MicroRNA profiling of patients with sporadic atrial septal defect

Figures & data

Figure 1. An overview of the miRNA data of the atrial septum tissue samples from ASDs patients and normal controls. (a) The differentially expressed miRNAs between ASD and control groups. (b) Heatmap and hierarchical clustering of differentially expressed miRNAs. (c) Chromosome clustering analysis of differentially expressed miRNAs.

Table 1. Chromosome clusters of upregulated and downregulated miRNAs in ASDs patients vs. controls.

Systemic Name	miRBase Accession no.	Chromosome	Start	End	Up/down
C1
hsa-miR-29b-3p	MIMAT0000100	Chr1	207975861	207975841	Up
hsa-miR-29c-3p	MIMAT0000681	Chr1	207975271	207975250	Up
C2
hsa-miR-143-3p	MIMAT0000435	Chr5	148808547	148808561	Up
hsa-miR-145-5p	MIMAT0000437	Chr5	148810229	148810246	Up
hsa-miR-145-3p	MIMAT0004601	Chr5	148810263	148810283	Up
C3
hsa-miR-106b-5p	MIMAT0000680	Chr7	99691647	99691631	Down
hsa-miR-93-5p	MIMAT0000093	Chr7	99529359	99529344	Down
C4
hsa-miR-204-3p	MIMAT0022693	Chr9	73424982	73424969	Down
hsa-miR-204-5p	MIMAT0000265	Chr9	73424944	73424925	Down
C5
hsa-miR-17-5p	MIMAT0000070	Chr13	92002878	92002894	Down
hsa-miR-19a-3p	MIMAT0000073	Chr13	92003195	92003215	Down
hsa-miR-19b-3p	MIMAT0000074	Chr13	92003502	92003521	Down
hsa-miR-20a-5p	MIMAT0000075	Chr13	92003330	92003348	Down
hsa-miR-92a-3p	MIMAT0000092	Chr13	92003621	92003636	Down
C6
hsa-miR-451a	MIMAT0001631	Chr17	27188424	27188403	Down
hsa-miR-144-5p	MIMAT0004600	Chr17	27188586	27188565	Down
C7
hsa-miR-18b-5p	MIMAT0001412	ChrX	133304098	133304079	Down
hsa-miR-20b-5p	MIMAT0001413	ChrX	133303866	133303848	Down
hsa-miR-363-3p	MIMAT0000707	ChrX	133303478	133303460	Down
C8
hsa-miR-450a-5p	MIMAT0001545	ChrX	133674409	133674390	Down
hsa-miR-542-3p	MIMAT0003389	ChrX	133675444	133675424	Down
hsa-miR-542-5p	MIMAT0003340	ChrX	133675408	133675390	Down
C9
hsa-miR-424-5p	MIMAT0001341	ChrX	133680675	133680654	Down
hsa-miR-503-5p	MIMAT0002874	ChrX	133680385	133680368	Down

Figure 2. Interaction network of dysregulated miRNA clusters, target genes and GO terms of upregulated (a) and downregulated (b) groups.

Table 2. Co-target genes of six differentially expressed miRNA clusters in patients with ASDs.

miRNA cluster	Co-target gene
miR-29 cluster (up-regulated)	EMP1, HMGCR, CALM3, MMP2,BTG2, CNBP, COX7A2L, COL3A1, COL4A1, ASXL2, ADAM12, CDC42SE1, PPY, COL4A2, PTEN, CDK6, TNRC18, REL, PDGFRB, SLC29A2, ENTPD1, MORF4L2, ID3, RAB40C, TMTC3, LOX, FAM71F2, WWTR1, ZBTB34, PPP1R13B, GLDN, GAS2L3, CDC23, TRAM2, TUBB2A, TET3, LRP6, SERPINH1, ITGB1, YAE1D1, BBC3, KCTD15, CD276, SLC2A14, SGK1, COL5A2, NEDD9, CCDC117, LAMC2, GLRX3, ZFPM1, FAM193A, BACE1, ABCE1, RPL22, ZFP91, CTNNBIP1, CCND2, CAND1, NASP, AMFR, COL1A1, ELMSAN1, MXD1, RAET1L, PER1, MDM2, KLHDC3, BMT2, AKT2, FMNL3, P3H1, TESPA1, SP1, PTP4A1, TGIF2, DNMT3A, FAM53C, CDC42, SLC7A5P2, MAPKBP1, ITGA6, SNX24, FSCN1, COLEC10, COL15A1, COL10A1, KDM6B, HDGF, FGA, EREG, PRY, SPARC, ZNF286A, R3HDM4, TDG, PLAG1, FOS, COMMD2, FGG
miR-143,145 cluster (up-regulated)	LMNB2, SMAD3, CD44, SERPINE1, CTNND1, NFATC1, MMP14, MDM2, RREB1, FSCN1, MYO6, COL5A1, DDX6, KLF5, IGF1R, ZNF426, BRAF, JAG1, IGFBP5, CTGF, DNTTIP2, LRRC2, SFT2D2, NFIC, ZNF573, ABRACL, MTDH, CLSTN2
miR-17-92 cluster (down-regulated)	POGZ, LDLR, SLC7A11, MAVS, CCSER2, THBS1, ATXN1, GAK, SF3B3, MEF2D, WASL, NUFIP2, PTEN, SOX4, MECP2, CNOT4, WDR1, DYNC1LI2, NACC2, PRRG4, PRR14L, SCD, PKNOX1, SMAD4, AGO1, SESN3, RORA, BCL2L11, BMPR2, DNMT1, NFIB, TNFRSF10B, ZFYVE26, NFATC2IP, TGFBR2, CIT, BTBD7, ANKIB1, RLIM, CBX5, KPNA6, ATG16L1
miR-106a-36 cluster (down-regulated)	TWF1, MDM2, RLIM, PARD6B, AP3S2, CLN8, RNF4, ALG14, RBMS2, CAD, ZNF460, VMA21, C15orf38-AP3S2, SUPT7L, RPS6KA5, GNAS, PITPNA, VTI1A, EFCAB14, CRIM1, CCND1, ESR1, ITGA2, TXNIP, TNRC6B, RORA, HIF1A, ZFYVE26, TSR1, F3, IFNAR2, DCTN5, WAC, GIGYF1, DCAF8, RRN3, BTG2, WASL, NUFIP2, SOX4, PHLPP2, FAM129A, YIPF4, CNOT4, GATA6, IPP, DYNC1LI2, PRRG4, C17orf75, ZNF417, NUGGC, DDI2, ZNF264, GID4, EIF5A2, PKNOX1, SLC7A11, TXLNA, POLQ, CCSER2, MYLIP, MKNK2, SESN3, BCL2L11, ZNF354B, KLHL15, CREB1, DNAJB9, PCMTD1, ORAI2, ZFYVE21, CDKN1A, AGMAT, ERGIC2, USP28
miR-106b-25 cluster (down-regulated)	RRN3, TNIP3, CMTR2, UGCG, GATA6, BTG2, SPIB, HECA, SMAD4, PFKP, ZNF785, U2SURP, WASL, RGMB, NHLRC3, TRAF3IP2, NUFIP2, PTEN, AFF1, CYCS, RAB42, SENP1, TPRG1L, CENPQ, HOXD11, DDX5, ZNF446, TGFBR2, FNBP1L, SLC6A4, HMGB3, AP1G1, SOD2, HCP5, FOXQ1, CHD9, KCNK6, MSH3, NETO2, RAB3IP, LDHD, ANKS4B, ARL1, DPYSL2, SMAD6, TET3, MAP3K3, SSH2, SOX4, PTPDC1, ZNF347, C15orf41, RPS6KA5, ATG2B, SAMD4, FAHD1, METTL8, CHSY1, LAPTM4A, PHLPP2, FAM129A, NSD2, HOOK3, CRY2, ZYG11A, RUNX3, GPR137B, MECP2, SLK, WDR89, ZNF202, PNPLA4, ZNF454, PRKCB, ARHGEF7, PKD2, MPPE1, VPS26A, PPP1R15B, SLC25A46, SQSTM1, TMEM127, FOXK2, SAMD12, KPNA2, SMAD5, A1CF, SLC35F6, YOD1, RHOC, YIPF4, TMEM267, GNAS, BMT2, DCBLD2, GEMIN8, CNOT4, PAFAH1B1, KATNAL1, MFSD8
miR-503,424 cluster (down-regulated)	BCL2L12, RTN4, DECR1, SALL1, NUFIP2, NUCKS1, OSCAR, EXT1, ZBTB34, RAB3IP, FGFR1, HSPE1-MOB4, ACTR3B, PTPRD, RALGAPB, PNRC2, CBX4, SCAMP4, CDC14A, ZNF704, GPR27, KPNA3, ZNF691, ANLN, NAPG, YRDC, PRKAR2A, CCNE1, CAPZA2, RAPH1, SRPRA, ATP5G3, TSC22D2, CNKSR3, PSAT1, PLAG1, UBR3, CHEK1, ASCC1, ZNRF3, ZNF449, PPM1A, SLC2A3, GNAT1, FGF2, KIF5B, SKI, TMEM245, CDCA4, CCNT1, EFNB2, RECK, HCFC2, JARID2, PRSS21, CDK17, CCNE2, ZNF367, KIAA1456, CCDC83, CMTM4, UBN2, MOB4, PRDM4, OCRL, L2HGDH, BTN3A3, DLGAP3, PI4K2B, HSPA8, WNK3, UGT2B4, PNPLA6, C1orf21, SETD1B, TFAP2A, ASH1L, USP48, CTDSPL, CYP26B1, ATF6, CDC37L1, CA8, DYNLL2, REL, ZFHX4, CREBRF, MAP4K2, LURAP1L, MAP3K7, TLK1, RIF1, SMAD7, CRK, BZW1, PHKA1, PPP1R11, N4BP1, CANX

Figure 3. Significant KEGG pathway analysis of dysregulated miRNA clusters in upregulated (a) and downregulated (b) miRNA clusters.

Figure 4. Expression profile of miRNAs during C57BL/6 mice heart development: miR-29 cluster (a), miR-143/145 cluster (b), miR-17-92 cluster (c), miR-106b-25 cluster (d) and miR-503/424 cluster (e).