Overcoming challenges and dogmas to understand the functions of pseudogenes
Pseudogenes are defined as regions of the genome that contain defective copies of genes.
They exist across almost all forms of life, and in mammalian genomes are annotated in …
They exist across almost all forms of life, and in mammalian genomes are annotated in …
The ambiguous boundary between genes and pseudogenes: the dead rise up, or do they?
D Zheng, MB Gerstein - Trends in Genetics, 2007 - cell.com
Pseudogenes have long been considered to be 'dead', nonfunctional by-products of
genome evolution. However, several lines of evidence now show that some pseudogenes …
genome evolution. However, several lines of evidence now show that some pseudogenes …
Pseudogenes in the ENCODE regions: consensus annotation, analysis of transcription, and evolution
Arising from either retrotransposition or genomic duplication of functional genes,
pseudogenes are “genomic fossils” valuable for exploring the dynamics and evolution of …
pseudogenes are “genomic fossils” valuable for exploring the dynamics and evolution of …
A genome-wide survey of human pseudogenes
We screened all intergenic regions in the human genome to identify pseudogenes with a
combination of homology searches and a functionality test using the ratio of silent to …
combination of homology searches and a functionality test using the ratio of silent to …
Large-scale analysis of pseudogenes in the human genome
ZL Zhang, M Gerstein - Current opinion in genetics & development, 2004 - Elsevier
Pseudogenes are considered as genomic fossils: disabled copies of functional genes that
were once active in the ancient genome. Recently, whole-genome computational …
were once active in the ancient genome. Recently, whole-genome computational …
Pseudogene. org: a comprehensive database and comparison platform for pseudogene annotation
The Pseudogene. org knowledgebase serves as a comprehensive repository for
pseudogene annotation. The definition of a pseudogene varies within the literature, resulting …
pseudogene annotation. The definition of a pseudogene varies within the literature, resulting …
The GENCODE pseudogene resource
Background Pseudogenes have long been considered as nonfunctional genomic
sequences. However, recent evidence suggests that many of them might have some form of …
sequences. However, recent evidence suggests that many of them might have some form of …
PseudoPipe: an automated pseudogene identification pipeline
Motivation: Mammalian genomes contain many 'genomic fossils' ie pseudogenes. These are
disabled copies of functional genes that have been retained in the genome by gene …
disabled copies of functional genes that have been retained in the genome by gene …
Identification and analysis of unitary pseudogenes: historic and contemporary gene losses in humans and other primates
Background Unitary pseudogenes are a class of unprocessed pseudogenes without
functioning counterparts in the genome. They constitute only a small fraction of annotated …
functioning counterparts in the genome. They constitute only a small fraction of annotated …
[HTML][HTML] Re-recognition of pseudogenes: From molecular to clinical applications
X Chen, L Wan, W Wang, WJ Xi, AG Yang, T Wang - Theranostics, 2020 - ncbi.nlm.nih.gov
Pseudogenes were initially regarded as “nonfunctional” genomic elements that did not have
protein-coding abilities due to several endogenous inactivating mutations. Although …
protein-coding abilities due to several endogenous inactivating mutations. Although …