exRNAdisease

Entry Detail

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General Information

Database ID: exR0000071 RNA Name: ABHD10 RNA Type: mRNA Chromosome: chr3 Starnd: + Coordinate: Start Site(bp): 111979010 End Site(bp): 111993368 External Links: ENSG00000144827

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 RPN2 chr20 37178410 37241619 + STAC2 chr17 39210541 39225945 - GLUL chr1 182381704 182392206 - COL4A2 chr13 110305812 110513209 + YBX3 chr12 10699089 10723323 - CXCR4 chr2 136114349 136118149 - LBHD1 chr11 62662817 62672255 - PPIA chr7 44796680 44824564 + C11orf98 chr11 62662816 62665217 - RPL13 chr16 89560657 89566828 + MBD4 chr3 129430944 129440179 - MTRNR2L8 chr11 10507894 10509186 - DIDO1 chr20 62877738 62937952 - MYO1G chr7 44962662 44979088 - CTSZ chr20 58995185 59007254 - EEF1D chr8 143579697 143599541 - AP001458.2 chr11 62649694 62665178 - TBP chr6 170554302 170572870 + RPL3 chr22 39312882 39320389 - INTS12 chr4 105682627 105895986 - RPS23 chr5 82273320 82278396 - ATXN7 chr3 63864557 64003462 + MPP6 chr7 24573268 24694193 + RPS5 chr19 58386400 58394806 + RPL27A chr11 8682788 8714759 + TBC1D10B chr16 30357102 30370494 - TALDO1 chr11 747415 765012 + CLCN3 chr4 169612633 169723673 + ZNF277 chr7 112206695 112343934 + UBXN7 chr3 196347662 196432430 - 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.