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Applying centrality analysis on a protein interaction network to predict colorectal cancer driver genes

Saha et al. | Nov 18, 2023

Applying centrality analysis on a protein interaction network to predict colorectal cancer driver genes

In this article the authors created an interaction map of proteins involved in colorectal cancer to look for driver vs. non-driver genes. That is they wanted to see if they could determine what genes are more likely to drive the development and progression in colorectal cancer and which are present in altered states but not necessarily driving disease progression.

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Simulating single versus cocktail antibiotic effects on the human gut microbiome

Patel et al. | Jul 19, 2026

Simulating single versus cocktail antibiotic effects on the human gut microbiome
Image credit: Volodymyr Hryshchenko

This study, uses SimulATe to model changes in microbial diversity and community structure upon administering a cocktail of antibiotics versus a single antibiotic. The authors hypothesized that antibiotic cocktails, particularly those combining broad-spectrum drugs like tetracyclines and trimethoprims, would cause a more significant reduction in gut microbial diversity compared to single-drug treatments. The findings confirmed a greater loss of microbial diversity with combinatorial treatments compared to single-drug treatments. While individual antibiotics dynamically reshaped the surviving species of the microbiome, antibiotic cocktails frequently cleared all species of the gut microbiome.

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Measuring the effect of early universe dark matter on the primordial values of helium-4 and deuterium

Pal et al. | Apr 29, 2026

Measuring the effect of early universe dark matter on the primordial values of helium-4 and deuterium

Recent observations by the “Extremely Metal-Poor Representatives Explored by the Subaru Survey” (EMPRESS) collaboration found normal deuterium levels but unexpectedly low helium-4, challenging current cosmological theories. This study used simulations with the PRyMordial package to test whether dark matter particles interacting with neutrinos in the early universe could explain the discrepancy.

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