exRNAdisease

General Information

Database ID:

exR0012317

RNA Name:

RPL10

RNA Type:

mRNA

Chromosome:

chrX

Starnd:

Coordinate:

Start Site(bp):

154389955

End Site(bp):

154409168

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
ABCD4	chr14	74285269	74303055	-
ABRACL	chr6	139028745	139043302	+
AC004832.3	chr22	30409255	30428990	+
AC006064.6	chr12	6556886	6607367	-
AC010132.3	chr7	42909273	42932174	-
AC010422.3	chr19	12643831	12648397	-
AC011455.2	chr19	38915404	38949855	-
AC048338.1	chr12	122207779	122266423	-
AC055811.2	chr17	17202649	17237185	-
ACO2	chr22	41469117	41528989	+
ACTB	chr7	5527148	5563784	-
ADAL	chr15	43330657	43354555	+
ADAR	chr1	154582057	154628013	-
ADD3	chr10	109996368	110135565	+
ADSL	chr22	40346500	40390463	+
AEN	chr15	88621337	88632281	+
AGBL5	chr2	27042364	27070622	+
AHCY	chr20	34280268	34311802	-
AK2	chr1	33007940	33080996	-
AKR7A2	chr1	19303965	19312146	-
AL022238.4	chr22	40346529	40410054	+
AL133352.1	chr10	100505628	100529881	-
AL136295.5	chr14	24147548	24166452	+
AL590764.2	chrX	71103987	71111575	-
ALAS1	chr3	52198086	52214327	+
ALDH16A1	chr19	49453225	49471050	+

miRNA targets:

miRNA Symbol	Chromosome	Start Site(bp)	End Site(bp)	Strand
hsa-miR-6891-3p	chr6	31355228	31355248	-
hsa-miR-7847-3p	chr11	1880105	1880125	+

circRNA targets:

lncRNA targets:

lncRNA Symbol	Chromosome	Start Site(bp)	End Site(bp)	Strand
AC002550.2	chr16	19694035	19694428	-
AC060766.7	chr17	35406684	35409768	-
AC092490.1	chr12	8788253	8795789	+
AL035446.1	chr6	140845958	140852924	-
AL121992.1	chr1	15586136	15603626	-
AL132780.1	chr14	22929607	22956374	+
AL138828.1	chr6	135991936	136225751	-

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.