Nature Methods
Microbiology: Keeping track of gut bacteria
Nature Methods 12, 908 (2015). doi:10.1038/nmeth.3608
Author: Irene Jarchum
Fluorescent labeling of bacteria enables tracking of their location.
Cell biology: High-throughput discovery of genome organizers
Nature Methods 12, 909 (2015). doi:10.1038/nmeth.3598
Genomics: Variation in human repeat sequences
Nature Methods 12, 909 (2015). doi:10.1038/nmeth.3599
Stem cells: Zapping cells improves genome-editing efficiency
Nature Methods 12, 909 (2015). doi:10.1038/nmeth.3600
Microscopy: Isotropic super-resolution imaging
Nature Methods 12, 909 (2015). doi:10.1038/nmeth.3601
Model organisms: Expanding GFP utility beyond imaging
Nature Methods 12, 910 (2015). doi:10.1038/nmeth.3594
Bioinformatics: How good are those RNA-seq data?
Nature Methods 12, 910 (2015). doi:10.1038/nmeth.3595
Microbiology: Ancestral AAVs put to new use
Nature Methods 12, 910 (2015). doi:10.1038/nmeth.3596
Molecular engineering: A suite of oligomeric GFP variants
Nature Methods 12, 910 (2015). doi:10.1038/nmeth.3597
Bioinformatics: Finding a face in the crowd
Nature Methods 12, 911 (2015). doi:10.1038/nmeth.3609
Author: Michael Eisenstein
An analytical algorithm for transcriptomic data reveals rare cell types that were previously hidden in larger populations.
Molecular biology: Inseparable ribosomes
Nature Methods 12, 913 (2015). doi:10.1038/nmeth.3610
Author: Nicole Rusk
Fusing ribosomal subunits provides answers to basic questions about their function and opens the door to exciting engineering possibilities.
Stem cells: Fast track to neurons
Nature Methods 12, 915 (2015). doi:10.1038/nmeth.3611
Author: Tal Nawy
New protocols generate neurons directly from fibroblasts using only chemical cocktails.
What if stem cells turn into embryos in a dish?
Nature Methods 12, 917 (2015). doi:10.1038/nmeth.3586
Authors: Martin F Pera, Guido de Wert, Wybo Dondorp, Robin Lovell-Badge, Christine L Mummery, Megan Munsie & Patrick P Tam
Voltage sensors: challenging, but with potential
Nature Methods 12, 921 (2015). doi:10.1038/nmeth.3591
Author: Nina Vogt
Genetically encoded voltage sensors are coming of age, but their use still poses challenges that must be addressed from multiple angles.
Diving deeper to predict noncoding sequence function
Nature Methods 12, 925 (2015). doi:10.1038/nmeth.3604
Authors: Barbara E Engelhardt & Christopher D Brown
The deep learning–based method DeepSEA predicts the molecular function of noncoding DNA polymorphisms.
Single Molecule Cluster Analysis dissects splicing pathway conformational dynamics
Nature Methods 12, 1077 (2015). doi:10.1038/nmeth.3602
Authors: Mario R Blanco, Joshua S Martin, Matthew L Kahlscheuer, Ramya Krishnan, John Abelson, Alain Laederach & Nils G Walter
Comparing the performance of biomedical clustering methods
Nature Methods 12, 1033 (2015). doi:10.1038/nmeth.3583
Authors: Christian Wiwie, Jan Baumbach & Richard Röttger
Proteome-wide drug and metabolite interaction mapping by thermal-stability profiling
Nature Methods 12, 1055 (2015). doi:10.1038/nmeth.3590
Authors: Kilian V M Huber, Karin M Olek, André C Müller, Chris Soon Heng Tan, Keiryn L Bennett, Jacques Colinge & Giulio Superti-Furga
Thermal stabilization of proteins after ligand binding provides an efficient means to assess the binding of small molecules to proteins. We show here that in combination with quantitative mass spectrometry, the approach allows for the systematic survey of protein engagement by cellular metabolites and drugs. We profiled the targets of the drugs methotrexate and (S)-crizotinib and the metabolite 2′3′-cGAMP in intact cells and identified the 2′3′-cGAMP cognate transmembrane receptor STING, involved in immune signaling.
DNA sense-and-respond protein modules for mammalian cells
Nature Methods 12, 1085 (2015). doi:10.1038/nmeth.3585
Authors: Shimyn Slomovic & James J Collins
Whole-brain activity mapping onto a zebrafish brain atlas
Nature Methods 12, 1039 (2015). doi:10.1038/nmeth.3581
Authors: Owen Randlett, Caroline L Wee, Eva A Naumann, Onyeka Nnaemeka, David Schoppik, James E Fitzgerald, Ruben Portugues, Alix M B Lacoste, Clemens Riegler, Florian Engert & Alexander F Schier