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Series GSE155432 Query DataSets for GSE155432
Status Public on Jun 09, 2023
Title Extension of mRNA poly(A) tails and 3′UTRs during neuronal differentiation exhibits variable association with post-transcriptional dynamics
Organism Homo sapiens
Experiment type Expression profiling by high throughput sequencing
Other
Non-coding RNA profiling by high throughput sequencing
Summary Differentiation of neural progenitor cells into mature neuronal phenotypes relies on extensive temporospatial coordination of mRNA expression to support the development of functional brain circuitry. Cleavage and polyadenylation of mRNA has tremendous regulatory capacity through the alteration of mRNA stability and modulation of microRNA (miRNA) function, however the extent of utilization in neuronal development is currently unclear. Here, we employed poly(A) tail sequencing, mRNA sequencing, ribosome profiling and small RNA sequencing to explore the functional relationship between mRNA abundance, translation, poly(A) tail length, alternative polyadenylation (APA) and miRNA expression in an in vitro model of neuronal differentiation. Differential analysis revealed a strong bias towards poly(A) tail and 3´UTR lengthening during differentiation, both of which were associated with changes in mRNA abundance but not translation. Globally, changes in miRNA expression were predominantly associated with mRNA abundance and translation, however several miRNA-mRNA pairings with potential to regulate poly(A) tail length were identified. Furthermore, 3´UTR lengthening was observed to significantly increase the inclusion of non-conserved miRNA binding sites, potentially enhancing the regulatory capacity of these molecules in mature neuronal cells. Together, our findings suggest poly(A) tail length and APA function as part of a rich post-transcriptional regulatory matrix during neuronal differentiation.
 
Overall design Examination of changes in mRNA expression, translation, poly(A) tail length, alternative polyadenylation and miRNA expression during neuronal differentiation of SH-SY5Y cells.
 
Contributor(s) Kiltschewskij D, Harrison P, Fitzsimmons C, Beilharz T, Cairns M
Citation(s) 37293985
Submission date Jul 30, 2020
Last update date Sep 10, 2023
Contact name Dylan Kiltschewskij
E-mail(s) c3146470@uon.edu.au
Organization name The University of Newcastle
Department School of Biomedical Sciences and Pharmacy
Lab Molecular Neurobiology
Street address Room MS616, Level 6, Medical Sciences Building, University Drive
City Callaghan
State/province NSW
ZIP/Postal code 2308
Country Australia
 
Platforms (2)
GPL18573 Illumina NextSeq 500 (Homo sapiens)
GPL24676 Illumina NovaSeq 6000 (Homo sapiens)
Samples (23)
GSM4704320 undifferentiated RNA-Seq1
GSM4704321 undifferentiated RNA-Seq2
GSM4704322 undifferentiated RNA-Seq3
Relations
BioProject PRJNA649751
SRA SRP274313

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE155432_apa.dexseq.txt.gz 4.0 Mb (ftp)(http) TXT
GSE155432_mirna.cpm.txt.gz 14.8 Kb (ftp)(http) TXT
GSE155432_mrna.cpm.txt.gz 706.5 Kb (ftp)(http) TXT
GSE155432_polya.length.tail.tools_revised.csv.gz 2.0 Mb (ftp)(http) CSV
GSE155432_ribo.cpm.txt.gz 282.5 Kb (ftp)(http) TXT
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Raw data are available in SRA
Processed data are available on Series record

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