Nature Methods Contents: June 2018, Volume 15 No 6

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Advertisement Perfect your ISH with these 10 tips from Enzo!  TABLE OF CONTENTS June 2018 Volume 15, Issue 6 Editorial This Month Correspondence Research Highlights Technology Feature Perspectives Brief Communications Articles Amendments & Corrections   Advertisement   Let CST help build your next ChIP experiment! Whether you are dreaming about your first ChIP experiment or are the resident expert in your lab, CST scientists have created a guide with tips and recommendations to ensure that your ChIP-qPCR and ChIP-seq experiments are successful.   Advertisement Princeton University, Princeton Institute for the Science and Technology of Materials (PRISM), Nature Communications, Nature Materials, Nature Structural & Molecular Biology present: Princeton — Nature Conference: Frontiers in Electron Microscopy for the Physical and Life Sciences July 11-13, 2018, Princeton University, Princeton, NJ, USA  Register now to secure your place.     Editorial   Better research through metrology    p395 doi:10.1038/s41592-018-0035-x This Month   Laurent Cognet    p397 Vivien Marx doi:10.1038/s41592-018-0013-3 The curse(s) of dimensionality    pp399 - 400 Naomi Altman & Martin Krzywinski doi:10.1038/s41592-018-0019-x Advertisement   Advanced Imaging with Proven Optics Olympus is dedicated to your work, vision, and science. Through innovation and service, we seek to aide in your discoveries, advance your research, and inspire you to explore new possibilities. Our wide range of microscopes are built with the optical excellence and proven application expertise you can depend on. Your Science Matters™. > Learn more about Olympus microscopes   Correspondence   MaxQuant goes Linux    p401 Pavel Sinitcyn, Shivani Tiwary, Jan Rudolph, Petra Gutenbrunner, Christoph Wichmann et al. doi:10.1038/s41592-018-0018-y Advertisement nature.com webcasts Nature Research Custom presents a webcast on: Multicolour Digital PCR for ctDNA detection in breast cancer Date: 12 June 2018 Dr. Isaac Garcia-Murillas from ICR will address the technical challenges for clinical utility of liquid biopsy and ctDNA as a biomarker in breast cancer. This webcast has been produced on behalf of the sponsor who retains sole responsibility for content  Register for FREE  Sponsored by: Stilla Technologies    Research Highlights   Deep learning advances super-resolution imaging    p403 Rita Strack doi:10.1038/s41592-018-0028-9 A home for brain organoids    p404 Tal Nawy doi:10.1038/s41592-018-0029-8 RNAs that shape the genome    p405 Nicole Rusk doi:10.1038/s41592-018-0030-2 Simulating the imaging process in scattering tissue    p406 Nina Vogt doi:10.1038/s41592-018-0031-1 A pan-cancer atlas    p407 Tal Nawy doi:10.1038/s41592-018-0020-4 Analyzing Drosophila activity    p407 Nina Vogt doi:10.1038/s41592-018-0021-3 What hPSCs need    p407 Nicole Rusk doi:10.1038/s41592-018-0022-2 Hessian structured illumination microscopy    p407 Rita Strack doi:10.1038/s41592-018-0023-1 Cross-linking with SuFEx chemistry    p408 Allison Doerr doi:10.1038/s41592-018-0024-0 RBP census    p408 Nicole Rusk doi:10.1038/s41592-018-0025-z Super-long single-molecule tracking    p408 Rita Strack doi:10.1038/s41592-018-0026-y Tissue-specific oncogene screens    p408 Tal Nawy doi:10.1038/s41592-018-0027-x A home for integrative structural models    p409 Allison Doerr doi:10.1038/s41592-018-0032-0 Methods JOBS of the week Scientific Director ALBA Synchrotron 2018 International Talent Forum in Nankai University Nankai University Chief Research Officer Ames Laboratory Staff Scientist VA Boston Healthcare System Postdoctoral Scientist position Institute of Organic Chemistry and Biochemistry of the CAS (IOCB Prague) More Science jobs from Methods EVENT Lab for Open Innovation in Science (LOIS) 17.10.18 Vienna, Austria More science events from Technology Feature   Stem cells: lineage tracing lets single cells talk about their past    pp411 - 414 Vivien Marx doi:10.1038/s41592-018-0016-0 Perspectives   Nanoparticles for super-resolution microscopy and single-molecule tracking    pp415 - 423 Dayong Jin, Peng Xi, Baoming Wang, Le Zhang, Jörg Enderlein et al. doi:10.1038/s41592-018-0012-4 This Perspective highlights recent advances in the use of nanoparticles in super-resolution microscopy and single-molecule tracking. It offers guidance for users interested in these tools and discusses potential future directions.   Brief Communications   Single-shot super-resolution total internal reflection fluorescence microscopy    pp425 - 428 Min Guo, Panagiotis Chandris, John Paul Giannini, Adam J. Trexler, Robert Fischer et al. doi:10.1038/s41592-018-0004-4 Instant structured illumination and total internal reflection fluorescence microscopy are combined to carry out time-lapse super-resolution TIRF imaging at frame rates up to 100 Hz, enabling observation of fast biological processes.   High-speed volumetric imaging of neuronal activity in freely moving rodents    pp429 - 432 Oliver Skocek, Tobias Nöbauer, Lukas Weilguny, Francisca Martínez Traub, Chuying Naomi Xia et al. doi:10.1038/s41592-018-0008-0 A miniature light-field microscope in combination with a signal-extraction approach enables high-speed volumetric calcium imaging in freely moving mice.   C-BERST: defining subnuclear proteomic landscapes at genomic elements with dCas9–APEX2    pp433 - 436 Xin D. Gao, Li-Chun Tu, Aamir Mir, Tomás Rodriguez, Yuehe Ding et al. doi:10.1038/s41592-018-0006-2 dCas9 fused to ascorbate peroxidase (APEX2) biotinylates proteins around targeted loci so they can be enriched and characterized.   Discovery of proteins associated with a predefined genomic locus via dCas9–APEX-mediated proximity labeling    pp437 - 439 Samuel A. Myers, Jason Wright, Ryan Peckner, Brian T. Kalish, Feng Zhang et al. doi:10.1038/s41592-018-0007-1 After CRISPR-mediated targeting of the peroxidase APEX2 to a genomic locus of interest, the proteins at that locus are labeled, enriched and identified via quantitative proteomics.   Articles   BoxCar acquisition method enables single-shot proteomics at a depth of 10,000 proteins in 100 minutes    pp440 - 448 doi:10.1038/s41592-018-0003-5 BoxCar, a mass spectrometry data acquisition method, greatly increases sensitivity and the detection of low-abundance peptides with a minimal amount of instrument time.   Self-interference 3D super-resolution microscopy for deep tissue investigations    pp449 - 454 Pierre Bon, Jeanne Linarès-Loyez, Maxime Feyeux, Kevin Alessandri, Brahim Lounis et al. doi:10.1038/s41592-018-0005-3 Several methods make it possible to obtain depth information in 3D super-resolution microscopy. Here the authors exploit a self-interference phenomenon to allow deep imaging within tissue samples, as well as isotropic imaging.   Picky comprehensively detects high-resolution structural variants in nanopore long reads    pp455 - 460 Liang Gong, Chee-Hong Wong, Wei-Chung Cheng, Harianto Tjong, Francesca Menghi et al. doi:10.1038/s41592-018-0002-6 The computational pipeline Picky detects the full spectrum of structural variants and their breakpoints in long nanopore sequence reads.   Accurate detection of complex structural variations using single-molecule sequencing    pp461 - 468 Fritz J. Sedlazeck, Philipp Rescheneder, Moritz Smolka, Han Fang, Maria Nattestad et al. doi:10.1038/s41592-018-0001-7 NGMLR and Sniffles perform highly accurate alignment and structural variation detection from long-read sequencing data.   Amendments & Corrections   Author Correction: High-speed volumetric imaging of neuronal activity in freely moving rodents    p469 Oliver Skocek, Tobias Nöbauer, Lukas Weilguny, Francisca Martínez Traub, Chuying Naomi Xia et al. doi:10.1038/s41592-018-0034-y Advertisement Nature Briefing is an essential round-up of science news, opinion and analysis, free in your inbox every weekday. With Nature Briefing, we'll keep you updated on the latest research, so you can focus on yours. Click here to sign up.   Natureevents is a fully searchable, multi-disciplinary database designed to maximise exposure for events organisers. The contents of the Natureevents Directory are now live. The digital version is available here. 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