Classification and function of small open reading frames

JP Couso, P Patraquim - Nature reviews Molecular cell biology, 2017 - nature.com
Small open reading frames (smORFs) of 100 codons or fewer are usually—if arbitrarily—
excluded from proteome annotations. Despite this, the genomes of many metazoans …

Role of transposable elements in gene regulation in the human genome

A Ali, K Han, P Liang - Life, 2021 - mdpi.com
Transposable elements (TEs), also known as mobile elements (MEs), are interspersed
repeats that constitute a major fraction of the genomes of higher organisms. As one of their …

Protein-coding genes' retrocopies and their functions

MR Kubiak, I Makałowska - Viruses, 2017 - mdpi.com
Transposable elements, often considered to be not important for survival, significantly
contribute to the evolution of transcriptomes, promoters, and proteomes. Reverse …

dreamBase: DNA modification, RNA regulation and protein binding of expressed pseudogenes in human health and disease

LL Zheng, KR Zhou, S Liu, DY Zhang… - Nucleic Acids …, 2018 - academic.oup.com
Although thousands of pseudogenes have been annotated in the human genome, their
transcriptional regulation, expression profiles and functional mechanisms are largely …

Estrogen distinctly regulates transcription and translation of lncRNAs and pseudogenes in breast cancer cells

SW Choo, Y Zhong, E Sendler, AS Goustin, J Cai, D Ju… - Genomics, 2022 - Elsevier
Estrogen drives key transcriptional changes in breast cancer and stimulates breast cancer
cells' growth with multiple mechanisms to coordinate transcription and translation. In …

High Expression of ANXA2 Pseudogene ANXA2P2 Promotes an Aggressive Phenotype in Hepatocellular Carcinoma

Q Wang, LL Shi, F Sun, Y Zhang, RW Chen… - Disease …, 2019 - Wiley Online Library
Objective. Accumulating evidence suggests that pseudogenes play potential roles in the
regulation of their cognate wild‐type genes, oncogenes, and tumor suppressor genes …

Dyads of GGC and GCC form hotspot colonies that coincide with the evolution of human and other great apes

M Arabfard, N Tajeddin, S Alizadeh, M Salesi… - BMC Genomic …, 2024 - Springer
Background GGC and GCC short tandem repeats (STRs) are of various evolutionary,
biological, and pathological implications. However, the fundamental two-repeats (dyads) of …

Gestational age dependence of the maternal circulating long non-coding RNA transcriptome during normal pregnancy highlights antisense and pseudogene …

EL Kleinbrink, N Gomez-Lopez, D Ju, B Done… - Frontiers in …, 2021 - frontiersin.org
In the post-genomic era, our understanding of the molecular regulators of physiologic and
pathologic processes in pregnancy is expanding at the whole-genome level. Longitudinal …

The Mitochondrial Genome of a Freshwater Pelagic Amphipod Macrohectopus branickii Is among the Longest in Metazoa

EV Romanova, YS Bukin, KV Mikhailov… - Genes, 2021 - mdpi.com
There are more than 350 species of amphipods (Crustacea) in Lake Baikal, which have
emerged predominantly through the course of endemic radiation. This group represents a …

Genome‑wide integrated analysis demonstrates widespread functions of lncRNAs in mammary gland development and lactation in dairy goats

Z Ji, T Chao, Z Liu, L Hou, J Wang, A Wang, J Zhou… - BMC genomics, 2020 - Springer
Background The mammary gland is a unique organ for milk synthesis, secretion and
storage, and it undergoes cyclical processes of development, differentiation, lactation and …