SUMMARY A major part of organismal complexity and versatility of prokaryotes resides in
their ability to fine-tune gene expression to adequately respond to internal and external …

Biclustering is a powerful data mining technique that allows clustering of rows and columns,
simultaneously, in a matrix-format data set. It was first applied to gene expression data in …

Background Single-cell RNA sequencing (scRNA-seq) plays a pivotal role in our
understanding of cellular heterogeneity. Current analytical workflows are driven by …

Clustering is ubiquitously applied in bioinformatics with hierarchical clustering and k-means
partitioning being the most popular methods. Numerous improvements of these two …

Rice, with its wide geographic distribution extending from 50° N to 35° S, is expected to be
the most vulnerable cultivated crop to future changing climates. Among the different abiotic …

Proinflammatory cytokines secreted from microglia are known to induce a secondary
immune response in astrocytes leading to an inflammatory loop. Cytokines also interfere …

Chromatin immunoprecipitation coupled with deep sequencing (ChIP-seq) has great
potential for elucidating transcriptional networks, by measuring genome-wide binding of …

Resistance to endocrine therapies, whether de novo or acquired, remains a major limitation
in the ability to cure many tumors that express detectable levels of the estrogen receptor …

Transcriptional regulatory networks (TRNs) play a crucial role in exploring microbial life
activities and complex regulatory mechanisms. The comprehensive reconstruction of TRNs …

We present a Cytoscape app for the ISMAGS algorithm, which can enumerate all instances
of a motif in a graph, making optimal use of the motif's symmetries to make the search more …