Entry Detail



General Information

Database ID:exR0000421
RNA Name:AIP
RNA Type:mRNA
Chromosome:chr11
Starnd:+
Coordinate:
Start Site(bp):67483026End Site(bp):67491103
External Links:ENSG00000110711



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 SymbolChromosomeStart Site(bp)End Site(bp)Strand
EWSR1
chr22
29268009
29300525
+
EMC10
chr19
50476400
50490870
+
LDHA
chr11
18394560
18408425
+
ANKRD13D
chr11
67289300
67302485
+
EIF3F
chr11
7970251
8001862
+
MKNK2
chr19
2037465
2051244
-
MAOA
chrX
43654907
43746824
+
DNA2
chr10
68414064
68472121
-
PKM
chr15
72199029
72231822
-
AP2M1
chr3
184174689
184184091
+
BCL2L13
chr22
17628855
17730855
+
RPS3
chr11
75399515
75422280
+
BHLHE22
chr8
64580365
64583627
+
TMX2
chr11
57712593
57740973
+
NOL6
chr9
33461353
33473930
-
APH1A
chr1
150265399
150269580
-
DMAC1
chr9
7796500
7888380
-
GLO1
chr6
38675925
38703145
-
OXLD1
chr17
81665036
81666635
-
HILPDA
chr7
128455849
128458418
+
UIMC1
chr5
176905005
177022633
-
AP002990.1
chr11
62559603
62591531
-
NOP53
chr19
47745546
47757058
+
GTF2A2
chr15
59638062
59657541
-
NIPSNAP1
chr22
29554808
29581327
-
VSTM2A
chr7
54542325
54571080
+
SLC25A6
chrX
1386152
1392113
-
LY6E
chr8
143017982
143023832
+
MADD
chr11
47269161
47330031
+
ALCAM
chr3
105366909
105576900
+
miRNA targets:NA
circRNA targets:NA
lncRNA targets:
lncRNA SymbolChromosomeStart Site(bp)End Site(bp)Strand
AC005785.1
chr19
15379076
15381194
+
AD000090.1
chr19
35557956
35581954
+
FBXL19-AS1
chr16
30919319
30923269
-
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.