Methods & Resources
In vivo and in vitro knockout system labelled using fluorescent protein via microhomology-mediated end joiningThis study provides a new method that enables the labelling of knockout cells with fluorescent protein through microhomology-mediated end joining (MMEJ)–based knock-in.
A comprehensive resource for retrieving, visualizing, and integrating functional genomics dataThis study presents qcGenomics, a user-friendly online resource for ultrafast retrieval, visualization, and comparative analysis of tens of thousands of genomics datasets to gain new functional insight from global or focused multi-dimensional data integration.
TRAIL-induced variation of cell signaling states provides nonheritable resistance to apoptosisThis work summarizes cellular apoptotic and signaling response to TRAIL across 10 cell lines and for the first time links signaling diversity to nongenetic resistance. This high-dimensional, single-cell approach toward TRAIL resistance sets a standard in studying nongenetic resistance.
Resolving kinesin stepping: one head at a timeThis study shows for the first time a qualitative difference in the stepping of a heterodimeric motor and the asymmetric influence of autoinhibition on the stepping of one of the heads.
Targeted variant detection using unaligned RNA-Seq readsThis study introduces km, an approach leveraging k-mer decomposition to identify targeted mutations. It can detect single-base mutations, insertions and deletions, as well as fusions. An analysis of over 10,000 RNA-seq samples shows fast mutation detection via km.
Human organotypic brain slice culture: a novel framework for environmental research in neuro-oncologyTherapeutically resected, adult brain segments were maintained and characterized for an extended period to study glioblastoma progression and treatment in its almost natural environment.
Gene editing enables T-cell engineering to redirect antigen specificity for potent tumor rejectionTargeted integration of a tumor-reactive T-cell receptor into the TRAC locus using CRISPR-Cas9 and AAV6 redirects primary human T cells against tumor cells in vitro and in vivo.
Worldwide genetic variation of the IGHV and TRBV immune receptor gene families in humansThis article presents a comprehensive study of the IGHV and TRBV gene families in a globally diverse sample of humans and shows that the two gene families exhibit starkly different patterns of variation.
A junction coverage compatibility score to quantify the reliability of transcript abundance estimates and annotation catalogsComparison of observed exon–exon junction counts to those predicted from estimated transcript abundances can identify genes with misannotated or misquantified transcripts.
Optimized ChIP-seq method facilitates transcription factor profiling in human tumorsThis study presents an optimized ChIP-seq protocol to enhance transcription factor profiling in human tumours, enabling the analysis of highly challenging samples, including core needle biopsies.