Computational Systems Biology Methods and Protocols.7z

Table 1 (continued) Technique Key results Flow cytometry CD51 molecules of Hela cells with and without irradiation were quantifi ...

common biological elements, enriching for heavy-metal reporter ions, which are separated by their mass-to-charge ratio in a time ...

capable of absolute quantification of secreted proteins due to the lack of calibration approaches. In droplet cytometry, cytokin ...

[108–126]. As shown in Fig.1e, the single-cell barcoding micro- chips include thousands of individually addressed microchambers ...

simultaneously characterized are definitely beneficial, which may help us obtain deep-view comprehensive information of biology ...

acquisition, visualization, and analysis. Prote- omics 17(3–4):1600267. https://doi.org/ 10.1002/pmic.201600267 Ledbetter JA, R ...

Veltroni M, De Zen L, Sanzari MC, Maglia O, Dworzak MN, Ratei R, Biondi A, Basso G, Gaipa G, Group IB-A-F-M-S (2003) Expres- si ...

13-parameter flow cytometry: identification of human naive T cells by phenotype, func- tion, and T-cell receptor diversity. Nat ...

to mass cytometry: fundamentals and applica- tions. Cancer Immunol Immunother 62 (5):955–965. https://doi.org/10.1007/ s00262-01 ...

(24):4740–4744.https://doi.org/10.1039/ c3lc50945a Brouzes E, Medkova M, Savenelli N, Marran D, Twardowski M, Hutchison JB, Rot ...

Varadarajan N, Julg B, Yamanaka YJ, Chen H, Ogunniyi AO, McAndrew E, Porter LC, Piechocka-Trocha A, Hill BJ, Douek DC, Pereyra ...

secretomic signatures as potential correlates to tumor cell lineage evolution and cell-cell interaction. Front Oncol 3.https://d ...

Chapter 18 Data Analysis in Single-Cell Transcriptome Sequencing Shan Gao Abstract Single-cell transcriptome sequencing, often r ...

analysis includes raw data cleaning with quality control [3], read alignment, generation of read counts, normalization, data fil ...

alignment, which affects the accuracy of quantitative analysis. The sequencing depth determines the number of detected genes, bu ...

from experiments using different experimental parameters (e.g., sequencing length and depth) or quality control criteria. This h ...

A few researchers have started to consider the removal of some kinds of uninterested biological variation in the scRNA-seq data. ...

scaling factor in different contexts. Basically, two classes of methods are available to calculate normalization factors. They a ...

boxplot, and MA plot) to evaluate the performance were not con- victive. The average-bulk normalization assumes that the total a ...

the first group of methods produced very similar results, it is more convenient to use read count for data normalization by simp ...