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Whole genomes define concordance of matched primary, xenograft, and organoid models of pancreas cancer

January 10, 2019

Whole genomes define concordance of matched primary, xenograft, and organoid models of pancreas cancer

Image credit: Gendoo et al.

Celebrating 1000 Simple Rules!

Our Ten Simple Rules series has published its 100th article. Check out the entire collection here!

Collection

01/07/2019

Research Article

Protein—protein binding supersites

Protein–protein interactions are key to understand the molecular level mechanisms of regulation in the cell. However, there is still a limited understanding of what distinguishes a protein-protein binding site from the rest of the surface. This lack of knowledge is manifested in the relatively low accuracy of computational methods that try to predict protein interfaces. In this work, Viswanathan et al. report a new conceptual insight about protein interfaces. Their results suggest that protein interfaces serve as generic binding sites to any ligand.

Image credit: Viswanathan et al, pcbi.1006704.

Protein—protein binding supersites

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Current Issue

Current Issue December 2018

01/09/2019

Research Article

Using the drug-protein interactome to identify anti-ageing compounds for humans

Human life expectancy is continuing to increase worldwide, as a result of successive improvements in living conditions and medical care. Although this trend is to be celebrated, advancing age is the major risk factor for multiple impairments and chronic diseases. Fuentealba et al. have used publically available data and a computer-based approach to search for drugs that affect components and processes known to be important in human ageing.

Image credit: Fuentealba et al, pcbi.1006639.

Using the drug-protein interactome to identify anti-ageing compounds for humans

01/07/2019

Research Article

Calcium phosphate precipitation inhibits mitochondrial energy metabolism

While the effect of excessive calcium overload on mitochondrial function is well appreciated, there has been little to no reports on the consequences of low to moderate calcium overload. To resolve this inadequacy, mitochondrial function from guinea pig hearts was quantified using several well-established methods including high-resolution respirometry and spectrofluorimetry and analyzed using mathematical modeling.


Image credit: Malyala et al, pcbi.1006719.

Calcium phosphate precipitation inhibits mitochondrial energy metabolism

01/07/2019

Research Article

Sour grapes and sweet victories: How actions shape preferences

Vinckier et al. take a novel approach that directly compares models with and without the existence of reverse causality, on the basis of behavioral data obtained in a new task. The winning model is a generalization of the reverse causality hypothesis, showing that people prefer the items that they previously chose, and even more if they did obtain them.

Sour grapes and sweet victories: How actions shape preferences

Image credit: Vinckier et al, pcbi.1006499.

12/31/2018

Research Article

Exploring chromatin hierarchical organization via Markov State Modelling

Tan & Guarnera et al. propose a new method for exploring chromatin structural organization based on MSM of Hi-C data, represented as an interaction network between genomic loci. A Markov process describes the random walk of a traveling probe in the corresponding energy landscape, mimicking the motion of a biomolecule involved in chromatin function.

Exploring chromatin hierarchical organization via Markov State Modelling

Image credit: Tan & Guarnera et al, pcbi.1006686.

12/30/2016

Featured Issue Image

Kinematics of Plant Nutation

During their development many plants display a revolving movement. The authors reveal a simple relation between curvature and differential growth. This sheds a new light on classical measurements where only the movement of the apical tip was measured.

Kinematics of Plant Nutation

Image credit: Renaud Bastien & Yasmine Meroz.

11/19/2018

Featured CHannel

Open Source Toolkit

The Open Source Toolkit features articles and online projects describing hardware and software that can be used in a research and/or science education setting across different fields, from basic to applied research.

Open Source Toolkit

Image credit: Jen Owens.

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