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Discovery of UFO Proteins: Human-Virus Chimeric Proteins Generated During Influenza Virus Infection

https://doi.org/10.1101/597617
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What this work says

Outgoing claims: the papers this work cites, builds on, or argues with.

inferredcites →https://doi.org/10.1016/0092-8674(80)90484-5openalex-snapshot
Sequence of interrupted and uninterrupted mRNAs and cloned DNA coding for the two overlapping nonstructural proteins of influenza virus
inferredcites →https://doi.org/10.1016/0092-8674(81)90449-9openalex-snapshot
A unique cap(m7GpppXm)-dependent influenza virion endonuclease cleaves capped RNAs to generate the primers that initiate viral RNA transcription
inferredcites →https://doi.org/10.1016/0092-8674(94)90169-4openalex-snapshot
T cell receptor antagonist peptides induce positive selection
inferredcites →https://doi.org/10.1016/j.cell.2016.11.031openalex-snapshot
Functional Segregation of Overlapping Genes in HIV
inferredcites →https://doi.org/10.1016/j.molcel.2017.08.019openalex-snapshot
Ribosome Collision Is Critical for Quality Control during No-Go Decay
inferredcites →https://doi.org/10.1016/j.molcel.2018.12.020openalex-snapshot
Ribosomal Proteins Regulate MHC Class I Peptide Generation for Immunosurveillance
inferredcites →https://doi.org/10.1016/j.tibs.2014.06.002openalex-snapshot
Protein mistranslation: friend or foe?
inferredcites →https://doi.org/10.1016/j.vaccine.2008.07.039openalex-snapshot
The biology of influenza viruses
inferredcites →https://doi.org/10.1016/j.virol.2017.06.020openalex-snapshot
Influenza A virus cap-snatches host RNAs based on their abundance early after infection
inferredcites →https://doi.org/10.1016/s1074-7613(00)80447-1openalex-snapshot
Localization, Quantitation, and In Situ Detection of Specific Peptide–MHC Class I Complexes Using a Monoclonal Antibody
inferredcites →https://doi.org/10.1038/nature07745openalex-snapshot
The cap-snatching endonuclease of influenza virus polymerase resides in the PA subunit
inferredcites →https://doi.org/10.1038/nature08576openalex-snapshot
Innate immune and chemically triggered oxidative stress modifies translational fidelity
inferredcites →https://doi.org/10.1038/nature13087openalex-snapshot
A predictive fitness model for influenza
inferredcites →https://doi.org/10.1038/nature14009openalex-snapshot
Structural insight into cap-snatching and RNA synthesis by influenza polymerase
inferredcites →https://doi.org/10.1038/nature21036openalex-snapshot
Translation from unconventional 5′ start sites drives tumour initiation
inferredcites →https://doi.org/10.1038/ncomms11663openalex-snapshot
Conservation of uORF repressiveness and sequence features in mouse, human and zebrafish
inferredcites →https://doi.org/10.1038/ng.276openalex-snapshot
Loss-of-function mutations of an inhibitory upstream ORF in the human hairless transcript cause Marie Unna hereditary hypotrichosis
inferredcites →https://doi.org/10.1038/nm1201-1306openalex-snapshot
A novel influenza A virus mitochondrial protein that induces cell death
inferredcites →https://doi.org/10.1038/nrg3520openalex-snapshot
Emerging evidence for functional peptides encoded by short open reading frames
inferredcites →https://doi.org/10.1038/nrmicro.2016.87openalex-snapshot
Influenza virus RNA polymerase: insights into the mechanisms of viral RNA synthesis
inferredcites →https://doi.org/10.1073/pnas.0810916106openalex-snapshot
Upstream open reading frames cause widespread reduction of protein expression and are polymorphic among humans
inferredcites →https://doi.org/10.1073/pnas.0907841107openalex-snapshot
Dual coding in alternative reading frames correlates with intrinsic protein disorder
inferredcites →https://doi.org/10.1073/pnas.78.7.4170openalex-snapshot
Sequences of mRNAs derived from genome RNA segment 7 of influenza virus: colinear and interrupted mRNAs code for overlapping proteins.
inferredcites →https://doi.org/10.1073/pnas.89.20.9489openalex-snapshot
Origins of genes: "big bang" or continuous creation?
inferredcites →https://doi.org/10.1073/pnas.93.26.15036openalex-snapshot
Methionine residues as endogenous antioxidants in proteins
inferredcites →https://doi.org/10.1074/jbc.m310761200openalex-snapshot
Gene Fusion and Overlapping Reading Frames in the Mammalian Genes for 4E-BP3 and MASK
inferredcites →https://doi.org/10.1074/jbc.r116.733899openalex-snapshot
Upstream Open Reading Frames Differentially Regulate Gene-specific Translation in the Integrated Stress Response
inferredcites →https://doi.org/10.1093/bioinformatics/bts635openalex-snapshot
STAR: ultrafast universal RNA-seq aligner
inferredcites →https://doi.org/10.1093/bioinformatics/btt656openalex-snapshot
featureCounts: an efficient general purpose program for assigning sequence reads to genomic features
inferredcites →https://doi.org/10.1093/bioinformatics/btu033openalex-snapshot
RAxML version 8: a tool for phylogenetic analysis and post-analysis of large phylogenies
inferredcites →https://doi.org/10.1093/molbev/mss179openalex-snapshot
Evolution of Viral Proteins Originated De Novo by Overprinting
inferredcites →https://doi.org/10.1093/nar/9.12.2727openalex-snapshot
Spliced and unspliced RNAs encoded by virion RNA segment 7 of influenza virus
inferredcites →https://doi.org/10.1093/nar/gkh305openalex-snapshot
5'-Untranslated regions with multiple upstream AUG codons can support low-level translation via leaky scanning and reinitiation
inferredcites →https://doi.org/10.1093/nar/gkv167openalex-snapshot
Hypoxia-induced gene expression results from selective mRNA partitioning to the endoplasmic reticulum
inferredcites →https://doi.org/10.1093/nar/gkv333openalex-snapshot
Sequencing the cap-snatching repertoire of H1N1 influenza provides insight into the mechanism of viral transcription initiation
inferredcites →https://doi.org/10.1093/nq/11-7-271gopenalex-snapshot
IDENTIFICATION OF NOVEL
inferredcites →https://doi.org/10.1093/ve/vex042openalex-snapshot
TreeTime: Maximum-likelihood phylodynamic analysis
inferredcites →https://doi.org/10.1101/gad.461808openalex-snapshot
Trans -regulation of the expression of the transcription factor MtHAP2-1 by a uORF controls root nodule development
inferredcites →https://doi.org/10.1126/science.1222213openalex-snapshot
An Overlapping Protein-Coding Region in Influenza A Virus Segment 3 Modulates the Host Response
inferredcites →https://doi.org/10.1126/science.aad3867openalex-snapshot
Translation from the 5′ untranslated region shapes the integrated stress response
inferredcites →https://doi.org/10.1128/jvi.00592-10openalex-snapshot
Differential Localization and Function of PB1-F2 Derived from Different Strains of Influenza A Virus
inferredcites →https://doi.org/10.1128/jvi.00826-09openalex-snapshot
A Complicated Message: Identification of a Novel PB1-Related Protein Translated from Influenza A Virus Segment 2 mRNA
inferredcites →https://doi.org/10.1128/jvi.02656-12openalex-snapshot
Identification of Novel Influenza A Virus Proteins Translated from PA mRNA
inferredcites →https://doi.org/10.1128/jvi.73.11.9679-9682.1999openalex-snapshot
Rescue of Influenza A Virus from Recombinant DNA
inferredcites →https://doi.org/10.1186/s13059-014-0550-8openalex-snapshot
Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2
inferredcites →https://doi.org/10.1371/journal.pone.0009490openalex-snapshot
FastTree 2 – Approximately Maximum-Likelihood Trees for Large Alignments
inferredcites →https://doi.org/10.1371/journal.ppat.1002998openalex-snapshot
Identification of a Novel Splice Variant Form of the Influenza A Virus M2 Ion Channel with an Antigenically Distinct Ectodomain
inferredcites →https://doi.org/10.14806/ej.17.1.200openalex-snapshot
Cutadapt removes adapter sequences from high-throughput sequencing reads
inferredcites →https://doi.org/10.1534/genetics.112.143396openalex-snapshot
Clonal Interference in the Evolution of Influenza
inferredcites →https://doi.org/10.2807/1560-7917.es.2017.22.13.30494openalex-snapshot
GISAID: Global initiative on sharing all influenza data – from vision to reality

What points at this work

Incoming claims: where this work appears in other papers’ reference lists and arguments.

inferred← citeshttps://doi.org/10.1101/795815openalex-snapshot
Upstream translation initiation expands the coding capacity of segmented negative-strand RNA viruses
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