exRNAdisease

General Information

Database ID:

exR0000090

RNA Name:

ABHD8

RNA Type:

mRNA

Chromosome:

chr19

Starnd:

Coordinate:

Start Site(bp):

17292131

End Site(bp):

17310236

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
ITM2C	chr2	230864639	230879248	+
TUBA3C	chr13	19173772	19181824	-
CAP1	chr1	40040233	40072649	+
HOXB5	chr17	48591257	48593961	-
RPLP2	chr11	809965	812880	+
ARHGEF7	chr13	111114559	111305737	+
NAP1L1	chr12	76036585	76084958	-
DUSP2	chr2	96143169	96145440	-
CHST11	chr12	104455295	104762014	+
IGFBP2	chr2	216632828	216664436	+
GALNS	chr16	88813734	88856970	-
RPS19	chr19	41860255	41872925	+
PTMS	chr12	6765516	6770952	+
EMC10	chr19	50476400	50490870	+
EIF4G2	chr11	10797050	10808940	-
DDX17	chr22	38483438	38507660	-
LRRC14	chr8	144517992	144525172	+
PTK7	chr6	43076307	43161719	+
FSTL1	chr3	120392293	120450993	-
DNASE2	chr19	12875209	12881466	-
ANXA11	chr10	80150889	80205572	-
UCHL1	chr4	41256413	41268455	+
S100A10	chr1	151982915	151993859	-
CITED4	chr1	40861054	40862363	-
DBN1	chr5	177456608	177474401	-
PKM	chr15	72199029	72231822	-
MDK	chr11	46380756	46383837	+
GALNT17	chr7	71132144	71713600	+
ZFP91	chr11	58579063	58621550	+
RPS28	chr19	8321158	8323340	+

miRNA targets:

circRNA targets:

lncRNA targets:

lncRNA Symbol	Chromosome	Start Site(bp)	End Site(bp)	Strand
AC069281.2	chr7	100572232	100578700	-
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.