Beyond modules and hubs: the potential of gene coexpression networks for investigating molecular mechanisms of complex brain disorders

C Gaiteri, Y Ding, B French, GC Tseng… - Genes, brain and …, 2014 - Wiley Online Library
In a research environment dominated by reductionist approaches to brain disease
mechanisms, gene network analysis provides a complementary framework in which to tackle …

Comparison of methods for differential co-expression analysis for disease biomarker prediction

T Kakati, DK Bhattacharyya, P Barah… - Computers in biology and …, 2019 - Elsevier
In the recent past, a number of methods have been developed for analysis of biological data.
Among these methods, gene co-expression networks have the ability to mine functionally …

Expression of microRNAs and other small RNAs in prefrontal cortex in schizophrenia, bipolar disorder and depressed subjects

NR Smalheiser, G Lugli, H Zhang, H Rizavi, EH Cook… - PloS one, 2014 - journals.plos.org
Because of the role played by miRNAs in post-transcriptional regulation of an array of
genes, their impact in neuropsychiatric disease pathophysiology has increasingly been …

Identifying transcriptional start sites of human microRNAs based on high-throughput sequencing data

CH Chien, YM Sun, WC Chang… - Nucleic acids …, 2011 - academic.oup.com
MicroRNAs (miRNAs) are critical small non-coding RNAs that regulate gene expression by
hybridizing to the 3′-untranslated regions (3′-UTR) of target mRNAs, subsequently …

Clustering of high throughput gene expression data

H Pirim, B Ekşioğlu, AD Perkins, Ç Yüceer - Computers & operations …, 2012 - Elsevier
High throughput biological data need to be processed, analyzed, and interpreted to address
problems in life sciences. Bioinformatics, computational biology, and systems biology deal …

CircuitsDB: a database of mixed microRNA/transcription factor feed-forward regulatory circuits in human and mouse

O Friard, A Re, D Taverna, M De Bortoli, D Corá - BMC bioinformatics, 2010 - Springer
Abstract Background Transcription Factors (TFs) and microRNAs (miRNAs) are key players
for gene expression regulation in higher eukaryotes. In the last years, a large amount of …

MBSTAR: multiple instance learning for predicting specific functional binding sites in microRNA targets

S Bandyopadhyay, D Ghosh, R Mitra, Z Zhao - Scientific reports, 2015 - nature.com
MicroRNA (miRNA) regulates gene expression by binding to specific sites in the 3′
untranslated regions of its target genes. Machine learning based miRNA target prediction …

The early growth response protein 1-miR-30a-5p-neurogenic differentiation factor 1 axis as a novel biomarker for schizophrenia diagnosis and treatment monitoring

S Liu, F Zhang, YY Shugart, L Yang, X Li, Z Liu… - Translational …, 2017 - nature.com
To date, diagnosis of schizophrenia is still based on clinical interviews and careful
observations, which is subjective and variable, and can lead to misdiagnosis and/or delay in …

MicroRNAs and psychiatric disorders: From aetiology to treatment

A Luoni, MA Riva - Pharmacology & Therapeutics, 2016 - Elsevier
The emergence of psychiatric disorders relies on the interaction between genetic
vulnerability and environmental adversities. Several studies have demonstrated a crucial …

Co-expression network and pathway analyses reveal important modules of miRNAs regulating milk yield and component traits

DN Do, PL Dudemaine, R Li… - International journal of …, 2017 - mdpi.com
Co-expression network analyses provide insights into the molecular interactions underlying
complex traits and diseases. In this study, co-expression network analysis was performed to …