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This study demonstrates the feasibility of generating near-finished microbial genomes using only Oxford Nanopore R10.4 data from pure cultures or metagenomes.
A diagnostic fragment ion in tandem mass spectrometry enables confident protein lactylation assignment and the discovery of broad lysine modification beyond histones.
This article reports the cyclic immonium ion as a diagnostic fragment ion for lysine lactylation. The approach was used for identifying lactylation in various enriched and unenriched proteome databases, demonstrating prevalence of lactylation beyond histones.
Imaging and microscopy technology advances in leaps and bounds. To address accumulated pain points, academics and companies are making headway on standards.
Evidence for at least one protein product from 80% of all mouse genes is reported in a comprehensive proteomic analysis of 41 adult mouse tissues. Comparison of tissue profiles between mouse and human suggests that the fundamental biology of this important model organism is even more different from our own than we thought.
Bioluminescent phasor is a new technology for multiplexed, excitation-free imaging at the microscale using luciferase–luciferin pairs. This platform can readily unmix the broad, overlapping emission spectra of bioluminescent reporters, making possible the dynamic tracking of cellular and molecular features over prolonged time periods.
The combination of engineered probes and spectral phasor analysis overcomes long-standing challenges associated with bioluminescence detection at the microscale, enabling multiplexed, real-time imaging of cellular features without the need for excitation light.
Extensive analyses of mammalian phosphoproteomics datasets show that protein histidine phosphorylation in human cells may not be as prevalent as previously thought.
This work presents a quantitative draft of the mouse proteome and phosphoproteome constructed from 41 healthy tissues covering 15 major anatomical systems and 66 cell lines.
We developed a streamlined approach coupling microfabricated cell culture substrates, 3D single-objective light sheet imaging and artificial intelligence quantifications to characterize the variability of morphologies of small organoids. Arrayed organoids can be imaged in 3D at around 100 organoids per hour.
Adenosine-to-inosine RNA editing is a common post-transcriptional modification, but can be challenging to identify correctly from Illumina data. We show that Oxford Nanopore RNA sequencing, combined with deep learning models, can be used to accurately detect inosine-containing sites in native transcriptomes and to estimate the modification rate of each site.
