exRNAdisease

General Information

Database ID:

exR0012324

RNA Name:

RPL14

RNA Type:

mRNA

Chromosome:

chr3

Starnd:

Coordinate:

Start Site(bp):

40457292

End Site(bp):

40468587

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
ABCA1	chr9	104781006	104928155	-
ABCB6	chr2	219209772	219218994	-
AC010422.3	chr19	12643831	12648397	-
AC068946.2	chr2	219209772	219222738	-
AC105052.1	chr7	102582523	102642869	-
AC105052.3	chr7	102637049	102671641	-
AC126283.2	chr4	109713916	109801999	-
AC245033.1	chr15	82536788	82573194	-
ACAD9	chr3	128879596	128916067	+
ACKR3	chr2	236567787	236582354	+
ACLY	chr17	41866917	41930542	-
ACO2	chr22	41469117	41528989	+
ACPP	chr3	132317369	132368298	+
ACSS1	chr20	25006230	25058980	-
ACTB	chr7	5527148	5563784	-
ACTG1	chr17	81509971	81523847	-
ACTR1B	chr2	97655939	97664044	-
ACTR3	chr2	113890063	113962596	+
ADAM33	chr20	3667965	3682246	-
ADPGK	chr15	72751369	72785846	-
ADRM1	chr20	62302093	62308862	+
AGO4	chr1	35808016	35857890	+
AGPAT5	chr8	6708642	6761503	+
AIF1L	chr9	131096476	131123152	+
AK4	chr1	65147549	65232145	+
AL049629.2	chr11	33698261	33722467	-
AL136454.1	chr1	192716132	192716653	+
AL355987.3	chr9	136791379	136800595	+
ALDH18A1	chr10	95605941	95656711	-
ALDH1L2	chr12	105019784	105107643	-

miRNA targets:

circRNA targets:

lncRNA targets:

lncRNA Symbol	Chromosome	Start Site(bp)	End Site(bp)	Strand
AC004943.2	chr16	72665123	72822781	+
AC005540.1	chr2	190880797	190882059	-
AC011468.5	chr19	52049007	52049754	+
AC105383.1	chr4	133075311	133149147	-
AC108010.1	chr7	128574751	128626473	+

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.