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Showing 1–13 of 13 results
Advanced filters: Author: Benjamin T. Backus Clear advanced filters

  • The Mass Spectrometry Query Language (MassQL) is an open-source language that enables instrument-independent searching across mass spectrometry data for complex patterns of interest via concise and expressive queries without the need for programming skills.

    • Tito Damiani
    • Alan K. Jarmusch
    • Mingxun Wang
    ResearchOpen Access
    Nature Methods
    Volume: 22, P: 1247-1254

  • This article describes a chemical proteomic approach to quantitatively relate serine/threonine phosphorylation to changes in the reactivity of cysteine residues, thereby affecting their potential to be post-translationally modified and/or targeted by electrophilic small molecules.

    • Esther K. Kemper
    • Yuanjin Zhang
    • Benjamin F. Cravatt
    Research
    Nature Methods
    Volume: 19, P: 341-352

  • Small molecules are powerful tools for investigating protein function, and can serve as leads for new therapeutics, but most human proteins lack known small-molecule ligands; here, a quantitative analysis of cysteine-reactive small-molecule fragments screened against thousands of proteins is reported.

    • Keriann M. Backus
    • Bruno E. Correia
    • Benjamin F. Cravatt
    Research
    Nature
    Volume: 534, P: 570-574

  • The tau protein has been implicated in neurodegenerative disorders and can propagate from cell to cell. Here, the authors show that tau acetylation reduces its degradation by chaperone-mediated autophagy, causing re-routing to other autophagic pathways and increasing extracellular tau release.

    • Benjamin Caballero
    • Mathieu Bourdenx
    • Ana Maria Cuervo
    ResearchOpen Access
    Nature Communications
    Volume: 12, P: 1-18

  • Current methods for detection of tuberculosis rely mostly on bacterial culture from sputum. Here, the authors provide preclinical evidence that a positron-emitting mimic of the disaccharide trehalose ([18F]FDT) can be used as a radiotracer for the imaging of tuberculosis-associated lesions and monitoring the effects of treatment.

    • R. M. Naseer Khan
    • Yong-Mo Ahn
    • Benjamin G. Davis
    ResearchOpen Access
    Nature Communications
    Volume: 15, P: 1-19

  • The Cancer Genome Atlas Research Network reports an integrative analysis of more than 400 samples of clear cell renal cell carcinoma based on genomic, DNA methylation, RNA and proteomic characterisation; frequent mutations were identified in the PI(3)K/AKT pathway, suggesting this pathway might be a potential therapeutic target, among the findings is also a demonstration of metabolic remodelling which correlates with tumour stage and severity.

    • Chad J. Creighton
    • Margaret Morgan
    • Heidi J. Sofia.
    ResearchOpen Access
    Nature
    Volume: 499, P: 43-49

  • A chemical proteomic strategy has now been reported for the global profiling of lysine reactivity and ligandability. Using this approach, >9000 lysines in the human proteome were evaluated, leading to the discovery of hyper-reactive lysines, and lysines that can be targeted by electrophilic small molecules to perturb enzyme function and protein–protein interactions.

    • Stephan M. Hacker
    • Keriann M. Backus
    • Benjamin F. Cravatt
    Research
    Nature Chemistry
    Volume: 9, P: 1181-1190

  • The use of synthetic analogs to explore substrate promiscuity during trehalose incorporation into the mycobacterial cell wall yields a fluorescent probe that can be used to examine M. tuberculosis cell biology and detect this harmful pathogen within macrophages.

    • Keriann M Backus
    • Helena I Boshoff
    • Benjamin G Davis
    Research
    Nature Chemical Biology
    Volume: 7, P: 228-235

  • The Cancer Genome Atlas consortium reports on their genome-wide characterization of somatic alterations in colorectal cancer; in addition to revealing a remarkably consistent pattern of genomic alteration, with 24 genes being significantly mutated, the study identifies new targets for therapeutic intervention and suggests an important role for MYC-directed transcriptional activation and repression.

    • Donna M. Muzny
    • Matthew N. Bainbridge
    • Elizabeth Thomson.
    ResearchOpen Access
    Nature
    Volume: 487, P: 330-337

  • The Cancer Genome Atlas Network describe their multifaceted analyses of primary breast cancers, shedding light on breast cancer heterogeneity; although only three genes (TP53, PIK3CA and GATA3) are mutated at a frequency greater than 10% across all breast cancers, numerous subtype-associated and novel mutations were identified.

    • Daniel C. Koboldt
    • Robert S. Fulton
    • Jacqueline D. Palchik
    ResearchOpen Access
    Nature
    Volume: 490, P: 61-70

  • Comprehensive analyses of 178 lung squamous cell carcinomas by The Cancer Genome Atlas project show that the tumour type is characterized by complex genomic alterations, with statistically recurrent mutations in 11 genes, including TP53 in nearly all samples; a potential therapeutic target is identified in most of the samples studied.

    • Peter S. Hammerman
    • Michael S. Lawrence
    • Matthew Meyerson
    ResearchOpen Access
    Nature
    Volume: 489, P: 519-525