunit 50kDa0.00012047312Up
CACNB2Calcium channel, voltage-dependent, β 2 subunit0312Down
PTCH1Patched homolog 1 (Drosophila)0330Up
SPP1Secreted phosphoprotein 1 (osteopontin, bone sialoprotein I, early T-lymphocyte activation 1)0330Up
KIF5BKinesin family member 5B0.00000927312Down
ARAP3ArfGAP with RhoGAP domain, ankyrin repeat and PH domain 30303Down
SKIV-ski sarcoma viral oncogene homolog (avian)0.00040774321Up
EPS15L1Epidermal growth factor receptor pathway substrate 15-like 10.0000278321Down
FKBP1AFK506 binding protein 1A, 12kDa0.00009267312Down
RPS6KA4Ribosomal protein S6 kinase, 90kDa, polypeptide 40330Up
BIDBH3 interacting domain death agonist0.00000927312Down
GRIN2AGlutamate receptor, ionotropic, N-methyl D-aspartate 2A0.0000556312Down
NEFLNeurofilament, light polypeptide 68kDa0.00001853312Up
ANK2Ankyrin 2, neuronal0303Up
TIMELESSTimeless homolog (Drosophila)0330Up
SND1Staphylococcal nuclease and tudor domain containing 10330Up
RPS6KA5Ribosomal protein S6 kinase, 90kDa, polypeptide 50.00006487321Down
RPS6KA2Ribosomal protein S6 kinase, 90kDa, polypeptide 20330Up
RRM2Ribonucleotide reductase M2 polypeptide0.00009267321Down
RRM2BRibonucleotide reductase M2 B (TP53 inducible)0330Down
GPR4G protein-coUpled receptor 40330Up
WIPF2WAS/WASL interacting protein family, member 20330Down
CFLARCASP8 and FADD-like apoptosis regulator0.00104252312Down
ELAVL1ELAV (embryonic lethal, abnormal vision, Drosophila)-like 1 (Hu antigen R)0312Up
IKBKEInhibitor of κ light polypeptide gene enhancer in B-cells, kinase epsilon0.00011429312Up
ERBB2IPErbb2 interacting protein0.00003707321Down
PAX5Paired box 50.00012371321Up
TACR1Tachykinin receptor 10330Down
MCF2LMCF.2 cell line derived transforming sequence-like0303Up
NRP2Neuropilin 20.00045407321Up
XAB2XPA binding protein 20330Up
WWOXWW domain containing oxidoreductase0330Up
TANKTRAF family member-associated NFKB activator0.00001853321Down
AVPR1AArginine vasopressin receptor 1A0303Down
NCKIPSDNCK interacting protein with SH3 domain0321Up
NEK6NIMA (never in mitosis gene a)-related kinase 60.00010116312Up
CDK19cyclin-dependent kinase 190303Down
B3GALT6UDP-Gal:βGal β 1,3-galactosyltransferase polypeptide 60202Up
NFAT5Nuclear factor of activated T-cells 5, tonicity-responsive0220Down
HS2ST1Heparan sulfate 2-O-sulfotransferase 10.00042627211Up
ARHGAP18Rho GTPase activating protein 180202Down
TACC1Transforming, acidic coiled-coil containing protein 10220Up
SNX17Sorting nexin 170.00003398211Up
TPD52L1Tumor protein D52-like 112Up
ALDOCAldolase C, fructose-bisphosphate0202Up
FGFBP1Fibroblast growth factor binding protein 10220Up
GRIK1Glutamate receptor, ionotropic, kainate 10202Up
PTGER4Prostaglandin E receptor 4 (subtype EP4)0220Down
TXNRD2Thioredoxin reductase 20220Up
FOXL1Forkhead box L10211Up
MXD1MAX dimerization protein 10211Down
TLE2Transducin-like enhancer of split 2 (E(sp1) homolog, Drosophila)0220Up
NRCAMNeuronal cell adhesion molecule0.00001853211Up
KCNAB1Potassium voltage-gated channel, shaker-related subfamily, β member 112Up
UBA5 Ubiquitin-activating enzyme E1-domain containing 10202Up
TCF7Transcription factor 7 (T-cell specific, HMG-box)0.00037994211Up
WDR77WD repeat domain 770220Up
KIF23Kinesin family member 230211Down
CHRNA1Cholinergic receptor, nicotinic, α 1 (muscle)0202Up
AQP2Aquaporin 2 (collecting duct)0202Up
MAKMale germ cell-associated kinase0.00000927211Down
SFRP4Secreted frizzled-related protein 40220Up
TAGAPT-cell activation GTPase activating protein0220Down
DPYSL5 Dihydropyrimidinase-like 512Up
CHI3L1Chitinase 3-like 1 (cartilage glycoprotein-39)0202Up
CEP290Centrosomal protein 290kDa0202Up
MYH11Myosin, heavy chain 11, smooth muscle0.00000927211Up
ZNF341Zinc finger protein 3410220Up
DESDesmin0202Up
NDST1 N-deacetylase/N-sulfotransferase (heparan glucosaminyl) 10220Down
SLC8A1Solute carrier family 8 (sodium/calcium exchanger), member 10.00000927211Down
PAPPA Pregnancy-associated plasma protein A, pappalysin 10220Up
ITPR3Inositol 1,4,5-triphosphate receptor, type 30.00000927211Up
GMFBGlia maturation factor, β0.00015136211Down
SLC25A4Solute carrier family 25 (mitochondrial carrier; adenine nucleotide translocator), member 40220Up
CTNND2Catenin (cadherin-associated protein), delta 2 (neural0202Up
plakophilin-related arm-repeat protein)
ADAM12ADAM metallopeptidase domain 12 (meltrin α)0202Up
IL6STInterleukin 6 signal transducer (gp130, oncostatin M receptor)0220Up
IGFBP6Insulin-like growth factor binding protein 60220Up
GTF3C2General transcription factor IIIC, polypeptide 2, β 110kDa0211Up
LZTS1Leucine zipper, putative tumor sUppressor 10220Up
GSTO2Glutathione S-transferase omega 20.666666672Up
NPAS2Neuronal PAS domain protein 20220Up
ARHGAP26Rho GTPase activating protein 260202Down
DAB2Disabled homolog 2, mitogen-responsive phosphoprotein (Drosophila)0202Down
EIF4E2Eukaryotic translation initiation factor 4E family member 212Up
RPTORRegulatory associated protein of MTOR, complex 10220Up
RASAL2RAS protein activator like 20220Up
FGF14Fibroblast growth factor 140202Up
GXYLT2Glucoside xylosyltransferase 20.00042627211Up
BIN1Bridging integrator 10.00114908211Up
PSEN2Presenilin 2 (Alzheimer disease 4)0220Up
RGS18Regulator of G-protein signaling 180220Down
PPM1AProtein phosphatase 1A (formerly 2C), magnesium-dependent α0.00007413211Down
KIRRELKin of IRRE like (Drosophila)0202Up
CYP2E1Cytochrome P450, family 2, subfamily E, polypeptide 10.666666672Up
BCL10B-cell CLL/lymphoma 100202Down
ICOSInducible T-cell co-stimulator0202Up
HTR1B5-hydroxytryptamine (serotonin) receptor 1B0211Up
HTR1D5-hydroxytryptamine (serotonin) receptor 1D0220Up
MAFV-maf musculoaponeurotic fibrosarcoma oncogene homolog (avian)0220Up
SUPT3HSUppressor of Ty 3 homolog (S. cerevisiae)0220Up
CHADChondroadherin0202Up
CADCarbamoyl-phosphate synthetase 2, aspartate transcarbamylase, and dihydroorotase01Up
CTPS2CTP synthase II01Up
PDCD11Programmed cell death 1101Up
RBM28RNA binding motif protein 2801Up
EIF5AEukaryotic translation initiation factor 5A0101Up
CPDCarboxypeptidase D01Up
DPP4 Dipeptidyl-peptidase 4 (CD26, adenosine deaminase complexing protein 2)0110Up
NCALDNeurocalcin delta0110Down
ZNF169Zinc finger protein 16901Up
GABARAPL1GABA(A) receptor-associated protein like 101Down
TECPR2Tectonin β-propeller repeat containing 201Down
PPRC1Peroxisome proliferator-activated receptor γ, coactivator-related 101Up
GPSM1G-protein signaling modulator 1 (AGS3-like, C. elegans)0110Up
MRPL14Mitochondrial ribosomal protein L1401Up
MRPL4Mitochondrial ribosomal protein L401Up
TNRC6ATrinucleotide repeat containing 6A0110Up
RAPGEF2Rap guanine nucleotide exchange factor (GEF) 20110Down
KCNA1Potassium voltage-gated channel, shaker-related subfamily, member 1 (episodic ataxia with myokymia)01Up
PAFAH1B3Platelet-activating factor acetylhydrolase, isoform Ib, γ subunit 29kDa0110Up
AIREAutoimmune regulator0101Up
P2RY13Purinergic receptor P2Y, G-protein coUpled, 130110Down
GATAD2AGATA zinc finger domain containing 2A0101Up
BAG6BCL2-associated athanogene 60101Up
PFKFB4 6-phosphofructo-2-kinase/fructose-2,6-biphosphatase 40110Up
BZW2Basic leucine zipper and W2 domains 20101Up
CHRNB2Cholinergic receptor, nicotinic, β 2 (neuronal)0110Up
SARSSeryl-tRNA synthetase0110Up
RYBPRING1 and YY1 binding protein0110Down
ADCY5Adenylate cyclase 50101Up
GALT Galactose-1-phosphate uridylyltransferase0101Up
STON2Stonin 20110Down
DGKADiacylglycerol kinase, α 80kDa0101Up
PLXNA4Plexin A401Up
MYLKMyosin, light chain kinase0110Down
MYF6Myogenic factor 6 (herculin)0110Up
MDN1MDN1, midasin homolog (yeast)0110Up
AMNAmnionless homolog (mouse)0101Up
DOCK9Dedicator of cytokinesis 90101Up
PDK2Pyruvate dehydrogenase kinase, isozyme 20101Up
MOB1BMOB kinase activator 1B01Down
SAV1Salvador homolog 1 (Drosophila)01Up
PIK3R6 phosphoinositide-3-kinase, regulatory subunit 60110Up
IMPAD1Inositol monophosphatase domain containing 10101Up
NR2F2Nuclear receptor subfamily 2, groUp F, member 20110Up
JMJD1CJumonji domain containing 1C0110Down
IPO5Importin 50110Up
PPIL2Peptidylprolyl isomerase (cyclophilin)-like 20110Up
CYP1A1Cytochrome P450, family 1, subfamily A, polypeptide 101Up
ELP2Elongation protein 2 homolog (S. cerevisiae)01Up
IKBKAPInhibitor of κ light polypeptide gene enhancer in B-cells, kinase complex-associated protein01Down
BRD9Bromodomain containing 90101Up
RAMP3Receptor (G protein-coUpled) activity modifying protein 30110Up
NAP1L4Nucleosome assembly protein 1-like 40110Up
NTRK3Neurotrophic tyrosine kinase, receptor, type 30110Up
CXCL5Chemokine (C-X-C motif) ligand 50101Down
NDRG2NDRG family member 20110Up
SEMA3FSema domain, immunoglobulin domain (Ig), short basic domain, secreted, (semaphorin) 3F0110Up
RUNX2Runt-related transcription factor 20101Up
MPP2Membrane protein, palmitoylated 2 (MAGUK p55 subfamily member 2)0110Up
SLC40A1Solute carrier family 40 (iron-regulated transporter), member 10110Down
SREK1Splicing regulatory glutamine/lysine-rich protein 10110Up
ING2Inhibitor of growth family, member 20110Down
AKIRIN2Akirin 201Down
CDH6Cadherin 6, type 2, K-cadherin (fetal kidney)01Up
CDH7Cadherin 7, type 201Up
KCNC1Potassium voltage-gated channel, Shaw-related subfamily, member 101Up
TMEM173Transmembrane protein 1730110Up
ZNF775Zinc finger protein 7750110Up
DTX3Deltex 3 homolog (Drosophila)0101Up
EIF4G2Eukaryotic translation initiation factor 4 γ, 201Up
ASAP1ArfGAP with SH3 domain, ankyrin repeat and PH domain 10110Down
ZNF133Zinc finger protein 13301Up
SPAG9Sperm associated antigen 90110Down
SLC4A4Solute carrier family 4, sodium bicarbonate cotransporter, member 401Up
SLC4A7Solute carrier family 4, sodium bicarbonate cotransporter, member 701Up
MYBBP1AMYB binding protein (P160) 1a0110Up
WARS2Tryptophanyl tRNA synthetase 2, mitochondrial0110Up
KCNJ2Potassium inwardly-rectifying channel, subfamily J, member 20110Down
DGKHDiacylglycerol kinase, eta0101Up
ANGPTL4Angiopoietin-like 40101Up
MAPKAP1Mitogen-activated protein kinase associated protein 10101Up
RAB11FIP1RAB11 family interacting protein 1 (class I)0110Down
IHHIndian hedgehog homolog (Drosophila)0101Up
SLC2A1Solute carrier family 2 (facilitated glucose transporter), member 10110Up
ADAM9ADAM metallopeptidase domain 9 (meltrin γ)0101Up
ST3GAL6ST3 β-galactoside α-2,3-sialyltransferase 60110Down
ST3GAL3ST3 β-galactoside α-2,3-sialyltransferase 30110Up
PIGB Phosphatidylinositol glycan anchor biosynthesis, class B0110Down
SLC7A8Solute carrier family 7 (cationic amino acid transporter, y+ system), member 80110Up
AHI1Abelson helper integration site 10101Up
DDR2Discoidin domain receptor family, member 20101Up
MC3RMelanocortin 3 receptor0110Up
TXN2Thioredoxin 20101Up
PROX1Prospero homeobox 10110Up
NABP1Nucleic acid binding protein 10101Down
TUBB1Tubulin, β 10110Down
PLCL2Phospholipase C-like 20110Up
CARD14Caspase recruitment domain family, member 140110Up
JDP2Jun dimerization protein 20110Down
ZNF77Zinc finger protein 770110Up
ZBTB25Zinc finger and BTB domain containing 250110Up
AP4E1Adaptor-related protein complex 4, epsilon 1 subunit01Up
ADAM15ADAM metallopeptidase domain 150101Up
DNAH1Dynein, axonemal, heavy chain 10110Up
FARSBPhenylalanyl-tRNA synthetase, β subunit0110Up
INSL3Insulin-like 3 (Leydig cell)0110Up
TAS2R45Taste receptor, type 2, member 450110Down
PRLProlactin0110Up
ATP2A1ATPase, Ca++ transporting, cardiac muscle, fast twitch 10101Up
EYA4Eyes absent homolog 4 (Drosophila)01Up
BMP6Bone morphogenetic protein 60101Down
MKNK1MAP kinase interacting serine/threonine kinase 101Down
TCEA2Transcription elongation factor A (SII), 20110Up
L3MBTL1l (3) mbt-like 10110Up
ASAP2ArfGAP with SH3 domain, ankyrin repeat and PH domain 20101Down
ZFYVE16Zinc finger, FYVE domain containing 160110Down
HEXIM1Hexamethylene bis-acetamide inducible 10110Up
NEK3NIMA (never in mitosis gene a)-related kinase 30110Up
DDX56DEAD (Asp-Glu-Ala-Asp) box polypeptide 5601Up
RPF1Ribosome production factor 1 homolog01Up
STX3Syntaxin 301Down
STX7Syntaxin 701Down
GATMGlycine amidinotransferase (L-arginine:glycine amidinotransferase)01Up
ELLElongation factor RNA polymerase II0110Down
EZH1Enhancer of zeste homolog 1 (Drosophila)01Up
JARID2Jumonji, AT rich interactive domain 201Down
NKD2Naked cuticle homolog 2 (Drosophila)0110Up
ZNF569Zinc finger protein 56901Up
C1QCComplement component 1, q subcomponent, C chain0101Up
DPYS Dihydropyrimidinase01Up
LZTR1Leucine-zipper-like transcription regulator 10101Up
VWA1Von Willebrand factor A domain containing 10110Up
PEX14Peroxisomal biogenesis factor 1401Up
PEX3Peroxisomal biogenesis factor 301Up
PLAUPlasminogen activator, urokinase0110Up
PLAGL1Pleiomorphic adenoma gene-like 10110Down
LDLRAP1Low density lipoprotein receptor adaptor protein 10110Up
NPAS4Neuronal PAS domain protein 40110Up
BAZ1ABromodomain adjacent to zinc finger domain, 1A0101Down
RQCD1RCD1 required for cell differentiation 1 homolog (S. pombe)0110Up
ZNF337Zinc finger protein 33701up

[i] Up, upregulated; Down, downregulated.

Discussion

Cardiovascular events are important in the prevention and treatment of cardiovascular diseases. When it occurs in patients with risk factors, the heart function must be re-evaluated, and the prevention and treatment strategy must be adjusted. For patients who had experienced cardiovascular events, the prevention and treatment strategies are not uniform between different regions and hospitals. There are divergences between different area and different grades of hospitals (17), conservative and aggressive strategies are being used, not to mention the circumstances vary among individuals, efficient and effective personalized evaluation and treatment are urged (18). Previous research has revealed that whole-genome sequencing can be used in cardiovascular disease risk-prediction algorithms, to more accurately forecast whether patients will develop disease (19). However, there remains a lack of research about microarray profiling in recurrent cardiovascular events. The present study performed a microarray profiling of peripheral blood samples from patients with AMI, downloaded from the GEO database, to focus on the DEGs of those with or without recurrent cardiovascular events 18 months following AMI.

R is an integrated suite of software facilities for data manipulation, calculation and graphical display. Using R software and certain packages, the present study identified the DEGs between patients with AMI, with or without recurrent cardiovascular disease. A total of 1,329 genes were identified and 1,023 were upregulated in recurrent group compared with the no recurrent group, while 306 of them were downregulated. The genes with the most significant P-value and fold change >1.5 in the up and downregulated DEGs are listed in Tables II and III. Among them, TUBB1 (tubulin β1, class VI; P=0.00544; fold change=1.56) encodes a member of the β tubulin protein family, and this protein is specifically expressed in platelets and megakaryocytes, and may be involved in proplatelet production and platelet release. Previous research revealed that the prevalence of TUBB1 was higher among healthy individuals compared with patients with cardiovascular disease (20). This may be associated with the TUBB1 function of suppressing microtubule dynamics, fragmenting microtubules and inhibiting cell division (21). Although there is little previous research about other significant genes involved in cardiovascular diseases, the method in the present study may be the initial and alternative way to explore the pathological mechanism of recurrent cardiovascular events.

To further investigate the roles of the DEGs identified in the pathological mechanism of recurrent cardiovascular events, GO enrichment analysis and KEGG pathway analysis was used. GO is widely used as the tool for the organization and functional annotation of molecular aspect (22). It was revealed that the significantly enriched GO terms for molecular functions were nucleotide binding and nucleic acid binding, for biological processes were signal transduction and regulation of transcription (DNA-dependent), and for cellular component were cytoplasm and nucleus. The GO terms mentioned above are basic and vital to the biological and pathological process. Fibroblast growth factor receptor signaling pathway (GO:0008543; P=0.00151494), blood coagulation (GO:0007596; P=0.00166723) and cell adhesion (GO:0007155; P=00170222) were also significantly enriched in GO biological process. Ronca et al (23) reported that fibroblast growth factor receptor-1 gene knockout impairs cardiac and haematopoietic development in murine embryonic stem cells, and the fibroblast growth factor receptor is required for cardiomyocyte differentiation. Yukawa et al (24) demonstrated that impaired fibroblast growth factor receptor gene would suppress the growth of vascular smooth muscle. As for blood coagulation and cell adhesion, which are associated with the formation and breaking off of thrombosis, they are important in both primary and recurrent cardiovascular events.

In KEGG pathway analysis, regulation of actin cytoskeleton is significantly enriched. Actin cytoskeleton is involved in the inward remodeling process associated with cytoskeletal modifications. It is also involved in reducing the passive diameter of resistance vessels, which are the vascular components of the circulatory system, and exert a preponderant role in the regulation of blood flow and the modulation of blood pressure (25). Therefore, the regulation of actin cytoskeleton may have profound consequences on the incidence of cardiovascular events.

The results from PPI network analysis of the top 10 up and downregulated DEGs revealed the significant nodes, including GNG4, MAPK8, PIK3R2, EP300, CREB1 and PIK3CB. MAPK8 is one member of the MAPK family, which has vast implications in signaling and crosstalk with other signaling networks. The MAPK signal pathway is highly associated with mitochondria, the power houses of the cell, which provide >80% of ATP for normal cardiomyocyte function and have a crucial role in cell death (26). EP300 is the node with the most interactions with other nodes in the PPI network, and previous research revealed that it is associated with arterial stiffness prior to hypertension, increased pulse pressure, and structural vessel wall changes (27). CREB1, also termed CREB, phosphorylation induced by the prostacyclin/IP pathway may suppress cardiac fibrosis, which is a consequence of numerous cardiovascular diseases, and contributes to impaired ventricular function (28). The PPI results suggested that MAPK8, EP300 and CREB1 may be important in the development of recurrent cardiovascular events.

The results from the present study suggested that DEGs exist between patients with AMI, with and without recurrent cardiovascular events. These genes are involved in different GO enrichment terms and signaling pathways, from which insights into the pathological processes of recurrent events can be obtained. Several genes, including TUBB1, GNG4, MAPK8, PIK3R2, EP300 and CREB1, with or without previous research, may provide potential candidates for distinguishing the susceptibility to recurrent cardiovascular events in the future. Therefore, the present research may provide important references for the prevention and treatment strategies in patients with primary cardiovascular events. Nevertheless, the genes and the associated GO enrichment terms and pathways identified here require further investigation and confirmation.

In conclusion, the present study revealed the underlying molecular differences between patients with AMI, with and without recurrent cardiovascular events, including DEGs, their biological function, signaling pathways and key genes in the PPI network, which may contribute to the prevention of recurrent events and personalized treatment for primary cardiovascular events. Further functional studies may provide additional insights into the role of the DEGs in the pathological process of recurrent cardiovascular events.

Acknowledgments

The present research was supported by a grant from the National Natural Science Foundation of China (no. 81173166).

References

1 

Go AS, Mozaffarian D, Roger VL, Benjamin EJ, Berry JD, Blaha MJ, Dai S, Ford ES, Fox CS, Franco S, et al: Heart disease and stroke statistics-2014 update: A report from the American heart association. Circulation. 129:e28–e292. 2014. View Article : Google Scholar

2 

Goff DC Jr, Lloyd-Jones DM, Bennett G, Coady S, D'Agostino RB, Gibbons R, Greenland P, Lackland DT, Levy D, O'Donnell CJ, et al: 2013 ACC/AHA guideline on the assessment of cardiovascular risk: A report of the American college of cardiology/American heart association task force on practice guidelines. Circulation. 129(25 Suppl 2): S49–S73. 2014. View Article : Google Scholar

3 

Perk J, De Backer G, Gohlke H, Graham I, Reiner Z, Verschuren M, Albus C, Benlian P, Boysen G, Cifkova R, et al: European Guidelines on cardiovascular disease prevention in clinical practice (version 2012). The fifth joint task force of the european society of cardiology and other societies on cardiovascular disease prevention in clinical practice (constituted by representatives of nine societies and by invited experts). Eur Heart J. 33:1635–1701. 2012. View Article : Google Scholar : PubMed/NCBI

4 

Ceška R and Štulc T: Implementation of cardiovascular disease prevention guidelines into clinical practice: An unmet challenge? Curr Pharm Des. 21:1180–1184. 2015. View Article : Google Scholar

5 

van Staa TP, Gulliford M, Ng ES, Goldacre B and Smeeth L: Prediction of cardiovascular risk using framingham, ASSIGN and QRISK2: How well do they predict individual rather than population risk? PLoS One. 9:e1064552014. View Article : Google Scholar : PubMed/NCBI

6 

Taljaard M, Tuna M, Bennett C, Perez R, Rosella L, Tu JV, Sanmartin C, Hennessy D, Tanuseputro P, Lebenbaum M and Manuel DG: Cardiovascular disease population risk tool (CVDPoRT): Predictive algorithm for assessing CVD risk in the community setting. A study protocol. BMJ Open. 10:e0067012014. View Article : Google Scholar

7 

Cui J, Forbes A, Kirby A, Marschner I, Simes J, Hunt D, West M and Tonkin A: Semi-parametric risk prediction models for recurrent cardiovascular events in the LIPID study. BMC Med Res Methodol. 10:272010. View Article : Google Scholar : PubMed/NCBI

8 

Xu F, Teng X, Yuan X, Sun J, Wu H, Zheng Z, Tang Y and Hu S: LCK: A new biomarker candidate for the early diagnosis of acute myocardial infarction. Mol Biol Rep. 41:8047–8053. 2014. View Article : Google Scholar : PubMed/NCBI

9 

Duan L, Xiong X, Liu Y and Wang J: miRNA-1: Functional roles and dysregulation in heart disease. Mol Biosyst. 10:2775–2782. 2014. View Article : Google Scholar : PubMed/NCBI

10 

Tikkanen E, Havulinna AS, Palotie A, Salomaa V and Ripatti S: Genetic risk prediction and a 2-stage risk screening strategy for coronary heart disease. Arterioscler Thromb Vasc Biol. 33:2261–2266. 2013. View Article : Google Scholar : PubMed/NCBI

11 

Suresh R, Li X, Chiriac A, Goel K, Terzic A, Perez-Terzic C and Nelson TJ: Transcriptome from circulating cells suggests dysregulated pathways associated with long-term recurrent events following first-time myocardial infarction. J Mol Cell Cardiol. 74:13–21. 2014. View Article : Google Scholar : PubMed/NCBI

12 

Gautier L, Cope L, Bolstad BM and Irizarry RA: Affy-analysis of Affymetrix GeneChip data at the probe level. Bioinformatics. 20:307–315. 2004. View Article : Google Scholar : PubMed/NCBI

13 

Smyth GK, Michaud J and Scott HS: Use of within-array replicate spots for assessing differential expression in microarray experiments. Bioinformatics. 21:2067–2075. 2005. View Article : Google Scholar : PubMed/NCBI

14 

Nogales-Cadenas R, Carmona-Saez P, Vazquez M, Vicente C, Yang X, Tirado F, Carazo JM and Pascual-Montano A: GeneCodis: Interpreting gene lists through enrichment analysis and integration of diverse biological information. Nucleic Acids Res. 37:W317–W322. 2009. View Article : Google Scholar : PubMed/NCBI

15 

Carmona-Saez P, Chagoyen M, Tirado F, Carazo JM and Pascual-Montano A: GENECODIS: A web-based tool for finding significant concurrent annotations in gene lists. Genome Biol. 8:R32007. View Article : Google Scholar : PubMed/NCBI

16 

Saito R, Smoot ME, Ono K, Ruscheinski J, Wang PL, Lotia S, Pico AR, Bader GD and Ideker T: A travel guide to cytoscape plugins. Nat Methods. 9:1069–1076. 2012. View Article : Google Scholar : PubMed/NCBI

17 

Mortensen MB and Falk E: Real-life evaluation of European and American high-risk strategies for primary prevention of cardiovascular disease in patients with first myocardial infarction. BMJ Open. 4:e0059912014. View Article : Google Scholar : PubMed/NCBI

18 

Montecucco F, Carbone F, Dini FL, Fiuza M, Pinto FJ, Martelli A, Palombo D, Sambuceti G, Mach F and De Caterina R: Implementation strategies of systems medicine in clinical research and home care for cardiovascular disease patients. Eur J Intern Med. 25:785–794. 2014. View Article : Google Scholar : PubMed/NCBI

19 

Musunuru K: Personalized genomes and cardiovascular disease. Cold Spring Harb Perspect Med. 5:a0140682014. View Article : Google Scholar : PubMed/NCBI

20 

Freson K, De Vos R, Wittevrongel C, Thys C, Defoor J, Vanhees L, Vermylen J, Peerlinck K and Van Geet C: The TUBB1 Q43P functional polymorphism reduces the risk of cardiovascular disease in men by modulating platelet function and structure. Blood. 106:2356–2362. 2005. View Article : Google Scholar : PubMed/NCBI

21 

Yang H, Ganguly A, Yin S and Cabral F: Megakaryocyte lineage-specific class VI β-tubulin suppresses microtubule dynamics, fragments microtubules, and blocks cell division. Cytoskeleton (Hoboken). 68:175–187. 2011. View Article : Google Scholar

22 

Lovering RC, Camon EB, Blake JA and Diehl AD: Access to immunology through the gene ontology. Immunology. 125:154–160. 2008. View Article : Google Scholar : PubMed/NCBI

23 

Ronca R, Gualandi L, Crescini E, Calza S, Presta M and Dell'Era P: Fibroblast growth factor receptor-1 phosphorylation requirement for cardiomyocyte differentiation in murine embryonic stem cells. J Cell Mol Med. 13:1489–1498. 2009. View Article : Google Scholar : PubMed/NCBI

24 

Yukawa H, Miyatake SI, Saiki M, Takahashi JC, Mima T, Ueno H, Nagata I, Kikuchi H and Hashimoto N: In vitro growth suppression of vascular smooth muscle cells using adenovirus-mediated gene transfer of a truncated form of fibroblast growth factor receptor. Atherosclerosis. 141:125–132. 1998. View Article : Google Scholar : PubMed/NCBI

25 

Castorena-Gonzalez JA, Staiculescu MC, Foote C and Martinez-Lemus LA: Mechanisms of the inward remodeling process in resistance vessels: Is the actin cytoskeleton involved? Microcirculation. 21:219–229. 2014. View Article : Google Scholar : PubMed/NCBI

26 

Javadov S, Jang S and Agostini B: Crosstalk between mitogen-activated protein kinases and mitochondria in cardiac diseases: Therapeutic perspectives. Pharmacol Ther. 144:202–225. 2014. View Article : Google Scholar : PubMed/NCBI

27 

Herrera VL, Decano JL, Giordano N, Moran AM and Ruiz-Opazo N: Aortic and carotid arterial stiffness and epigenetic regulator gene expression changes precede blood pressure rise in stroke-prone Dahl salt-sensitive hypertensive rats. PLoS One. 9:e1078882014. View Article : Google Scholar : PubMed/NCBI

28 

Chan EC, Dusting GJ, Guo N, Peshavariya HM, Taylor CJ, Dilley R, Narumiya S and Jiang F: Prostacyclin receptor suppresses cardiac fibrosis: Role of CREB phosphorylation. J Mol Cell Cardiol. 49:176–185. 2010. View Article : Google Scholar : PubMed/NCBI

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February-2016
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Spandidos Publications style
Liao J, Chen Z, He Q, Liu Y and Wang J: Differential gene expression analysis and network construction of recurrent cardiovascular events. Mol Med Rep 13: 1746-1764, 2016
APA
Liao, J., Chen, Z., He, Q., Liu, Y., & Wang, J. (2016). Differential gene expression analysis and network construction of recurrent cardiovascular events. Molecular Medicine Reports, 13, 1746-1764. https://doi.org/10.3892/mmr.2015.4707
MLA
Liao, J., Chen, Z., He, Q., Liu, Y., Wang, J."Differential gene expression analysis and network construction of recurrent cardiovascular events". Molecular Medicine Reports 13.2 (2016): 1746-1764.
Chicago
Liao, J., Chen, Z., He, Q., Liu, Y., Wang, J."Differential gene expression analysis and network construction of recurrent cardiovascular events". Molecular Medicine Reports 13, no. 2 (2016): 1746-1764. https://doi.org/10.3892/mmr.2015.4707