exRNAdisease

General Information

Database ID:

exR0000078

RNA Name:

ABHD14B

RNA Type:

mRNA

Chromosome:

chr3

Starnd:

Coordinate:

Start Site(bp):

51968510

End Site(bp):

51983409

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
FTL	chr19	48965309	48966879	+
SMARCD1	chr12	50085200	50100707	+
UTP3	chr4	70688532	70690551	+
RPL13A	chr19	49487554	49492308	+
NELFB	chr9	137255327	137273542	+
HLA-DPB1	chr6	33075990	33089696	+
RIC8A	chr11	207511	215113	+
GATD1	chr11	767220	777488	-
AC010422.3	chr19	12643831	12648397	-
RTCA	chr1	100266207	100292769	+
CCDC86	chr11	60842113	60851081	+
ZNF160	chr19	53066606	53103436	-
RHOA	chr3	49359145	49412998	-
RPL37	chr5	40825262	40835222	-
EEF2	chr19	3976056	3985463	-
RPS6	chr9	19375715	19380236	-
JOSD2	chr19	50505998	50511353	-
SSRP1	chr11	57325986	57335892	-
PABPC1	chr8	100685816	100722809	-
PCBP4	chr3	51957454	51974016	-
RABGEF1	chr7	66682164	66811464	+
GIMAP1-GIMAP5	chr7	150716668	150743646	+
NDUFA2	chr5	140638740	140647785	-
AGTPBP1	chr9	85546539	85742029	-
TRA2B	chr3	185914558	185938103	-
UGT8	chr4	114598770	114678225	+
VCL	chr10	73995193	74121363	+
SLC25A39	chr17	44319625	44324870	-
AC027644.4	chr7	66628958	66811189	+
DLX1	chr2	172084740	172089677	+

miRNA targets:

miRNA Symbol	Chromosome	Start Site(bp)	End Site(bp)	Strand
hsa-miR-1286	chr22	20249145	20249165	-

circRNA targets:

lncRNA targets:

lncRNA Symbol	Chromosome	Start Site(bp)	End Site(bp)	Strand
AC115284.1	chr3	51961212	51974031	-
ZFAS1	chr20	49278178	49299600	+

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.