ArticleNucleic acids research2018
Identification of diverse target RNAs that are functionally regulated by human Pumilio proteins.
Article in Nucleic acids research, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 61 papers.
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Who cites it
61 citing papers in PubMed, 122 citations in OpenAlex.
- PUM1 and PUM2 promote translation of chromatin regulators to ensure mammalian spermatogenesis.Science advances · 2026Article
- ThebioRxiv : the preprint server for biology · 2026Article
- Human pumilio proteins use fuzzy multivalent hydrophobic interactions to recruit the CCR4-NOT deadenylase complex to repress mRNAs.The Journal of biological chemistry · 2026Article
- Cytoplasmic poly-adenosine binding proteins modulate susceptibility of mRNAs to Pumilio-mediated decay.Nucleic acids research · 2026Article
- Dual regulatory mechanisms of YGP1 expression in response to glucose availability in Saccharomyces cerevisiae.PloS one · 2026Article
- Human Pumilio proteins use fuzzy multivalent hydrophobic interactions to recruit the CCR4-NOT deadenylase complex to repress mRNAs.bioRxiv : the preprint server for biology · 2025Article
- The NANOS RNA-binding protein variants: a model for understanding human infertility.Journal of applied genetics · 2025Review
- Viral non-coding RNAs hijack host Pumilio proteins to regulate host transcripts.bioRxiv : the preprint server for biology · 2025Article
- Cytoplasmic poly-adenosine binding proteins modulate susceptibility of mRNAs to RNA-binding protein-directed decay.bioRxiv : the preprint server for biology · 2025Article
- Accurate in silico predictions of modified RNA interactions to a prototypical RNA-binding protein with λ-dynamics.RNA (New York, N.Y.) · 2025Article
- An inducible tethered function assay reveals differential regulatory effects for the RNA-binding protein YBX3 and its domains.bioRxiv : the preprint server for biology · 2025Article
- Structural features within the NORAD long noncoding RNA underlie efficient repression of Pumilio activity.Nature structural & molecular biology · 2025Article
- Systematic analysis of the target recognition and repression by the Pumilio proteins.Nucleic acids research · 2024Article
- Regulation of synapse density by Pumilio RNA-binding proteins.Cell reports · 2024Article
- Cell type mapping of inflammatory muscle diseases highlights selective myofiber vulnerability in inclusion body myositis.Nature aging · 2024Article
- Pumilio-1 mediated translational control of claudin-5 at the blood-brain barrier.Fluids and barriers of the CNS · 2024Article
- Regulation of theRNA (New York, N.Y.) · 2024Article
- Chemi-Northern: a versatile chemiluminescent northern blot method for analysis and quantitation of RNA molecules.RNA (New York, N.Y.) · 2024Article
- RNA molecular recording with an engineered RNA deaminase.Nature methods · 2023Article
- Chemi-Northern: a versatile chemiluminescent northern blot method for analysis and quantitation of RNA molecules.bioRxiv : the preprint server for biology · 2023Article
1 more citing papers are in PubMed but not listed here.
Corrections and comments
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Authors and funding
7 authors at 3 institutions in 1 country.
Funding
Abstract
Human Pumilio proteins, PUM1 and PUM2, are sequence specific RNA-binding proteins that regulate protein expression. We used RNA-seq, rigorous statistical testing and an experimentally derived fold change cut-off to identify nearly 1000 target RNAs-including mRNAs and non-coding RNAs-that are functionally regulated by PUMs. Bioinformatic analysis defined a PUM Response Element (PRE) that was significantly enriched in transcripts that increased in abundance and matches the PUM RNA-binding consensus. We created a computational model that incorporates PRE position and frequency within an RNA relative to the magnitude of regulation. The model reveals significant correlation of PUM regulation with PREs in 3' untranslated regions (UTRs), coding sequences and non-coding RNAs, but not 5' UTRs. To define direct, high confidence PUM targets, we cross-referenced PUM-regulated RNAs with all PRE-containing RNAs and experimentally defined PUM-bound RNAs. The results define nearly 300 direct targets that include both PUM-repressed and, surprisingly, PUM-activated target RNAs. Annotation enrichment analysis reveal that PUMs regulate genes from multiple signaling pathways and developmental and neurological processes. Moreover, PUM target mRNAs impinge on human disease genes linked to cancer, neurological disorders and cardiovascular disease. These discoveries pave the way for determining how the PUM-dependent regulatory network impacts biological functions and disease states.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.