exRNAdisease

General Information

Database ID:

exR0009061

RNA Name:

MYH9

RNA Type:

mRNA

Chromosome:

chr22

Starnd:

Coordinate:

Start Site(bp):

36281277

End Site(bp):

36388067

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
ABI2	chr2	203328239	203447728	+
ABLIM1	chr10	114431113	114768061	-
AC010616.1	chr19	41956879	41994232	-
AC018523.2	chr11	14493783	14520344	-
ACAD10	chr12	111686056	111757107	+
ACTA1	chr1	229431245	229434098	-
ACTB	chr7	5527148	5563784	-
ACTN4	chr19	38647649	38731589	+
ACTR1A	chr10	102461881	102502712	-
AD000671.1	chr19	35745678	35754519	+
ADAM19	chr5	157395534	157575775	-
ADCY6	chr12	48766194	48789037	-
ADGRE1	chr19	6887566	6940459	+
AK4	chr1	65147549	65232145	+
ALDH16A1	chr19	49453225	49471050	+
ALDOA	chr16	30064164	30070457	+

miRNA targets:

miRNA Symbol	Chromosome	Start Site(bp)	End Site(bp)	Strand
hsa-miR-25-3p	chr7	100093571	100093592	-
hsa-miR-214-3p	chr1	172138816	172138837	-
hsa-miR-27b-3p	chr9	95085505	95085525	+
hsa-miR-185-5p	chr22	20033153	20033174	+
hsa-miR-485-5p	chr14	101055427	101055448	+
hsa-miR-650	chr22	22822791	22822811	+
hsa-miR-423-5p	chr17	30117095	30117117	+
hsa-miR-3609	chr7	98881700	98881723	+
hsa-miR-6819-3p	chr22	36286847	36286867	-

circRNA targets:

lncRNA targets:

lncRNA Symbol	Chromosome	Start Site(bp)	End Site(bp)	Strand
AC005899.4	chr17	32328441	32329395	+
AC016876.2	chr17	7581964	7584086	-
AC019080.1	chr2	177283508	177392691	-
AC026362.1	chr12	122975320	122982907	+
AC051619.7	chr15	45200325	45200632	-
AC106864.1	chr4	112693047	112706810	-
AC245014.3	chr1	145281116	145281462	+
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.