exRNAdisease

General Information

Database ID:

exR0000413

RNA Name:

AIF1L

RNA Type:

mRNA

Chromosome:

chr9

Starnd:

Coordinate:

Start Site(bp):

131096476

End Site(bp):

131123152

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
APEX1	chr14	20455191	20457772	+
HSPD1	chr2	197486584	197516737	-
SNRPG	chr2	70281362	70293740	-
SHC1	chr1	154962298	154974395	-
AC008763.2	chr19	7629796	7643048	+
PIM2	chrX	48913182	48919024	-
HSP90AB1	chr6	44246166	44253888	+
MT-ND2	chrMT	4470	5511	+
ALDH16A1	chr19	49453225	49471050	+
HK1	chr10	69269984	69401884	+
RPL11	chr1	23691742	23696835	+
PDS5B	chr13	32586452	32778019	+
MIF	chr22	23894383	23895227	+
XRCC5	chr2	216107464	216206303	+
C17orf113	chr17	42038232	42050601	-
TUBA1C	chr12	49188736	49274603	+
LRRC75A	chr17	16441577	16492193	-
OTUD1	chr10	23439458	23442390	+
INTS3	chr1	153728050	153774808	+
ZNF449	chrX	135344796	135363413	+
FTH1	chr11	61959718	61967634	-
SRPRB	chr3	133784023	133825772	+
MARCKSL1	chr1	32333839	32336233	-
MCM3AP	chr21	46235133	46286297	-
PCDHGB5	chr5	141397987	141512979	+
ERH	chr14	69380128	69398299	-
PPCDC	chr15	75023586	75117462	+
SMARCD1	chr12	50085200	50100707	+
RPL18	chr19	48615328	48619184	-
RBM14	chr11	66616582	66627347	+

miRNA targets:

miRNA Symbol	Chromosome	Start Site(bp)	End Site(bp)	Strand
hsa-miR-641	chr19	40282603	40282626	-

circRNA targets:

lncRNA targets:

lncRNA Symbol	Chromosome	Start Site(bp)	End Site(bp)	Strand
AC008267.5	chr7	66493607	66495758	+
AC069503.1	chr12	122007434	122020063	-
AL021707.3	chr22	38734730	38738990	+
MIR663AHG	chr20	26167817	26251546	-
NEAT1	chr11	65422774	65445540	+
XIST	chrX	73820649	73852723	-

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.