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Institute for Systems Biology

4 ARTICLES PUBLISHED IN JoVE

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Biology

Mechanical Stimulation of Stem Cells Using Cyclic Uniaxial Strain
Kyle Kurpinski 1, Song Li 1
1Department of Bioengineering, University of California, Berkeley

It is widely understood that mechanical forces in the body can influence cell differentiation and proliferation. Here we present a video protocol demonstrating the use of a custom-built bioreactor for delivering uniaxial cyclic tensile strain to stem cells cultured on flexible micropatterned substrates.

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Biology

Quantitative Phosphoproteomics in Fatty Acid Stimulated Saccharomyces cerevisiae
Ramsey A. Saleem 1, John D. Aitchison 1
1Institute for Systems Biology

Description of a quantitative phosphorylation procedure using cryolysis, urea solubilziation, HILIC fractionation and IMAC enrichment of phosphorylated peptides.

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JoVE Journal

Peptide-based Identification of Functional Motifs and their Binding Partners
Martin N. Shelton 1,2, Ming Bo Huang 1, Syed Ali 1,3, Kateena Johnson 1, William Roth 1, Michael Powell 1, Vincent Bond 1
1Department of Microbiology, Biochemistry, & Immunology, Morehouse School of Medicine, 2Institute for Systems Biology, 3Advanced Medical & Dental Institute, Universiti Sains Malaysia

Techniques to dissect the mechanisms underlying the secretion of HIV-1 Nef in exosomes are described. Specific short peptides derived from Nef and protein transfection were exploited to determine the structure, function, and binding partners of Nef’s Secretion Modification Region. These procedures have general relevance in many mechanistic studies.

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Biology

ODELAY: A Large-scale Method for Multi-parameter Quantification of Yeast Growth
Thurston Herricks 1, Fred D. Mast 1,2, Song Li 1, John D. Aitchison 1,2
1Institute for Systems Biology, 2Center for Infectious Disease Research

We present a method for quantifying growth phenotypes of individual yeast cells as they grow into colonies on solid media using time-lapse microscopy termed, One-cell Doubling Evaluation of Living Arrays of Yeast (ODELAY). Population heterogeneity of genetically identical cells growing into colonies can be directly observed and quantified.

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