exRNAdisease

General Information

Database ID:

exR0012370

RNA Name:

RPLP2

RNA Type:

mRNA

Chromosome:

chr11

Starnd:

Coordinate:

Start Site(bp):

809965

End Site(bp):

812880

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
AC010646.1	chr19	17235940	17255448	-
ALDOA	chr16	30064164	30070457	+
AL139300.1	chr14	103562962	103685924	+
AC011455.2	chr19	38915404	38949855	-
AGO4	chr1	35808016	35857890	+
AKAP1	chr17	57085092	57121346	+
AC007192.1	chr19	18153158	18178117	+
AC135050.2	chr16	31083439	31094956	-
ADGRL2	chr1	81306160	81992436	+
AC010422.3	chr19	12643831	12648397	-
AC020915.5	chr19	58228914	58315183	+
AKT2	chr19	40230317	40285536	-
AFTPH	chr2	64524305	64593005	+
ACIN1	chr14	23058564	23095614	-
AIFM1	chrX	130129362	130165887	-
AC004922.1	chr7	99325879	99394653	+
AL049629.2	chr11	33698261	33722467	-
ADCY1	chr7	45574140	45723116	+
ACTG1	chr17	81509971	81523847	-
AFDN	chr6	167826922	167972023	+
AC005258.1	chr19	2269525	2341172	+
ADRM1	chr20	62302093	62308862	+
AL121594.1	chr14	35122549	35317474	+
ALDH18A1	chr10	95605941	95656711	-
AGRN	chr1	1020120	1056118	+
ADH5	chr4	99070978	99088801	-
AACS	chr12	125065434	125143333	+
AGBL5	chr2	27042364	27070622	+
ABCF1	chr6	30571393	30597179	+
AC008878.3	chr19	7382834	7470241	+

miRNA targets:

miRNA Symbol	Chromosome	Start Site(bp)	End Site(bp)	Strand
hsa-miR-7705	chr8	100703002	100703024	-

circRNA targets:

lncRNA targets:

lncRNA Symbol	Chromosome	Start Site(bp)	End Site(bp)	Strand
AC007780.1	chr17	68413623	68524949	+
AC017104.1	chr2	231388976	231394991	+
AC018521.1	chr17	47945424	47981736	+
AC026362.1	chr12	122975320	122982907	+
AD000090.1	chr19	35557956	35581954	+
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.