exRNAdisease

General Information

Database ID:

exR0012353

RNA Name:

RPL37

RNA Type:

mRNA

Chromosome:

chr5

Starnd:

Coordinate:

Start Site(bp):

40825262

End Site(bp):

40835222

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
AC005837.2	chr17	76732978	76738522	+
AC138811.2	chr16	18788063	18801519	-
AGAP4	chr10	45825594	45853875	-
AHDC1	chr1	27534035	27604431	-
AL360181.3	chr10	133380017	133420271	+
ACTR2	chr2	65227753	65271253	+
ALDOA	chr16	30064164	30070457	+
AKR1C1	chr10	4963253	4983283	+
AC073896.1	chr12	56285916	56316059	-
AC009690.1	chr15	72284727	72375981	-
AC010422.5	chr19	12664828	12669397	-
ACTG1	chr17	81509971	81523847	-
AICDA	chr12	8602170	8612867	-
ABCC5	chr3	183919934	184017939	-
AC005258.1	chr19	2269525	2341172	+
AC018523.2	chr11	14493783	14520344	-
A1BG	chr19	58345178	58353492	-
AFTPH	chr2	64524305	64593005	+
AL590132.1	chr1	210858125	211134146	-
ACTB	chr7	5527148	5563784	-
ACKR3	chr2	236567787	236582354	+
AGO4	chr1	35808016	35857890	+
AC135050.2	chr16	31083439	31094956	-
AHCYL1	chr1	109984765	110023742	+
AKT3	chr1	243488233	243851079	-
AGAP1	chr2	235494043	236131800	+
ABHD14B	chr3	51968510	51983409	-
AKIRIN1	chr1	38991276	39006059	+
AC008750.8	chr19	51350373	51368099	-
ADIPOR2	chr12	1688574	1788674	+

miRNA targets:

miRNA Symbol	Chromosome	Start Site(bp)	End Site(bp)	Strand
hsa-miR-302c-3p	chr4	112648366	112648388	-

circRNA targets:

lncRNA targets:

lncRNA Symbol	Chromosome	Start Site(bp)	End Site(bp)	Strand
AC002470.2	chr22	20979462	20998121	+
AC012313.3	chr19	58346854	58362751	-
AC113414.1	chr5	162424042	163437326	-
AC245014.3	chr1	145281116	145281462	+
AC245033.4	chr15	82533175	82540008	-
AL022311.1	chr22	37876148	37895563	+
AL132780.1	chr14	22929607	22956374	+

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.