exRNAdisease

General Information

Database ID:

exR0000126

RNA Name:

ACBD3

RNA Type:

mRNA

Chromosome:

chr1

Starnd:

Coordinate:

Start Site(bp):

226144679

End Site(bp):

226186741

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
MTRNR2L12	chr3	96617188	96618236	-
SLC16A2	chrX	74421493	74533917	+
RPS24	chr10	78033760	78056813	+
NUSAP1	chr15	41320794	41381050	+
LRWD1	chr7	102464956	102473168	+
S1PR4	chr19	3172346	3180332	+
RSU1	chr10	16590611	16817463	-
RPL15	chr3	23916545	23924374	+
FOCAD	chr9	20658309	20995955	+
GPR176	chr15	39799008	39920266	-
RAPGEF1	chr9	131576770	131740074	-
UTP18	chr17	51260546	51297936	+
LIMCH1	chr4	41359607	41700044	+
ZNF224	chr19	44094339	44109886	+
TTC39C	chr18	23992773	24135610	+
IGFBP5	chr2	216672105	216695549	-
YTHDF1	chr20	63195429	63216139	-
RGS10	chr10	119499817	119542719	-
CFL1	chr11	65823022	65862026	-
TPT1	chr13	45333471	45341370	-
RASGRP2	chr11	64726911	64745456	-
ACLY	chr17	41866917	41930542	-
UQCRQ	chr5	132866630	132868847	+
ID4	chr6	19837370	19842197	+
CSNK1E	chr22	38290691	38318084	-
PUM1	chr1	30931506	31065991	-
ZBTB33	chrX	120250752	120258398	+
TSN	chr2	121737103	121767853	+
HK1	chr10	69269984	69401884	+
DNPEP	chr2	219373527	219400022	-

miRNA targets:

circRNA targets:

lncRNA targets:

lncRNA Symbol	Chromosome	Start Site(bp)	End Site(bp)	Strand
AC009404.1	chr2	117833937	117841658	+
AC023908.2	chr15	39770559	39801333	-
AL022311.1	chr22	37876148	37895563	+
AL513314.2	chr1	222477252	222504622	-
MIR663AHG	chr20	26167817	26251546	-

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.