Methods

Methods to read out naturally occurring or experimentally introduced nucleic acid modifications are emerging as powerful tools to study dynamic cellular processes. The recovery, quantification and...

To find marker genes in single-cell RNA-seq data, many popular methods now follow a common approach to find differentially expressed genes between a small group of highly homogeneous cells and the rest of the data (the outside group), and assume ...

A novel computer algorithm allows researchers to evaluate drugs’ effects and find new targets using models of cancer cell metabolism. Its developers report that rFASTCORMICS builds these models, which...

Integration of single-cell RNA sequencing (scRNA-seq) data from multiple experiments, laboratories and technologies can uncover biological insights, but current methods for scRNA-seq data integration are limited by a requirement for datasets to derive from...

RNA-sequencing has become the standard experimental approach for accurately profiling the transcriptome in a number of systems. Principal component analysis (PCA) is frequently used in genomics...

RNA sequencing (RNA-seq) has become the standard means of analyzing gene and transcript expression in high-throughput. While previously sequence alignment was a time demanding step...

A comprehensive database of gene activity in mice across ten disease models, which could significantly reduce animal use worldwide, has been developed by scientists at the Francis Crick Institute, which gives a full picture of the immune response to different...

Investigators at Rutgers Cancer Institute of New Jersey have developed a computational method that uncovers clinically relevant gene expression patterns in large cohorts of breast cancer patients. This method, which is applicable to the analysis of all cancers...

A team led by researchers at the National Heart, Lung, and Blood Institute has assembled the most comprehensive long non-coding RNA knowledgebase (lncRNAKB) by methodically integrating widely used lncRNAs resources. It presents the largest annotation...

Recent technological advances enable genomics of individual cells, the building blocks of all living organisms. Single cell data characteristics differ from those of bulk data, which led to a plethora of new analytical strategies. However, solutions are only useful for ...