[HTML][HTML] A comprehensive assessment of somatic mutation detection in cancer using whole-genome sequencing

TS Alioto, I Buchhalter, S Derdak, B Hutter… - Nature …, 2015 - nature.com
As whole-genome sequencing for cancer genome analysis becomes a clinical tool, a full
understanding of the variables affecting sequencing analysis output is required. Here using …

Population-level eccentricity distributions of imaged exoplanets and brown dwarf companions: dynamical evidence for distinct formation channels

BP Bowler, SC Blunt, EL Nielsen - The Astronomical Journal, 2020 - iopscience.iop.org
The orbital eccentricities of directly imaged exoplanets and brown dwarf companions
provide clues about their formation and dynamical histories. We combine new high-contrast …

Dynamics of transcription regulation in human bone marrow myeloid differentiation to mature blood neutrophils

L Grassi, F Pourfarzad, S Ullrich, A Merkel, F Were… - Cell reports, 2018 - cell.com
Neutrophils are short-lived blood cells that play a critical role in host defense against
infections. To better comprehend neutrophil functions and their regulation, we provide a …

Decoding the DNA methylome of mantle cell lymphoma in the light of the entire B cell lineage

AC Queiros, R Beekman, R Vilarrasa-Blasi… - Cancer cell, 2016 - cell.com
We analyzed the in silico purified DNA methylation signatures of 82 mantle cell lymphomas
(MCL) in comparison with cell subpopulations spanning the entire B cell lineage. We …

Discovering implied serial order through model-free and model-based learning

G Jensen, HS Terrace, VP Ferrera - Frontiers in neuroscience, 2019 - frontiersin.org
Humans and animals can learn to order a list of items without relying on explicit spatial or
temporal cues. To do so, they appear to make use of transitivity, a property of all ordered …

Epigenetic and transcriptional determinants of the human breast

P Gascard, M Bilenky, M Sigaroudinia, J Zhao… - Nature …, 2015 - nature.com
While significant effort has been dedicated to the characterization of epigenetic changes
associated with prenatal differentiation, relatively little is known about the epigenetic …

Whole-genome DNA hyper-methylation in iPSC-derived dopaminergic neurons from Parkinson's disease patients

R Fernández-Santiago, A Merkel, G Castellano… - Clinical …, 2019 - Springer
Background Parkinson's disease (PD) is characterized by the loss of midbrain dopaminergic
neurons (DAn). Previously, we described the presence of DNA hyper-and hypo-methylation …

Genetic diversity of CHC22 clathrin impacts its function in glucose metabolism

M Fumagalli, SM Camus, Y Diekmann, A Burke… - Elife, 2019 - elifesciences.org
CHC22 clathrin plays a key role in intracellular membrane traffic of the insulin-responsive
glucose transporter GLUT4 in humans. We performed population genetic and phylogenetic …

Implicit value updating explains transitive inference performance: The betasort model

G Jensen, F Muñoz, Y Alkan, VP Ferrera… - PLoS computational …, 2015 - journals.plos.org
Transitive inference (the ability to infer that B> D given that B> C and C> D) is a widespread
characteristic of serial learning, observed in dozens of species. Despite these robust …

Personalized cancer therapy prioritization based on driver alteration co-occurrence patterns

L Mateo, M Duran-Frigola, A Gris-Oliver, M Palafox… - Genome Medicine, 2020 - Springer
Identification of actionable genomic vulnerabilities is key to precision oncology. Utilizing a
large-scale drug screening in patient-derived xenografts, we uncover driver gene alteration …