Entry Detail



General Information

Database ID:exR0089957
RNA Name:hsa-miR-4709-5p
RNA Type:miRNA
Chromosome:chr14
Starnd:-
Coordinate:
Start Site(bp):74480175End Site(bp):74480196
External Links:hsa-miR-4709-5p



Disease Information

Disease Name:Preterm Birth
Disease Category:Urogenital Diseases and Pregnancy Complications
MeSH ID:D047928
Type:Diseases Category/Female Urogenital Diseases and Pregnancy Complications
Alias:Premature Birth//Birth, Premature//Births, Premature//Premature Births//Preterm Birth//Birth, Preterm//Births, Preterm//Preterm Births



Expression Detail

GEO ID:GSE106224
Description:Exosomal RNA may reflect placenta deficiencies and provide better biomarker in preterm birth
Experimental Design:Disease vs Control
Case Disease Type:Preterm Birth
Case Disease SubType:NA
Case Sample:Preterm Birth
Control Sample:Control
Number of Case:20
Number of Control:50
Number of Samples:70





Regulatory Relationship

mRNA targets:
Gene SymbolChromosomeStart Site(bp)End Site(bp)Strand
BCORL1
chrX
129981107
130058083
+
CBX2
chr17
79778148
79787983
+
CTNND1
chr11
57753243
57819546
+
DNAJB6
chr7
157335381
157417439
+
ERP29
chr12
112013348
112023449
+
LAMC1
chr1
183023420
183145592
+
ARID4B
chr1
235131634
235328219
-
CLSTN3
chr12
7129698
7158945
+
DHX16
chr6
30653119
30673006
-
GFM2
chr5
74721206
74767147
-
HNRNPL
chr19
38836388
38852347
-
HOXB13
chr17
48724763
48729178
-
HSP90AA1
chr14
102080738
102139699
-
IDH1
chr2
208236227
208266074
-
IREB2
chr15
78437431
78501453
+
MKKS
chr20
10401009
10434222
-
MSH3
chr5
80654652
80876815
+
NPC2
chr14
74476192
74494177
-
PABPC1
chr8
100685816
100722809
-
PODXL
chr7
131500262
131558217
-
PRDX5
chr11
64318121
64321811
+
SCAF8
chr6
154733325
154834244
+
TIAM2
chr6
154832697
155257723
+
UGP2
chr2
63840940
63891562
+
miRNA targets:NA
circRNA targets:NA
lncRNA targets:
lncRNA SymbolChromosomeStart Site(bp)End Site(bp)Strand
AC005479.1
chr14
74474007
74474864
-
Display:



Experiment Detail

GEO ID:GSE106224
Sample Source:Blood
Source Fraction:Plasma
Platform:GPL18573
Method:NGS
Num of detected RNA Type:1
Num of detected RNAs of this Type:1522
Sample treatment protocol:Whole blood samples were centrifuged for 15 minutes at 2,000×g at 4°C to get plasma. EVs were isolated from 100 ul of plasma using size exclusion columns (iZON qEV, Cambridge MA) with de-gassed 1X PBS from a total of 22 selected samples, 11 from each group (Table 1). Eluate (~500 ul for each fraction) was collected in microfuge tubes individually. The protein contains and concentration for each fraction were assessed by protein gel electrophoresis and Bradford assay (BioRad, Hercules, CA).
RNA Extract protocol:RNA was isolated from all plasma samples, the 22 EV samples, and 22 corresponding EV-depleted fractions using miRNeasy Micro Kit (Qiagne, Germantown MD).
RNA library preparation protocol:Small RNA sequencing libraries were generated with a modified small RNAseq protocol (manuscript in preparation) that alleviates most of the adapter-miRNA ligation sequence bias problem.



Reference

PMID:29516617
Title:Extracellular vesicle RNAs reflect placenta dysfunction and are a biomarker source for preterm labour
Author:Fallen S, Baxter D, Wu X, Kim TK, Shynlova O, Lee MY, Scherler K, Lye S, Hood L, Wang K
Journal:J Cell Mol Med. 2018 May;22(5):2760-2773.
Description:We have used an improved small RNA library construction protocol and a newly developed size exclusion chromatography (SEC)-based EV purification method to gain a comprehensive view of circulating RNA in plasma and its distribution by analysing RNAs in whole plasma and EV-associated and EV-depleted plasma.