The dark proteome: translation from noncanonical open reading frames

BW Wright, Z Yi, JS Weissman, J Chen - Trends in Cell Biology, 2022 - cell.com
Omics-based technologies have revolutionized our understanding of the coding potential of
the genome. In particular, these studies revealed widespread unannotated open reading …

Evolution and implications of de novo genes in humans

LA Broeils, J Ruiz-Orera, B Snel, N Hubner… - Nature ecology & …, 2023 - nature.com
Genes and translated open reading frames (ORFs) that emerged de novo from previously
non-coding sequences provide species with opportunities for adaptation. When aberrantly …

Standardized annotation of translated open reading frames

JM Mudge, J Ruiz-Orera, JR Prensner, MA Brunet… - Nature …, 2022 - nature.com
To the Editor—Ribosome profiling (Ribo-seq) has extended our understanding of the
translational 'vocabulary'of the human genome, uncovering thousands of open reading …

Translation of non-canonical open reading frames as a cancer cell survival mechanism in childhood medulloblastoma

DA Hofman, J Ruiz-Orera, I Yannuzzi, R Murugesan… - Molecular Cell, 2024 - cell.com
A hallmark of high-risk childhood medulloblastoma is the dysregulation of RNA translation.
Currently, it is unknown whether medulloblastoma dysregulates the translation of putatively …

Short open reading frame genes in innate immunity: from discovery to characterization

E Malekos, S Carpenter - Trends in immunology, 2022 - cell.com
Next-generation sequencing (NGS) technologies have greatly expanded the size of the
known transcriptome. Many newly discovered transcripts are classified as long noncoding …

Socialized mitochondria: mitonuclear crosstalk in stress

KH Kim, CB Lee - Experimental & Molecular Medicine, 2024 - nature.com
Traditionally, mitochondria are considered sites of energy production. However, recent
studies have suggested that mitochondria are signaling organelles that are involved in …

[HTML][HTML] Novel insights into noncanonical open reading frames in cancer

Y Liu, S Zeng, M Wu - Biochimica et Biophysica Acta (BBA)-Reviews on …, 2022 - Elsevier
With technological advances, previously neglected noncanonical open reading frames
(nORFs) are drawing ever-increasing attention. However, the translation potential of …

Novel open reading frames in human accelerated regions and transposable elements reveal new leads to understand schizophrenia and bipolar disorder

C Erady, K Amin, TOAE Onilogbo, J Tomasik… - Molecular …, 2022 - nature.com
Schizophrenia (SCZ) and bipolar disorder are debilitating neuropsychiatric disorders arising
from a combination of environmental and genetic factors. Novel open reading frames …

Protein-coding potential of non-canonical open reading frames in human transcriptome

H Kore, KK Datta, SH Nagaraj, H Gowda - Biochemical and Biophysical …, 2023 - Elsevier
In recent years, proteogenomics and ribosome profiling studies have identified a large
number of proteins encoded by noncoding regions in the human genome. They are …

Short open reading frames (sORFs) and microproteins: an update on their identification and validation measures

AZX Leong, PY Lee, MA Mohtar, SE Syafruddin… - Journal of biomedical …, 2022 - Springer
A short open reading frame (sORFs) constitutes≤ 300 bases, encoding a microprotein or
sORF-encoded protein (SEP) which comprises≤ 100 amino acids. Traditionally dismissed …