exRNAdisease

General Information

Database ID:

exR0012406

RNA Name:

RPS27A

RNA Type:

mRNA

Chromosome:

chr2

Starnd:

Coordinate:

Start Site(bp):

55231903

End Site(bp):

55235853

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
ABCF2	chr7	151207837	151227166	-
ABHD2	chr15	89087459	89202355	+
ABRACL	chr6	139028745	139043302	+
AC068946.1	chr2	219075329	219170827	-
AC091167.2	chr15	90249556	90272208	+
AC245033.1	chr15	82536788	82573194	-
ACAD8	chr11	134253495	134265855	+
ACLY	chr17	41866917	41930542	-
ACTB	chr7	5527148	5563784	-
ACTG1	chr17	81509971	81523847	-
ACTR2	chr2	65227753	65271253	+
ACVR1	chr2	157736444	157876330	-
ADAR	chr1	154582057	154628013	-
ADD1	chr4	2843857	2930076	+
ADORA2A	chr22	24417879	24442357	+
ADSL	chr22	40346500	40390463	+
AGAP1	chr2	235494043	236131800	+
AGPAT4	chr6	161129967	161274061	-
AGTPBP1	chr9	85546539	85742029	-
AHNAK	chr11	62433542	62556235	-
AIF1L	chr9	131096476	131123152	+
AL022238.4	chr22	40346529	40410054	+
AL133352.1	chr10	100505628	100529881	-
AL136454.1	chr1	192716132	192716653	+
AL139300.1	chr14	103562962	103685924	+
AL355315.1	chr10	97584374	97673910	+
ALDH7A1	chr5	126531200	126595362	-

miRNA targets:

miRNA Symbol	Chromosome	Start Site(bp)	End Site(bp)	Strand
hsa-miR-4426	chr1	192716333	192716349	+
hsa-miR-4485-3p	chr11	10508277	10508296	-

circRNA targets:

lncRNA targets:

lncRNA Symbol	Chromosome	Start Site(bp)	End Site(bp)	Strand
AC016876.2	chr17	7581964	7584086	-
AC091564.7	chr11	6610883	6616594	-
AC104257.1	chr8	131308545	131317632	+
AC106864.1	chr4	112693047	112706810	-
AC239868.1	chr1	149861271	149862504	+
AC245033.4	chr15	82533175	82540008	-
AL031656.1	chr20	42685404	42688562	+

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.