exRNAdisease

General Information

Database ID:

exR0000484

RNA Name:

ALDH2

RNA Type:

mRNA

Chromosome:

chr12

Starnd:

Coordinate:

Start Site(bp):

111766887

End Site(bp):

111817532

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
WASF3	chr13	26557683	26688948	+
RACK1	chr5	181236897	181248096	-
ANKS1A	chr6	34889255	35091406	+
NME2	chr17	51165435	51171747	+
EIF5A	chr17	7306999	7312463	+
ZNF891	chr12	133106817	133130473	-
NPM1	chr5	171387116	171411137	+
LYSMD1	chr1	151159748	151165948	-
PEX5	chr12	7188685	7218574	+
RBM39	chr20	35701347	35742312	-
LAMA5	chr20	62307955	62367312	-
PITPNM1	chr11	67491768	67506263	-
RPL28	chr19	55385345	55403250	+
ANKRD11	chr16	89267630	89490561	-
TUBA1C	chr12	49188736	49274603	+
RBPJ	chr4	26163455	26435131	+
PRPF19	chr11	60890547	60906585	-
PRTG	chr15	55611544	55743152	-
ZNF671	chr19	57719751	57727624	-
CSK	chr15	74782057	74803198	+
AC002996.1	chr12	111753890	111791418	+
GPT2	chr16	46884362	46931289	+
PTPN9	chr15	75463251	75579315	-
SIRT7	chr17	81911939	81921323	-
DR1	chr1	93345907	93369493	+
ACTB	chr7	5527148	5563784	-
AC010422.3	chr19	12643831	12648397	-
RPL13	chr16	89560657	89566828	+
APOBEC3G	chr22	39077067	39087743	+
SIKE1	chr1	114769479	114780685	-

miRNA targets:

circRNA targets:

lncRNA targets:

lncRNA Symbol	Chromosome	Start Site(bp)	End Site(bp)	Strand
AC092117.1	chr16	2777319	2780568	+
AC108134.2	chr16	3156736	3157483	-

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.