Integrative approaches for finding modular structure in biological networks

K Mitra, AR Carvunis, SK Ramesh, T Ideker - Nature Reviews Genetics, 2013 - nature.com
A central goal of systems biology is to elucidate the structural and functional architecture of
the cell. To this end, large and complex networks of molecular interactions are being rapidly …

The Hippo pathway kinases LATS1/2 suppress cancer immunity

T Moroishi, T Hayashi, WW Pan, Y Fujita, MV Holt… - Cell, 2016 - cell.com
Poorly immunogenic tumor cells evade host immunity and grow even in the presence of an
intact immune system, but the complex mechanisms regulating tumor immunogenicity have …

The long noncoding RNA Chaer defines an epigenetic checkpoint in cardiac hypertrophy

Z Wang, XJ Zhang, YX Ji, P Zhang, KQ Deng, J Gong… - Nature medicine, 2016 - nature.com
Epigenetic reprogramming is a critical process of pathological gene induction during cardiac
hypertrophy and remodeling, but the underlying regulatory mechanisms remain to be …

U2AF1 mutations induce oncogenic IRAK4 isoforms and activate innate immune pathways in myeloid malignancies

MA Smith, GS Choudhary, A Pellagatti, K Choi… - Nature cell …, 2019 - nature.com
Spliceosome mutations are common in myelodysplastic syndromes (MDS) and acute
myeloid leukaemia (AML), but the oncogenic changes due to these mutations have not been …

[HTML][HTML] Hematogenous metastasis of ovarian cancer: rethinking mode of spread

S Pradeep, SW Kim, SY Wu, M Nishimura… - Cancer cell, 2014 - cell.com
Ovarian cancer has a clear predilection for metastasis to the omentum, but the underlying
mechanisms involved in ovarian cancer spread are not well understood. Here, we used a …

Role of Artificial Intelligence in Drug Discovery and Target Identification in Cancer

V Sharma, A Singh, S Chauhan… - Current Drug …, 2024 - ingentaconnect.com
Drug discovery and development (DDD) is a highly complex process that necessitates
precise monitoring and extensive data analysis at each stage. Furthermore, the DDD …

Inhibition of mTORC1/2 overcomes resistance to MAPK pathway inhibitors mediated by PGC1α and oxidative phosphorylation in melanoma

YNV Gopal, H Rizos, G Chen, W Deng, DT Frederick… - Cancer research, 2014 - AACR
Metabolic heterogeneity is a key factor in cancer pathogenesis. We found that a subset of
BRAF-and NRAS-mutant human melanomas resistant to the MEK inhibitor selumetinib …

AMP kinase promotes glioblastoma bioenergetics and tumour growth

RR Chhipa, Q Fan, J Anderson, R Muraleedharan… - Nature cell …, 2018 - nature.com
Stress is integral to tumour evolution, and cancer cell survival depends on stress
management. We found that cancer-associated stress chronically activates the bioenergetic …

Hierarchical HotNet: identifying hierarchies of altered subnetworks

MA Reyna, MDM Leiserson, BJ Raphael - Bioinformatics, 2018 - academic.oup.com
Motivation The analysis of high-dimensional 'omics data is often informed by the use of
biological interaction networks. For example, protein–protein interaction networks have …

Systematic identification of molecular subtype-selective vulnerabilities in non-small-cell lung cancer

HS Kim, S Mendiratta, J Kim, CV Pecot, JE Larsen… - Cell, 2013 - cell.com
Context-specific molecular vulnerabilities that arise during tumor evolution represent an
attractive intervention target class. However, the frequency and diversity of somatic lesions …