exRNAdisease

General Information

Database ID:

exR0000204

RNA Name:

ACTR2

RNA Type:

mRNA

Chromosome:

chr2

Starnd:

Coordinate:

Start Site(bp):

65227753

End Site(bp):

65271253

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
TBPL1	chr6	133952170	133990432	+
LEPROT	chr1	65420587	65436007	+
SHMT2	chr12	57229573	57234935	+
DDX10	chr11	108665069	108940927	+
VASH2	chr1	212950520	212992037	+
FUS	chr16	31180110	31194871	+
FAAP100	chr17	81539885	81553961	-
KIAA0355	chr19	34254552	34355571	+
WASF2	chr1	27404230	27490167	-
TUBA3D	chr2	131476119	131482934	+
UBA52	chr19	18571730	18577550	+
SURF6	chr9	133328776	133336188	-
AMOT	chrX	112774503	112840815	-
RBM47	chr4	40423267	40630875	-
TBC1D7	chr6	13266542	13328583	-
GLS	chr2	190880821	190965552	+
PRMT5	chr14	22920525	22929408	-
IGF2	chr11	2129112	2141238	-
GZF1	chr20	23362182	23373062	+
UCHL5	chr1	193012250	193060080	-
VTA1	chr6	142147162	142224685	+
MXI1	chr10	110207605	110287365	+
FRMD8	chr11	65386621	65413525	+
RTN3	chr11	63681446	63759891	+
KPNA1	chr3	122421902	122514945	-
AL035078.4	chr11	31812391	32104665	+
MTRNR2L12	chr3	96617188	96618236	-
RAC2	chr22	37225270	37244448	-
RBM8A	chr1	145917714	145927678	-
ATP9B	chr18	79069285	79378287	+

miRNA targets:

circRNA targets:

lncRNA targets:

lncRNA Symbol	Chromosome	Start Site(bp)	End Site(bp)	Strand
AC068831.7	chr15	91022766	91023200	+
AC138761.1	chr17	22266395	22288301	+
LINC01018	chr5	6582136	6600288	+
LINC01641	chr1	227393554	227431035	+
OIP5-AS1	chr15	41283990	41309737	+

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.