exRNAdisease

General Information

Database ID:

exR0000477

RNA Name:

ALDH18A1

RNA Type:

mRNA

Chromosome:

chr10

Starnd:

Coordinate:

Start Site(bp):

95605941

End Site(bp):

95656711

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
GTF3C2	chr2	27325849	27357034	-
MCM7	chr7	100092728	100101940	-
GABARAP	chr17	7240008	7242449	-
PTPRS	chr19	5158495	5340803	-
OPTN	chr10	13099449	13138308	+
HOXD3	chr2	176136612	176173102	+
ELL2	chr5	95885098	95961851	-
MTA2	chr11	62593214	62601865	-
HNRNPC	chr14	21209136	21269494	-
CCNF	chr16	2429394	2458854	+
PGAM1	chr10	97426191	97433444	+
HMGXB3	chr5	150000046	150053142	+
ARPC1B	chr7	99374249	99394816	+
HSPA5	chr9	125234853	125241343	-
CSDE1	chr1	114716913	114758676	-
MTG1	chr10	133394094	133422520	+
SRM	chr1	11054584	11060020	-
AKAP13	chr15	85380571	85749358	+
MRFAP1	chr4	6640091	6642745	+
E2F4	chr16	67192155	67198918	+
EEF2KMT	chr16	5084284	5097795	-
SCAMP2	chr15	74843730	74873365	-
LASP1	chr17	38869859	38921770	+
AHCY	chr20	34280268	34311802	-
ACAT2	chr6	159762045	159779112	+
TNC	chr9	115019575	115118257	-
CAMTA2	chr17	4967992	4987675	-
CIAO1	chr2	96266159	96274173	+
DDX24	chr14	94048287	94081212	-
SRRM2	chr16	2752626	2772538	+

miRNA targets:

circRNA targets:

lncRNA targets:

lncRNA Symbol	Chromosome	Start Site(bp)	End Site(bp)	Strand
AC010319.3	chr19	17419305	17419774	-
AC016876.2	chr17	7581964	7584086	-
AL031595.3	chr22	44139365	44153626	+
FOXD2-AS1	chr1	47432133	47434641	-
LINC00667	chr18	5237826	5290608	+

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.