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Patient-specific detection of cancer genes reveals recurrently perturbed processes in esophageal adenocarcinoma
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What this work says
Outgoing claims: the papers this work cites, builds on, or argues with.
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dbNSFP v3.0: A One-Stop Database of Functional Predictions and Annotations for Human Nonsynonymous and Splice-Site SNVs
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Targeted Therapies for Advanced Oesophagogastric Cancer: Recent Progress and Future Directions
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Silhouettes: A graphical aid to the interpretation and validation of cluster analysis
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In sickness and in health: The many roles of the minichromosome maintenance proteins
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Altered corepressor SMRT expression and recruitment to target genes as a mechanism that change the response to androgens in prostate cancer progression
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Systematic Functional Annotation of Somatic Mutations in Cancer
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Hallmarks of Cancer: The Next Generation
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Universal Patterns of Selection in Cancer and Somatic Tissues
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Comprehensive Characterization of Cancer Driver Genes and Mutations
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Organelle Evolution: A Mosaic of ‘Mitochondrial’ Functions
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DNA Replication and Oncogene-Induced Replicative Stress
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Low duplicability and network fragility of cancer genes
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The promise of retinoids to fight against cancer
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Cap-dependent mRNA translation and the ubiquitin-proteasome system cooperate to promote ERBB2-dependent esophageal cancer phenotype
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Comprehensive molecular characterization of human colon and rectal cancer
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Mutational heterogeneity in cancer and the search for new cancer-associated genes
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Integrated genomic characterization of oesophageal carcinoma
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CrispRVariants charts the mutation spectrum of genome engineering experiments
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Chronic p53-independent p21 expression causes genomic instability by deregulating replication licensing
inferredcites →https://doi.org/10.1038/ncomms3283openalex-snapshot
Genome-wide deserts for copy number variation in vertebrates
inferredcites →https://doi.org/10.1038/ncomms6224openalex-snapshot
Genomic catastrophes frequently arise in esophageal adenocarcinoma and drive tumorigenesis
inferredcites →https://doi.org/10.1038/ng.2591openalex-snapshot
Exome and whole-genome sequencing of esophageal adenocarcinoma identifies recurrent driver events and mutational complexity
inferredcites →https://doi.org/10.1038/ng.3013openalex-snapshot
Ordering of mutations in preinvasive disease stages of esophageal carcinogenesis
inferredcites →https://doi.org/10.1038/ng.3357openalex-snapshot
Whole-genome sequencing provides new insights into the clonal architecture of Barrett's esophagus and esophageal adenocarcinoma
inferredcites →https://doi.org/10.1038/ng.3659openalex-snapshot
Mutational signatures in esophageal adenocarcinoma define etiologically distinct subgroups with therapeutic relevance
inferredcites →https://doi.org/10.1038/nmeth0410-248openalex-snapshot
A method and server for predicting damaging missense mutations
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MutationTaster evaluates disease-causing potential of sequence alterations
inferredcites →https://doi.org/10.1038/nmeth872openalex-snapshot
Fluorescent cell barcoding in flow cytometry allows high-throughput drug screening and signaling profiling
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Predicting the effects of coding non-synonymous variants on protein function using the SIFT algorithm
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The mini-driver model of polygenic cancer evolution
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Proteasome inhibitors in cancer therapy
inferredcites →https://doi.org/10.1038/onc.2017.15openalex-snapshot
Piccolo mediates EGFR signaling and acts as a prognostic biomarker in esophageal squamous cell carcinoma
inferredcites →https://doi.org/10.1038/sj.onc.1202544openalex-snapshot
Cell growth-regulated expression of mammalian MCM5 and MCM6 genes mediated by the transcription factor E2F
inferredcites →https://doi.org/10.1038/sj.onc.1207488openalex-snapshot
Regulation of Geminin and Cdt1 expression by E2F transcription factors
inferredcites →https://doi.org/10.1038/srep32417openalex-snapshot
Authentication and characterisation of a new oesophageal adenocarcinoma cell line: MFD-1
inferredcites →https://doi.org/10.1073/pnas.0703664105openalex-snapshot
The tumor suppressor Fhit acts as a repressor of β-catenin transcriptional activity
inferredcites →https://doi.org/10.1073/pnas.1009843107openalex-snapshot
Allele-specific copy number analysis of tumors
inferredcites →https://doi.org/10.1073/pnas.1616440113openalex-snapshot
Evaluating the evaluation of cancer driver genes
inferredcites →https://doi.org/10.1074/jbc.m102067200openalex-snapshot
E2F Transcriptional Activation Requires TRRAP and GCN5 Cofactors
inferredcites →https://doi.org/10.1093/bioinformatics/btp190openalex-snapshot
Identifying novel constrained elements by exploiting biased substitution patterns
inferredcites →https://doi.org/10.1093/bioinformatics/bts271openalex-snapshot
Strelka: accurate somatic small-variant calling from sequenced tumor–normal sample pairs
inferredcites →https://doi.org/10.1093/bioinformatics/btt182openalex-snapshot
Predicting the functional consequences of cancer-associated amino acid substitutions
inferredcites →https://doi.org/10.1093/bioinformatics/btt395openalex-snapshot
OncodriveCLUST: exploiting the positional clustering of somatic mutations to identify cancer genes
inferredcites →https://doi.org/10.1093/bioinformatics/btv710openalex-snapshot
Manta: rapid detection of structural variants and indels for germline and cancer sequencing applications
inferredcites →https://doi.org/10.1093/bioinformatics/btw313openalex-snapshot
Complex heatmaps reveal patterns and correlations in multidimensional genomic data
inferredcites →https://doi.org/10.1093/gastro/gov052openalex-snapshot
Targeted therapy in gastroesophageal cancers: past, present and future: Figure 1.
inferredcites →https://doi.org/10.1093/nar/gkh086openalex-snapshot
The Database of Interacting Proteins: 2004 update
inferredcites →https://doi.org/10.1093/nar/gkn892openalex-snapshot
Human Protein Reference Database--2009 update
inferredcites →https://doi.org/10.1093/nar/gkq603openalex-snapshot
ANNOVAR: functional annotation of genetic variants from high-throughput sequencing data
inferredcites →https://doi.org/10.1093/nar/gkr407openalex-snapshot
Predicting the functional impact of protein mutations: application to cancer genomics
inferredcites →https://doi.org/10.1093/nar/gks1243openalex-snapshot
CDD: conserved domains and protein three-dimensional structure
inferredcites →https://doi.org/10.1093/nar/gkt1114openalex-snapshot
RefSeq: an update on mammalian reference sequences
inferredcites →https://doi.org/10.1093/nar/gkt1115openalex-snapshot
The MIntAct project—IntAct as a common curation platform for 11 molecular interaction databases
inferredcites →https://doi.org/10.1093/nar/gkt1253openalex-snapshot
eggNOG v4.0: nested orthology inference across 3686 organisms
inferredcites →https://doi.org/10.1093/nar/gkt1266openalex-snapshot
miRTarBase update 2014: an information resource for experimentally validated miRNA-target interactions
inferredcites →https://doi.org/10.1093/nar/gkv1123openalex-snapshot
NCG 5.0: updates of a manually curated repository of cancer genes and associated properties from cancer mutational screenings
inferredcites →https://doi.org/10.1093/nar/gkv1351openalex-snapshot
The Reactome pathway Knowledgebase
inferredcites →https://doi.org/10.1093/nar/gkw1102openalex-snapshot
The BioGRID interaction database: 2017 update
inferredcites →https://doi.org/10.1093/nar/gky1015openalex-snapshot
COSMIC: the Catalogue Of Somatic Mutations In Cancer
inferredcites →https://doi.org/10.1101/190330openalex-snapshot
The whole-genome panorama of cancer drivers
inferredcites →https://doi.org/10.1101/389858openalex-snapshot
The Network of Cancer Genes (NCG): a comprehensive catalogue of known and candidate cancer genes from cancer sequencing screens
inferredcites →https://doi.org/10.1101/gr.092619.109openalex-snapshot
Identification of deleterious mutations within three human genomes
inferredcites →https://doi.org/10.1101/gr.097857.109openalex-snapshot
Detection of nonneutral substitution rates on mammalian phylogenies
inferredcites →https://doi.org/10.1101/gr.107524.110openalex-snapshot
The Genome Analysis Toolkit: A MapReduce framework for analyzing next-generation DNA sequencing data
inferredcites →https://doi.org/10.1126/science.1181369openalex-snapshot
Comprehensive Mapping of Long-Range Interactions Reveals Folding Principles of the Human Genome
inferredcites →https://doi.org/10.1126/science.aaa0355openalex-snapshot
The human transcriptome across tissues and individuals
inferredcites →https://doi.org/10.1128/mcb.00868-14openalex-snapshot
Deregulation of Rb-E2F1 Axis Causes Chromosomal Instability by Engaging the Transactivation Function of Cdc20–Anaphase-Promoting Complex/Cyclosome
inferredcites →https://doi.org/10.1128/mcb.16.3.1047openalex-snapshot
Deregulated Expression of E2F Family Members Induces S-Phase Entry and Overcomes p16 INK4A -Mediated Growth Suppression
inferredcites →https://doi.org/10.1128/mcb.18.5.2748openalex-snapshot
Negative Regulation of DNA Replication by the Retinoblastoma Protein Is Mediated by Its Association with MCM7
inferredcites →https://doi.org/10.1136/gutjnl-2012-302412openalex-snapshot
A global assessment of the oesophageal adenocarcinoma epidemic
inferredcites →https://doi.org/10.1146/annurev.physiol.66.032802.155556openalex-snapshot
The Role of Corepressors in Transcriptional Regulation by Nuclear Hormone Receptors
inferredcites →https://doi.org/10.1158/0008-5472.can-04-4108openalex-snapshot
Alteration of SMRT Tumor Suppressor Function in Transformed Non-Hodgkin Lymphomas
inferredcites →https://doi.org/10.1158/2159-8290.cd-12-0189openalex-snapshot
Comparative Genomic Analysis of Esophageal Adenocarcinoma and Squamous Cell Carcinoma
inferredcites →https://doi.org/10.1159/000452877openalex-snapshot
Targeted Treatment of Esophagogastric Cancer
inferredcites →https://doi.org/10.1186/gb-2013-14-5-r52openalex-snapshot
Integrated analysis of recurrent properties of cancer genes to identify novel drivers
inferredcites →https://doi.org/10.1371/journal.pcbi.1001025openalex-snapshot
Identifying a High Fraction of the Human Genome to be under Selective Constraint Using GERP++
inferredcites →https://doi.org/10.1371/journal.pcbi.1002029openalex-snapshot
Modification of Gene Duplicability during the Evolution of Protein Interaction Network
inferredcites →https://doi.org/10.1371/journal.pgen.1003077openalex-snapshot
Initiation of Genome Instability and Preneoplastic Processes through Loss of Fhit Expression
inferredcites →https://doi.org/10.1371/journal.pgen.1006808openalex-snapshot
Impact of mutations in Toll-like receptor pathway genes on esophageal carcinogenesis
inferredcites →https://doi.org/10.14670/hh-25.351openalex-snapshot
MCM proteins as diagnostic and prognostic tumor markers in the clinical setting.
inferredcites →https://doi.org/10.18632/oncotarget.16838openalex-snapshot
Synthetic lethal interaction between the tumour suppressor STAG2 and its paralog STAG1
inferredcites →https://doi.org/10.3322/caac.21185openalex-snapshot
Recent developments in esophageal adenocarcinoma
What points at this work
Incoming claims: where this work appears in other papers’ reference lists and arguments.
inferred← citeshttps://doi.org/10.1007/s10620-019-05914-xopenalex-snapshot
CDX-2 Expression in Esophageal Biopsies Without Goblet Cell Intestinal Metaplasia May Be Predictive of Barrett’s Esophagus
inferred← citeshttps://doi.org/10.1101/2020.06.25.20140053openalex-snapshot
Discriminative Subtyping of Lung Cancers from Histopathology Images via Contextual Deep Learning
inferred← citeshttps://doi.org/10.37349/etat.2021.00063openalex-snapshot
Alterations in the Ca2+ toolkit in oesophageal adenocarcinoma
inferred← citeshttps://doi.org/10.48550/arxiv.2111.01104openalex-snapshot
NOTMAD: Estimating Bayesian Networks with Sample-Specific Structures and Parameters
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