Including an Overview of Analytical Tools for Synthetic Biology
by Evan R. Daugharthy and George M. Church
Harvard Medical School & Wyss Institute for Biologically Inspired Engineering
14 October, 2015
!!Group Homework PDF!!
Useful Readings:
The FISSEQ Method: Lee J, Daugharthy E, Scheiman J, Kalhor R, Yang JL, Ferrente TC, Terry R, Jeanty SSF, Li C,Amamoto R, Peters DT, Turczyk BM, Marblestone A, Inverso S, Bernard A, Mali P, Rios X, Aach J, Church GM (2014) Highly multiplexed three-dimensional subcellular transcriptome sequencing in situ. Science 343(6177):1360-3.
Theory of RNA and Cellular Molecular State: Kim, Junhyong, and James Eberwine (2010) RNA: State Memory and Mediator of Cellular Phenotype. Trends in cell biology 20.6:311-318.
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Lab Homework Assignment: Create an in situ sequencing library inside a polyacrylamide hydrogel, and detect the sequencing amplicons using fluorescent sequencing by hybridization.
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Computational Homework Assignment: Analyze a FISSEQ dataset and find some in situ sequences.
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Design Homework Assignment: Think back to your experience so far with HTGAA. Were there any experiments where in situ data of RNA, DNA, protein, or other cellular features would be helpful in understanding the engineering process? You should try to answer the following questions:
