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Preview: Nature Methods - Issue - science feeds

Nature Methods - Issue - science feeds

Nature Methods is a science methodology journal publishing laboratory techniques and methods papers in the life sciences and areas of chemistry relevant to the life sciences.


Responsible referencing


Careful construction of reference lists is the responsibility of every scientist.

The Author File: Bart Deplancke


An engineered approach to study gene regulation, and why home is where the heart is.

Points of Significance: Interpreting P values


A P value measures a sample's compatibility with a hypothesis, not the truth of the hypothesis.

Microscopy: Taking nanoscopy to the limit


MINFLUX nanoscopy can obtain 1-nm localization precision with orders of magnitude fewer emitted photons.

Stem cells: Cerebral organoids enter the fold


Two groups use cerebral organoids to model brain development and disease.

Genomics: Another player for RNA-guided RNA cleavage


Cas13b relies on activator and repressor proteins to regulate RNA cleavage.

Cell biology: Precision switches for protein control


Light- or drug-dependent switches enable precise control over signaling pathways in living cells.

Structural biology: Protein holography


Low-energy holography enables imaging single proteins and protein complexes.

Cell biology: tracking a cell's cycle


The tools that clock a cell's everyday affairs reveal plenty that's out of the ordinary.

Genetic screening enters the single-cell era


Four studies overcome the limitations of pooled and arrayed genetic screens by integrating single-cell transcriptomics.

Stratifying tissue heterogeneity with scalable single-cell assays


Three methods dramatically improve the scale of single-cell genomic sequencing and structural assays, allowing for the hierarchical partitioning of cell populations within a tissue.

Synthetic human proteomes for accelerating protein research


The generation of synthetic human proteomes and future derived tools will expand knowledge in protein biology.

A guide to designing germline-dependent epigenetic inheritance experiments in mammals


This Review discusses key aspects of experimental design to evaluate intergenerational and transgenerational epigenetic inheritance. It describes advantages of patrilineal and matrilineal design, and it offers advice for selecting animals for breeding and for determining the weaning scheme and group size.

A large-scale targeted proteomics assay resource based on an in vitro human proteome


A large-scale resource, iMPAQT, provides multiple reaction monitoring (MRM)–mass spectrometry assays for targeted quantitative analysis of mTRAQ-labeled human proteins.

Building ProteomeTools based on a complete synthetic human proteome


The ProteomeTools project provides the proteomics community with a physical synthetic tryptic peptide resource and a digital LC-MS/MS data resource covering all human proteins.

Massively multiplex single-cell Hi-C


Single-cell combinatorial indexed Hi-C (sciHi-C) is a streamlined protocol for generating thousands of high-quality single-cell chromosome conformation data sets that resemble bulk Hi-C data in aggregate.

Effective detection of variation in single-cell transcriptomes using MATQ-seq


MATQ-seq is a highly sensitive single-cell RNA-seq protocol that enables the detection of true subtle biological variations among single cells as well as the capture of nonpolyadenylated RNA.

Optogenetic inhibition of behavior with anion channelrhodopsins


Anion channelrhodopsins are light-sensitive chloride channels that can be used as optogenetic inhibitors. Mohammad et al. report their application in Drosophila, showing that various behaviors can be inhibited in a light-dependent manner.

Characterizing cell subsets using marker enrichment modeling


Marker enrichment modeling (MEM) provides an objective metric for characterizing cell populations from high-content single-cell analysis. The MEM score outperforms standard metrics and provides a machine-readeable label for cell subsets.

Post-translational selective intracellular silencing of acetylated proteins with de novo selected intrabodies


PISA, generates intrabodies that selectively bind and interfere with the intracellular function of an acetylated version of a target protein.

High-fidelity mass analysis unveils heterogeneity in intact ribosomal particles


Instrumental modifications enable native mass spectrometry analysis with unprecedented mass resolution, especially at high mass-to-charge ratios, as illustrated through the analysis of intact ribosome particles.

One-step generation of conditional and reversible gene knockouts


The combination of knocking one allele out with CRISPR-mediated NHEJ and targeting the other with a conditionally inactivating cassette allows rapid generation of conditional alleles.

cryoSPARC: algorithms for rapid unsupervised cryo-EM structure determination


A software tool, cryoSPARC, addresses the speed bottleneck in cryo-EM image processing, enabling automated macromolecular structure determination in hours on a desktop computer without requiring a starting model.

Pooled CRISPR screening with single-cell transcriptome readout


CROP-seq enables pooled CRISPR screens for complex transcriptome signatures by making gRNA expression detectable in single-cell RNA sequencing.

Sequencing thousands of single-cell genomes with combinatorial indexing


Single-cell combinatorial indexed sequencing (SCI-seq) resolves genomic heterogeneity by generating thousands of low-pass single-cell libraries at once for somatic copy number variant detection.

Single-cell mRNA quantification and differential analysis with Census


The Census tool converts single-cell RNA-seq relative read counts to relative transcript counts for more accurate differential gene expression and analysis in the absence of spike-ins or molecular barcodes.

SMiLE-seq identifies binding motifs of single and dimeric transcription factors


The Microfluidic-based Ligand Enrichment (SMiLE) sequencing strategy probes DNA binding of single and heterodimeric transcription factors over a wide affinity range.