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Waters Corporation liquid chromatography mass spectrometry lc ms
Liquid Chromatography Mass Spectrometry Lc Ms, supplied by Waters Corporation, used in various techniques. Bioz Stars score: 94/100, based on 27 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
https://www.bioz.com/result/liquid chromatography mass spectrometry lc ms/product/Waters Corporation
Average 94 stars, based on 27 article reviews
Price from $9.99 to $1999.99
liquid chromatography mass spectrometry lc ms - by Bioz Stars, 2020-05
94/100 stars

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High Performance Liquid Chromatography:

Article Title: Saxitoxin Puffer Fish Poisoning in the United States, with the First Report of Pyrodinium bahamense as the Putative Toxin Source
Article Snippet: .. We also prepared selected samples for toxin characterization and confirmation by HPLC (Thermo Electron Corporation, San Jose, CA), with postcolumn oxidation and fluorescence detection and liquid chromatography-mass spectrometry (LC-MS) (Waters Corporation, Milford, MA) ( ; ) using in-house FDA reference standards. ..

Article Title: Antibody format and drug release rate determine the therapeutic activity of non-internalizing antibody-drug conjugates
Article Snippet: .. Liquid chromatography-mass spectrometry (LC-MS) was performed on a Micromass Quattro API instrument (ESI-TOF-MS) coupled to a Waters Alliance 2795 HPLC using a MassPREP On-Line Desalting Cartridge 2.1 x 10 mm. .. Water:acetonitrile, 95:5 (solvent A) and acetonitrile (solvent B), with solvent A containing 0.1% formic acid, were used as the mobile phase at a flow rate of 0.3 mL/min.

Fluorescence:

Article Title: Saxitoxin Puffer Fish Poisoning in the United States, with the First Report of Pyrodinium bahamense as the Putative Toxin Source
Article Snippet: .. We also prepared selected samples for toxin characterization and confirmation by HPLC (Thermo Electron Corporation, San Jose, CA), with postcolumn oxidation and fluorescence detection and liquid chromatography-mass spectrometry (LC-MS) (Waters Corporation, Milford, MA) ( ; ) using in-house FDA reference standards. ..

Chromatography:

Article Title: Saxitoxin Puffer Fish Poisoning in the United States, with the First Report of Pyrodinium bahamense as the Putative Toxin Source
Article Snippet: .. We also prepared selected samples for toxin characterization and confirmation by HPLC (Thermo Electron Corporation, San Jose, CA), with postcolumn oxidation and fluorescence detection and liquid chromatography-mass spectrometry (LC-MS) (Waters Corporation, Milford, MA) ( ; ) using in-house FDA reference standards. ..

Article Title: Calli Essential Oils Synergize with Lawsone against Multidrug Resistant Pathogens
Article Snippet: .. Liquid Chromatography-Mass Spectrometry (LC-MS) For LC-MS quantification of lawsone, prepared liposomes were dissolved in methanol and 10 µL was injected in to LC-MS. LC-MS analyses were carried out in negative ion mode by electrospray ionization (ESI) on a ACQUITY UPLC triple quadrupole (Xevo TQD, Waters, Milford, MA, USA) instrument equipped with MassLynx software (4.1,Waters, Milford, MA, USA). ..

Article Title: Identification and characterization of oligomeric proanthocyanidins with significant anti-cancer activity in adzuki beans (Vigna angularis)
Article Snippet: .. Liquid chromatography-mass spectrometry (LC-MS) was performed using a Waters Xevo QTOF (quadrupole time-of-flight) mass spectrometer and an ACQUITY UPLC (ultra-performance liquid chromatography) system. .. Column chromatography was carried out using Amberlite XAD-1180N, Sephadex LH-20 (GE Healthcare), and Toyopearl HW 40F.

Article Title: Antibody format and drug release rate determine the therapeutic activity of non-internalizing antibody-drug conjugates
Article Snippet: .. Liquid chromatography-mass spectrometry (LC-MS) was performed on a Micromass Quattro API instrument (ESI-TOF-MS) coupled to a Waters Alliance 2795 HPLC using a MassPREP On-Line Desalting Cartridge 2.1 x 10 mm. .. Water:acetonitrile, 95:5 (solvent A) and acetonitrile (solvent B), with solvent A containing 0.1% formic acid, were used as the mobile phase at a flow rate of 0.3 mL/min.

Article Title: High-Throughput Assessment of Structural Continuity in Biologics
Article Snippet: .. Liquid Chromatography–Mass Spectrometry (LC–MS) All analyses were performed on a Waters Xevo G2S time-of-flight MS interfaced with a Waters Acquity I-Class UPLC and MassLynx 4.1 acquisition software. .. Ten microliter sample injections were made in partial loop-fill mode on a Waters SM-FL autosampler.

Liquid Chromatography with Mass Spectroscopy:

Article Title: Saxitoxin Puffer Fish Poisoning in the United States, with the First Report of Pyrodinium bahamense as the Putative Toxin Source
Article Snippet: .. We also prepared selected samples for toxin characterization and confirmation by HPLC (Thermo Electron Corporation, San Jose, CA), with postcolumn oxidation and fluorescence detection and liquid chromatography-mass spectrometry (LC-MS) (Waters Corporation, Milford, MA) ( ; ) using in-house FDA reference standards. ..

Article Title: In Vitro Glycoengineering of IgG1 and Its Effect on Fc Receptor Binding and ADCC Activity
Article Snippet: .. Analysis of proteolytic peptides by liquid-chromatography mass-spectrometry (LC-MS) The tryptic peptide mixture was separated by RP-UPLC (ACQUITY, Waters, Manchester, UK) on a C18 column (BEH C18 1.7 μm 2.1 x 150 mm; Waters, Manchester, UK), and the eluate analyzed online with a Synapt G2 electrospray mass spectrometer (Waters, Manchester, UK). ..

Article Title: Calli Essential Oils Synergize with Lawsone against Multidrug Resistant Pathogens
Article Snippet: .. Liquid Chromatography-Mass Spectrometry (LC-MS) For LC-MS quantification of lawsone, prepared liposomes were dissolved in methanol and 10 µL was injected in to LC-MS. LC-MS analyses were carried out in negative ion mode by electrospray ionization (ESI) on a ACQUITY UPLC triple quadrupole (Xevo TQD, Waters, Milford, MA, USA) instrument equipped with MassLynx software (4.1,Waters, Milford, MA, USA). ..

Article Title: Identification and characterization of oligomeric proanthocyanidins with significant anti-cancer activity in adzuki beans (Vigna angularis)
Article Snippet: .. Liquid chromatography-mass spectrometry (LC-MS) was performed using a Waters Xevo QTOF (quadrupole time-of-flight) mass spectrometer and an ACQUITY UPLC (ultra-performance liquid chromatography) system. .. Column chromatography was carried out using Amberlite XAD-1180N, Sephadex LH-20 (GE Healthcare), and Toyopearl HW 40F.

Article Title: Routine Culture–Resistant Mycobacterium tuberculosis Rescue and Shell-Vial Assay, France
Article Snippet: .. Liquid chromatography mass spectrometry (LC/MS) (Acquity I-Class Vion-IMS Q-Tof, Waters, https://www.waters.com ) detected 0.45 µg rifampin/g in the intervertebral disc specimen and 0.04 µg rifampin/g in the 2 vertebral bone biopsy specimens; 1 exhibited anti-TB activity. ..

Article Title: Antibody format and drug release rate determine the therapeutic activity of non-internalizing antibody-drug conjugates
Article Snippet: .. Liquid chromatography-mass spectrometry (LC-MS) was performed on a Micromass Quattro API instrument (ESI-TOF-MS) coupled to a Waters Alliance 2795 HPLC using a MassPREP On-Line Desalting Cartridge 2.1 x 10 mm. .. Water:acetonitrile, 95:5 (solvent A) and acetonitrile (solvent B), with solvent A containing 0.1% formic acid, were used as the mobile phase at a flow rate of 0.3 mL/min.

Article Title: High-Throughput Assessment of Structural Continuity in Biologics
Article Snippet: .. Liquid Chromatography–Mass Spectrometry (LC–MS) All analyses were performed on a Waters Xevo G2S time-of-flight MS interfaced with a Waters Acquity I-Class UPLC and MassLynx 4.1 acquisition software. .. Ten microliter sample injections were made in partial loop-fill mode on a Waters SM-FL autosampler.

Activity Assay:

Article Title: Routine Culture–Resistant Mycobacterium tuberculosis Rescue and Shell-Vial Assay, France
Article Snippet: .. Liquid chromatography mass spectrometry (LC/MS) (Acquity I-Class Vion-IMS Q-Tof, Waters, https://www.waters.com ) detected 0.45 µg rifampin/g in the intervertebral disc specimen and 0.04 µg rifampin/g in the 2 vertebral bone biopsy specimens; 1 exhibited anti-TB activity. ..

Mass Spectrometry:

Article Title: In Vitro Glycoengineering of IgG1 and Its Effect on Fc Receptor Binding and ADCC Activity
Article Snippet: .. Analysis of proteolytic peptides by liquid-chromatography mass-spectrometry (LC-MS) The tryptic peptide mixture was separated by RP-UPLC (ACQUITY, Waters, Manchester, UK) on a C18 column (BEH C18 1.7 μm 2.1 x 150 mm; Waters, Manchester, UK), and the eluate analyzed online with a Synapt G2 electrospray mass spectrometer (Waters, Manchester, UK). ..

Article Title: Identification and characterization of oligomeric proanthocyanidins with significant anti-cancer activity in adzuki beans (Vigna angularis)
Article Snippet: .. Liquid chromatography-mass spectrometry (LC-MS) was performed using a Waters Xevo QTOF (quadrupole time-of-flight) mass spectrometer and an ACQUITY UPLC (ultra-performance liquid chromatography) system. .. Column chromatography was carried out using Amberlite XAD-1180N, Sephadex LH-20 (GE Healthcare), and Toyopearl HW 40F.

Article Title: Routine Culture–Resistant Mycobacterium tuberculosis Rescue and Shell-Vial Assay, France
Article Snippet: .. Liquid chromatography mass spectrometry (LC/MS) (Acquity I-Class Vion-IMS Q-Tof, Waters, https://www.waters.com ) detected 0.45 µg rifampin/g in the intervertebral disc specimen and 0.04 µg rifampin/g in the 2 vertebral bone biopsy specimens; 1 exhibited anti-TB activity. ..

Article Title: High-Throughput Assessment of Structural Continuity in Biologics
Article Snippet: .. Liquid Chromatography–Mass Spectrometry (LC–MS) All analyses were performed on a Waters Xevo G2S time-of-flight MS interfaced with a Waters Acquity I-Class UPLC and MassLynx 4.1 acquisition software. .. Ten microliter sample injections were made in partial loop-fill mode on a Waters SM-FL autosampler.

Injection:

Article Title: Calli Essential Oils Synergize with Lawsone against Multidrug Resistant Pathogens
Article Snippet: .. Liquid Chromatography-Mass Spectrometry (LC-MS) For LC-MS quantification of lawsone, prepared liposomes were dissolved in methanol and 10 µL was injected in to LC-MS. LC-MS analyses were carried out in negative ion mode by electrospray ionization (ESI) on a ACQUITY UPLC triple quadrupole (Xevo TQD, Waters, Milford, MA, USA) instrument equipped with MassLynx software (4.1,Waters, Milford, MA, USA). ..

Liquid Chromatography:

Article Title: In Vitro Glycoengineering of IgG1 and Its Effect on Fc Receptor Binding and ADCC Activity
Article Snippet: .. Analysis of proteolytic peptides by liquid-chromatography mass-spectrometry (LC-MS) The tryptic peptide mixture was separated by RP-UPLC (ACQUITY, Waters, Manchester, UK) on a C18 column (BEH C18 1.7 μm 2.1 x 150 mm; Waters, Manchester, UK), and the eluate analyzed online with a Synapt G2 electrospray mass spectrometer (Waters, Manchester, UK). ..

Article Title: Identification and characterization of oligomeric proanthocyanidins with significant anti-cancer activity in adzuki beans (Vigna angularis)
Article Snippet: .. Liquid chromatography-mass spectrometry (LC-MS) was performed using a Waters Xevo QTOF (quadrupole time-of-flight) mass spectrometer and an ACQUITY UPLC (ultra-performance liquid chromatography) system. .. Column chromatography was carried out using Amberlite XAD-1180N, Sephadex LH-20 (GE Healthcare), and Toyopearl HW 40F.

Article Title: Routine Culture–Resistant Mycobacterium tuberculosis Rescue and Shell-Vial Assay, France
Article Snippet: .. Liquid chromatography mass spectrometry (LC/MS) (Acquity I-Class Vion-IMS Q-Tof, Waters, https://www.waters.com ) detected 0.45 µg rifampin/g in the intervertebral disc specimen and 0.04 µg rifampin/g in the 2 vertebral bone biopsy specimens; 1 exhibited anti-TB activity. ..

Software:

Article Title: Calli Essential Oils Synergize with Lawsone against Multidrug Resistant Pathogens
Article Snippet: .. Liquid Chromatography-Mass Spectrometry (LC-MS) For LC-MS quantification of lawsone, prepared liposomes were dissolved in methanol and 10 µL was injected in to LC-MS. LC-MS analyses were carried out in negative ion mode by electrospray ionization (ESI) on a ACQUITY UPLC triple quadrupole (Xevo TQD, Waters, Milford, MA, USA) instrument equipped with MassLynx software (4.1,Waters, Milford, MA, USA). ..

Article Title: High-Throughput Assessment of Structural Continuity in Biologics
Article Snippet: .. Liquid Chromatography–Mass Spectrometry (LC–MS) All analyses were performed on a Waters Xevo G2S time-of-flight MS interfaced with a Waters Acquity I-Class UPLC and MassLynx 4.1 acquisition software. .. Ten microliter sample injections were made in partial loop-fill mode on a Waters SM-FL autosampler.

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  • 93
    Waters Corporation sim lc ms ms
    Analysis of <t>HiPMO1</t> reaction products hydrolyzed by beta-glucuronidase and beta-glucosidase using <t>SIM</t> LC–MS/MS analysis. a SIM LC–MS showing extracted ion chromatograms and the corresponding mass spectra of glucuronic acid and saccharic acid (saccharic acid lactone). In positive mode: saccharic acid ( m / z 210 + H + ). In negative mode: glucuronic acid ( m / z 194 − H + ) and saccharic acid lactone ( m / z 192 − H + ). b The SIM MS/MS spectra showing fragmentation ions of the parent ions at m / z 192.8 for glucuronic acid ( m / z 194 − H + ) and at m / z 190.9 for saccharic acid lactone ( m / z 192 − H + ). Loss of [H] and [H 2 O] and addition of [H] is common in carbohydrate fragmentations using LC–MS/MS in the negative ion mode [ 38 ]. The loss of [H], [H 2 O], [CHO], and [COOH] and the addition of [H] from the parent ions of glucuronic acid ( m/z 194 − H + ) and saccharic acid lactone ( m / z 192 − H + ), generating various fragmentation ions. The MS/MS spectra of saccharic acid ( m / z 210 + H + ) were not shown, likely due to the low intensities
    Sim Lc Ms Ms, supplied by Waters Corporation, used in various techniques. Bioz Stars score: 93/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/sim lc ms ms/product/Waters Corporation
    Average 93 stars, based on 1 article reviews
    Price from $9.99 to $1999.99
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    88
    Waters Corporation reverse phase lc ms ms
    Identification of esterified PGs in human platelets and analysis of PGE 2 /D 2 -PE using <t>LC/MS/MS</t> . A: Precursor scanning demonstrates lipids with m/z 351.2 eluting during LC/MS/MS. Total lipid extracts from washed human platelets activated with 0.2 U/ml of thrombin for 30 min at 37°C were separated on the Q-Trap platform using LC/MS/MS as described in Materials and Methods, with online negative precursor scanning for m/z 351.2. *, region of LC trace where ions appear that are elevated by thrombin stimulation. Control, broken line. B: Identification of ions that generate m/z 351.2 daughter ions. Shown is a negative MS scan of region marked * in A. Scan shows ions eluting between 19 and 24 min. C: Characterizing phospholipid headgroups of esterified PL. Lipid extracts from thrombin-activated platelets were separated on <t>normal-phase</t> HPLC, as described in Materials and Methods, with fractions collected at 30 sec intervals. Twenty microliters of each fraction was analyzed specific parent → m/z 351.2 MRM transitions. PL class elution was determined using commercial phospholipid standards. Panels D–G: LC/MS/MS of PGE 2 /D 2 -PEs. Platelet lipid extracts were separated using LC/MS/MS as described in Materials and Methods and detected on the Q-Trap platform by parent → m/z 271.2.
    Reverse Phase Lc Ms Ms, supplied by Waters Corporation, used in various techniques. Bioz Stars score: 88/100, based on 2 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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    Average 88 stars, based on 2 article reviews
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    85
    Waters Corporation itraq proteomics lc ms ms peptides
    Protein abundance comparison. Frequency distribution of protein abundance monitored by <t>iTRAQ</t> <t>proteomics</t> (∼2700 proteins) and ribosome profiling (∼5700 proteins) compared to average cellular protein abundance as estimated in PaxDB ( www.pax-db.org ). We note that both distributions examine similar portions of the proteome, though the iTRAQ demonstrates greater coverage of higher abundance proteins. DOI: http://dx.doi.org/10.7554/eLife.01236.018
    Itraq Proteomics Lc Ms Ms Peptides, supplied by Waters Corporation, used in various techniques. Bioz Stars score: 85/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/itraq proteomics lc ms ms peptides/product/Waters Corporation
    Average 85 stars, based on 1 article reviews
    Price from $9.99 to $1999.99
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    88
    Waters Corporation lc pda qtof ms analysis
    Analysis of all peaks detected by <t>LC-PDA-QTOF-MS.</t> (A) Number of peaks detected in transgenic rice and the non-transformant (NT). Numbers above the bars indicate the total number of peaks detected in each line. (B) Venn diagrams of the peaks only detected in transgenic rice. The peak data from line 19 of flavonol rice, line 12 of isoflavone rice, and line 20 of flavone rice were used.
    Lc Pda Qtof Ms Analysis, supplied by Waters Corporation, used in various techniques. Bioz Stars score: 88/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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    Analysis of HiPMO1 reaction products hydrolyzed by beta-glucuronidase and beta-glucosidase using SIM LC–MS/MS analysis. a SIM LC–MS showing extracted ion chromatograms and the corresponding mass spectra of glucuronic acid and saccharic acid (saccharic acid lactone). In positive mode: saccharic acid ( m / z 210 + H + ). In negative mode: glucuronic acid ( m / z 194 − H + ) and saccharic acid lactone ( m / z 192 − H + ). b The SIM MS/MS spectra showing fragmentation ions of the parent ions at m / z 192.8 for glucuronic acid ( m / z 194 − H + ) and at m / z 190.9 for saccharic acid lactone ( m / z 192 − H + ). Loss of [H] and [H 2 O] and addition of [H] is common in carbohydrate fragmentations using LC–MS/MS in the negative ion mode [ 38 ]. The loss of [H], [H 2 O], [CHO], and [COOH] and the addition of [H] from the parent ions of glucuronic acid ( m/z 194 − H + ) and saccharic acid lactone ( m / z 192 − H + ), generating various fragmentation ions. The MS/MS spectra of saccharic acid ( m / z 210 + H + ) were not shown, likely due to the low intensities

    Journal: Biotechnology for Biofuels

    Article Title: Polysaccharide monooxygenase-catalyzed oxidation of cellulose to glucuronic acid-containing cello-oligosaccharides

    doi: 10.1186/s13068-019-1384-0

    Figure Lengend Snippet: Analysis of HiPMO1 reaction products hydrolyzed by beta-glucuronidase and beta-glucosidase using SIM LC–MS/MS analysis. a SIM LC–MS showing extracted ion chromatograms and the corresponding mass spectra of glucuronic acid and saccharic acid (saccharic acid lactone). In positive mode: saccharic acid ( m / z 210 + H + ). In negative mode: glucuronic acid ( m / z 194 − H + ) and saccharic acid lactone ( m / z 192 − H + ). b The SIM MS/MS spectra showing fragmentation ions of the parent ions at m / z 192.8 for glucuronic acid ( m / z 194 − H + ) and at m / z 190.9 for saccharic acid lactone ( m / z 192 − H + ). Loss of [H] and [H 2 O] and addition of [H] is common in carbohydrate fragmentations using LC–MS/MS in the negative ion mode [ 38 ]. The loss of [H], [H 2 O], [CHO], and [COOH] and the addition of [H] from the parent ions of glucuronic acid ( m/z 194 − H + ) and saccharic acid lactone ( m / z 192 − H + ), generating various fragmentation ions. The MS/MS spectra of saccharic acid ( m / z 210 + H + ) were not shown, likely due to the low intensities

    Article Snippet: The full scan m /z ranged from 100 to 300. (ii) SIM LC–MS/MS: We analyzed HiPMO1 reaction products using SIM LC–MS (ACQUITY UPLC and Q-TOF MS Premier, Waters) on a U3000-HPLC C18 column (Agilent Zorbax SB-C18, 150 × 4.6 mm).

    Techniques: Liquid Chromatography with Mass Spectroscopy, Mass Spectrometry

    Identification of esterified PGs in human platelets and analysis of PGE 2 /D 2 -PE using LC/MS/MS . A: Precursor scanning demonstrates lipids with m/z 351.2 eluting during LC/MS/MS. Total lipid extracts from washed human platelets activated with 0.2 U/ml of thrombin for 30 min at 37°C were separated on the Q-Trap platform using LC/MS/MS as described in Materials and Methods, with online negative precursor scanning for m/z 351.2. *, region of LC trace where ions appear that are elevated by thrombin stimulation. Control, broken line. B: Identification of ions that generate m/z 351.2 daughter ions. Shown is a negative MS scan of region marked * in A. Scan shows ions eluting between 19 and 24 min. C: Characterizing phospholipid headgroups of esterified PL. Lipid extracts from thrombin-activated platelets were separated on normal-phase HPLC, as described in Materials and Methods, with fractions collected at 30 sec intervals. Twenty microliters of each fraction was analyzed specific parent → m/z 351.2 MRM transitions. PL class elution was determined using commercial phospholipid standards. Panels D–G: LC/MS/MS of PGE 2 /D 2 -PEs. Platelet lipid extracts were separated using LC/MS/MS as described in Materials and Methods and detected on the Q-Trap platform by parent → m/z 271.2.

    Journal: Journal of Lipid Research

    Article Title: Human platelets generate phospholipid-esterified prostaglandins via cyclooxygenase-1 that are inhibited by low dose aspirin supplementation [S]

    doi: 10.1194/jlr.M041533

    Figure Lengend Snippet: Identification of esterified PGs in human platelets and analysis of PGE 2 /D 2 -PE using LC/MS/MS . A: Precursor scanning demonstrates lipids with m/z 351.2 eluting during LC/MS/MS. Total lipid extracts from washed human platelets activated with 0.2 U/ml of thrombin for 30 min at 37°C were separated on the Q-Trap platform using LC/MS/MS as described in Materials and Methods, with online negative precursor scanning for m/z 351.2. *, region of LC trace where ions appear that are elevated by thrombin stimulation. Control, broken line. B: Identification of ions that generate m/z 351.2 daughter ions. Shown is a negative MS scan of region marked * in A. Scan shows ions eluting between 19 and 24 min. C: Characterizing phospholipid headgroups of esterified PL. Lipid extracts from thrombin-activated platelets were separated on normal-phase HPLC, as described in Materials and Methods, with fractions collected at 30 sec intervals. Twenty microliters of each fraction was analyzed specific parent → m/z 351.2 MRM transitions. PL class elution was determined using commercial phospholipid standards. Panels D–G: LC/MS/MS of PGE 2 /D 2 -PEs. Platelet lipid extracts were separated using LC/MS/MS as described in Materials and Methods and detected on the Q-Trap platform by parent → m/z 271.2.

    Article Snippet: Reverse-phase LC-MS/MS of free eicosanoids Lipids were separated on a C18 Spherisorb ODS2, 5 μm, 150 × 4.6 mm column (Waters, Hertfordshire, UK) using a gradient of 50–90% B over 10 min (A, water:acetonitrile:acetic acid, 75:25:0.1; B, methanol:acetonitrile:acetic acid, 60:40:0.1) with a flow rate of 1 ml.min−1 .

    Techniques: Liquid Chromatography with Mass Spectroscopy, Mass Spectrometry, High Performance Liquid Chromatography, Size-exclusion Chromatography

    Protein abundance comparison. Frequency distribution of protein abundance monitored by iTRAQ proteomics (∼2700 proteins) and ribosome profiling (∼5700 proteins) compared to average cellular protein abundance as estimated in PaxDB ( www.pax-db.org ). We note that both distributions examine similar portions of the proteome, though the iTRAQ demonstrates greater coverage of higher abundance proteins. DOI: http://dx.doi.org/10.7554/eLife.01236.018

    Journal: eLife

    Article Title: Global cellular response to chemotherapy-induced apoptosis

    doi: 10.7554/eLife.01236

    Figure Lengend Snippet: Protein abundance comparison. Frequency distribution of protein abundance monitored by iTRAQ proteomics (∼2700 proteins) and ribosome profiling (∼5700 proteins) compared to average cellular protein abundance as estimated in PaxDB ( www.pax-db.org ). We note that both distributions examine similar portions of the proteome, though the iTRAQ demonstrates greater coverage of higher abundance proteins. DOI: http://dx.doi.org/10.7554/eLife.01236.018

    Article Snippet: iTRAQ proteomics–LC-MS/MS Peptides were resuspended in 0.1% formic acid and then separated into 30 fractions via reverse phase high-pH fractionation using an XBridge C18 column (1.0 × 100 mm, 3.5 μm; Waters) on a Waters 2796 BioSeparations Module HPLC.

    Techniques:

    Unbiased and targeted proteomics comparison to deep sequencing data. Data from 150 proteins targeted in SRM assay to validate iTRAQ data. Comparison heat map of mRNA and footprint read density with iTRAQ and SRM relative protein abundance. DOI: http://dx.doi.org/10.7554/eLife.01236.021

    Journal: eLife

    Article Title: Global cellular response to chemotherapy-induced apoptosis

    doi: 10.7554/eLife.01236

    Figure Lengend Snippet: Unbiased and targeted proteomics comparison to deep sequencing data. Data from 150 proteins targeted in SRM assay to validate iTRAQ data. Comparison heat map of mRNA and footprint read density with iTRAQ and SRM relative protein abundance. DOI: http://dx.doi.org/10.7554/eLife.01236.021

    Article Snippet: iTRAQ proteomics–LC-MS/MS Peptides were resuspended in 0.1% formic acid and then separated into 30 fractions via reverse phase high-pH fractionation using an XBridge C18 column (1.0 × 100 mm, 3.5 μm; Waters) on a Waters 2796 BioSeparations Module HPLC.

    Techniques: Sequencing

    Relative 5′ UTR translation across the time course for upregulated genes. Relative 5′ UTR translation (measured as normalized footprint read density in 5′ UTR vs normalized footprint read density in coding sequence) over the time course for selected genes ( A ) upregulated at the mRNA and footprint level and also increased by iTRAQ proteomics and ( B ) upregulated at the mRNA and footprint level with no detected change by iTRAQ. We note that for both sets of genes relative 5′ UTR translation stays relatively constant during bortezomib-induced apoptosis, consistent with genome-wide analysis in Figure 3B . DOI: http://dx.doi.org/10.7554/eLife.01236.020

    Journal: eLife

    Article Title: Global cellular response to chemotherapy-induced apoptosis

    doi: 10.7554/eLife.01236

    Figure Lengend Snippet: Relative 5′ UTR translation across the time course for upregulated genes. Relative 5′ UTR translation (measured as normalized footprint read density in 5′ UTR vs normalized footprint read density in coding sequence) over the time course for selected genes ( A ) upregulated at the mRNA and footprint level and also increased by iTRAQ proteomics and ( B ) upregulated at the mRNA and footprint level with no detected change by iTRAQ. We note that for both sets of genes relative 5′ UTR translation stays relatively constant during bortezomib-induced apoptosis, consistent with genome-wide analysis in Figure 3B . DOI: http://dx.doi.org/10.7554/eLife.01236.020

    Article Snippet: iTRAQ proteomics–LC-MS/MS Peptides were resuspended in 0.1% formic acid and then separated into 30 fractions via reverse phase high-pH fractionation using an XBridge C18 column (1.0 × 100 mm, 3.5 μm; Waters) on a Waters 2796 BioSeparations Module HPLC.

    Techniques: Sequencing, Genome Wide

    Comparison of baseline (0 hr) read density of mRNA transcripts vs number of identified peptides mapping to each protein in iTRAQ proteomics. We find a weak but positive correlation ( R = 0.27, p

    Journal: eLife

    Article Title: Global cellular response to chemotherapy-induced apoptosis

    doi: 10.7554/eLife.01236

    Figure Lengend Snippet: Comparison of baseline (0 hr) read density of mRNA transcripts vs number of identified peptides mapping to each protein in iTRAQ proteomics. We find a weak but positive correlation ( R = 0.27, p

    Article Snippet: iTRAQ proteomics–LC-MS/MS Peptides were resuspended in 0.1% formic acid and then separated into 30 fractions via reverse phase high-pH fractionation using an XBridge C18 column (1.0 × 100 mm, 3.5 μm; Waters) on a Waters 2796 BioSeparations Module HPLC.

    Techniques:

    Analysis of all peaks detected by LC-PDA-QTOF-MS. (A) Number of peaks detected in transgenic rice and the non-transformant (NT). Numbers above the bars indicate the total number of peaks detected in each line. (B) Venn diagrams of the peaks only detected in transgenic rice. The peak data from line 19 of flavonol rice, line 12 of isoflavone rice, and line 20 of flavone rice were used.

    Journal: Journal of Experimental Botany

    Article Title: Transgenic rice seed expressing flavonoid biosynthetic genes accumulate glycosylated and/or acylated flavonoids in protein bodies

    doi: 10.1093/jxb/erv429

    Figure Lengend Snippet: Analysis of all peaks detected by LC-PDA-QTOF-MS. (A) Number of peaks detected in transgenic rice and the non-transformant (NT). Numbers above the bars indicate the total number of peaks detected in each line. (B) Venn diagrams of the peaks only detected in transgenic rice. The peak data from line 19 of flavonol rice, line 12 of isoflavone rice, and line 20 of flavone rice were used.

    Article Snippet: LC-PDA-QTOF-MS analysis The extracts (1 μl) were analysed using LC-PDA-QTOF-MS (LC, Waters Acquity UPLC system; MS, Waters Xevo G2 Q-Tof).

    Techniques: Mass Spectrometry, Transgenic Assay