exRNAdisease

General Information

Database ID:

exR0005232

RNA Name:

FLNA

RNA Type:

mRNA

Chromosome:

chrX

Starnd:

Coordinate:

Start Site(bp):

154348524

End Site(bp):

154374638

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
AATF	chr17	36948954	37056871	+
ABCA2	chr9	137007234	137028922	-
ABHD17A	chr19	1876810	1885547	-
AC008403.1	chr19	48465837	48472431	+
AC008982.1	chr19	38817471	38840178	-
AC027644.4	chr7	66628958	66811189	+
AC138969.1	chr16	16317444	16350590	+
AC233992.2	chr8	144353228	144355609	-
AC245033.1	chr15	82536788	82573194	-
ACIN1	chr14	23058564	23095614	-
ACTB	chr7	5527148	5563784	-
ADAMTS1	chr21	26835755	26845409	-
ADAMTS19	chr5	129460281	129738683	+
ADAMTSL4	chr1	150549369	150560937	+
ADCY3	chr2	24819169	24919839	-
ADCY6	chr12	48766194	48789037	-
ADGRE5	chr19	14380501	14408725	+
ADIPOR1	chr1	202940826	202958572	-
ADNP2	chr18	80109262	80147523	+
AFDN	chr6	167826922	167972023	+
AFG3L2	chr18	12328944	12377227	-
AFMID	chr17	78187317	78207701	+
AGO2	chr8	140520156	140635633	-
AGPAT1	chr6	32168212	32178096	-
AGRN	chr1	1020120	1056118	+
AIP	chr11	67483026	67491103	+
AK4	chr1	65147549	65232145	+
AKT2	chr19	40230317	40285536	-
AL807752.6	chr9	137031241	137040436	-
ALDH7A1	chr5	126531200	126595362	-

miRNA targets:

miRNA Symbol	Chromosome	Start Site(bp)	End Site(bp)	Strand
hsa-miR-103a-3p	chr5	168560904	168560926	-
hsa-miR-5100	chr10	42997630	42997651	+

circRNA targets:

lncRNA targets:

lncRNA Symbol	Chromosome	Start Site(bp)	End Site(bp)	Strand
AC015961.2	chr18	37243776	37247506	+
AC026362.1	chr12	122975320	122982907	+
AC079781.5	chr7	97851688	97972985	-
AD000090.1	chr19	35557956	35581954	+
AL021707.2	chr22	38667585	38681847	-
AL137127.1	chr1	19072110	19075511	-

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.