exRNAdisease

General Information

Database ID:

exR0000466

RNA Name:

AKT1

RNA Type:

mRNA

Chromosome:

chr14

Starnd:

Coordinate:

Start Site(bp):

104769349

End Site(bp):

104795751

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
PPM1B	chr2	44167969	44244384	+
KEAP1	chr19	10486125	10503558	-
AC010422.3	chr19	12643831	12648397	-
FKBP1A	chr20	1368978	1393172	-
ACACA	chr17	37084992	37406836	-
TUFM	chr16	28842411	28846348	-
SCFD2	chr4	52872982	53366066	-
P4HB	chr17	81843161	81860624	-
CRELD1	chr3	9933816	9945406	+
SIGIRR	chr11	405716	417455	-
KDM4B	chr19	4969113	5153598	+
TMEM106C	chr12	47963569	47968878	+
FAT1	chr4	186587794	186726722	-
POU5F1	chr6	31164337	31180731	-
INTS5	chr11	62646848	62653302	-
ZC3H14	chr14	88562970	88627596	+
TPI1	chr12	6867119	6870948	+
CA14	chr1	150257251	150265078	+
KDELR3	chr22	38468078	38483447	+
DLG3	chrX	70444835	70505490	+
FBRSL1	chr12	132489551	132585188	+
MOV10	chr1	112673141	112700746	+
ENAH	chr1	225486835	225653142	-
EEF1A1	chr6	73515750	73523797	-
RARRES2	chr7	150338317	150341662	-
MVD	chr16	88651935	88663161	-
TUBB	chr6	30720352	30725426	+
HNRNPL	chr19	38836388	38852347	-
HPCAL1	chr2	10302889	10427617	+
PPA1	chr10	70202835	70233911	-

miRNA targets:

circRNA targets:

lncRNA targets:

lncRNA Symbol	Chromosome	Start Site(bp)	End Site(bp)	Strand
AC004816.1	chr14	70809841	70815994	+
AC012313.3	chr19	58346854	58362751	-
AC067930.1	chr8	143579636	143580670	+
GSEC	chr11	126340889	126355587	-
MIR663AHG	chr20	26167817	26251546	-
PDCD4-AS1	chr10	110869868	110872233	-
XIST	chrX	73820649	73852723	-

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.