Chemical labeling and proteomics for characterization of unannotated small and alternative open reading frame-encoded polypeptides

Y Chen, X Cao, KH Loh… - Biochemical Society …, 2023 - portlandpress.com
Thousands of unannotated small and alternative open reading frames (smORFs and alt-
ORFs, respectively) have recently been revealed in mammalian genomes. While hundreds …

Nascent proteomics: chemical tools for monitoring newly synthesized proteins

Q Tang, X Chen - Angewandte Chemie, 2023 - Wiley Online Library
Cellular proteins are dynamically regulated in response to environmental stimuli.
Conventional proteomics compares the entire proteome in different cellular states to identify …

[HTML][HTML] Mapping subcellular localizations of unannotated microproteins and alternative proteins with MicroID

Z Na, X Dai, SJ Zheng, CJ Bryant, KH Loh, H Su, Y Luo… - Molecular cell, 2022 - cell.com
Proteogenomic identification of translated small open reading frames has revealed
thousands of previously unannotated, largely uncharacterized microproteins, or …

[HTML][HTML] Unannotated microprotein EMBOW regulates the interactome and chromatin and mitotic functions of WDR5

Y Chen, H Su, J Zhao, Z Na, K Jiang, A Bacchiocchi… - Cell reports, 2023 - cell.com
The conserved WD40-repeat protein WDR5 interacts with multiple proteins both inside and
outside the nucleus. However, it is currently unclear whether and how the distribution of …

Ribosomal frameshifting at normal codon repeats recodes functional chimeric proteins in human

G Ren, X Gu, L Zhang, S Gong, S Song… - Nucleic Acids …, 2024 - academic.oup.com
Ribosomal frameshifting refers to the process that ribosomes slip into+ 1 or− 1 reading
frame, thus produce chimeric trans-frame proteins. In viruses and bacteria, programmed …

[HTML][HTML] Study on the inhibitory activity and mechanism of Mentha haplocalyx essential oil nanoemulsion against Fusarium oxysporum growth

H Liao, J Wen, H Nie, C Ling, L Zhang, F Xu… - Scientific Reports, 2024 - nature.com
Mentha haplocalyx essential oil (MEO) has demonstrated inhibitory effects on Fusarium
oxysporum. Despite its environmentally friendly properties as a natural product, the limited …

[HTML][HTML] Casting CRISPR-Cas13d to fish for microprotein functions in animal development

AJ Treichel, AA Bazzini - IScience, 2022 - cell.com
Protein coding genes were originally identified with sequence-based definitions that
included a 100-codon cutoff to avoid annotating irrelevant open reading frames. However …

[HTML][HTML] All these screens that we've done: how functional genetic screens have informed our understanding of ribosome biogenesis

CM Harold - Bioscience Reports, 2023 - portlandpress.com
Ribosome biogenesis is the complex and essential process that ultimately leads to the
synthesis of cellular proteins. Understanding each step of this essential process is …

[HTML][HTML] TP53BP1, a dual-coding gene, uses promoter switching and translational reinitiation to express a smORF protein

MA Inchingolo, A Diman, M Adamczewski… - Iscience, 2023 - cell.com
The complexity of the metazoan proteome is significantly increased by the expression of
small proteins (< 100 aa) derived from smORFs within lncRNAs, uORFs, 3′ UTRs and …

[HTML][HTML] BONCAT-based profiling of nascent small and alternative open reading frame-encoded proteins

X Cao, Y Chen, A Khitun, SA Slavoff - Bio-protocol, 2023 - ncbi.nlm.nih.gov
RIBO-seq and proteogenomics have revealed that mammalian genomes harbor thousands
of unannotated small and alternative open reading frames (smORFs,< 100 amino acids, and …