Advancing computer-aided drug discovery (CADD) by big data and data-driven machine learning modeling

L Zhao, HL Ciallella, LM Aleksunes, H Zhu - Drug discovery today, 2020 - Elsevier
Highlights•Drug discovery has been advanced to a big data era with a large amount of
public data sources available.•Ten V features (volume, velocity, variety, veracity, validity …

From correlation to causation: analysis of metabolomics data using systems biology approaches

A Rosato, L Tenori, M Cascante, PR De Atauri Carulla… - Metabolomics, 2018 - Springer
Introduction Metabolomics is a well-established tool in systems biology, especially in the top–
down approach. Metabolomics experiments often results in discovery studies that provide …

MEMOTE for standardized genome-scale metabolic model testing

C Lieven, ME Beber, BG Olivier, FT Bergmann… - Nature …, 2020 - nature.com
To the Editor—Reconstructing metabolic reaction networks enables the development of
testable hypotheses of an organism's metabolism under different conditions 1. State-of-the …

BioModels—15 years of sharing computational models in life science

RS Malik-Sheriff, M Glont, TVN Nguyen… - Nucleic acids …, 2020 - academic.oup.com
Computational modelling has become increasingly common in life science research. To
provide a platform to support universal sharing, easy accessibility and model reproducibility …

Guidelines for the use and interpretation of assays for monitoring autophagy (4th edition)1

DJ Klionsky, AK Abdel-Aziz, S Abdelfatah, M Abdellatif… - autophagy, 2021 - Taylor & Francis
In 2008, we published the first set of guidelines for standardizing research in autophagy.
Since then, this topic has received increasing attention, and many scientists have entered …

DNA damage during S-phase mediates the proliferation-quiescence decision in the subsequent G1 via p21 expression

AR Barr, S Cooper, FS Heldt, F Butera, H Stoy… - Nature …, 2017 - nature.com
Following DNA damage caused by exogenous sources, such as ionizing radiation, the
tumour suppressor p53 mediates cell cycle arrest via expression of the CDK inhibitor, p21 …

Predicting perturbation patterns from the topology of biological networks

M Santolini, AL Barabási - Proceedings of the National …, 2018 - National Acad Sciences
High-throughput technologies, offering an unprecedented wealth of quantitative data
underlying the makeup of living systems, are changing biology. Notably, the systematic …

Personalized whole‐body models integrate metabolism, physiology, and the gut microbiome

I Thiele, S Sahoo, A Heinken, J Hertel… - Molecular systems …, 2020 - embopress.org
Comprehensive molecular‐level models of human metabolism have been generated on a
cellular level. However, models of whole‐body metabolism have not been established as …

Recon 2.2: from reconstruction to model of human metabolism

N Swainston, K Smallbone, H Hefzi, PD Dobson… - Metabolomics, 2016 - Springer
Introduction The human genome-scale metabolic reconstruction details all known metabolic
reactions occurring in humans, and thereby holds substantial promise for studying complex …

Length‐independent telomere damage drives post‐mitotic cardiomyocyte senescence

R Anderson, A Lagnado, D Maggiorani… - The EMBO …, 2019 - embopress.org
Ageing is the biggest risk factor for cardiovascular disease. Cellular senescence, a process
driven in part by telomere shortening, has been implicated in age‐related tissue dysfunction …