exRNAdisease

General Information

Database ID:

exR0000311

RNA Name:

ADIPOR2

RNA Type:

mRNA

Chromosome:

chr12

Starnd:

Coordinate:

Start Site(bp):

1688574

End Site(bp):

1788674

External Links:

Disease Information

Disease Name:	Down Syndrome
Disease Category:	Congenital, Hereditary, and Neonatal Diseases and Abnormalities
MeSH ID:	D004314
Type:	Diseases Category/Congenital, Hereditary, and Neonatal Diseases and Abnormalities
Alias:	Syndrome, Down//Mongolism//47,XY,+21//Trisomy G//47,XX,+21//Down's Syndrome//Downs Syndrome//Syndrome, Down's//Trisomy 21//Trisomy 21, Mitotic Nondisjunction//Down Syndrome, Partial Trisomy 21//Partial Trisomy 21 Down Syndrome//Trisomy 21, Meiotic Nondisjunction

Expression Detail

GEO ID:	GSE16176
Description:	Expression profiles of amniotic fluid from human fetuses with Down syndrome and euploid controls
Experimental Design:	Disease vs Control
Case Disease Type:	Down Syndrome
Case Disease SubType:	NA
Case Sample:	Down Syndrome
Control Sample:	Normal
Number of Case:	7
Number of Control:	7
Number of Samples:	14

Regulatory Relationship

mRNA targets:

Gene Symbol	Chromosome	Start Site(bp)	End Site(bp)	Strand
DOCK2	chr5	169637268	170083382	+
HP1BP3	chr1	20740266	20787323	-
MMP15	chr16	58025754	58046901	+
SKA3	chr13	21153595	21176552	-
MYO5A	chr15	52307283	52529050	-
BRD4	chr19	15235519	15332545	-
DAZAP1	chr19	1407569	1435687	+
EMC6	chr17	3668812	3669668	+
DBNL	chr7	44044640	44069456	+
CAPZA2	chr7	116811070	116922049	+
VPS26C	chr21	37223420	37267919	-
TAGLN2	chr1	159918107	159925732	-
LDHA	chr11	18394560	18408425	+
HADH	chr4	107989714	108035175	+
GALNT1	chr18	35581117	35711834	+
KIF3A	chr5	132692628	132737638	-
HELLS	chr10	94501434	94613905	+
EMC10	chr19	50476400	50490870	+
RPRD1A	chr18	35984387	36067576	-
ANKRD28	chr3	15667236	15859771	-
CMTM4	chr16	66614750	66696707	-
AXIN1	chr16	287440	352723	-
C2orf42	chr2	70149880	70248615	-
HAT1	chr2	171922448	171983686	+
CDCA3	chr12	6844793	6852066	-
BMP2K	chr4	78776342	78916372	+
ANKHD1-EIF4EBP3	chr5	140401908	140549569	+
XRCC5	chr2	216107464	216206303	+
SF3B1	chr2	197388515	197435091	-
PUM2	chr2	20248691	20352234	-

miRNA targets:

miRNA Symbol	Chromosome	Start Site(bp)	End Site(bp)	Strand
hsa-miR-150-5p	chr19	49500832	49500853	-
hsa-miR-483-3p	chr11	2134142	2134162	-
hsa-miR-1321	chrX	85835832	85835849	+
hsa-miR-4426	chr1	192716333	192716349	+

circRNA targets:

lncRNA targets:

lncRNA Symbol	Chromosome	Start Site(bp)	End Site(bp)	Strand
AC005746.1	chr17	61382785	61384680	+
AL031282.2	chr1	1702736	1737688	-
AL139393.2	chr6	160926269	160943110	+
AP001496.2	chr18	5232876	5238526	-
MALAT1	chr11	65497688	65506516	+
PTPRD-AS1	chr9	8858127	8864772	+
XIST	chrX	73820649	73852723	-

Display:

Experiment Detail

GEO ID:	GSE16176
Sample Source:	Amniotic Fluid
Source Fraction:	Supernatant
Platform:	GPL570
Method:	Microarray
Num of detected RNA Type:	1
Num of detected RNAs of this Type:	17063
Sample treatment protocol:	NA
RNA Extract protocol:	RNA was extracted from 10 mL AF with 30 mL TRIzol LS Reagent (Invitrogen, Carlsbad, CA) and 8 mL chloroform. After RNA extraction, RNA was purified and DNA was removed using the RNeasy® Maxi Kit, including the DNase step according to the manufacturer's protocol (QIAGEN, Valencia, CA). RNA was precipitated using 3M NaOAc and 100% ethanol, and 80% ethanol was added after 4 hours incubation at -20 °C. cDNA, synthesized from extracted RNA, was amplified and purified using the WT-Ovation™ Pico RNA Amplification System (NuGEN, San Carlos, CA) and the DNA Clean & Concentrator™-25 (Zymo Research, Orange, CA).
RNA library preparation protocol:	biotin Samples were labeled using the FL-Ovation™ cDNA Biotin Module V2 (NuGEN, San Carlos, CA).

Reference

PMID:	19474297
Title:	Functional genomic analysis of amniotic fluid cell-free mRNA suggests that oxidative stress is significant in Down syndrome fetuses
Author:	Slonim DK, Koide K, Johnson KL, Tantravahi U, Cowan JM, Jarrah Z, Bianchi DW
Journal:	Proc Natl Acad Sci U S A. 2009 Jun 9;106(23):9425-9.
Description:	To characterize the differences between second trimester Down syndrome (DS) and euploid fetuses, we used Affymetrix microarrays to compare gene expression in uncultured amniotic fluid supernatant samples.