Genomic analysis articles from across Nature Portfolio

GPSeq is a genome-wide method for probing the radial organization of the genome in cells or nuclei by progressive in situ digestion of chromatin with a restriction enzyme diffusing inward from the periphery followed by high-throughput sequencing.

We present a protocol for high-resolution genome-wide mapping of nascent RNA polymerase II transcription initiation of both stable RNAs and transiently expressed RNAs using total RNA from diverse sample types.

This protocol describes inverse toeprinting coupled to next-generation sequencing, an in vitro approach to characterize bacterial translation at codon resolution that can accommodate custom synthetic libraries and various translation perturbations.

Kim, Wang, Clow and colleagues show that long-range chromatin loops bringing distal enhancers or super-enhancers together with promoters are cohesin dependent and cell type specific, whereas most short-range and promoter-centric transcriptional loops are cohesin independent and constitutive.

This protocol describes a flexible workflow for joint profiling of chromatin accessibility and transcriptomes in single nuclei, compatible with either plate or droplet single-cell isolation platforms.

Poster sessions are a staple at conferences. Some junior and senior scientists share some experiences and strategies about making and presenting posters.

Population epigenetics leverages methylation profile scores (MPSs) to aggregate information across multiple DNA methylation sites. In this Comment, the authors advocate for MPSs to be trained in early-life contexts, anchored in longitudinal developmental data and evaluated using harmonized standards.

Not all conferences offer childcare, but when they do, these scientists, who are also mothers, rejoice. The toys are pretty good, too.