Computational analysis of cancer genome sequencing data

I Cortés-Ciriano, DC Gulhan, JJK Lee… - Nature Reviews …, 2022 - nature.com
Distilling biologically meaningful information from cancer genome sequencing data requires
comprehensive identification of somatic alterations using rigorous computational methods …

Unlocking the origins and biology of domestic animals using ancient DNA and paleogenomics

GP McHugo, MJ Dover, DE MacHugh - BMC biology, 2019 - Springer
Animal domestication has fascinated biologists since Charles Darwin first drew the parallel
between evolution via natural selection and human-mediated breeding of livestock and …

Centuries of genome instability and evolution in soft-shell clam, Myaarenaria, bivalve transmissible neoplasia

SFM Hart, MA Yonemitsu, RM Giersch, FES Garrett… - Nature Cancer, 2023 - nature.com
Transmissible cancers are infectious parasitic clones that metastasize to new hosts, living
past the death of the founder animal in which the cancer initiated. We investigated the …

Somatic evolution of marine transmissible leukemias in the common cockle, Cerastoderma edule

AL Bruzos, M Santamarina, D Garcia-Souto, S Díaz… - Nature Cancer, 2023 - nature.com
Transmissible cancers are malignant cell lineages that spread clonally between individuals.
Several such cancers, termed bivalve transmissible neoplasia (BTN), induce leukemia-like …

The evolution of two transmissible cancers in Tasmanian devils

MR Stammnitz, K Gori, YM Kwon, E Harry, FJ Martin… - Science, 2023 - science.org
Tasmanian devils have spawned two transmissible cancer lineages, named devil facial
tumor 1 (DFT1) and devil facial tumor 2 (DFT2). We investigated the genetic diversity and …

Arctic-adapted dogs emerged at the Pleistocene–Holocene transition

MHS Sinding, S Gopalakrishnan, J Ramos-Madrigal… - Science, 2020 - science.org
Although sled dogs are one of the most specialized groups of dogs, their origin and
evolution has received much less attention than many other dog groups. We applied a …

Mutational spectrum of SARS-CoV-2 during the global pandemic

K Yi, SY Kim, T Bleazard, T Kim, J Youk… - Experimental & molecular …, 2021 - nature.com
Viruses accumulate mutations under the influence of natural selection and host–virus
interactions. Through a systematic comparison of 351,525 full viral genome sequences …

A single clonal lineage of transmissible cancer identified in two marine mussel species in South America and Europe

MA Yonemitsu, RM Giersch, M Polo-Prieto, M Hammel… - Elife, 2019 - elifesciences.org
Transmissible cancers, in which cancer cells themselves act as an infectious agent, have
been identified in Tasmanian devils, dogs, and four bivalves. We investigated a …

sigfit: flexible Bayesian inference of mutational signatures

K Gori, A Baez-Ortega - bioRxiv, 2018 - biorxiv.org
The premise of mutational signature analysis is that genomes acquire somatic mutations
through the collective action of discrete mutational processes, and its aim is to infer the …

Prevalence and polymorphism of a mussel transmissible cancer in Europe

M Hammel, A Simon, C Arbiol, A Villalba… - Molecular …, 2022 - Wiley Online Library
Transmissible cancers are parasitic malignant cell lineages that have acquired the ability to
infect new hosts from the same species, or sometimes related species. First described in …