PPT-CSE182 L14 Mass Spec Quantitation

MS applications Microarray analysis CSE182 LCMS Maps time mz I Peptide 2 Peptide 1 x x x x x x x x x x x x x x x x x x x x time mz Peptide 2 elution A peptidefeature can be labeled with the triple MTI. Phil Charles. CCMP. Overview of Talk. Overview of proteomics as a concept. Techniques discussion. 2D Gels and experimental design paradigms. Proteomics mass spectrometry. Identification. Quantitation. An Under-the-Hood Review. Sorin Faibish. Spencer Shepler. SPEC SFS 2014. The Workloads and Metrics an Under-the-Hood Review. Historically, the SPEC SFS benchmark and its NFS and CIFS workloads have been the industry standard for peer reviewed, published, performance results for the NAS industry. The SPEC SFS framework has a strong history of reliable, reproducible results and the SPEC organization provides a structure to ensure that users have complete and comparable results.. and . Quantitation. CH 908: Mass Spectrometry . Lecture 12. Derivatization. of . Proteins/Peptides. : Purposes. Separation. Detection/Analysis. To . improve chromatographic . properties:. - Resolution;. April 2008. 7.9 hours. half . t. ~0.5, half . t. ~0.15 . Molecular gas reservoirs probed with CO, H. 2. O. Wideband Spectroscopy Probes the Cosmic History of Star Formation . HeRMES Survey. Bright (lensed) sources identified at 250, 350, 500 . For translating MS-based metabolomics to biology, we need to know quantity/concentrations of identified molecules. Q-. tion. can be used to model . metabolomic. networks and to see fluxes.. Ionization is a complex process and no all compounds are forming ions is the same way (NMR signal intensities are much less sensitive to the chemical structures differences). 2. O. 5. Halide Clusters. 6/22/2017. Joanna K. Denton, Patrick J. Kelleher, Fabian S. . Menges. , Joseph W. . DePalma. , . Mark A. . Johnson. N. 2. O. 5. Is an Important . A. tmospheric . S. pecies. Concept and Technology Development. © . 2013. CCAT. All Rights Reserved. .. CCAT Engineering Design Phase is partially supported by funding by the National Science Foundation’s Division of Astronomical . Peptide identification. CSE182. General isotope computation. Definition:. Let p. i,a. be the abundance of the isotope with mass i Da above the least mass. Ex: P. 0,C. : abundance of C-12, P. 2,O. : O-18 etc.. Dynamic Programming. www.cse.ucsd.edu/classes/. fa09/. cse182. www.cse.ucsd.edu/~vbafna. FA08. CSE182. Notes. Assignment 1 is online, due next Tuesday.. Discussion section is optional. Use it as a resource.. PROTEOMICS. (. Mass spectrometry in Biochemistry). LC-MS. 2. Sample inlet systems for ESI. Mass analyzers. 3. S/N = 1. 1.0 ml/min. 4.6 mm i.d.. S/N= 3800. 75 . . m i.d.. S. ignal. to. Noise ratio. Guoan Zhang. Director . Proteomics and Metabolomics Core . Facility. Proteomics & Metabolomics . Core Facility . @. . WCM. Proteomics . & Metabolomics Core Facility . @Weill . Cornell . MS. - based protein/metabolite . quantitation. . -. For most K residues our histone assay, we monitor the possible occurrence of difference modifications (. m. e1. , . m. e2. , . m. e3. ,. Ac. ) and . unmodified. peptide. . -Different forms of the same peptide, apart of their mass differences, can have different retention times (Important for . L7. Dicitionary. . matching. Pattern matching. Fa05. CSE 182. Dictionary Matching. Q: Given k words (s. i. has length l. i. ). , . and a database of size n, find all matches to these words in the database string.. Kelly . Ruggles. kelly@fenyolab.org. New York University . Lecture Outline . Protein quantitation using MS/MS. Basics of targeted proteomics . Motivating example: AKT and breast cancer. Lecture Outline .