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Open AccessA mass spectrum-oriented computational method for ion mobility-resolved untargeted metabolomics
Ion mobility (IM) adds a new dimension to liquid chromatography-mass spectrometry-based untargeted metabolomics which significantly enhances coverage, sensitivity, and resolving power for analyzing the metabol...
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Open AccessPublisher Correction: Serum metabolic traits reveal therapeutic toxicities and responses of neoadjuvant chemoradiotherapy in patients with rectal cancer
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Open AccessSerum metabolic traits reveal therapeutic toxicities and responses of neoadjuvant chemoradiotherapy in patients with rectal cancer
Neoadjuvant chemoradiotherapy (nCRT) has become the standard treatment for patients with locally advanced rectal cancer (LARC). Therapeutic efficacy of nCRT is significantly affected by treatment-induced diarr...
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Open AccessMetabolite annotation from knowns to unknowns through knowledge-guided multi-layer metabolic networking
Liquid chromatography - mass spectrometry (LC-MS) based untargeted metabolomics allows to measure both known and unknown metabolites in the metabolome. However, unknown metabolite annotation is a major challen...
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Open AccessGlobal stable-isotope tracing metabolomics reveals system-wide metabolic alternations in aging Drosophila
System-wide metabolic homeostasis is crucial for maintaining physiological functions of living organisms. Stable-isotope tracing metabolomics allows to unravel metabolic activity quantitatively by measuring th...
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Open AccessUSP1-trap** lesions as a source of DNA replication stress and genomic instability
The deubiquitinase USP1 is a critical regulator of genome integrity through the deubiquitylation of Fanconi Anemia proteins and the DNA replication processivity factor, proliferating cell nuclear antigen (PCNA...
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Open AccessAltered synthesis of genes associated with short-chain fatty acids in the gut of patients with atrial fibrillation
The gut microbiota provides health benefits in humans by producing short-chain fatty acids (SCFAs), whose deficiency causes multiple disorders and inflammatory diseases. However, gut bacteria producing SCFAs i...
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Open AccessIon mobility-based sterolomics reveals spatially and temporally distinctive sterol lipids in the mouse brain
Aberrant sterol lipid metabolism is associated with physiological dysfunctions in the aging brain and aging-dependent disorders such as neurodegenerative diseases. There is an unmet demand to comprehensively p...
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Open AccessModeling human activity dynamics: an object-class oriented space–time composite model based on social media and urban infrastructure data
Modeling human activity dynamics is important for many application domains. However, there are problems inherent in modeling population information, since the number of people inside a given area can change dy...
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Open AccessSingle-molecule imaging reveals replication fork coupled formation of G-quadruplex structures hinders local replication stress signaling
Guanine-rich DNA sequences occur throughout the human genome and can transiently form G-quadruplex (G4) structures that may obstruct DNA replication, leading to genomic instability. Here, we apply multi-color ...
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Open AccessIon mobility collision cross-section atlas for known and unknown metabolite annotation in untargeted metabolomics
The metabolome includes not just known but also unknown metabolites; however, metabolite annotation remains the bottleneck in untargeted metabolomics. Ion mobility – mass spectrometry (IM-MS) has emerged as a ...
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Open AccessMetagenomic data-mining reveals enrichment of trimethylamine-N-oxide synthesis in gut microbiome in atrial fibrillation patients
The gut bacteria-derived metabolite trimethylamine-N-oxide (TMAO) has been discussed in various cardiometabolic diseases. However, evidence characterizing the microbial population responsible for TMAO accumula...
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Open AccessMetabolic reaction network-based recursive metabolite annotation for untargeted metabolomics
Large-scale metabolite annotation is a challenge in liquid chromatogram-mass spectrometry (LC-MS)-based untargeted metabolomics. Here, we develop a metabolic reaction network (MRN)-based recursive algorithm (M...
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Open AccessUltrafast data mining of molecular assemblies in multiplexed high-density super-resolution images
Multicolor single-molecule localization super-resolution microscopy has enabled visualization of ultrafine spatial organizations of molecular assemblies within cells. Despite many efforts, current approaches f...
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Open AccessSpatiotemporal dynamics of homologous recombination repair at single collapsed replication forks
Homologous recombination (HR) is a crucial pathway for the repair of DNA double-strand breaks. BRCA1/2 breast cancer proteins are key players in HR via their mediation of RAD51 nucleofilament formation and fun...
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Open AccessA Method for Quantifying Molecular Interactions Using Stochastic Modelling and Super-Resolution Microscopy
We introduce the Interaction Factor (IF), a measure for quantifying the interaction of molecular clusters in super-resolution microscopy images. The IF is robust in the sense that it is independent of cluster ...
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Open AccessProbing the Spatial Organization of Molecular Complexes Using Triple-Pair-Correlation
Super-resolution microscopy coupled with multiplexing techniques can resolve specific spatial arrangements of different components within molecular complexes. However, reliable quantification and analysis of s...
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Article
Open AccessFixed point theorems on cone 2-metric spaces over Banach algebras and an application
In this paper, the concept of cone 2-metric spaces over Banach algebras is introduced and some existence and uniqueness theorems of fixed points for some map**s satisfying certain contractive conditions are ...
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Article
Open AccessAutomatic determination of the arterial input function in dynamic susceptibility contrast MRI: comparison of different reproducible clustering algorithms
Arterial input function (AIF) plays an important role in the quantification of cerebral hemodynamics. The purpose of this study was to select the best reproducible clustering method for AIF detection by compar...
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Open AccessFixed point theorems of ordered contractive map**s on cone metric spaces over Banach algebras
In this paper, the concept of ordered contractive map**s is introduced on cone metric spaces over Banach algebras, and some existence theorems of fixed points for such map**s are obtained. As an applicatio...
