exRNAdisease

Entry Detail

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General Information

Database ID: exR0000325 RNA Name: ADPRH RNA Type: mRNA Chromosome: chr3 Starnd: + Coordinate: Start Site(bp): 119579268 End Site(bp): 119589945 External Links: ENSG00000144843

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 AHCY chr20 34280268 34311802 - CFL1 chr11 65823022 65862026 - COX7A2 chr6 75237675 75250323 - ECHDC2 chr1 52895910 52927212 - EDARADD chr1 236348257 236502915 + FCER2 chr19 7688758 7702146 - FTL chr19 48965309 48966879 + MFSD12 chr19 3538261 3574290 - MRM2 chr7 2234195 2242205 - MRPS26 chr20 3046052 3048250 + MYO18A chr17 29071124 29180412 - NACA2 chr17 61590421 61591219 - NCL chr2 231453531 231483641 - PGRMC1 chrX 119236245 119244466 + PSME1 chr14 24136163 24138967 + RACK1 chr5 181236897 181248096 - RAF1 chr3 12583601 12664226 - RIOX2 chr3 97941818 97972457 - RPL37A chr2 216498825 216579180 + RPLP0 chr12 120196699 120201235 - RPS2 chr16 1962058 1964841 - RPS25 chr11 119015712 119018691 - RSRC2 chr12 122503454 122527000 - SIAH2 chr3 150741125 150763477 - SLC25A6 chrX 1386152 1392113 - STARD7 chr2 96184859 96208825 - SUB1 chr5 32531633 32604079 + TMSB4X chrX 12975110 12977227 + miRNA targets: NA circRNA targets: NA lncRNA targets: NA 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.