The evolutionary origin of orphan genes

773 citations recorded by the source corpus.

How researchers see this paper

The researchers whose trusted networks rank it highest, strongest advocate first. Every researcher gets a different order.

Long Noncoding RNAs: Past, Present, and Future (2013, background): “…in the past several years across multiple taxa, including primates, suggest that new protein-coding genes can arise de novo from previously nongenic sequences, by first becoming transcribed noncoding genes and then evolving into translated protein-coding genes (Tautz and Domazet-Lošo 2011).”
Proto-genes and de novo gene birth (2012, methodology): “We optimized three parameters with regard to these two null models: (1) the proportion of ORF length covered in RNA-Seq and footprint reads was fixed at 50% minimum; (2) the factor by which the number of footprint reads per nucleotide in the ORF should be higher than the number of footprint reads pe”
Sequence Analysis (2020, neutral): “While pipelines for the reference-based isoform reconstruction from barcoded data were developed in the original studies (Loop-Seq, SPIso-seq), to the best of our knowledge, there is currently no de novo RNA assembler specifically designed for barcoded RNA reads.”
Single-sequence protein structure prediction using language models and deep learning (2022, background): “It is one of many orphan genes found in fungi, plants, insects and other organisms 21 for which MSAs are not available.”
Single-sequence protein structure prediction using language models from deep learning (2021, background): “It is one of many orphan genes found in fungi, plants insects and other organisms 21 for which no MSA is available.”