exRNAdisease

General Information

Database ID:

exR0000227

RNA Name:

ADAM10

RNA Type:

mRNA

Chromosome:

chr15

Starnd:

Coordinate:

Start Site(bp):

58588809

End Site(bp):

58749791

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
RPS11	chr19	49496365	49499708	+
THUMPD3	chr3	9362971	9386791	+
ATXN3	chr14	92044496	92106621	-
NUDT21	chr16	56429133	56452199	-
MORF4L1	chr15	78810487	78898139	+
RPS24	chr10	78033760	78056813	+
SMARCC1	chr3	47585269	47782106	-
YY1	chr14	100238298	100282788	+
RB1CC1	chr8	52622458	52745843	-
SPATS2L	chr2	200305881	200482264	+
MAPK9	chr5	180233143	180292099	-
RFLNA	chr12	123973241	124316024	+
TCTN3	chr10	95663396	95694143	-
RPL13	chr16	89560657	89566828	+
MRPL30	chr2	99181152	99199561	+
METTL2B	chr7	128476729	128506602	+
MPZL1	chr1	167721192	167791919	+
OSBP	chr11	59574398	59615774	-
PBX1	chr1	164555584	164899296	+
TAB2	chr6	149218641	149411613	+
RBM42	chr19	35629030	35637686	+
WBP11	chr12	14784582	14803486	-
TMEM189	chr20	50118254	50153734	-
TRIM28	chr19	58544064	58550722	+
GNAI3	chr1	109548615	109600195	+
ANXA6	chr5	151100706	151157785	-
XRCC6	chr22	41621119	41664048	+
PGM3	chr6	83161150	83193936	-
ACTN4	chr19	38647649	38731589	+
E2F2	chr1	23506438	23531233	-

miRNA targets:

miRNA Symbol	Chromosome	Start Site(bp)	End Site(bp)	Strand
hsa-miR-1248	chr3	186786675	186786701	+

circRNA targets:

lncRNA targets:

lncRNA Symbol	Chromosome	Start Site(bp)	End Site(bp)	Strand
AL096870.2	chr14	24209646	24215987	-
AC068790.8	chr12	123973215	124088594	+
AL645465.1	chr1	244375100	244409592	-
FGD5-AS1	chr3	14920347	14948424	-

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.