exRNAdisease

General Information

Database ID:

exR0000314

RNA Name:

ADM

RNA Type:

mRNA

Chromosome:

chr11

Starnd:

Coordinate:

Start Site(bp):

10305073

End Site(bp):

10307397

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
RASIP1	chr19	48720585	48740610	-
YWHAG	chr7	76326799	76358991	-
SCRIB	chr8	143790920	143815773	-
CARHSP1	chr16	8852942	8869012	-
FAU	chr11	65120630	65122177	-
DOLK	chr9	128945530	128947603	-
TMEM39B	chr1	32072031	32102866	+
ATP13A3	chr3	194402672	194498364	-
PIEZO1	chr16	88715338	88785220	-
MCUB	chr4	109560209	109688719	+
SSR2	chr1	156009048	156020951	-
ARPC3	chr12	110434823	110450422	-
PSMC4	chr19	39971165	39981764	+
THOC3	chr5	175917873	176034680	-
PRELID3B	chr20	59033145	59042809	-
CBX3	chr7	26201162	26213607	+
SNX19	chr11	130875436	130916509	-
STAT1	chr2	190908460	191020960	-
HSP90AB1	chr6	44246166	44253888	+
PSMF1	chr20	1113240	1189415	+
COQ10A	chr12	56266858	56270966	+
SRSF7	chr2	38743599	38751494	-
DDIT4	chr10	72273924	72276036	+
OSGIN2	chr8	89901849	89927888	+
IRS4	chrX	108732482	108736409	-
CENPP	chr9	92325953	92620529	+
LCMT1	chr16	25111731	25178231	+
PACS1	chr11	66070272	66244744	+
ATP1B3	chr3	141876124	141926549	+
EPS15	chr1	51354263	51519266	-

miRNA targets:

miRNA Symbol	Chromosome	Start Site(bp)	End Site(bp)	Strand
hsa-miR-92a-3p	chrX	134169544	134169565	-
hsa-miR-363-3p	chrX	134169382	134169403	-
hsa-miR-367-3p	chr4	112647877	112647898	-
hsa-miR-92b-3p	chr1	155195237	155195258	+

circRNA targets:

lncRNA targets:

lncRNA Symbol	Chromosome	Start Site(bp)	End Site(bp)	Strand
AC069281.2	chr7	100572232	100578700	-
AC073111.3	chr7	150379329	150410597	+
PAUPAR	chr11	31812307	32002405	+

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.