exRNAdisease

General Information

Database ID:

exR0006576

RNA Name:

HSP90AA1

RNA Type:

mRNA

Chromosome:

chr14

Starnd:

Coordinate:

Start Site(bp):

102080738

End Site(bp):

102139699

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
AC093525.2	chr16	2496032	2520218	+
ADD3	chr10	109996368	110135565	+
AL110118.2	chr14	93184973	93218586	+
ADCY5	chr3	123282296	123449758	-
AL133352.1	chr10	100505628	100529881	-
AFDN	chr6	167826922	167972023	+
ACLY	chr17	41866917	41930542	-
AL034430.1	chr20	10413520	10431922	-
ACO1	chr9	32384603	32454769	+
AL121753.1	chr20	35267885	35280043	-
ABR	chr17	1003518	1229738	-
AD000671.1	chr19	35745678	35754519	+
AKAP1	chr17	57085092	57121346	+
AIF1L	chr9	131096476	131123152	+
AC015813.2	chr17	57989038	58007246	-
AHCY	chr20	34280268	34311802	-
ACTG1	chr17	81509971	81523847	-
AC120057.2	chr17	7240427	7244635	-
AKIRIN2	chr6	87674860	87702233	-
AL136454.1	chr1	192716132	192716653	+
ABCD3	chr1	94418389	94518666	+
ACTN1	chr14	68874143	68979440	-
ALDH7A1	chr5	126531200	126595362	-
AC091167.2	chr15	90249556	90272208	+
ABLIM1	chr10	114431113	114768061	-
AC023055.1	chr12	55757275	55827546	-
AC010422.3	chr19	12643831	12648397	-
AL139011.2	chr1	160216800	160285130	-
AAMP	chr2	218264123	218270257	-
AEN	chr15	88621337	88632281	+

miRNA targets:

miRNA Symbol	Chromosome	Start Site(bp)	End Site(bp)	Strand
hsa-miR-103a-3p	chr5	168560904	168560926	-
hsa-miR-146a-5p	chr5	160485372	160485393	+
hsa-miR-1306-3p	chr22	20086112	20086129	+
hsa-miR-4709-5p	chr14	74480175	74480196	-

circRNA targets:

lncRNA targets:

lncRNA Symbol	Chromosome	Start Site(bp)	End Site(bp)	Strand
AC006511.5	chr12	8014093	8019007	-
AC007952.4	chr17	19112000	19112636	-
AC024940.6	chr12	31280422	31280895	-
AC078883.1	chr2	172480840	172556596	-
AC113189.2	chr17	7420103	7444081	+
AC113189.4	chr17	7439506	7445966	+
AC132217.1	chr11	2129121	2129964	-
AC139149.1	chr17	81514047	81527776	+
AC145207.5	chr17	81878425	81881106	-
AF106564.1	chr8	24912165	24914717	-
AL136985.3	chr1	58715609	58771295	+

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.