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Series GSE254492 Query DataSets for GSE254492
Status Public on Feb 02, 2024
Title Defining the mechanisms and properties of post-transcriptional regulatory disordered regions by high-throughput functional profiling
Organism Saccharomyces cerevisiae
Experiment type Other
Summary Disordered regions within RNA binding proteins are required to control mRNA decay and protein synthesis. To understand how these disordered regions modulate gene expression, we surveyed regulatory activity across the entire disordered proteome using a high-throughput functional assay. We identified hundreds of regulatory sequences within intrinsically disordered regions and demonstrate how these elements cooperate with core mRNA decay machinery to promote transcript turnover. Coupling high-throughput functional profiling with mutational scanning revealed diverse molecular features, ranging from defined motifs to overall sequence composition, underlying the regulatory effects of disordered peptides. Machine learning analysis implicated aromatic residues in particular contexts as critical determinants of repressor activity, consistent with their roles in forming protein-protein interactions with downstream effectors. Our results define the molecular principles and biochemical mechanisms that govern post-transcriptional gene regulation by disordered regions and exemplify the encoding of diverse yet specific functions in the absence of well-defined structure.
 
Overall design We measured the post-transcriptional regulatory activity of thousands of disordered peptides using a Sort-Seq style approach in budding yeast
 
Contributor(s) Lobel JH, Ingolia NT
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Submission date Jan 29, 2024
Last update date Feb 02, 2024
Contact name Joseph Heimlich Lobel
E-mail(s) jhlobel@berkeley.edu
Phone 7324392625
Organization name UC berkeley
Department Molecular and Cell Biology
Street address 1 Barker Hall # 3202
City Berkeley
State/province CA
ZIP/Postal code 94720
Country USA
 
Platforms (1)
GPL21656 Illumina HiSeq 4000 (Saccharomyces cerevisiae)
Samples (78)
GSM8043301 Far Left bin of Sort-seq on iRFP/RFP ratio with mutational library, replicate-1
GSM8043302 Far Left bin of Sort-seq on iRFP/RFP ratio with mutational librar, replicate-2
GSM8043303 Far Right bin of Sort-seq on iRFP/RFP ratio with mutational librar, replicate-1
Relations
BioProject PRJNA1070666

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
GSE254492_RAW.tar 20.4 Mb (http)(custom) TAR (of TXT)
GSE254492_Table_S2_WT.csv.gz 3.0 Mb (ftp)(http) CSV
GSE254492_Table_S3_Mut.csv.gz 1.7 Mb (ftp)(http) CSV
SRA Run SelectorHelp
Raw data are available in SRA

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