exRNAdisease

General Information

Database ID:

exR0000286

RNA Name:

ADCY3

RNA Type:

mRNA

Chromosome:

chr2

Starnd:

Coordinate:

Start Site(bp):

24819169

End Site(bp):

24919839

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
COL4A5	chrX	108439844	108697545	+
GPC3	chrX	133535745	133985594	-
ERCC2	chr19	45349837	45370918	-
HNRNPL	chr19	38836388	38852347	-
GMPR	chr6	16238587	16295549	+
MED12	chrX	71118556	71142454	+
PIEZO2	chr18	10666483	11148762	-
PIP5K1C	chr19	3630183	3700479	-
MTRR	chr5	7851186	7906025	+
IMP4	chr2	130342877	130347967	+
PEX2	chr8	76980258	77001044	-
RPL4	chr15	66498015	66524532	-
CCDC47	chr17	63745255	63776351	-
HIGD1A	chr3	42784298	42804531	-
CYTH1	chr17	78674048	78782297	-
MSC	chr8	71841549	71844468	-
LCOR	chr10	96832282	96995959	+
KIF1A	chr2	240713761	240821036	-
SESN3	chr11	95165513	95232541	-
RHOC	chr1	112701106	112707434	-
WDR81	chr17	1716523	1738599	+
FAM8A1	chr6	17600302	17611715	+
RAN	chr12	130872037	130877678	+
ANO8	chr19	17323223	17334855	-
AKT2	chr19	40230317	40285536	-
POTEF	chr2	130073535	130129222	-
GNB1	chr1	1785285	1891117	-
PIH1D1	chr19	49446298	49453497	-
NFE2L1	chr17	48048329	48061545	+
AL049629.2	chr11	33698261	33722467	-

miRNA targets:

miRNA Symbol	Chromosome	Start Site(bp)	End Site(bp)	Strand
hsa-miR-367-3p	chr4	112647877	112647898	-
hsa-miR-92b-3p	chr1	155195237	155195258	+
hsa-miR-155-3p	chr21	25574022	25574043	+

circRNA targets:

lncRNA targets:

lncRNA Symbol	Chromosome	Start Site(bp)	End Site(bp)	Strand
AC073062.1	chr2	13537673	13609168	+
AC099329.1	chr3	42785087	42852428	-
AL160408.3	chr1	234669523	234696153	-
LINC01866	chr2	16970034	16974497	+
MEF2C-AS1	chr5	88883328	89466398	+
MIR155HG	chr21	25561909	25575168	+
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.