Methods for biological data integration: perspectives and challenges

V Gligorijević, N Pržulj - Journal of the Royal Society …, 2015 - royalsocietypublishing.org
Rapid technological advances have led to the production of different types of biological data
and enabled construction of complex networks with various types of interactions between …

Network medicine in the age of biomedical big data

AR Sonawane, ST Weiss, K Glass, A Sharma - Frontiers in Genetics, 2019 - frontiersin.org
Network medicine is an emerging area of research dealing with molecular and genetic
interactions, network biomarkers of disease, and therapeutic target discovery. Large-scale …

Circular RNA related to the chondrocyte ECM regulates MMP13 expression by functioning as a MiR-136 'Sponge'in human cartilage degradation

Q Liu, X Zhang, X Hu, L Dai, X Fu, J Zhang, Y Ao - Scientific reports, 2016 - nature.com
Circular RNAs (circRNAs) are involved in the development of various diseases, but there is
little knowledge of circRNAs in osteoarthritis (OA). The aim of study was to identify circRNA …

Protein–protein interactions essentials: key concepts to building and analyzing interactome networks

J De Las Rivas, C Fontanillo - PLoS computational biology, 2010 - journals.plos.org
Decades of research into cell biology, molecular biology, biochemistry, structural biology,
and biophysics have produced a remarkable compendium of knowledge on the function and …

[PDF][PDF] Long noncoding RNA high expression in hepatocellular carcinoma facilitates tumor growth through enhancer of zeste homolog 2 in humans

FU Yang, L Zhang, X Huo, J Yuan, D Xu, S Yuan… - …, 2011 - Wiley Online Library
In recent years, long noncoding RNAs (lncRNAs) have been shown to have critical
regulatory roles in cancer biology. However, the contributions of lncRNAs to hepatitis B virus …

A human functional protein interaction network and its application to cancer data analysis

G Wu, X Feng, L Stein - Genome biology, 2010 - Springer
Background One challenge facing biologists is to tease out useful information from massive
data sets for further analysis. A pathway-based analysis may shed light by projecting …

Co‐expression tools for plant biology: opportunities for hypothesis generation and caveats

B Usadel, T Obayashi, M Mutwil… - Plant, cell & …, 2009 - Wiley Online Library
Gene co‐expression analysis has emerged in the past 5 years as a powerful tool for gene
function prediction. In essence, co‐expression analysis asks the question 'what are the …

The noncoding RNA expression profile and the effect of lncRNA AK126698 on cisplatin resistance in non-small-cell lung cancer cell

Y Yang, H Li, S Hou, B Hu, J Liu, J Wang - PloS one, 2013 - journals.plos.org
Background The efficacy of cisplatin-based chemotherapy in non-small-cell lung cancer is
limited by the acquired drug resistance. Identification the RNAs related to the cisplatin …

Co-expression networks reveal the tissue-specific regulation of transcription and splicing

A Saha, Y Kim, ADH Gewirtz, B Jo, C Gao… - Genome …, 2017 - genome.cshlp.org
Gene co-expression networks capture biologically important patterns in gene expression
data, enabling functional analyses of genes, discovery of biomarkers, and interpretation of …

Lnc RNA‐PAGBC acts as a micro RNA sponge and promotes gallbladder tumorigenesis

XS Wu, F Wang, HF Li, YP Hu, L Jiang, F Zhang… - EMBO …, 2017 - embopress.org
Long noncoding RNA s (lnc RNA s) play roles in the development and progression of many
cancers; however, the contributions of lnc RNA s to human gallbladder cancer (GBC) remain …