exRNAdisease

General Information

Database ID:

exR0000112

RNA Name:

ACAD11

RNA Type:

mRNA

Chromosome:

chr3

Starnd:

Coordinate:

Start Site(bp):

132558138

End Site(bp):

132660082

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
NPHP3-ACAD11	chr3	132558142	132722459	-
BET1L	chr11	167784	207428	-
P4HB	chr17	81843161	81860624	-
STIM1	chr11	3854527	4093210	+
HLA-DQA1	chr6	32628179	32647062	+
FAR1	chr11	13668668	13732346	+
PUM2	chr2	20248691	20352234	-
TCIRG1	chr11	68039025	68050895	+
PIK3C2A	chr11	17077730	17207983	-
PRPF8	chr17	1650629	1684867	-
RPS8	chr1	44775251	44778779	+
HADH	chr4	107989714	108035175	+
ZNF311	chr6	28994785	29005316	-
MDN1	chr6	89642498	89819794	-
PPOX	chr1	161166056	161178013	+
CD52	chr1	26317958	26320523	+
RPL12	chr9	127447674	127451406	-
PMF1	chr1	156212993	156240042	+
HSPA9	chr5	138553756	138575416	-
SH3PXD2B	chr5	172325000	172454525	-
CACNA2D3	chr3	54122547	55074557	+
TK1	chr17	78174091	78187233	-
DNAJB1	chr19	14514769	14529770	-
ATP5IF1	chr1	28236109	28246906	+
NBDY	chrX	56729241	56819179	+
RABGAP1L	chr1	174159410	174995308	+
ZNF146	chr19	36214602	36238774	+
EHMT2	chr6	31879759	31897687	-
SGTB	chr5	65665928	65723035	-
MTHFD2	chr2	74198610	74217565	+

miRNA targets:

circRNA targets:

lncRNA targets:

lncRNA Symbol	Chromosome	Start Site(bp)	End Site(bp)	Strand
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.