Search Results - "Mallo, Diego"
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Minimal barriers to invasion during human colorectal tumor growth
Published in Nature communications (09-03-2020)“…Intra-tumoral heterogeneity (ITH) could represent clonal evolution where subclones with greater fitness confer more malignant phenotypes and invasion…”
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Editorial: Cancer evolution
Published in Frontiers in genetics (14-04-2023)Get full text
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3
Evolution of Barrett’s esophagus through space and time at single-crypt and whole-biopsy levels
Published in Nature communications (23-02-2018)“…The low risk of progression of Barrett’s esophagus (BE) to esophageal adenocarcinoma can lead to over-diagnosis and over-treatment of BE patients. This may be…”
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Multilocus inference of species trees and DNA barcoding
Published in Philosophical transactions of the Royal Society of London. Series B. Biological sciences (05-09-2016)“…The unprecedented amount of data resulting from next-generation sequencing has opened a new era in phylogenetic estimation. Although large datasets should, in…”
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Multilocus inference of species trees and DNA barcoding
Published in Philosophical transactions of the Royal Society of London. Series B. Biological sciences (05-09-2016)“…The unprecedented amount of data resulting from next-generation sequencing has opened a new era in phylogenetic estimation. Although large datasets should, in…”
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SimPhy: Phylogenomic Simulation of Gene, Locus, and Species Trees
Published in Systematic biology (01-03-2016)“…We present a fast and flexible software package—SimPhy—for the simulation of multiple gene families evolving under incomplete lineage sorting, gene duplication…”
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Stronger Together: Cancer Clones Cooperate to Alleviate Growth Barriers in Critical Cancer Progression Transitions
Published in Cancer research (Chicago, Ill.) (15-12-2023)“…Hershey and colleagues recently showed how clones in a triple-negative breast cancer cell line cooperate for their mutual fitness benefit. In this system,…”
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A Bayesian Supertree Model for Genome-Wide Species Tree Reconstruction
Published in Systematic biology (01-05-2016)“…Current phylogenomic data sets highlight the need for species tree methods able to deal with several sources of gene tree/species tree incongruence. At the…”
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Abstract 2502: Genetic and functional heterogeneity of DCIS as predictors of invasive cancer
Published in Cancer research (Chicago, Ill.) (15-08-2020)“…Abstract Genetic diversity both between and within individual tumors constitutes a challenge to personalized cancer medicine. Intra-tumor heterogeneity…”
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Genomic analysis defines clonal relationships of ductal carcinoma in situ and recurrent invasive breast cancer
Published in Nature genetics (01-06-2022)“…Ductal carcinoma in situ (DCIS) is the most common form of preinvasive breast cancer and, despite treatment, a small fraction (5–10%) of DCIS patients develop…”
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Natural Selection in Cancer Biology: From Molecular Snowflakes to Trait Hallmarks
Published in Cold Spring Harbor perspectives in medicine (01-02-2017)“…Evolution by natural selection is the conceptual foundation for nearly every branch of biology and increasingly also for biomedicine and medical research. In…”
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Unsorted Homology within Locus and Species Trees
Published in Systematic biology (01-11-2014)Get full text
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Diversity and distribution of unicellular opisthokonts along the European coast analysed using high-throughput sequencing
Published in Environmental microbiology (01-09-2015)“…Summary The opisthokonts are one of the major super groups of eukaryotes. It comprises two major clades: (i) the Metazoa and their unicellular relatives and…”
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Abstract PR02: Inferring the evolutionary dynamics of ductal carcinoma in situ through multi-regional sequencing and mathematical modeling
Published in Cancer research (Chicago, Ill.) (01-11-2020)“…Abstract Introduction. The natural history of preinvasive breast cancer, or ductal carcinoma in situ (DCIS) remains poorly understood. Overcoming this gap…”
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Abstract 2683: Ductal carcinoma in situ is a multiclonal disease
Published in Cancer research (Chicago, Ill.) (15-08-2020)“…Abstract Introduction. Ductal carcinoma in situ (DCIS) of the breast has a limited propensity to progress to invasive breast cancer. However, due to a lack of…”
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Abstract PR009: Tick tock trees: Reconstructing the evolutionary dynamics of human tissues using fluctuating methylation clocks
Published in Cancer research (Chicago, Ill.) (01-02-2024)“…Abstract The development of cancer from healthy somatic cells is fundamentally an evolutionary process. Understanding this process is vital to improving its…”
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A new method to accurately identify single nucleotide variants using small FFPE breast samples
Published in Briefings in bioinformatics (05-11-2021)“…Most tissue collections of neoplasms are composed of formalin-fixed and paraffin-embedded (FFPE) excised tumor samples used for routine diagnostics. DNA…”
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RecPhyloXML: a format for reconciled gene trees
Published in Bioinformatics (01-11-2018)“…Abstract Motivation A reconciliation is an annotation of the nodes of a gene tree with evolutionary events-for example, speciation, gene duplication, transfer,…”
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Abstract A038: Evaluating DCIS progression: A comparative analysis of CNA predictive power derived from lpWGS and WES data
Published in Cancer research (Chicago, Ill.) (01-02-2024)“…Abstract Ductal carcinoma in situ (DCIS) is a very common non-life threatening, pre-invasive form of breast cancer constituting 25% of all new breast cancer…”
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Abstract B004: PISCA-box: A user-friendly interface for Phylogenetic Inference using Somatic Chromosomal Alterations (PISCA)
Published in Cancer research (Chicago, Ill.) (01-02-2024)“…Abstract PISCA, originally introduced by Martinez et al. in 2018, represents a pivotal Bayesian phylogenetics tool for the modeling of tumor evolution using…”
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