Multi-omics approaches to disease

Y Hasin, M Seldin, A Lusis - Genome biology, 2017 - Springer
High-throughput technologies have revolutionized medical research. The advent of
genotyping arrays enabled large-scale genome-wide association studies and methods for …

Systems biology and gene networks in neurodevelopmental and neurodegenerative disorders

NN Parikshak, MJ Gandal, DH Geschwind - Nature Reviews Genetics, 2015 - nature.com
Genetic and genomic approaches have implicated hundreds of genetic loci in
neurodevelopmental disorders and neurodegeneration, but mechanistic understanding …

Climate warming enhances microbial network complexity and stability

MM Yuan, X Guo, L Wu, YA Zhang, N Xiao… - Nature Climate …, 2021 - nature.com
Unravelling the relationships between network complexity and stability under changing
climate is a challenging topic in theoretical ecology that remains understudied in the field of …

[PDF][PDF] Tau interactome maps synaptic and mitochondrial processes associated with neurodegeneration

TE Tracy, J Madero-Pérez, DL Swaney, TS Chang… - Cell, 2022 - cell.com
Tau (MAPT) drives neuronal dysfunction in Alzheimer disease (AD) and other tauopathies.
To dissect the underlying mechanisms, we combined an engineered ascorbic acid …

Maturation of the gut microbiome during the first year of life contributes to the protective farm effect on childhood asthma

M Depner, DH Taft, PV Kirjavainen, KM Kalanetra… - Nature medicine, 2020 - nature.com
Growing up on a farm is associated with an asthma-protective effect, but the mechanisms
underlying this effect are largely unknown. In the Protection against Allergy: Study in Rural …

[PDF][PDF] The immune landscape of cancer

V Thorsson, DL Gibbs, SD Brown, D Wolf, DS Bortone… - Immunity, 2018 - cell.com
We performed an extensive immunogenomic analysis of more than 10,000 tumors
comprising 33 diverse cancer types by utilizing data compiled by TCGA. Across cancer …

Identification of environmental factors that promote intestinal inflammation

LM Sanmarco, CC Chao, YC Wang, JE Kenison, Z Li… - Nature, 2022 - nature.com
Genome-wide association studies have identified risk loci linked to inflammatory bowel
disease (IBD)—a complex chronic inflammatory disorder of the gastrointestinal tract. The …

Disentangling direct from indirect relationships in association networks

N Xiao, A Zhou, ML Kempher… - Proceedings of the …, 2022 - National Acad Sciences
Networks are vital tools for understanding and modeling interactions in complex systems in
science and engineering, and direct and indirect interactions are pervasive in all types of …

Gene co-expression analysis for functional classification and gene–disease predictions

S Van Dam, U Vosa, A van der Graaf… - Briefings in …, 2018 - academic.oup.com
Gene co-expression networks can be used to associate genes of unknown function with
biological processes, to prioritize candidate disease genes or to discern transcriptional …

[HTML][HTML] Towards a consensus regarding global signal regression for resting state functional connectivity MRI

K Murphy, MD Fox - Neuroimage, 2017 - Elsevier
The number of resting state functional connectivity MRI studies continues to expand at a
rapid rate along with the options for data processing. Of the processing options, few have …