By studying the genomes of fruit flies, scientists from the Zaugg and Furlong groups at EMBL Heidelberg have identified a set of genomic features that can predict how much the expression of a gene varies between individuals in a species. Their...
Read More »TEffectR – an R package for studying the potential effects of transposable elements on gene expression
Recent studies highlight the crucial regulatory roles of transposable elements (TEs) on proximal gene expression in distinct biological contexts such as disease and development. However, computational tools...
Read More »RNA-Seq and quantitative modeling unravel the contributions of regulated transcription and mRNA decay to the dynamics of gene expression
Organisms have acquired sophisticated regulatory networks that control gene expression in response to cellular perturbations. Understanding of the mechanisms underlying the coordinated changes in gene expression in response to external and internal stimuli is a fundamental issue in biology. Recent ...
Read More »Post-doc position available – gene regulation and cancer cell behavior
A postdoctoral position is immediately available in the Hsieh Lab at the Fred Hutchinson Cancer Research Center. The core focus of the Hsieh Lab is to interrogate the mechanisms by which post-transcriptional gene regulation governs cancer cell behavior...
Read More »RNA-Seq studies of brown rot fungi could lead to new tools for more efficient biofuel production
The Science Wood’s complex structure makes it highly resistant to biological or chemical decomposition. The structure includes cellulose, long chains of linked sugar molecules, embedded in a scaffolding of a chemical known as lignin. Brown rot fungi, however, possess a ...
Read More »Census – Single-cell mRNA quantification and differential analysis
Single-cell gene expression studies promise to reveal rare cell types and cryptic states, but the high variability of single-cell RNA-seq measurements frustrates efforts to assay transcriptional differences between cells. University of Washington researchers have developed the Census algorithm to convert ...
Read More »RNA-Seq reveals shortcomings of experimentation models
Microglia are resident myeloid cells in the CNS that are activated by infection, neuronal injury, and inflammation. Established BV2 microglial cell lines have been the primary in vitro models used to study neuroinflammation for more than a decade because they ...
Read More »Whole-Transcriptome Amplification of Single Cells for Next-Generation Sequencing
Single-cell transcriptome analysis gives insight into the heterogeneity of neighboring cells in tissues or cell cultures. It has been shown that the variability of cells is important for biological function. However, cell variability can be an indication of disease (e.g., ...
Read More »RNA Bioinformatics – New RNA-Seq Protocols from Methods in Molecular Biology
RNA Bioinformatics Edited by Ernesto Picardi ISBN: 978-1-4939-2290-1 (Print) 978-1-4939-2291-8 (Online) Analysis of High-Throughput RNA Sequencing Data Quality Control of RNA-Seq Experiments Xing Li, Asha Nair, Shengqin Wang, Liguo Wang Pages 137-146 Accurate Mapping of RNA-Seq Data Kin Fai Au ...
Read More »Comprehensive Analysis of Alternative Splicing by Strand-Specific RNA-Seq
Digitalis purpurea (D. purpurea) is one of the most important medicinal plants and is well known in the treatment of heart failure because of the cardiac glycosides that are its main active compounds. However, in the absence of strand specific ...
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