exRNAdisease

Entry Detail

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General Information

Database ID: exR0089884 RNA Name: hsa-miR-433-3p RNA Type: miRNA Chromosome: chr14 Starnd: + Coordinate: Start Site(bp): 100881949 End Site(bp): 100881970 External Links: hsa-miR-433-3p

Disease Information

Disease Name: Preterm Birth Disease Category: Urogenital Diseases and Pregnancy Complications MeSH ID: D047928 Type: Diseases Category/Female Urogenital Diseases and Pregnancy Complications Alias: Premature Birth//Birth, Premature//Births, Premature//Premature Births//Preterm Birth//Birth, Preterm//Births, Preterm//Preterm Births

Expression Detail

GEO ID: GSE106224 Description: Exosomal RNA may reflect placenta deficiencies and provide better biomarker in preterm birth Experimental Design: Disease vs Control Case Disease Type: Preterm Birth Case Disease SubType: NA Case Sample: Preterm Birth Control Sample: Control Number of Case: 20 Number of Control: 50 Number of Samples: 70

Regulatory Relationship

mRNA targets: NA miRNA targets: NA circRNA targets: circRNA Symbol Chromosome Start Site(bp) End Site(bp) Strand hsa_circ_0000118 chr1 117944807 117963271 + hsa_circ_0000120 chr1 117944807 118009049 + hsa_circ_0000987 chr2 30748452 30756180 + hsa_circ_0000892 chr19 11941431 12014514 + hsa_circ_0000119 chr1 117944807 117984947 + hsa_circ_0000733 chr17 1561546 1562030 - hsa_circ_0000398 chr12 46633461 46637097 - hsa_circ_0000116 chr1 117944807 117948267 + hsa_circ_0001168 chr20 47691321 47707559 + hsa_circ_0000117 chr1 117944807 117957453 + lncRNA targets: lncRNA Symbol Chromosome Start Site(bp) End Site(bp) Strand AC125257.1 chr17 41848518 41851447 - AL031428.1 chr1 23020147 23088058 - DSCAM-AS1 chr21 40383083 40385358 + GAS5 chr1 173858559 173868882 - NEAT1 chr11 65422774 65445540 + NORAD chr20 36045618 36051018 - TUG1 chr22 30969245 30979395 + XIST chrX 73820649 73852723 - Display:

Experiment Detail

GEO ID: GSE106224 Sample Source: Blood Source Fraction: Plasma Platform: GPL18573 Method: NGS Num of detected RNA Type: 1 Num of detected RNAs of this Type: 1522 Sample treatment protocol: Whole blood samples were centrifuged for 15 minutes at 2,000×g at 4°C to get plasma. EVs were isolated from 100 ul of plasma using size exclusion columns (iZON qEV, Cambridge MA) with de-gassed 1X PBS from a total of 22 selected samples, 11 from each group (Table 1). Eluate (~500 ul for each fraction) was collected in microfuge tubes individually. The protein contains and concentration for each fraction were assessed by protein gel electrophoresis and Bradford assay (BioRad, Hercules, CA). RNA Extract protocol: RNA was isolated from all plasma samples, the 22 EV samples, and 22 corresponding EV-depleted fractions using miRNeasy Micro Kit (Qiagne, Germantown MD). RNA library preparation protocol: Small RNA sequencing libraries were generated with a modified small RNAseq protocol (manuscript in preparation) that alleviates most of the adapter-miRNA ligation sequence bias problem.

Reference

PMID: 29516617 Title: Extracellular vesicle RNAs reflect placenta dysfunction and are a biomarker source for preterm labour Author: Fallen S, Baxter D, Wu X, Kim TK, Shynlova O, Lee MY, Scherler K, Lye S, Hood L, Wang K Journal: J Cell Mol Med. 2018 May;22(5):2760-2773. Description: We have used an improved small RNA library construction protocol and a newly developed size exclusion chromatography (SEC)-based EV purification method to gain a comprehensive view of circulating RNA in plasma and its distribution by analysing RNAs in whole plasma and EV-associated and EV-depleted plasma.