ultimate nano hplc system  (Thermo Fisher)


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    Structured Review

    Thermo Fisher ultimate nano hplc system
    <t>Nano-HPLC/nano-ESI-LTQ-Orbitrap-MS/MS</t> analysis of a cross-linked peptide mixture between CaM and skMLCK F19E/L31W peptide. The reaction was conducted at 1 2+ with a 50-fold molar excess of SBC (30 min, irradiation 8 J/cm 2 ,). (A) Mass spectrum (MS) obtained at an LC retention time of 59.94 min. The 4+ charged signal of a cross-linked product at m/z 635.077 is shown enlarged. (B) Fragment ion mass spectrum (CID-MS/MS). The cross-linked product comprises amino acids 91–106 of CaM (α-peptide in red) and amino acids 1–4 of skMLCK F19E/L31W (β-peptide in blue), in which Lys-94 of CaM is connected to Leu-1 of skMLCK F19E/L31W.
    Ultimate Nano Hplc System, supplied by Thermo Fisher, used in various techniques. Bioz Stars score: 91/100, based on 10 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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    Average 91 stars, based on 10 article reviews
    Price from $9.99 to $1999.99
    ultimate nano hplc system - by Bioz Stars, 2020-04
    91/100 stars

    Images

    1) Product Images from "Munc13-Like skMLCK Variants Cannot Mimic the Unique Calmodulin Binding Mode of Munc13 as Evidenced by Chemical Cross-Linking and Mass Spectrometry"

    Article Title: Munc13-Like skMLCK Variants Cannot Mimic the Unique Calmodulin Binding Mode of Munc13 as Evidenced by Chemical Cross-Linking and Mass Spectrometry

    Journal: PLoS ONE

    doi: 10.1371/journal.pone.0075119

    Nano-HPLC/nano-ESI-LTQ-Orbitrap-MS/MS analysis of a cross-linked peptide mixture between CaM and skMLCK F19E/L31W peptide. The reaction was conducted at 1 2+ with a 50-fold molar excess of SBC (30 min, irradiation 8 J/cm 2 ,). (A) Mass spectrum (MS) obtained at an LC retention time of 59.94 min. The 4+ charged signal of a cross-linked product at m/z 635.077 is shown enlarged. (B) Fragment ion mass spectrum (CID-MS/MS). The cross-linked product comprises amino acids 91–106 of CaM (α-peptide in red) and amino acids 1–4 of skMLCK F19E/L31W (β-peptide in blue), in which Lys-94 of CaM is connected to Leu-1 of skMLCK F19E/L31W.
    Figure Legend Snippet: Nano-HPLC/nano-ESI-LTQ-Orbitrap-MS/MS analysis of a cross-linked peptide mixture between CaM and skMLCK F19E/L31W peptide. The reaction was conducted at 1 2+ with a 50-fold molar excess of SBC (30 min, irradiation 8 J/cm 2 ,). (A) Mass spectrum (MS) obtained at an LC retention time of 59.94 min. The 4+ charged signal of a cross-linked product at m/z 635.077 is shown enlarged. (B) Fragment ion mass spectrum (CID-MS/MS). The cross-linked product comprises amino acids 91–106 of CaM (α-peptide in red) and amino acids 1–4 of skMLCK F19E/L31W (β-peptide in blue), in which Lys-94 of CaM is connected to Leu-1 of skMLCK F19E/L31W.

    Techniques Used: High Performance Liquid Chromatography, Mass Spectrometry, Chick Chorioallantoic Membrane Assay, Irradiation

    Nano-HPLC/nano-ESI-LTQ-Orbitrap-MS/MS analysis of a cross-linked peptide mixture between CaM and skMLCK peptide. The reaction was conducted at 1 2+ with a 50-fold molar excess of BS 2 G for 60 min. (A) Mass spectrum (MS) obtained at an LC retention time of 70.42 min. The 4+ charged signal of a cross-linked product at m/z 783.398 is shown enlarged. (B) Fragment ion mass spectrum (CID-MS/MS). The cross-linked product comprises amino acids 14–30 of CaM (α-peptide in red) and amino acids 8–18 of skMLCK (β-peptide in blue), in which Lys-21 of CaM is connected to Lys-8 of skMLCK.
    Figure Legend Snippet: Nano-HPLC/nano-ESI-LTQ-Orbitrap-MS/MS analysis of a cross-linked peptide mixture between CaM and skMLCK peptide. The reaction was conducted at 1 2+ with a 50-fold molar excess of BS 2 G for 60 min. (A) Mass spectrum (MS) obtained at an LC retention time of 70.42 min. The 4+ charged signal of a cross-linked product at m/z 783.398 is shown enlarged. (B) Fragment ion mass spectrum (CID-MS/MS). The cross-linked product comprises amino acids 14–30 of CaM (α-peptide in red) and amino acids 8–18 of skMLCK (β-peptide in blue), in which Lys-21 of CaM is connected to Lys-8 of skMLCK.

    Techniques Used: High Performance Liquid Chromatography, Mass Spectrometry, Chick Chorioallantoic Membrane Assay

    2) Product Images from "Analysis of Nidogen-1/Laminin γ1 Interaction by Cross-Linking, Mass Spectrometry, and Computational Modeling Reveals Multiple Binding Modes"

    Article Title: Analysis of Nidogen-1/Laminin γ1 Interaction by Cross-Linking, Mass Spectrometry, and Computational Modeling Reveals Multiple Binding Modes

    Journal: PLoS ONE

    doi: 10.1371/journal.pone.0112886

    Nano-HPLC/nano-ESI-LTQ-Orbitrap-MS/MS analysis of cross-linked peptides derived from nidogen-1 G2 and G3 domain. The cross-linked product comprises amino acids 407–420 of the G2 domain (α-peptide, red) and 939–949 of the G3 domain (β-peptide, green), in which K-407 is connected to K-948/949.
    Figure Legend Snippet: Nano-HPLC/nano-ESI-LTQ-Orbitrap-MS/MS analysis of cross-linked peptides derived from nidogen-1 G2 and G3 domain. The cross-linked product comprises amino acids 407–420 of the G2 domain (α-peptide, red) and 939–949 of the G3 domain (β-peptide, green), in which K-407 is connected to K-948/949.

    Techniques Used: High Performance Liquid Chromatography, Mass Spectrometry, Derivative Assay

    Related Articles

    Activity Assay:

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    Mass Spectrometry:

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    Article Title: Analysis of Nidogen-1/Laminin γ1 Interaction by Cross-Linking, Mass Spectrometry, and Computational Modeling Reveals Multiple Binding Modes
    Article Snippet: Nano-HPLC/Nano-ESI-LTQ-Orbitrap-MS/MS Fractionation of peptide mixtures was carried out on an Ultimate nano-HPLC system (Thermo Fisher Scientific) using reversed phase C18 columns (precolumn: Acclaim PepMap, 300 µm • 5 mm, 5 µm, 100 Å, separation column: Acclaim PepMap, 75 µm • 250 mm, 3 µm, 100 Å, Thermo Fisher Scientific). .. The nano-HPLC system was directly coupled to the nano-ESI source (Proxeon) of an LTQ-Orbitrap XL hybrid mass spectrometer (Thermo Fisher Scientific).

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    Article Title: Type I Arginine Methyltransferases PRMT1 and PRMT-3 Act Distributively
    Article Snippet: .. Proteolysis products were purified by reversed phase chromatography on an UltiMate Nano-HPLC system (LC Packings) coupled to an LTQ-Orbitrap XL hybrid mass spectrometer (ThermoFisher Scientific) equipped with a nanoelectrospray ionization source (Proxeon). ..

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    BIA-KA:

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    Derivative Assay:

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    High Performance Liquid Chromatography:

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    Article Title: Excreted/secreted Schistosoma mansoni venom allergen-like 9 (SmVAL9) modulates host extracellular matrix remodelling gene expression
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    Flow Cytometry:

    Article Title: Proteomic and Bioinformatics Analyses of Mouse Liver Microsomes
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    Article Title: A New Paradigm for MAPK: Structural Interactions of hERK1 with Mitochondria in HeLa Cells
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    Article Title: Deterministic protein inference for shotgun proteomics data provides new insights into Arabidopsis pollen development and function
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    Article Title: Subunits of the Drosophila CCR4-NOT complex and their roles in mRNA deadenylation
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    Article Title: Pyruvate Formate-Lyase Interacts Directly with the Formate Channel FocA to Regulate Formate Translocation
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    Article Title: Solution Insights into the Structure of the Efb/C3 Complement Inhibitory Complex as Revealed by Lysine Acetylation and Mass Spectrometry
    Article Snippet: The Ultimate nano HPLC system was controlled by Ultichrom software (Dionex, Bavel, The Netherlands). .. After a 30-minute equilibration at 50μL/min flow rate of the LC system with buffer A (99.95% water and 0.05% TFA), 0.3 nmol pre-digested protein was injected into the Rheodyne injection valve and loaded onto the peptide trap at 50μL/min flow rate (delivered by the ABI pump) for three minutes to accomplish sample desalting.

    Article Title: Excreted/secreted Schistosoma mansoni venom allergen-like 9 (SmVAL9) modulates host extracellular matrix remodelling gene expression
    Article Snippet: 2.8 MS For reversed-phase (RP) nano-scale liquid chromatography (LC) ion-trap-MS/MS analysis, the glycopeptide sample was applied to a reverse-phase column (PepMap, 3 μm, 75 μm × 100 mm; Dionex/LC Packings, NL) using an Ultimate nano-HPLC system, a Famos autosampler, and a Switchos trap-column system (Dionex/LC Packings). .. The column was equilibrated at room temperature with eluent A (0.1% formic acid in water) at a flow rate of 200 nl/min.

    Article Title: The respiratory molybdo-selenoprotein formate dehydrogenases of Escherichia coli have hydrogen: benzyl viologen oxidoreductase activity
    Article Snippet: The peptide extracts were analyzed by LC/MS on an UltiMate Nano-HPLC system (LC Packings/Dionex) coupled to an LTQ-Orbitrap XL mass spectrometer (ThermoFisher Scientific) equipped with a nanoelectrospray ionization source (Proxeon). .. The samples were loaded onto a trapping column (Acclaim PepMap C18, 300 μm × 5 mm, 5 μm, 100Å, LC Packings) and washed for 15 min with 0.1% trifluoroacetic acid at a flow rate of 30 μl/min.

    Peptide Mass Fingerprinting:

    Article Title: A New Paradigm for MAPK: Structural Interactions of hERK1 with Mitochondria in HeLa Cells
    Article Snippet: The minimal requirement for accepting a protein as identified was at least one peptide sequence match above identity threshold in coincidence with at least four peptide masses assigned in the PMF. .. An Ultimate nano-HPLC system (Dionex) consisting of an autosampler, a loading pump, and a nano-HPLC gradient pump connected to a 75-µm-inner diameter column (C18 PepMap, 15-cm length, 5-µm particle size, and 100-Å pore size) was utilized.

    Chromatography:

    Article Title: Proteomic and Bioinformatics Analyses of Mouse Liver Microsomes
    Article Snippet: .. Nanoliquid Chromatography (LC) MS/MS and Protein Identification The tryptic peptide mixture was fractionated with reverse-phase (RP) high-performance liquid chromatography (HPLC) by using an Ultimate nano-HPLC system (Dionex). .. Peptide samples were purified and concentrated with a C18-PepMap precolumn and then separated on an analytical C18-PepMap column (75 μ m ID × 150 mm, 100 Å pore size, 3 mm particle size) at a column flow rate of 300 nL/min.

    Article Title: A subset of myofibroblastic cancer-associated fibroblasts regulate collagen fiber elongation, which is prognostic in multiple cancers
    Article Snippet: .. The labelled peptide mixtures were pooled and offline separated with high-pH reverse phase (RP) linear gradient chromatography using the Waters, XBridge C8 column (150 × 3.0 mm, 3.5 mm particle) with the UltiMate nano-HPLC system generating a total of 30 fractions (Dionex, Sunnyvale, CA, USA) [ ]. .. Each fraction was analyzed using LC-MS with low-pH RP capillary chromatography (PepMap C18, 50 μm ID × 50 cm L, 100 Å pore, 3.5 μm particle) and nanospray ionization FT-MS (Dionex Ultimate 3000 UHPLC system - LTQ-Velos Pro Orbitrap Elite, Thermo Scientific, USA) [ , ].

    SDS Page:

    Article Title: Transcriptome and Proteome Data Reveal Candidate Genes for Pollinator Attraction in Sexually Deceptive Orchids
    Article Snippet: Shotgun Proteomics Frozen labellum tissue of an unpollinated flower from each study species was ground to powder without allowing it to thaw, and resuspended in 150 µL urea protein extraction buffer (65 mM Tris-HCl, 8 M urea, 10% glycerol, 5% β-mercaptoethanol, 2% SDS, 0.025% bromophenol blue), denatured and separated by SDS-PAGE, sliced (13 gel slices per sample) and trypsinised as described previously . .. Proteins were subjected to electrospray ionisation-based LC-MS/MS analysis with a 2D linear ion trap Finnigan LTQ (Thermo Electron Corporation), equipped with an Ultimate Nano HPLC System (Dionex Corporation) exactly as described by Grobei et al. .

    Generated:

    Article Title: An eight-subunit COP9 signalosome with an intact JAMM motif is required for fungal fruit body formation
    Article Snippet: Excised gel pieces were tryptically digested , and peptides were separated by water–acetonitrile gradients on Dionex-NAN75-15-03-C18-PM columns on an ultimate-nano-HPLC system (Dionex, Sunnyvale, CA). .. Online ESI-MS/MS2 spectra were generated on a LCQ-DecaXPplus mass spectrometer (ThermoFinnegan, San Jose, CA).

    Tandem Mass Spectroscopy:

    Article Title: Proteomic and Bioinformatics Analyses of Mouse Liver Microsomes
    Article Snippet: .. Nanoliquid Chromatography (LC) MS/MS and Protein Identification The tryptic peptide mixture was fractionated with reverse-phase (RP) high-performance liquid chromatography (HPLC) by using an Ultimate nano-HPLC system (Dionex). .. Peptide samples were purified and concentrated with a C18-PepMap precolumn and then separated on an analytical C18-PepMap column (75 μ m ID × 150 mm, 100 Å pore size, 3 mm particle size) at a column flow rate of 300 nL/min.

    Article Title: A New Paradigm for MAPK: Structural Interactions of hERK1 with Mitochondria in HeLa Cells
    Article Snippet: An Ultimate nano-HPLC system (Dionex) consisting of an autosampler, a loading pump, and a nano-HPLC gradient pump connected to a 75-µm-inner diameter column (C18 PepMap, 15-cm length, 5-µm particle size, and 100-Å pore size) was utilized. .. Separation was performed with a flow rate of 250 nl/min using a binary gradient starting at 5% solvent B rising to 60% in 50 min. Peptides were directly eluted into an ESI ion trap LCQ Deca XP Plus mass spectrometer (Thermo) with the acquisition duty cycle set to a full scan mass spectrum (m/z 400–1500) followed by two data-dependent MS/MS scans.

    Article Title: Analysis of Nidogen-1/Laminin γ1 Interaction by Cross-Linking, Mass Spectrometry, and Computational Modeling Reveals Multiple Binding Modes
    Article Snippet: Nano-HPLC/Nano-ESI-LTQ-Orbitrap-MS/MS Fractionation of peptide mixtures was carried out on an Ultimate nano-HPLC system (Thermo Fisher Scientific) using reversed phase C18 columns (precolumn: Acclaim PepMap, 300 µm • 5 mm, 5 µm, 100 Å, separation column: Acclaim PepMap, 75 µm • 250 mm, 3 µm, 100 Å, Thermo Fisher Scientific). .. Data were acquired in data-dependent MS/MS mode: Each high-resolution full scan (m/z 350 to 2000, R = 60,000) in the orbitrap was followed by five product ion scans in the LTQ (collision-induced dissociation with 35% normalized collision energy) of the five most intense signals in the full-scan mass spectrum (isolation window 1.5 u).

    Article Title: Deterministic protein inference for shotgun proteomics data provides new insights into Arabidopsis pollen development and function
    Article Snippet: ESI-based LC-MS/MS was performed with a 2D linear ion trap, Finnigan LTQ (Thermo Electron Corporation) equipped with an Ultimate Nano HPLC System (Dionex Corporation). .. The elution of peptides (75 min) followed a gradient of 45% solvent B (80% acetonitrile, 0,2% formic acid in water) for 50 min and 100% solvent B for the next 15 min. Mass spectra were acquired in the mass range of 400–2000 m / z and up to six data dependent MS/MS spectra were recorded from a single survey scan.

    Article Title: Munc13-Like skMLCK Variants Cannot Mimic the Unique Calmodulin Binding Mode of Munc13 as Evidenced by Chemical Cross-Linking and Mass Spectrometry
    Article Snippet: Nano-HPLC/nano-ESI-LTQ-Orbitrap-MS/MS Tryptic peptide mixtures were fractionated on an Ultimate nano-HPLC system equipped with Famos autosampler and Switchos II (LC-Packings/Dionex, Idstein, Germany) using a trapping column (Acclaim PepMap, C18, 100 µm×20 mm, 5 µm, 100 Å, Dionex) for desalting (15 min, 0.1% (v/v) TFA) followed by a separation column (Acclaim PepMap, C18, 75 µm×200 mm, 3 µm, 100 Å, Dionex) with a 90-min gradient of 0–50% B (A: 5% (v/v) ACN containing 0.1% (v/v) formic acid (FA); B: 80% (v/v) ACN containing 0.08% (v/v) FA). .. Data dependent MS/MS (collision-induced dissociation, CID) experiments (isolation window 2.5 Th) were conducted in the linear ion trap (LTQ) of the five most abundant signals of the full MS scan in the orbitrap (R = 60,000).

    Sequencing:

    Article Title: A New Paradigm for MAPK: Structural Interactions of hERK1 with Mitochondria in HeLa Cells
    Article Snippet: The minimal requirement for accepting a protein as identified was at least one peptide sequence match above identity threshold in coincidence with at least four peptide masses assigned in the PMF. .. An Ultimate nano-HPLC system (Dionex) consisting of an autosampler, a loading pump, and a nano-HPLC gradient pump connected to a 75-µm-inner diameter column (C18 PepMap, 15-cm length, 5-µm particle size, and 100-Å pore size) was utilized.

    Article Title: Protein variation in blood-dwelling schistosome worms generated by differential splicing of micro-exon gene transcripts
    Article Snippet: In order to obtain better coverage, peptides derived from lectin-depleted ESPs were subjected to electrospray tandem MS. Aliquots (1–3 μL) of trypsin-digested spots were loaded onto an Ultimate nano-HPLC system (Dionex) equipped with a PepMap C18 trap (Dionex), previously equilibrated and washed with 0.1% (v/v) formic acid, and an Onyx C18 monolithic silica capillary column (Phenomenex). .. A gradient elution of sample was achieved by the sequence: initial eluant 100% Solvent A (2% [v/v] acetonitrile, 0.1% [v/v] formic acid in H2 O) for 3 min, trap switched, a 0%–50% linear gradient of Solvent B (pure acetonitrile, 0.1% [v/v] formic acid) for 20 or 60 min, a 5-min wash at 95% Solvent B, all at a flow rate of 1.2 μL/min and column temperature 60°C.

    Sonication:

    Article Title: A subset of myofibroblastic cancer-associated fibroblasts regulate collagen fiber elongation, which is prognostic in multiple cancers
    Article Snippet: Proteomics Specimens were homogenized in 200 μL of dissolution buffer (0.5 M TEAB, 0.05% SDS) using the FastPrep system (Savant Bio, France) and pulsed probe sonication. .. The labelled peptide mixtures were pooled and offline separated with high-pH reverse phase (RP) linear gradient chromatography using the Waters, XBridge C8 column (150 × 3.0 mm, 3.5 mm particle) with the UltiMate nano-HPLC system generating a total of 30 fractions (Dionex, Sunnyvale, CA, USA) [ ].

    Injection:

    Article Title: Deterministic protein inference for shotgun proteomics data provides new insights into Arabidopsis pollen development and function
    Article Snippet: ESI-based LC-MS/MS was performed with a 2D linear ion trap, Finnigan LTQ (Thermo Electron Corporation) equipped with an Ultimate Nano HPLC System (Dionex Corporation). .. Samples were injected by a FAMOS Autosampler (Dionex Corporation) and separated on a custom-made reverse-phase tip column (0.075 × 100 mm) packed with C18 material (AQ, 3 μm, 200 Å, Bischoff GmbH).

    Article Title: Solution Insights into the Structure of the Efb/C3 Complement Inhibitory Complex as Revealed by Lysine Acetylation and Mass Spectrometry
    Article Snippet: For all LC-MS/MS studies, the LC system consisted of an Ultimate nano HPLC system (LC Packings, Amsterdam, The Netherlands), an ABI syringe delivery pump (Applied Biosystems, Foster City, CA), a Rheodyne injection valve (Model 7125) and 3 Rheodyne switch valves (Model 7000) (Rohnert Park, CA), a C8 peptide microtrap (Michrom, Auburn, CA) and a 50mm Vydac 18 column (I.D. .. The Ultimate nano HPLC system was controlled by Ultichrom software (Dionex, Bavel, The Netherlands).

    Article Title: Excreted/secreted Schistosoma mansoni venom allergen-like 9 (SmVAL9) modulates host extracellular matrix remodelling gene expression
    Article Snippet: 2.8 MS For reversed-phase (RP) nano-scale liquid chromatography (LC) ion-trap-MS/MS analysis, the glycopeptide sample was applied to a reverse-phase column (PepMap, 3 μm, 75 μm × 100 mm; Dionex/LC Packings, NL) using an Ultimate nano-HPLC system, a Famos autosampler, and a Switchos trap-column system (Dionex/LC Packings). .. After injection of the sample, elution conditions were switched to 10% solvent B (95% acetonitrile, 0.1% formic acid), followed by a gradient to 60% solvent B in 45 min and a subsequent isocratic elution of 10 min.

    Methylation:

    Article Title: Type I Arginine Methyltransferases PRMT1 and PRMT-3 Act Distributively
    Article Snippet: ESI Mass Spectrometry —PABPN1 was methylated as described above and digested with endoproteinase Lys-C (Roche Diagnostics). .. Proteolysis products were purified by reversed phase chromatography on an UltiMate Nano-HPLC system (LC Packings) coupled to an LTQ-Orbitrap XL hybrid mass spectrometer (ThermoFisher Scientific) equipped with a nanoelectrospray ionization source (Proxeon).

    Isolation:

    Article Title: Analysis of Nidogen-1/Laminin γ1 Interaction by Cross-Linking, Mass Spectrometry, and Computational Modeling Reveals Multiple Binding Modes
    Article Snippet: Nano-HPLC/Nano-ESI-LTQ-Orbitrap-MS/MS Fractionation of peptide mixtures was carried out on an Ultimate nano-HPLC system (Thermo Fisher Scientific) using reversed phase C18 columns (precolumn: Acclaim PepMap, 300 µm • 5 mm, 5 µm, 100 Å, separation column: Acclaim PepMap, 75 µm • 250 mm, 3 µm, 100 Å, Thermo Fisher Scientific). .. Data were acquired in data-dependent MS/MS mode: Each high-resolution full scan (m/z 350 to 2000, R = 60,000) in the orbitrap was followed by five product ion scans in the LTQ (collision-induced dissociation with 35% normalized collision energy) of the five most intense signals in the full-scan mass spectrum (isolation window 1.5 u).

    Article Title: Munc13-Like skMLCK Variants Cannot Mimic the Unique Calmodulin Binding Mode of Munc13 as Evidenced by Chemical Cross-Linking and Mass Spectrometry
    Article Snippet: Nano-HPLC/nano-ESI-LTQ-Orbitrap-MS/MS Tryptic peptide mixtures were fractionated on an Ultimate nano-HPLC system equipped with Famos autosampler and Switchos II (LC-Packings/Dionex, Idstein, Germany) using a trapping column (Acclaim PepMap, C18, 100 µm×20 mm, 5 µm, 100 Å, Dionex) for desalting (15 min, 0.1% (v/v) TFA) followed by a separation column (Acclaim PepMap, C18, 75 µm×200 mm, 3 µm, 100 Å, Dionex) with a 90-min gradient of 0–50% B (A: 5% (v/v) ACN containing 0.1% (v/v) formic acid (FA); B: 80% (v/v) ACN containing 0.08% (v/v) FA). .. Data dependent MS/MS (collision-induced dissociation, CID) experiments (isolation window 2.5 Th) were conducted in the linear ion trap (LTQ) of the five most abundant signals of the full MS scan in the orbitrap (R = 60,000).

    Labeling:

    Article Title: A subset of myofibroblastic cancer-associated fibroblasts regulate collagen fiber elongation, which is prognostic in multiple cancers
    Article Snippet: A total of 100 mg final protein content from each specimen was subjected to reduction, alkylation, trypsin proteolysis and 8-plex iTRAQ labeling with the following reporter ion / sample ID assignment: 113/NOF-EN102; 114/NOF2009; 115/NOF-EN251; 116/CAF1807; 117/NOF1807; 118/CAF0801; 119/CAF255; 121/CAF506. .. The labelled peptide mixtures were pooled and offline separated with high-pH reverse phase (RP) linear gradient chromatography using the Waters, XBridge C8 column (150 × 3.0 mm, 3.5 mm particle) with the UltiMate nano-HPLC system generating a total of 30 fractions (Dionex, Sunnyvale, CA, USA) [ ].

    Purification:

    Article Title: Proteomic and Bioinformatics Analyses of Mouse Liver Microsomes
    Article Snippet: Nanoliquid Chromatography (LC) MS/MS and Protein Identification The tryptic peptide mixture was fractionated with reverse-phase (RP) high-performance liquid chromatography (HPLC) by using an Ultimate nano-HPLC system (Dionex). .. Peptide samples were purified and concentrated with a C18-PepMap precolumn and then separated on an analytical C18-PepMap column (75 μ m ID × 150 mm, 100 Å pore size, 3 mm particle size) at a column flow rate of 300 nL/min.

    Article Title: Type I Arginine Methyltransferases PRMT1 and PRMT-3 Act Distributively
    Article Snippet: .. Proteolysis products were purified by reversed phase chromatography on an UltiMate Nano-HPLC system (LC Packings) coupled to an LTQ-Orbitrap XL hybrid mass spectrometer (ThermoFisher Scientific) equipped with a nanoelectrospray ionization source (Proxeon). ..

    Protein Extraction:

    Article Title: Transcriptome and Proteome Data Reveal Candidate Genes for Pollinator Attraction in Sexually Deceptive Orchids
    Article Snippet: Shotgun Proteomics Frozen labellum tissue of an unpollinated flower from each study species was ground to powder without allowing it to thaw, and resuspended in 150 µL urea protein extraction buffer (65 mM Tris-HCl, 8 M urea, 10% glycerol, 5% β-mercaptoethanol, 2% SDS, 0.025% bromophenol blue), denatured and separated by SDS-PAGE, sliced (13 gel slices per sample) and trypsinised as described previously . .. Proteins were subjected to electrospray ionisation-based LC-MS/MS analysis with a 2D linear ion trap Finnigan LTQ (Thermo Electron Corporation), equipped with an Ultimate Nano HPLC System (Dionex Corporation) exactly as described by Grobei et al. .

    Reversed-phase Chromatography:

    Article Title: Type I Arginine Methyltransferases PRMT1 and PRMT-3 Act Distributively
    Article Snippet: .. Proteolysis products were purified by reversed phase chromatography on an UltiMate Nano-HPLC system (LC Packings) coupled to an LTQ-Orbitrap XL hybrid mass spectrometer (ThermoFisher Scientific) equipped with a nanoelectrospray ionization source (Proxeon). ..

    Liquid Chromatography:

    Article Title: Excreted/secreted Schistosoma mansoni venom allergen-like 9 (SmVAL9) modulates host extracellular matrix remodelling gene expression
    Article Snippet: .. 2.8 MS For reversed-phase (RP) nano-scale liquid chromatography (LC) ion-trap-MS/MS analysis, the glycopeptide sample was applied to a reverse-phase column (PepMap, 3 μm, 75 μm × 100 mm; Dionex/LC Packings, NL) using an Ultimate nano-HPLC system, a Famos autosampler, and a Switchos trap-column system (Dionex/LC Packings). .. The column was equilibrated at room temperature with eluent A (0.1% formic acid in water) at a flow rate of 200 nl/min.

    Software:

    Article Title: A New Paradigm for MAPK: Structural Interactions of hERK1 with Mitochondria in HeLa Cells
    Article Snippet: Database searches in the NCBI non-redundant primary sequence database restricted to the taxonomy Homo sapiens were performed using the Mascot Software 2.0 (Matrix Science) with parameter settings described earlier , . .. An Ultimate nano-HPLC system (Dionex) consisting of an autosampler, a loading pump, and a nano-HPLC gradient pump connected to a 75-µm-inner diameter column (C18 PepMap, 15-cm length, 5-µm particle size, and 100-Å pore size) was utilized.

    Article Title: Type I Arginine Methyltransferases PRMT1 and PRMT-3 Act Distributively
    Article Snippet: The peaks representing the peptides carrying different numbers of methyl groups were integrated with the software IGOR Pro (WaveMetrics). .. Proteolysis products were purified by reversed phase chromatography on an UltiMate Nano-HPLC system (LC Packings) coupled to an LTQ-Orbitrap XL hybrid mass spectrometer (ThermoFisher Scientific) equipped with a nanoelectrospray ionization source (Proxeon).

    Article Title: Protein variation in blood-dwelling schistosome worms generated by differential splicing of micro-exon gene transcripts
    Article Snippet: In order to obtain better coverage, peptides derived from lectin-depleted ESPs were subjected to electrospray tandem MS. Aliquots (1–3 μL) of trypsin-digested spots were loaded onto an Ultimate nano-HPLC system (Dionex) equipped with a PepMap C18 trap (Dionex), previously equilibrated and washed with 0.1% (v/v) formic acid, and an Onyx C18 monolithic silica capillary column (Phenomenex). .. Control and data acquisition were with Chromeleon v6.6 software (Dionex).

    Article Title: Solution Insights into the Structure of the Efb/C3 Complement Inhibitory Complex as Revealed by Lysine Acetylation and Mass Spectrometry
    Article Snippet: .. The Ultimate nano HPLC system was controlled by Ultichrom software (Dionex, Bavel, The Netherlands). .. After a 30-minute equilibration at 50μL/min flow rate of the LC system with buffer A (99.95% water and 0.05% TFA), 0.3 nmol pre-digested protein was injected into the Rheodyne injection valve and loaded onto the peptide trap at 50μL/min flow rate (delivered by the ABI pump) for three minutes to accomplish sample desalting.

    Hydrophobic Interaction Chromatography:

    Article Title: The respiratory molybdo-selenoprotein formate dehydrogenases of Escherichia coli have hydrogen: benzyl viologen oxidoreductase activity
    Article Snippet: Mass spectrometric identification of proteins For mass spectrometric analysis the gel band showing H2 : BV oxidoreductase activity after hydrophobic interaction chromatography was excised and the proteins within the band were in-gel digested following standard protocols [ ]. .. The peptide extracts were analyzed by LC/MS on an UltiMate Nano-HPLC system (LC Packings/Dionex) coupled to an LTQ-Orbitrap XL mass spectrometer (ThermoFisher Scientific) equipped with a nanoelectrospray ionization source (Proxeon).

    Immunoprecipitation:

    Article Title: Subunits of the Drosophila CCR4-NOT complex and their roles in mRNA deadenylation
    Article Snippet: Paragraph title: Immunoprecipitation experiments and MS analysis ... Peptides were analyzed by LC/MS on an UltiMate Nano-HPLC system (LC Packings) coupled to an LTQ-Orbitrap XL mass spectrometer (ThermoFisher Scientific) equipped with a nano-electrospray ionization source (Proxeon).

    Fractionation:

    Article Title: Analysis of Nidogen-1/Laminin γ1 Interaction by Cross-Linking, Mass Spectrometry, and Computational Modeling Reveals Multiple Binding Modes
    Article Snippet: .. Nano-HPLC/Nano-ESI-LTQ-Orbitrap-MS/MS Fractionation of peptide mixtures was carried out on an Ultimate nano-HPLC system (Thermo Fisher Scientific) using reversed phase C18 columns (precolumn: Acclaim PepMap, 300 µm • 5 mm, 5 µm, 100 Å, separation column: Acclaim PepMap, 75 µm • 250 mm, 3 µm, 100 Å, Thermo Fisher Scientific). ..

    Liquid Chromatography with Mass Spectroscopy:

    Article Title: A subset of myofibroblastic cancer-associated fibroblasts regulate collagen fiber elongation, which is prognostic in multiple cancers
    Article Snippet: The labelled peptide mixtures were pooled and offline separated with high-pH reverse phase (RP) linear gradient chromatography using the Waters, XBridge C8 column (150 × 3.0 mm, 3.5 mm particle) with the UltiMate nano-HPLC system generating a total of 30 fractions (Dionex, Sunnyvale, CA, USA) [ ]. .. Each fraction was analyzed using LC-MS with low-pH RP capillary chromatography (PepMap C18, 50 μm ID × 50 cm L, 100 Å pore, 3.5 μm particle) and nanospray ionization FT-MS (Dionex Ultimate 3000 UHPLC system - LTQ-Velos Pro Orbitrap Elite, Thermo Scientific, USA) [ , ].

    Article Title: Subunits of the Drosophila CCR4-NOT complex and their roles in mRNA deadenylation
    Article Snippet: .. Peptides were analyzed by LC/MS on an UltiMate Nano-HPLC system (LC Packings) coupled to an LTQ-Orbitrap XL mass spectrometer (ThermoFisher Scientific) equipped with a nano-electrospray ionization source (Proxeon). .. The samples were loaded onto a trapping column (Acclaim PepMap C18, 300 μm × 5 mm, 5 μm, 100 Å, LC Packings) and washed for 15 min with 0.1% trifluoroacetic acid (TFA) at a flow rate of 30 μL/min.

    Article Title: Pyruvate Formate-Lyase Interacts Directly with the Formate Channel FocA to Regulate Formate Translocation
    Article Snippet: .. In-gel digested peptide mixtures were analyzed by LC/MS on an UltiMate Nano-HPLC system (LC Packings/Dionex) coupled to an LTQ-Orbitrap XL mass spectrometer (Thermo Fisher Scientific) equipped with a nanoelectrospray ionization source (Proxeon). .. The samples were loaded onto a trapping column (Acclaim PepMap C18, 100 μm × 20 mm, 5 μm, 100 Å, LC Packings) and washed for 15 min with 0.1% trifluoroacetic acid at a flow rate of 20 ul/min.

    Article Title: The respiratory molybdo-selenoprotein formate dehydrogenases of Escherichia coli have hydrogen: benzyl viologen oxidoreductase activity
    Article Snippet: .. The peptide extracts were analyzed by LC/MS on an UltiMate Nano-HPLC system (LC Packings/Dionex) coupled to an LTQ-Orbitrap XL mass spectrometer (ThermoFisher Scientific) equipped with a nanoelectrospray ionization source (Proxeon). .. The samples were loaded onto a trapping column (Acclaim PepMap C18, 300 μm × 5 mm, 5 μm, 100Å, LC Packings) and washed for 15 min with 0.1% trifluoroacetic acid at a flow rate of 30 μl/min.

    Staining:

    Article Title: Subunits of the Drosophila CCR4-NOT complex and their roles in mRNA deadenylation
    Article Snippet: Twenty microliters of the eluates was separated on the same type of gel and stained with colloidal Coomassie blue G250 for mass spectrometric analysis. .. Peptides were analyzed by LC/MS on an UltiMate Nano-HPLC system (LC Packings) coupled to an LTQ-Orbitrap XL mass spectrometer (ThermoFisher Scientific) equipped with a nano-electrospray ionization source (Proxeon).

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    Thermo Fisher ultimate nano hplc system
    <t>Nano-HPLC/nano-ESI-LTQ-Orbitrap-MS/MS</t> analysis of cross-linked peptides derived from nidogen-1 G2 and G3 domain. The cross-linked product comprises amino acids 407–420 of the G2 domain (α-peptide, red) and 939–949 of the G3 domain (β-peptide, green), in which K-407 is connected to K-948/949.
    Ultimate Nano Hplc System, supplied by Thermo Fisher, used in various techniques. Bioz Stars score: 91/100, based on 10 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/ultimate nano hplc system/product/Thermo Fisher
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    ultimate nano hplc system - by Bioz Stars, 2020-04
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    Nano-HPLC/nano-ESI-LTQ-Orbitrap-MS/MS analysis of cross-linked peptides derived from nidogen-1 G2 and G3 domain. The cross-linked product comprises amino acids 407–420 of the G2 domain (α-peptide, red) and 939–949 of the G3 domain (β-peptide, green), in which K-407 is connected to K-948/949.

    Journal: PLoS ONE

    Article Title: Analysis of Nidogen-1/Laminin γ1 Interaction by Cross-Linking, Mass Spectrometry, and Computational Modeling Reveals Multiple Binding Modes

    doi: 10.1371/journal.pone.0112886

    Figure Lengend Snippet: Nano-HPLC/nano-ESI-LTQ-Orbitrap-MS/MS analysis of cross-linked peptides derived from nidogen-1 G2 and G3 domain. The cross-linked product comprises amino acids 407–420 of the G2 domain (α-peptide, red) and 939–949 of the G3 domain (β-peptide, green), in which K-407 is connected to K-948/949.

    Article Snippet: Nano-HPLC/Nano-ESI-LTQ-Orbitrap-MS/MS Fractionation of peptide mixtures was carried out on an Ultimate nano-HPLC system (Thermo Fisher Scientific) using reversed phase C18 columns (precolumn: Acclaim PepMap, 300 µm • 5 mm, 5 µm, 100 Å, separation column: Acclaim PepMap, 75 µm • 250 mm, 3 µm, 100 Å, Thermo Fisher Scientific).

    Techniques: High Performance Liquid Chromatography, Mass Spectrometry, Derivative Assay