exRNAdisease

General Information

Database ID:

exR0000407

RNA Name:

AHSA1

RNA Type:

mRNA

Chromosome:

chr14

Starnd:

Coordinate:

Start Site(bp):

77457870

End Site(bp):

77469472

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
ENO1	chr1	8861000	8879190	-
RPS9	chr19	54200809	54249003	+
OAZ1	chr19	2269509	2273490	+
SDHC	chr1	161314257	161375340	+
RPLP0	chr12	120196699	120201235	-
PIMREG	chr17	6444441	6451469	+
ST3GAL6	chr3	98732236	98821201	+
MDK	chr11	46380756	46383837	+
ZNF608	chr5	124636913	124748807	-
MT-ATP6	chrMT	8527	9207	+
ALDOA	chr16	30064164	30070457	+
SIRPA	chr20	1894167	1940592	+
KRT19	chr17	41523617	41528308	-
TTC7B	chr14	90524564	90816479	-
PCED1A	chr20	2835314	2841190	-
RPL27A	chr11	8682788	8714759	+
B2M	chr15	44711487	44718877	+
CCT4	chr2	61868085	61888671	-
C9orf78	chr9	129827290	129835863	-
IVNS1ABP	chr1	185296388	185317273	-
ZDHHC22	chr14	77131270	77142734	-
CDCA7	chr2	173354820	173368997	+
LCP1	chr13	46125920	46211871	-
RPS26	chr12	56041351	56044697	+
APH1A	chr1	150265399	150269580	-
LMNB2	chr19	2427638	2456959	-
ATP5F1D	chr19	1241746	1244825	+
FTSJ3	chr17	63819433	63830012	-
PTPRF	chr1	43525187	43623666	+
NOP10	chr15	34341713	34343177	-

miRNA targets:

circRNA targets:

lncRNA targets:

lncRNA Symbol	Chromosome	Start Site(bp)	End Site(bp)	Strand
AC239799.1	chr1	146235806	146237807	+
AP001496.2	chr18	5232876	5238526	-
MIR663AHG	chr20	26167817	26251546	-
RAB11B-AS1	chr19	8374373	8390685	-
RMRP	chr9	35657751	35658018	-
SNHG5	chr6	85650491	85678932	-

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.