exRNAdisease

General Information

Database ID:

exR0003731

RNA Name:

DDOST

RNA Type:

mRNA

Chromosome:

chr1

Starnd:

Coordinate:

Start Site(bp):

20651767

End Site(bp):

20661544

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
ABCF1	chr6	30571393	30597179	+
ABHD14B	chr3	51968510	51983409	-
ABO	chr9	133250401	133276024	-
AC007192.1	chr19	18153158	18178117	+
AC024592.3	chr19	5866171	5903787	-
AC104452.1	chr3	49416777	49429314	-
AC104581.2	chr17	7925931	7930622	-
AC118549.1	chr1	77562416	77683419	-
ACACA	chr17	37084992	37406836	-
ACAP3	chr1	1292390	1309609	-
ACTG1	chr17	81509971	81523847	-
ADAM23	chr2	206443532	206621127	+
ADAMTS19	chr5	129460281	129738683	+
ADD3	chr10	109996368	110135565	+
ADSL	chr22	40346500	40390463	+
AGFG1	chr2	227472152	227561214	+
AGPAT5	chr8	6708642	6761503	+
AHCYL2	chr7	129225023	129430211	+
AL022238.4	chr22	40346529	40410054	+
AL121594.1	chr14	35122549	35317474	+
AL136295.4	chr14	24180395	24190416	-
ALDH1B1	chr9	38392702	38398661	+
ALDH9A1	chr1	165662216	165698863	-

miRNA targets:

circRNA targets:

lncRNA targets:

lncRNA Symbol	Chromosome	Start Site(bp)	End Site(bp)	Strand
AC067930.1	chr8	143579636	143580670	+
AC092490.1	chr12	8788253	8795789	+
AC106864.1	chr4	112693047	112706810	-
AD000090.1	chr19	35557956	35581954	+

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.