exRNAdisease

General Information

Database ID:

exR0004414

RNA Name:

EIF3L

RNA Type:

mRNA

Chromosome:

chr22

Starnd:

Coordinate:

Start Site(bp):

37848868

End Site(bp):

37889407

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
AAMDC	chr11	77821109	77918432	+
ACLY	chr17	41866917	41930542	-
AC008763.3	chr19	7678501	7682854	+
AHCYL1	chr1	109984765	110023742	+
ACBD3	chr1	226144679	226186741	-
ADD1	chr4	2843857	2930076	+
AASS	chr7	122073549	122144255	-
AGPS	chr2	177392757	177559299	+
AC245033.1	chr15	82536788	82573194	-
ACTA1	chr1	229431245	229434098	-
AC023055.1	chr12	55757275	55827546	-
AC007192.1	chr19	18153158	18178117	+
ACIN1	chr14	23058564	23095614	-
ABCD3	chr1	94418389	94518666	+
ADAMTSL4	chr1	150549369	150560937	+
AAMP	chr2	218264123	218270257	-
ADH5	chr4	99070978	99088801	-
AL033529.1	chr1	32465057	32600792	+
AGPAT5	chr8	6708642	6761503	+
ABCF2	chr7	151207837	151227166	-
AL513165.2	chr9	37512547	37592469	-
ABCA1	chr9	104781006	104928155	-
ACTR3B	chr7	152759749	152855378	+
AL139353.1	chr14	31334312	31457441	-
AC010615.4	chr19	21405159	21491266	+
ACADVL	chr17	7217125	7225266	+
AL035078.4	chr11	31812391	32104665	+
ABR	chr17	1003518	1229738	-
AL358113.1	chr9	69035747	69255187	+
ACTB	chr7	5527148	5563784	-

miRNA targets:

miRNA Symbol	Chromosome	Start Site(bp)	End Site(bp)	Strand
hsa-miR-155-5p	chr21	25573983	25574006	+
hsa-miR-1248	chr3	186786675	186786701	+
hsa-miR-6733-3p	chr1	43171652	43171671	-

circRNA targets:

lncRNA targets:

lncRNA Symbol	Chromosome	Start Site(bp)	End Site(bp)	Strand
AC008738.7	chr19	33207129	33207639	+
AC012213.4	chr8	103481266	103481619	-
AC016876.2	chr17	7581964	7584086	-
AC024940.6	chr12	31280422	31280895	-
AC079781.5	chr7	97851688	97972985	-
AC245014.3	chr1	145281116	145281462	+
AD000090.1	chr19	35557956	35581954	+
AL022311.1	chr22	37876148	37895563	+

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.