exRNAdisease

Entry Detail

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General Information

Database ID: exR0000245 RNA Name: ADAM8 RNA Type: mRNA Chromosome: chr10 Starnd: - Coordinate: Start Site(bp): 133262420 End Site(bp): 133276868 External Links: ENSG00000151651

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 ABLIM1 chr10 114431113 114768061 - AC007192.1 chr19 18153158 18178117 + ACLY chr17 41866917 41930542 - ACTB chr7 5527148 5563784 - ACTG1 chr17 81509971 81523847 - AP1B1 chr22 29327680 29423179 - ASCC2 chr22 29788609 29838304 - AVL9 chr7 32495426 32588726 + BIRC5 chr17 78214186 78225636 + CAND1 chr12 67269358 67319953 + DCAF7 chr17 63550477 63594279 + EBI3 chr19 4229523 4237528 + EEF1B2 chr2 206159585 206162928 + HNRNPK chr9 83968083 83980616 - IFI30 chr19 18173162 18178117 + IGF2 chr11 2129112 2141238 - KIF1C chr17 4997950 5028401 + LRFN4 chr11 66856647 66860475 + MSL3 chrX 11758159 11775772 + OR4K15 chr14 19975444 19976659 + PANK4 chr1 2508537 2526611 - PTGES2 chr9 128120693 128128462 - RABEP2 chr16 28904421 28936526 - RPL35A chr3 197950190 197956610 + RPS9 chr19 54200809 54249003 + SLC7A5 chr16 87830023 87869507 - TFDP1 chr13 113584721 113641473 + TNPO2 chr19 12699194 12724011 - TUBGCP2 chr10 133278630 133312337 - ZFAT chr8 134477788 134713049 - miRNA targets: NA circRNA targets: NA lncRNA targets: lncRNA Symbol Chromosome Start Site(bp) End Site(bp) Strand AL359924.1 chr1 237862175 237928321 + 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.