orbitrap fusion tribrid mass spectrometer  (Thermo Fisher)


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    Thermo Fisher orbitrap fusion tribrid mass spectrometer
    Orbitrap Fusion Tribrid Mass Spectrometer, supplied by Thermo Fisher, used in various techniques. Bioz Stars score: 99/100, based on 551 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/orbitrap fusion tribrid mass spectrometer/product/Thermo Fisher
    Average 99 stars, based on 551 article reviews
    Price from $9.99 to $1999.99
    orbitrap fusion tribrid mass spectrometer - by Bioz Stars, 2020-05
    99/100 stars

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    Injection:

    Article Title: Transferrin Receptor Is a Specific Ferroptosis Marker
    Article Snippet: .. Desalted peptides were injected onto an EASY-Spray PepMap RSLC C18 50 cm × 75 μm column (Thermo Scientific), which was coupled to the Orbitrap Fusion Tribrid mass spectrometer (Thermo Scientific). ..

    Liquid Chromatography:

    Article Title: Proteomics-Based Detection of Immune Dysfunction in an Elite Adventure Athlete Trekking Across the Antarctica
    Article Snippet: .. All samples were measured with a combination of a nano Acquity ultraperformance liquid chromatography (UPLC) system (Waters Corporation, Milford, MA, USA) and a Thermo Scientific Orbitrap Fusion Tribrid Mass Spectrometer in data independent analysis (DIA) mode (Thermo Fisher Scientific, Waltham, MA, USA). .. Peptides were separated on an analytical column ethylene bridged hybrid (BEH) C18, 130A, 1.7 μm, 75 μm × 150 mm (Waters Corporation, Milford, MA, USA).

    Article Title: Stasimon/Tmem41b localizes to mitochondria-associated ER membranes and is essential for mouse embryonic development
    Article Snippet: .. The resulting peptides were processed using a Dionex Ultimate 3000 Nano liquid chromatography system, and electrosprayed into an Orbitrap Fusion Tribrid mass spectrometer equipped with an EASY-Spray source (Thermo Scientific). .. Tandem mass spectra were analyzed using the Proteome Discoverer 1.4 software (Thermo Finnigan) to search the human Uniprot protein database (September 2014 release).

    Mass Spectrometry:

    Article Title: Elastin is heterogeneously cross-linked
    Article Snippet: .. The nano-HPLC system was coupled to an Orbitrap Fusion Tribrid mass spectrometer (ThermoFisher Scientific) equipped with a Nanospray Flex Ion Source. .. Data were acquired using data-dependent MS/MS mode.

    Article Title: Proteomics-Based Detection of Immune Dysfunction in an Elite Adventure Athlete Trekking Across the Antarctica
    Article Snippet: .. All samples were measured with a combination of a nano Acquity ultraperformance liquid chromatography (UPLC) system (Waters Corporation, Milford, MA, USA) and a Thermo Scientific Orbitrap Fusion Tribrid Mass Spectrometer in data independent analysis (DIA) mode (Thermo Fisher Scientific, Waltham, MA, USA). .. Peptides were separated on an analytical column ethylene bridged hybrid (BEH) C18, 130A, 1.7 μm, 75 μm × 150 mm (Waters Corporation, Milford, MA, USA).

    Article Title: Transferrin Receptor Is a Specific Ferroptosis Marker
    Article Snippet: .. Desalted peptides were injected onto an EASY-Spray PepMap RSLC C18 50 cm × 75 μm column (Thermo Scientific), which was coupled to the Orbitrap Fusion Tribrid mass spectrometer (Thermo Scientific). ..

    Article Title: Antibacterial effects of nanopillar surfaces are mediated by cell impedance, penetration and induction of oxidative stress
    Article Snippet: .. All spectra were acquired using an Orbitrap Fusion Tribrid mass spectrometer controlled by Xcalibur 2.0 software (Thermo Scientific) and operated in data-dependent acquisition mode using an SPS-MS3 workflow. .. FTMS1 spectra were collected at a resolution of 120,000, with an automatic gain control (AGC) target of 200,000 and a max injection time of 50 ms. Precursors were filtered with an intensity threshold of 5000, according to charge state (to include charge states 2–7) and with monoisotopic precursor selection.

    Article Title: Antibacterial effects of nanopillar surfaces are mediated by cell impedance, penetration and induction of oxidative stress
    Article Snippet: .. The resulting fractions were evaporated to dryness and resuspended in 1% formic acid prior to analysis by nano-LC MSMS using an Orbitrap Fusion Tribrid mass spectrometer (Thermo Scientific). .. Nano-LC mass spectrometry High pH reversed-phase fractions were further fractionated using an Ultimate 3000 nano-LC system in line with an Orbitrap Fusion Tribrid mass spectrometer (Thermo Scientific).

    Article Title: Antibacterial effects of nanopillar surfaces are mediated by cell impedance, penetration and induction of oxidative stress
    Article Snippet: .. Nano-LC mass spectrometry High pH reversed-phase fractions were further fractionated using an Ultimate 3000 nano-LC system in line with an Orbitrap Fusion Tribrid mass spectrometer (Thermo Scientific). .. In brief, peptides in 1% (v/v) formic acid were injected onto an Acclaim PepMap C18 nano-trap column (Thermo Scientific).

    Article Title: Low red/far-red ratio as a signal promotes carbon assimilation of soybean seedlings by increasing the photosynthetic capacity
    Article Snippet: .. The resulting peptides were then analyzed using an Orbitrap Fusion™ Tribrid™ mass spectrometer (Thermo Fisher Scientific). .. Database search and analysis MaxQuant, with an integrated Andromeda search engine (v.1.5.2.8), was used to process the MS/MS data. iTRAQ 8-plex was used for the quantification, and the default values of all the other parameters in MaxQuant were selected, as reported by Yang et al. [ ].

    Article Title: Stasimon/Tmem41b localizes to mitochondria-associated ER membranes and is essential for mouse embryonic development
    Article Snippet: .. The resulting peptides were processed using a Dionex Ultimate 3000 Nano liquid chromatography system, and electrosprayed into an Orbitrap Fusion Tribrid mass spectrometer equipped with an EASY-Spray source (Thermo Scientific). .. Tandem mass spectra were analyzed using the Proteome Discoverer 1.4 software (Thermo Finnigan) to search the human Uniprot protein database (September 2014 release).

    Software:

    Article Title: Antibacterial effects of nanopillar surfaces are mediated by cell impedance, penetration and induction of oxidative stress
    Article Snippet: .. All spectra were acquired using an Orbitrap Fusion Tribrid mass spectrometer controlled by Xcalibur 2.0 software (Thermo Scientific) and operated in data-dependent acquisition mode using an SPS-MS3 workflow. .. FTMS1 spectra were collected at a resolution of 120,000, with an automatic gain control (AGC) target of 200,000 and a max injection time of 50 ms. Precursors were filtered with an intensity threshold of 5000, according to charge state (to include charge states 2–7) and with monoisotopic precursor selection.

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    Thermo Fisher orbitrap fusion tribrid mass spectrometer
    Experiment workflow. A) Control and AD human postmortem frontal cortex brain tissues (n=5 each group) were homogenized in 8M urea lysis buffer. For both global and ubiquitylome analysis, brain protein extracts from each sample was first denatured, alkylated and proteolytically digested followed by peptide desalting as described in methods. For global proteome analysis, peptides were analyzed by LC-MS/MS on <t>Orbitrap</t> Fusion <t>Tribrid</t> mass spectrometer. For brain ubiquitylome analysis, peptides were subjected to di-Gly affinity enrichment as described in methods followed by LC-MS/MS analysis in replicate on an Orbitrap Fusion Tribrid mass spectrometer. Protein abundance was calculated by peptide ion-intensity measurements across LC-MS runs using the label free quantification (LFQ) algorithm in MaxQuant.
    Orbitrap Fusion Tribrid Mass Spectrometer, supplied by Thermo Fisher, used in various techniques. Bioz Stars score: 99/100, based on 1054 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/orbitrap fusion tribrid mass spectrometer/product/Thermo Fisher
    Average 99 stars, based on 1054 article reviews
    Price from $9.99 to $1999.99
    orbitrap fusion tribrid mass spectrometer - by Bioz Stars, 2020-05
    99/100 stars
      Buy from Supplier

    99
    Thermo Fisher orbitrap fusion lumos mass spectrometer
    Gas phase segmentation (GPS) improves ADPr peptide detection. (A) A screenshot of the ADP-ribose product ion triggered EThcD and HCD data acquisition method on the <t>Orbitrap</t> Fusion <t>Lumos.</t> (B) Area under the curve (AUC) of the four ADPr fragment ions (136.06, 250.09, 348.07, and 428.04 m / z ) dissociated from an ARTD8/PARP14-MARylated STAT1 peptide using HCD. (C) Pilot Af1521 enrichment study to determine the optimal collision energy for ADP-ribose product ion screening and ADPr peptide identification. Only high confidence (HCD and EThcD combined peptides) were used in this plot (more details in Figure 3 ). (D) A schematic showing the principle of GPS using multiple injections. (E) The extracted ion chromatograms of the ADPr fragment peak (348.07 m / z ) in each full scan and GPS injection. (F,G) Precursor ion m / z and retention time of triggered EThcD spectra in full scan and combined GPS scans.
    Orbitrap Fusion Lumos Mass Spectrometer, supplied by Thermo Fisher, used in various techniques. Bioz Stars score: 99/100, based on 61 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/orbitrap fusion lumos mass spectrometer/product/Thermo Fisher
    Average 99 stars, based on 61 article reviews
    Price from $9.99 to $1999.99
    orbitrap fusion lumos mass spectrometer - by Bioz Stars, 2020-05
    99/100 stars
      Buy from Supplier

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    Experiment workflow. A) Control and AD human postmortem frontal cortex brain tissues (n=5 each group) were homogenized in 8M urea lysis buffer. For both global and ubiquitylome analysis, brain protein extracts from each sample was first denatured, alkylated and proteolytically digested followed by peptide desalting as described in methods. For global proteome analysis, peptides were analyzed by LC-MS/MS on Orbitrap Fusion Tribrid mass spectrometer. For brain ubiquitylome analysis, peptides were subjected to di-Gly affinity enrichment as described in methods followed by LC-MS/MS analysis in replicate on an Orbitrap Fusion Tribrid mass spectrometer. Protein abundance was calculated by peptide ion-intensity measurements across LC-MS runs using the label free quantification (LFQ) algorithm in MaxQuant.

    Journal: Proteomics

    Article Title: Quantitative Analysis of the Brain Ubiquitylome in Alzheimer’s Disease

    doi: 10.1002/pmic.201800108

    Figure Lengend Snippet: Experiment workflow. A) Control and AD human postmortem frontal cortex brain tissues (n=5 each group) were homogenized in 8M urea lysis buffer. For both global and ubiquitylome analysis, brain protein extracts from each sample was first denatured, alkylated and proteolytically digested followed by peptide desalting as described in methods. For global proteome analysis, peptides were analyzed by LC-MS/MS on Orbitrap Fusion Tribrid mass spectrometer. For brain ubiquitylome analysis, peptides were subjected to di-Gly affinity enrichment as described in methods followed by LC-MS/MS analysis in replicate on an Orbitrap Fusion Tribrid mass spectrometer. Protein abundance was calculated by peptide ion-intensity measurements across LC-MS runs using the label free quantification (LFQ) algorithm in MaxQuant.

    Article Snippet: Peptides were analyzed on an Orbitrap Fusion Tribrid Mass Spectrometer (ThermoFisher Scientific).

    Techniques: Lysis, Liquid Chromatography with Mass Spectroscopy, Mass Spectrometry

    Proteomic analysis of tryptic peptides from (a) expressed archetype and splice variants of human OGDH E1 and (b) OGDH E1 separated from rat brain and heart mitochondria. Results are shown as PSM for the indicated peptide or the mean of peptides a and b expressed as percentages of the total E1 protein PSM and are means ± S.E.M. for three or four observations. Values of total E1 protein PSM were archetype 3571 ± 552 ( n = 4), LS1 3719 ± 552 ( n = 3), Insert 3782 ± 1961 ( n = 3), LS1/Insert 3407 ± 156 ( n = 3), rat brain OGDH E1 620 ± 126 ( n = 4) and rat heart OGDH E1 1086 ± 126 ( n = 4). All observations were obtained using an Orbitrap Fusion Tribrid mass spectrometer. The number of PSM is a measure of the amount of a peptide.

    Journal: The Biochemical journal

    Article Title: Calcium-insensitive splice variants of mammalian E1 subunit of 2-oxoglutarate dehydrogenase complex with tissue-specific patterns of expression

    doi: 10.1042/BCJ20160135

    Figure Lengend Snippet: Proteomic analysis of tryptic peptides from (a) expressed archetype and splice variants of human OGDH E1 and (b) OGDH E1 separated from rat brain and heart mitochondria. Results are shown as PSM for the indicated peptide or the mean of peptides a and b expressed as percentages of the total E1 protein PSM and are means ± S.E.M. for three or four observations. Values of total E1 protein PSM were archetype 3571 ± 552 ( n = 4), LS1 3719 ± 552 ( n = 3), Insert 3782 ± 1961 ( n = 3), LS1/Insert 3407 ± 156 ( n = 3), rat brain OGDH E1 620 ± 126 ( n = 4) and rat heart OGDH E1 1086 ± 126 ( n = 4). All observations were obtained using an Orbitrap Fusion Tribrid mass spectrometer. The number of PSM is a measure of the amount of a peptide.

    Article Snippet: The number of peptide spectral matches (PSM) can be used as a measure of the amount of a particular peptide [ – ]. shows the values of PSM for the various relevant peptides with mass/charge ratios in the range 300–2000 which were detected in studies using the Orbitrap Fusion Tribrid mass spectrometer on samples of expressed human archetype and the three splice variants.

    Techniques: Mass Spectrometry

    Metabolic Labeling and Workflow. ( A ) Glucose, acetate, fatty acids, and amino acids produce acetyl-CoA for use in acetylating cytoplasmic and nuclear proteins. The thicker arrows indicate that glucose contributes more to the production of acetyl-coA that subsequently acetylates proteins, compared to acetate. ( B ) The workflow consisted of growing HeLa cells in heavy-labeled media, collecting samples at eight time points, lysing the cells, digesting the proteins, enriching for acetylated peptides, and analyzing the peptides by mass spectrometry. The Orbitrap image is adapted from Thermo Fisher Scientific 56 . The cartoon cell matter and lab equipment were slightly modified from Servier Medical Art 57 .

    Journal: Scientific Reports

    Article Title: Proteome-wide acetylation dynamics in human cells

    doi: 10.1038/s41598-017-09918-3

    Figure Lengend Snippet: Metabolic Labeling and Workflow. ( A ) Glucose, acetate, fatty acids, and amino acids produce acetyl-CoA for use in acetylating cytoplasmic and nuclear proteins. The thicker arrows indicate that glucose contributes more to the production of acetyl-coA that subsequently acetylates proteins, compared to acetate. ( B ) The workflow consisted of growing HeLa cells in heavy-labeled media, collecting samples at eight time points, lysing the cells, digesting the proteins, enriching for acetylated peptides, and analyzing the peptides by mass spectrometry. The Orbitrap image is adapted from Thermo Fisher Scientific 56 . The cartoon cell matter and lab equipment were slightly modified from Servier Medical Art 57 .

    Article Snippet: Acetylated peptides were then enriched using anti-acetyl-lysine antibodies and run on nano liquid chromatography coupled online with tandem mass spectrometry (nanoLC-MS/MS) on an Orbitrap Fusion mass spectrometer (Thermo Fisher Scientific), which allows for detection of isotope incorporation into acetylated proteins.

    Techniques: Labeling, Mass Spectrometry, Modification

    Gas phase segmentation (GPS) improves ADPr peptide detection. (A) A screenshot of the ADP-ribose product ion triggered EThcD and HCD data acquisition method on the Orbitrap Fusion Lumos. (B) Area under the curve (AUC) of the four ADPr fragment ions (136.06, 250.09, 348.07, and 428.04 m / z ) dissociated from an ARTD8/PARP14-MARylated STAT1 peptide using HCD. (C) Pilot Af1521 enrichment study to determine the optimal collision energy for ADP-ribose product ion screening and ADPr peptide identification. Only high confidence (HCD and EThcD combined peptides) were used in this plot (more details in Figure 3 ). (D) A schematic showing the principle of GPS using multiple injections. (E) The extracted ion chromatograms of the ADPr fragment peak (348.07 m / z ) in each full scan and GPS injection. (F,G) Precursor ion m / z and retention time of triggered EThcD spectra in full scan and combined GPS scans.

    Journal: Journal of Proteome Research

    Article Title: A Study into the ADP-Ribosylome of IFN-γ-Stimulated THP-1 Human Macrophage-like Cells Identifies ARTD8/PARP14 and ARTD9/PARP9 ADP-Ribosylation

    doi: 10.1021/acs.jproteome.8b00895

    Figure Lengend Snippet: Gas phase segmentation (GPS) improves ADPr peptide detection. (A) A screenshot of the ADP-ribose product ion triggered EThcD and HCD data acquisition method on the Orbitrap Fusion Lumos. (B) Area under the curve (AUC) of the four ADPr fragment ions (136.06, 250.09, 348.07, and 428.04 m / z ) dissociated from an ARTD8/PARP14-MARylated STAT1 peptide using HCD. (C) Pilot Af1521 enrichment study to determine the optimal collision energy for ADP-ribose product ion screening and ADPr peptide identification. Only high confidence (HCD and EThcD combined peptides) were used in this plot (more details in Figure 3 ). (D) A schematic showing the principle of GPS using multiple injections. (E) The extracted ion chromatograms of the ADPr fragment peak (348.07 m / z ) in each full scan and GPS injection. (F,G) Precursor ion m / z and retention time of triggered EThcD spectra in full scan and combined GPS scans.

    Article Snippet: LC–MS/MS Analysis All peptide samples were analyzed on an Orbitrap Fusion Lumos mass spectrometer fronted with an EASY-Spray Source, coupled to an Easy-nLC1000 HPLC pump (Thermo Fisher Scientific).

    Techniques: Injection