exRNAdisease

General Information

Database ID:

exR0000400

RNA Name:

AHCYL2

RNA Type:

mRNA

Chromosome:

chr7

Starnd:

Coordinate:

Start Site(bp):

129225023

End Site(bp):

129430211

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
AHCYL1	chr1	109984765	110023742	+
IQCC	chr1	32205661	32208687	+
HSP90AB1	chr6	44246166	44253888	+
HMGCS1	chr5	43287470	43313512	-
MFAP3L	chr4	169986597	170033031	-
RPL22L1	chr3	170864875	170870208	-
LIN28A	chr1	26410817	26429728	+
CD9	chr12	6199715	6238271	+
TPT1	chr13	45333471	45341370	-
NFYB	chr12	104117086	104138241	-
LMNB2	chr19	2427638	2456959	-
ARPP19	chr15	52547045	52569883	-
CFL1	chr11	65823022	65862026	-
RNPS1	chr16	2253116	2268397	-
RCAN1	chr21	34513142	34615113	-
DNAAF5	chr7	726699	786475	+
PGK1	chrX	77910739	78129295	+
GGA2	chr16	23463542	23521995	-
HERC2	chr15	28111040	28322172	-
SYT11	chr1	155859567	155885199	+
KMT5B	chr11	68154863	68213828	-
CSTF2	chrX	100820359	100840932	+
MRPL15	chr8	54135241	54148514	+
EEF1D	chr8	143579697	143599541	-
AKIRIN1	chr1	38991276	39006059	+
RPS14	chr5	150442635	150449739	-
CDK2AP1	chr12	123250112	123272334	-
TMUB1	chr7	151081085	151083493	-
TUBA1B	chr12	49127782	49131397	-
UTP3	chr4	70688532	70690551	+

miRNA targets:

circRNA targets:

lncRNA targets:

lncRNA Symbol	Chromosome	Start Site(bp)	End Site(bp)	Strand
AC009022.1	chr16	69976297	70065948	-
AL049796.1	chr1	93847174	93848939	+
LINC01535	chr19	37251885	37265535	+
U91319.1	chr16	13246232	13563388	+

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.