A Practical Guide to Cancer Systems Biology
36 A Practical Guide to Cancer Systems Biology Vortex erectly at room temperature for 1 hour. Do not vortex too vigorously. P ...
Quantitative Proteome 37 Dry the desalted peptides with centrifugal evaporator. The sample is ready for LC-MS/MS analysis. Ref ...
4. Phosphoproteome: Sample Preparation Chia-Wei Hu and Hsueh-Fen Juan∗ Institute of Molecular and Cellular Biology, National Tai ...
40 A Practical Guide to Cancer Systems Biology On account of the Lewis acid–base character of TiO 2 , the phosphate groups of pe ...
Phosphoproteome: Sample Preparation 41 1 M Triethylammonium bicarbonate (TEAB) (CAS NO. 15715-58-9)/Tris- HCl (pH = 9.0) 1.5 ...
42 A Practical Guide to Cancer Systems Biology VI. Remove cell debris by centrifuge at 16,000×g for 20 minutes, 4◦C. VII. Transf ...
Phosphoproteome: Sample Preparation 43 XII. Centrifuge at 15,700 g for 2 minutes at room temperature and remove the supernatan ...
44 A Practical Guide to Cancer Systems Biology The reagent amount used in the following steps are designed for 100μL samples: II ...
Phosphoproteome: Sample Preparation 45 P10 pipette tip 20 gauge blunt-point needle (#90520, Hamilton) Plunger for 20 gauge ne ...
46 A Practical Guide to Cancer Systems Biology Hydroxy-acid modified metal oxide chtomatography (HAMMOC)^3 Materials: Lactic ...
Phosphoproteome: Sample Preparation 47 Hint: Examine the tip after every centrifuge step to make sure there is no solution rem ...
48 A Practical Guide to Cancer Systems Biology XIX. Elutepeptides by adding 20μLsolutionB, 1,000×gfor1minute. XX. Transfer the e ...
5. Transcriptomic Data Analysis: RNA-Seq Analysis Using Galaxy Chia-Lang Hsu∗,‡and Chantal Hoi Yin Cheung† ∗Department of Life S ...
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Transcriptomic Data Analysis 51 Figure 1. The overview of RNA-seq analysis protocol. This protocol uses two different statisti ...
52 A Practical Guide to Cancer Systems Biology Table 1. Common file formats for RNA-seq analysis Format Description FASTQ The FA ...
Transcriptomic Data Analysis 53 Figure 2. The Galaxy analysis interface. The interface consists of four main parts: the masthe ...
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56 A Practical Guide to Cancer Systems Biology The first way to achieve the annotation file is from the GENCODE project.^4 Go t ...
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