Systems Biology

PhysiMeSS - a new physiCell addon for extracellular matrix modelling

1. Vincent Noël
2. Marco Ruscone
3. Robyn Shuttleworth
4. Cicely K. Macnamara

• Curated by GigaByte

  Editors Assessment:

  PhysiCell is an open source multicellular systems simulator for studying many interacting cells in dynamic tissue microenvironments. As part of the PhysiCell ecosystem of tools and modules this paper presents a PhysiCell addon, PhysiMeSS (MicroEnvironment Structures Simulation) which allows the user to accurately represent the extracellular matrix (ECM) as a network of fibres. This can specify rod-shaped microenvironment elements such as the matrix fibres (e.g. collagen) of the ECM, allowing the PhysiCell user the ability to investigate physical interactions with cells and other fibres. Reviewers asked for additional clarification on a number of features. And the paper now clear future releases will provide full 3D compatibility and include working on fibrogenesis, i.e. the creation of new ECM fibres by cells.

  This evaluation refers to version 1 of the preprint

Reviewed by GigaByte

Genome-wide conditional degron libraries for functional genomics

1. Eduardo Gameiro
2. Karla A. Juárez-Núñez
3. Jia Jun Fung
4. Susmitha Shankar
5. Brian Luke
6. Anton Khmelinskii

Reviewed by Review Commons

Inference of Gene Regulatory Networks for Overcoming Low Performance in Real-World Data

1. Yusuke Hiki
2. Yuta Tokuoka
3. Takahiro G. Yamada
4. Akira Funahashi

Reviewed by Arcadia Science

Slowest possible replicative life at frigid temperatures for yeast

1. Diederik S. Laman Trip
2. Théo Maire
3. Hyun Youk

Reviewed by Arcadia Science

Delineating markers of disease-disease interaction: a systematic methodology and its application to multiple diabetes-helminth cohorts

1. Nilesh Anantha Subramanian
2. Philge Philip
3. Anuradha Rajamanickam
4. Nathella Pavan Kumar
5. Subash Babu
6. Manikandan Narayanan

Reviewed by Arcadia Science