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Proteomic and Genomic Signatures of Repeat-instability in Cancer and Adjacent Normal Tissues

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What this work says

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

inferredcites →https://doi.org/10.1006/jmbi.1999.3136openalex-snapshot
A census of protein repeats
inferredcites →https://doi.org/10.1016/0968-0004(87)90231-3openalex-snapshot
‘Zinc fingers’: a novel protein motif for nucleic acid recognition
inferredcites →https://doi.org/10.1016/j.cell.2010.11.055openalex-snapshot
Massive Genomic Rearrangement Acquired in a Single Catastrophic Event during Cancer Development
inferredcites →https://doi.org/10.1016/j.cell.2013.03.021openalex-snapshot
Punctuated Evolution of Prostate Cancer Genomes
inferredcites →https://doi.org/10.1016/j.cell.2015.10.025openalex-snapshot
The Molecular Taxonomy of Primary Prostate Cancer
inferredcites →https://doi.org/10.1016/j.cell.2017.09.042openalex-snapshot
Universal Patterns of Selection in Cancer and Somatic Tissues
inferredcites →https://doi.org/10.1016/j.cell.2017.09.048openalex-snapshot
Comprehensive Analysis of Hypermutation in Human Cancer
inferredcites →https://doi.org/10.1016/j.cels.2016.02.001openalex-snapshot
System-wide Clinical Proteomics of Breast Cancer Reveals Global Remodeling of Tissue Homeostasis
inferredcites →https://doi.org/10.1016/j.immuni.2016.02.025openalex-snapshot
Integrative Analyses of Colorectal Cancer Show Immunoscore Is a Stronger Predictor of Patient Survival Than Microsatellite Instability
inferredcites →https://doi.org/10.1016/j.immuni.2016.03.004openalex-snapshot
Cancer Immunosurveillance Caught in the Act
inferredcites →https://doi.org/10.1016/j.molcel.2009.07.009openalex-snapshot
PCI Complexes: Beyond the Proteasome, CSN, and eIF3 Troika
inferredcites →https://doi.org/10.1016/j.tig.2006.03.005openalex-snapshot
Simple sequence repeats as advantageous mutators in evolution
inferredcites →https://doi.org/10.1016/s1471-4906(03)00242-4openalex-snapshot
Leucine-rich repeats and pathogen recognition in Toll-like receptors
inferredcites →https://doi.org/10.1038/25292openalex-snapshot
Genetic instabilities in human cancers
inferredcites →https://doi.org/10.1038/255197a0openalex-snapshot
Mutation selection and the natural history of cancer
inferredcites →https://doi.org/10.1038/363558a0openalex-snapshot
Ubiquitous somatic mutations in simple repeated sequences reveal a new mechanism for colonic carcinogenesis
inferredcites →https://doi.org/10.1038/371215a0openalex-snapshot
The evolutionary dynamics of repetitive DNA in eukaryotes
inferredcites →https://doi.org/10.1038/371297a0openalex-snapshot
The ancient regulatory-protein family of WD-repeat proteins
inferredcites →https://doi.org/10.1038/nature07943openalex-snapshot
The cancer genome
inferredcites →https://doi.org/10.1038/nature10762openalex-snapshot
Clonal evolution in cancer
inferredcites →https://doi.org/10.1038/nature12213openalex-snapshot
Mutational heterogeneity in cancer and the search for new cancer-associated genes
inferredcites →https://doi.org/10.1038/nature12625openalex-snapshot
The causes and consequences of genetic heterogeneity in cancer evolution
inferredcites →https://doi.org/10.1038/ncomms13570openalex-snapshot
Positive and strongly relaxed purifying selection drive the evolution of repeats in proteins
inferredcites →https://doi.org/10.1038/ng.2279openalex-snapshot
Exome sequencing identifies recurrent SPOP, FOXA1 and MED12 mutations in prostate cancer
inferredcites →https://doi.org/10.1038/ng.3221openalex-snapshot
Analysis of the genetic phylogeny of multifocal prostate cancer identifies multiple independent clonal expansions in neoplastic and morphologically normal prostate tissue
inferredcites →https://doi.org/10.1038/ng.3489openalex-snapshot
Identification of neutral tumor evolution across cancer types
inferredcites →https://doi.org/10.1038/ng.3581openalex-snapshot
Landscape of tumor-infiltrating T cell repertoire of human cancers
inferredcites →https://doi.org/10.1038/ng.3692openalex-snapshot
Clonal evolution of chemotherapy-resistant urothelial carcinoma
inferredcites →https://doi.org/10.1038/ng.3987openalex-snapshot
Bayesian inference of negative and positive selection in human cancers
inferredcites →https://doi.org/10.1038/ng0294-152openalex-snapshot
Instability of short tandem repeats (microsatellites) in human cancers
inferredcites →https://doi.org/10.1038/ng1618openalex-snapshot
Intragenic tandem repeats generate functional variability
inferredcites →https://doi.org/10.1038/nm.3984openalex-snapshot
Pan-cancer analysis of the extent and consequences of intratumor heterogeneity
inferredcites →https://doi.org/10.1038/nm.4002openalex-snapshot
Systematic discovery of complex insertions and deletions in human cancers
inferredcites →https://doi.org/10.1038/nm.4045openalex-snapshot
Divergent clonal evolution of castration-resistant neuroendocrine prostate cancer
inferredcites →https://doi.org/10.1038/nm.4191openalex-snapshot
Classification and characterization of microsatellite instability across 18 cancer types
inferredcites →https://doi.org/10.1038/nrc.2016.154openalex-snapshot
Targeting neoantigens to augment antitumour immunity
inferredcites →https://doi.org/10.1038/nrc3816openalex-snapshot
Hypermutation in human cancer genomes: footprints and mechanisms
inferredcites →https://doi.org/10.1038/nrclinonc.2014.238openalex-snapshot
Using tumour phylogenetics to identify the roots of metastasis in humans
inferredcites →https://doi.org/10.1038/nrg1689openalex-snapshot
Repeat instability: mechanisms of dynamic mutations
inferredcites →https://doi.org/10.1038/nrg1691openalex-snapshot
Diseases of Unstable Repeat Expansion: Mechanisms and Common Principles
inferredcites →https://doi.org/10.1038/nrg2689openalex-snapshot
The evolution of gene duplications: classifying and distinguishing between models
inferredcites →https://doi.org/10.1038/nrg2748openalex-snapshot
Repeat expansion disease: progress and puzzles in disease pathogenesis
inferredcites →https://doi.org/10.1038/nrg3117openalex-snapshot
Repetitive DNA and next-generation sequencing: computational challenges and solutions
inferredcites →https://doi.org/10.1038/nrg3123openalex-snapshot
Causes and consequences of aneuploidy in cancer
inferredcites →https://doi.org/10.1038/nrg3317openalex-snapshot
Evolution of the cancer genome
inferredcites →https://doi.org/10.1038/nrg3367openalex-snapshot
Sequence assembly demystified
inferredcites →https://doi.org/10.1038/nrm2854openalex-snapshot
Repeat instability as the basis for human diseases and as a potential target for therapy
inferredcites →https://doi.org/10.1038/nsmb.3441openalex-snapshot
Constraints and consequences of the emergence of amino acid repeats in eukaryotic proteins
inferredcites →https://doi.org/10.1056/nejmc1713444openalex-snapshot
Tumor Mutational Burden and Response Rate to PD-1 Inhibition
inferredcites →https://doi.org/10.1073/pnas.012608599openalex-snapshot
Amino acid runs in eukaryotic proteomes and disease associations
inferredcites →https://doi.org/10.1073/pnas.0408118101openalex-snapshot
Molecular origins of rapid and continuous morphological evolution
inferredcites →https://doi.org/10.1073/pnas.1010978107openalex-snapshot
Accumulation of driver and passenger mutations during tumor progression
inferredcites →https://doi.org/10.1073/pnas.1211150109openalex-snapshot
Chromosomal duplication is a transient evolutionary solution to stress
inferredcites →https://doi.org/10.1073/pnas.1213968110openalex-snapshot
Impact of deleterious passenger mutations on cancer progression
inferredcites →https://doi.org/10.1073/pnas.1522203113openalex-snapshot
Assessing intratumor heterogeneity and tracking longitudinal and spatial clonal evolutionary history by next-generation sequencing
inferredcites →https://doi.org/10.1073/pnas.1807256115openalex-snapshot
Criticality in tumor evolution and clinical outcome
inferredcites →https://doi.org/10.1093/molbev/msu062openalex-snapshot
Deep Conservation of Human Protein Tandem Repeats within the Eukaryotes
inferredcites →https://doi.org/10.1093/oxfordjournals.molbev.a040442openalex-snapshot
Slipped-strand mispairing: a major mechanism for DNA sequence evolution.
inferredcites →https://doi.org/10.1093/sysbio/syu081openalex-snapshot
Cancer Evolution: Mathematical Models and Computational Inference
inferredcites →https://doi.org/10.1110/ps.03554604openalex-snapshot
The ankyrin repeat as molecular architecture for protein recognition
inferredcites →https://doi.org/10.1126/science.1089370openalex-snapshot
The Origins of Genome Complexity
inferredcites →https://doi.org/10.1126/science.1170097openalex-snapshot
Unstable Tandem Repeats in Promoters Confer Transcriptional Evolvability
inferredcites →https://doi.org/10.1126/science.1260825openalex-snapshot
Variation in cancer risk among tissues can be explained by the number of stem cell divisions
inferredcites →https://doi.org/10.1126/science.290.5494.1151openalex-snapshot
The Evolutionary Fate and Consequences of Duplicate Genes
inferredcites →https://doi.org/10.1126/science.959840openalex-snapshot
The Clonal Evolution of Tumor Cell Populations
inferredcites →https://doi.org/10.1126/science.aaa6806openalex-snapshot
High burden and pervasive positive selection of somatic mutations in normal human skin
inferredcites →https://doi.org/10.1126/science.aaf9011openalex-snapshot
Stem cell divisions, somatic mutations, cancer etiology, and cancer prevention
inferredcites →https://doi.org/10.1126/science.aai8690openalex-snapshot
DNA damage is a pervasive cause of sequencing errors, directly confounding variant identification
inferredcites →https://doi.org/10.1126/scitranslmed.aad6352openalex-snapshot
The tumor microenvironment and Immunoscore are critical determinants of dissemination to distant metastasis
inferredcites →https://doi.org/10.1128/jvi.01428-16openalex-snapshot
Emergence of a Viral RNA Polymerase Variant during Gene Copy Number Amplification Promotes Rapid Evolution of Vaccinia Virus
inferredcites →https://doi.org/10.1128/mcb.18.4.2045openalex-snapshot
Expansions and Contractions in a Tandem Repeat Induced by Double-Strand Break Repair
inferredcites →https://doi.org/10.1146/annurev-biochem-060109-151030openalex-snapshot
The Structure of the Nuclear Pore Complex
inferredcites →https://doi.org/10.1146/annurev-genet-072610-155046openalex-snapshot
Variable Tandem Repeats Accelerate Evolution of Coding and Regulatory Sequences
inferredcites →https://doi.org/10.1158/0008-5472.can-10-3667openalex-snapshot
Paradoxical Relationship between Chromosomal Instability and Survival Outcome in Cancer
inferredcites →https://doi.org/10.1172/jci59954openalex-snapshot
Chromosomal instability and cancer: a complex relationship with therapeutic potential
inferredcites →https://doi.org/10.1186/gb-2002-3-2-research0008openalex-snapshot
Selection in the evolution of gene duplications
inferredcites →https://doi.org/10.1186/preaccept-1597338798135960openalex-snapshot
Unraveling the clonal hierarchy of somatic genomic aberrations
inferredcites →https://doi.org/10.1200/jco.2005.01.086openalex-snapshot
Systematic Review of Microsatellite Instability and Colorectal Cancer Prognosis
inferredcites →https://doi.org/10.1371/journal.pcbi.1003345openalex-snapshot
Next-Generation Sequence Assembly: Four Stages of Data Processing and Computational Challenges
inferredcites →https://doi.org/10.1371/journal.pcbi.1003346openalex-snapshot
Systematic Analysis of Compositional Order of Proteins Reveals New Characteristics of Biological Functions and a Universal Correlate of Macroevolution

What points at this work

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

inferred← citeshttps://doi.org/10.1038/s41576-020-00299-4openalex-snapshot
Mutation–selection balance and compensatory mechanisms in tumour evolution
inferred← citeshttps://doi.org/10.1038/s41586-022-05515-1openalex-snapshot
Recurrent repeat expansions in human cancer genomes
inferred← citeshttps://doi.org/10.1101/517839openalex-snapshot
Cancer Classification from Healthy DNA
inferred← citeshttps://doi.org/10.1111/1440-1681.13223openalex-snapshot
Role of telomerase in the tumour microenvironment
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