exRNAdisease

General Information

Database ID:

exR0008601

RNA Name:

MIF

RNA Type:

mRNA

Chromosome:

chr22

Starnd:

Coordinate:

Start Site(bp):

23894383

End Site(bp):

23895227

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
AIF1L	chr9	131096476	131123152	+
AC120057.2	chr17	7240427	7244635	-
AL139300.1	chr14	103562962	103685924	+
AHNAK	chr11	62433542	62556235	-
AIMP2	chr7	6009255	6023834	+
AC024592.3	chr19	5866171	5903787	-
AL121594.1	chr14	35122549	35317474	+
ACTR1B	chr2	97655939	97664044	-
ALDH1L1	chr3	126103562	126197994	-
ABCF1	chr6	30571393	30597179	+
AC007192.1	chr19	18153158	18178117	+
ABRACL	chr6	139028745	139043302	+
AHCY	chr20	34280268	34311802	-
AL645941.2	chr6	32937364	32953122	-
ALDH3A2	chr17	19648136	19685760	+
ACAP3	chr1	1292390	1309609	-
AC091167.2	chr15	90249556	90272208	+
AC010422.3	chr19	12643831	12648397	-
ABCD3	chr1	94418389	94518666	+
AC131160.1	chr3	183815568	183884889	-
AC010132.3	chr7	42909273	42932174	-
AL365205.1	chr6	41780349	41790141	+
ACTB	chr7	5527148	5563784	-
ALDH9A1	chr1	165662216	165698863	-
AC040162.1	chr16	67929614	67936017	-
AAAS	chr12	53307456	53324864	-
AIDA	chr1	222668013	222713210	-
AKR7A2	chr1	19303965	19312146	-
ACTR2	chr2	65227753	65271253	+
ACAP1	chr17	7336529	7351477	+

miRNA targets:

miRNA Symbol	Chromosome	Start Site(bp)	End Site(bp)	Strand
hsa-miR-320a-3p	chr8	22244975	22244996	-

circRNA targets:

lncRNA targets:

lncRNA Symbol	Chromosome	Start Site(bp)	End Site(bp)	Strand
AC004241.1	chr12	47706083	47742294	+
AC016876.2	chr17	7581964	7584086	-
AC023790.2	chr12	13000451	13040679	+
AC026362.1	chr12	122975320	122982907	+
AC051619.7	chr15	45200325	45200632	-
AC108134.2	chr16	3156736	3157483	-
AC245014.3	chr1	145281116	145281462	+
AL022311.1	chr22	37876148	37895563	+
AL121992.1	chr1	15586136	15603626	-
AL137782.1	chr13	75549773	75807120	+

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.