Entry Detail



General Information

Database ID:exR0089678
RNA Name:hsa-miR-301a-3p
RNA Type:miRNA
Chromosome:chr17
Starnd:-
Coordinate:
Start Site(bp):59151149End Site(bp):59151171
External Links:hsa-miR-301a-3p



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
ALDH3A2
chr17
19648136
19685760
+
TNFRSF1B
chr1
12166991
12209228
+
CAMTA1
chr1
6785454
7769706
+
CPEB4
chr5
173888349
173961980
+
ZDHHC7
chr16
84974181
85011535
-
STARD13
chr13
33103137
33350630
-
APCDD1
chr18
10454635
10489949
+
HABP4
chr9
96450169
96491336
+
TBC1D5
chr3
17157162
18444817
-
ZNF12
chr7
6688433
6706947
-
PTEN
chr10
87863625
87971930
+
NPTX1
chr17
80466834
80477843
-
APOL6
chr22
35648446
35668404
+
CD151
chr11
832887
839831
+
PPP1R9A
chr7
94907202
95296415
+
KIAA0232
chr4
6781375
6884170
+
ZNF594
chr17
5179535
5191868
-
LIPA
chr10
89213569
89414557
-
LYSMD2
chr15
51723011
51751585
-
MLPH
chr2
237485428
237555322
+
EMP1
chr12
13196723
13219941
+
KLF4
chr9
107484852
107490482
-
RTN4
chr2
54972187
55112621
-
SCAF11
chr12
45919131
45992120
-
RNF11
chr1
51236273
51273447
+
XXYLT1
chr3
195068284
195271159
-
SHANK2
chr11
70467856
71252577
-
NSD2
chr4
1871393
1982207
+
SLC7A5
chr16
87830023
87869507
-
MTMR9
chr8
11284816
11328146
+
miRNA targets:NA
circRNA targets:
circRNA SymbolChromosomeStart Site(bp)End Site(bp)Strand
hsa_circ_0000591
chr15
41961025
41962156
+
hsa_circ_0001454
chr4
154524454
154533552
+
hsa_circ_0000384
chr12
27867712
27877119
+
hsa_circ_0001723
chr7
91924202
91948826
+
hsa_circ_0000892
chr19
11941431
12014514
+
hsa_circ_0001605
chr6
42903447
42905047
+
hsa_circ_0000155
chr1
168007608
168014465
+
hsa_circ_0001495
chr5
68470703
68471364
+
hsa_circ_0000943
chr19
47421744
47440665
+
hsa_circ_0000018
chr1
15860731
15863309
+
lncRNA targets:
lncRNA SymbolChromosomeStart Site(bp)End Site(bp)Strand
AC011503.2
chr19
23927788
23929287
+
AC021092.1
chr19
44103007
44113183
-
AC135050.6
chr16
31122235
31124064
+
AC234582.1
chr1
155195004
155205495
+
AL031595.3
chr22
44139365
44153626
+
AL049840.4
chr14
103694516
103695050
-
AL158206.1
chr9
19453209
19455173
+
AL158825.2
chr9
75009828
75016036
-
AL603839.3
chr1
40493157
40508661
-
CKMT2-AS1
chr5
81201341
81301565
-
H19
chr11
1995176
2001470
-
HAGLR
chr2
176164051
176188958
-
KCNQ1OT1
chr11
2608328
2699994
-
LINC01089
chr12
121795267
121803906
-
MIR17HG
chr13
91347820
91354579
+
NEAT1
chr11
65422774
65445540
+
XIST
chrX
73820649
73852723
-
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.