exRNAdisease

General Information

Database ID:

exR0000145

RNA Name:

ACO2

RNA Type:

mRNA

Chromosome:

chr22

Starnd:

Coordinate:

Start Site(bp):

41469117

End Site(bp):

41528989

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
RASA4	chr7	102573807	102616757	-
NOC2L	chr1	944203	959309	-
RPS17	chr15	82536750	82540459	-
LAMA1	chr18	6941742	7117797	-
DPYSL2	chr8	26514031	26658178	+
MTIF2	chr2	55236595	55269347	-
EDIL3	chr5	83940554	84384880	-
NAMPT	chr7	106248298	106286326	-
CDH1	chr16	68737292	68835541	+
AP002990.1	chr11	62559603	62591531	-
DDX19B	chr16	70289663	70335283	+
IFITM1	chr11	313506	315272	+
COMT	chr22	19941733	19969975	+
R3HDM2	chr12	57253762	57431005	-
HNRNPK	chr9	83968083	83980616	-
TMBIM6	chr12	49707725	49764934	+
TUBB	chr6	30720352	30725426	+
U2AF1L5	chr21	6484623	6499261	-
WDR74	chr11	62832342	62841809	-
IQCB1	chr3	121769761	121835079	-
KIF26A	chr14	104138723	104180894	+
CDCA2	chr8	25459199	25507911	+
RRP36	chr6	43021623	43034156	+
PTPRS	chr19	5158495	5340803	-
HDGFL3	chr15	83112738	83207823	-
DAP	chr5	10679230	10761272	-
CD52	chr1	26317958	26320523	+
PSMA2	chr7	42916861	42932185	-
COPG1	chr3	129249606	129277773	+
FRMPD4	chrX	11822423	12724523	+

miRNA targets:

circRNA targets:

lncRNA targets:

lncRNA Symbol	Chromosome	Start Site(bp)	End Site(bp)	Strand
AC079781.5	chr7	97851688	97972985	-
AC147651.4	chr7	603185	608482	+
AC245033.4	chr15	82533175	82540008	-
SNHG19	chr16	2154797	2155358	-
SNHG7	chr9	136721366	136728184	-

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.