-
Article
Open AccessGenome-scale measurement of off-target activity using Cas9 toxicity in high-throughput screens
CRISPR-Cas9 screens are powerful tools for high-throughput interrogation of genome function, but can be confounded by nuclease-induced toxicity at both on- and off-target sites, likely due to DNA damage. Here,...
-
Article
Identification of significantly mutated regions across cancer types highlights a rich landscape of functional molecular alterations
William Greenleaf, Michael Snyder, Carlos Araya and colleagues use density-based clustering methods on ~4,700 exomes from 21 tumor types to detect significantly mutated regions (SMRs), which show recurrent alt...
-
Article
Correction: Corrigendum: Regulatory analysis of the C. elegans genome with spatiotemporal resolution
Nature 512, 400–405 (2014); doi:10.1038/nature13497 In this Article, when processing C. elegans ChIP-seq libraries, the gene label ZK337.2 (KLU-1, a C2H2 Zn-finger protein) was mis-transcribed to ZK377.2 (SAX-...
-
Article
Open AccessRegulatory analysis of the C. elegans genome with spatiotemporal resolution
Discovering the structure and dynamics of transcriptional regulatory events in the genome with cellular and temporal resolution is crucial to understanding the regulatory underpinnings of development and disea...
-
Article
Open AccessComparative analysis of regulatory information and circuits across distant species
A map of genome-wide binding locations of 165 human, 93 worm and 52 fly transcription-regulatory factors (almost 50% presented for the first time) from diverse cell types, developmental stages, or conditions r...
-
Article
Quantitative analysis of RNA-protein interactions on a massively parallel array reveals biophysical and evolutionary landscapes
Repurposing a DNA sequencing instrument for high-throughput analysis of RNA-protein interactions enables detailed analysis of sequence-function relationships.
-
Article
High-resolution map** of protein sequence-function relationships
The combination of protein display, moderate selection for protein activity and high-throughput DNA sequencing can be applied to hundreds of thousands of protein variants in parallel, enabling the derivation o...
-
Article
Open AccessWhole-genome sequencing of a laboratory-evolved yeast strain
Experimental evolution of microbial populations provides a unique opportunity to study evolutionary adaptation in response to controlled selective pressures. However, until recently it has been difficult to id...
-
Article
Open AccessAceTree: a tool for visual analysis of Caenorhabditis elegans embryogenesis
The invariant lineage of the nematode Caenorhabditis elegans has potential as a powerful tool for the description of mutant phenotypes and gene expression patterns. We previously described procedures for the imag...
