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Series GSE100007 Query DataSets for GSE100007
Status Public on Jun 26, 2017
Title Widespread translational remodeling during human neuronal differentiation
Organism Homo sapiens
Experiment type Expression profiling by high throughput sequencing
Other
Summary Faithful cellular differentiation requires precise coordination of changes in gene expression. However, the relative contributions of transcriptional and translational regulation during human cellular differentiation are unclear. Here, we induced forebrain neuronal differentiation of human embryonic stem cells (hESCs) and characterized genome-wide RNA and translation levels during neurogenesis. We find that thousands of genes change at the translation level across differentiation without a corresponding change in RNA level. Specifically, we identify mTOR complex 1 signaling as a key driver for elevated translation of translation-related genes in hESCs. In contrast, translational repression in active neurons is mediated by transcript 3′ UTRs, through regulatory sequences. Together, our findings identify a functional role for the dramatic 3′ UTR extensions that occur during brain development, and provide insights to interpret genetic variants in post-transcriptional control factors that influence neurodevelopmental disorders and diseases.
 
Overall design Forebrain neural cultures differentiated from human embryonic stem cells were isolated and cellular RNA, polysomal RNA, and ribosome protected footprints were deep sequenced.
 
Contributor(s) Blair JD, Hockemeyer D, Doudna JA, Bateup HS, Floor SN
Citation(s) 29141229
NIH grant(s)
Grant ID Grant title Affiliation Name
R01 NS097823 Elucidating the neuropathophysiology of TSC using genetically engineered human neurons UNIVERSITY OF CALIFORNIA BERKELEY Helen Shirley Bateup
R01 CA196884 Telomerase function in human tumor and stem cell biology UNIVERSITY OF CALIFORNIA BERKELEY Dirk Hockemeyer
Submission date Jun 13, 2017
Last update date May 15, 2019
Contact name Stephen N. Floor
E-mail(s) stephen.floor@ucsf.edu
Organization name University of California, San Francisco
Department Cell and Tissue Biology
Lab Floor Lab
Street address 513 Parnassus Ave, HSW 740
City San Francisco
State/province CA
ZIP/Postal code 94143
Country USA
 
Platforms (1)
GPL20301 Illumina HiSeq 4000 (Homo sapiens)
Samples (52)
GSM2667747 hesc_cyto_rep1
GSM2667748 hesc_nuc_rep1
GSM2667749 hesc_monosome_rep1
Relations
BioProject PRJNA390315
SRA SRP109126

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SOFT formatted family file(s) SOFTHelp
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Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE100007_rp_gene_orf_tpms.tsv.gz 1.1 Mb (ftp)(http) TSV
GSE100007_rp_orf_5utr_counts.tsv.gz 1.0 Mb (ftp)(http) TSV
GSE100007_tripseq_gene_tpms.tsv.gz 4.5 Mb (ftp)(http) TSV
GSE100007_tripseq_transcript_tpms.tsv.gz 16.7 Mb (ftp)(http) TSV
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Raw data are available in SRA
Processed data are available on Series record

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