exRNAdisease

Entry Detail

---



General Information

Database ID: exR0359499 RNA Name: AGTRAP RNA Type: mRNA Chromosome: chr1 Starnd: + Coordinate: Start Site(bp): 11736084 End Site(bp): 11754802 External Links: ENSG00000177674

Disease Information

Disease Name: Amyotrophic Lateral Sclerosis Disease Category: Nervous System Diseases MeSH ID: D000690 Type: Diseases Category/Nervous System Diseases Alias: Sclerosis, Amyotrophic Lateral//Gehrig's Disease//Gehrig Disease//Gehrigs Disease//Charcot Disease//Motor Neuron Disease, Amyotrophic Lateral Sclerosis//Lou Gehrig's Disease//Lou-Gehrigs Disease//Disease, Lou-Gehrigs//ALS - Amyotrophic Lateral Sclerosis//ALS Amyotrophic Lateral Sclerosis//Lou Gehrig Disease//Amyotrophic Lateral Sclerosis, Guam Form//Amyotrophic Lateral Sclerosis-Parkinsonism-Dementia Complex 1//Amyotrophic Lateral Sclerosis Parkinsonism Dementia Complex 1//Guam Form of Amyotrophic Lateral Sclerosis//Guam Disease//Disease, Guam//Amyotrophic Lateral Sclerosis, Parkinsonism-Dementia Complex of Guam//Amyotrophic Lateral Sclerosis, Parkinsonism Dementia Complex of Guam//Amyotrophic Lateral Sclerosis With Dementia//Dementia With Amyotrophic Lateral Sclerosis

Expression Detail

GEO ID: GSE121519 Description: Identification of biomarkers for amyotrophic lateral sclerosis by comprehensive analysis of exosomal mRNAs in human cerebrospinal fluid. Experimental Design: Disease vs Control Case Disease Type: Amyotrophic Lateral Sclerosis Case Disease SubType: NA Case Sample: Amyotrophic Lateral Sclerosis Control Sample: Healthy Number of Case: 4 Number of Control: 4 Number of Samples: 8

Regulatory Relationship

mRNA targets: Gene Symbol Chromosome Start Site(bp) End Site(bp) Strand LDHA chr11 18394560 18408425 + STK4 chr20 44966479 45080021 + ACPP chr3 132317369 132368298 + HOXB1 chr17 48528526 48531011 - TMSB4X chrX 12975110 12977227 + PAFAH1B3 chr19 42297033 42303546 - KDM3A chr2 86440647 86492716 + ICE1 chr5 5420664 5490220 + CCDC88C chr14 91271323 91417844 - TUBA1C chr12 49188736 49274603 + POGK chr1 166839447 166856344 + NUCB1 chr19 48900312 48923372 + RPL30 chr8 98024851 98046469 - HSF1 chr8 144291591 144314720 + PABPC3 chr13 25095868 25099254 + PABPN1 chr14 23321289 23326185 + KRT19 chr17 41523617 41528308 - SLC2A13 chr12 39755025 40106089 - UBE2T chr1 202331657 202341980 - XPC chr3 14145147 14178783 - FUS chr16 31180110 31194871 + TJAP1 chr6 43477523 43506556 + MAD2L2 chr1 11674480 11691650 - CNPY3 chr6 42929192 42939294 + STAT5B chr17 42199177 42276707 - SCARB1 chr12 124776856 124882668 - IQGAP1 chr15 90388242 90502239 + SND1 chr7 127652194 128092609 + HLA-B chr6 31269491 31357188 - APEH chr3 49674014 49683971 + miRNA targets: miRNA Symbol Chromosome Start Site(bp) End Site(bp) Strand hsa-miR-34a-5p chr1 9151735 9151756 - hsa-miR-188-5p chrX 50003517 50003537 + hsa-miR-34c-5p chr11 111513451 111513473 + hsa-miR-324-5p chr17 7223343 7223364 - hsa-miR-654-5p chr14 101040234 101040255 + hsa-miR-129-2-3p chr11 43581450 43581471 + hsa-miR-330-5p chr19 45639049 45639070 - hsa-miR-628-5p chr15 55372991 55373012 - hsa-miR-541-3p chr14 101064548 101064569 + circRNA targets: NA lncRNA targets: lncRNA Symbol Chromosome Start Site(bp) End Site(bp) Strand AD000090.1 chr19 35557956 35581954 + MIR663AHG chr20 26167817 26251546 - Display:

Experiment Detail

GEO ID: GSE121519 Sample Source: Cerebrospinal Fluid Source Fraction: Exosome Platform: GPL18573 Method: NGS Num of detected RNA Type: 2 Num of detected RNAs of this Type: 17787 Sample treatment protocol: Up to 1 mL of human CSF was centrifuged at 2,000×g for 5 min and 10, 000×g for 20 min for supernatant. RNA Extract protocol: Supernatant from final centrifugation was applied to exoRNeasy spin column and RNA was extracted. RNA library preparation protocol: Whole cDNA amplification was performed with SMART-seq v4 Ultra Low Input RNA Kit. Illumina library was constructed with Nextera XT DNA Library Prep Kit.

Reference

PMID: 30630471 Title: Identification of biomarkers for amyotrophic lateral sclerosis by comprehensive analysis of exosomal mRNAs in human cerebrospinal fluid Author: Otake K, Kamiguchi H, Hirozane Y Journal: BMC Med Genomics. 2019 Jan 10;12(1):7. Description: The main purpose of this study is to established the methodology of comprehensive analysis of exosomal mRNAs in CSF by a highly sensitive next-generation sequencing.