Multi‐input design for increased circuit complexity.

Slides:



Advertisements
Similar presentations
Prokaryotic Gene Regulation:
Advertisements

Control of Expression In Bacteria –Part 1
Prokaryotic Gene Regulation: Lecture 5. Introduction The two types of transcription regulation control in prokaryotic cells The lac operon an inducible.
Regulation of Gene Expression
Control Mechanisms (Prokaryote) SBI4U. Controlling Expression  When a gene is being used by a cell, it gets transcribed, and then the mRNA is translated.
Bacterial Operons A model of gene expression regulation Ch 18.4.
Transcriptional Regulation and RNA Processing
Control of Gene Expression Big Idea 3: Living systems store, retrieve, transmit, and respond to info essential to life processes.
Chapter 16 Outline 16.4 Some Operons Regulate Transcription Through Attenuation, the Premature Termination of Transcription, Antisense RNA Molecules.
The Programming of a Cell By L Varin and N Kharma Biology and Computer Engineering Departments Concordia University.
Gene repression and activation
Control Mechanisms. Four Levels of Control of Gene Expression Type of ControlDescription Transcriptional Regulates which genes are transcribed. Controls.
5.5 Control Mechanisms There are approximately genes that exist to code for proteins in humans. – Not all proteins are required at all times. –
Stephanie J. Culler, Kevin G. Hoff, Christina D. Smolke
Introduction to biological molecular networks
Controlling Gene Expression. Control Mechanisms Determine when to make more proteins and when to stop making more Cell has mechanisms to control transcription.
GENE EXPRESSION and the LAC OPERON We have about genes inside our DNA that code for proteins. Clearly not all the proteins are needed at the same.
Chapter 13: Gene Regulation. The Big Picture… A cell contains more genes than it expresses at any given time – why? Why are cells in multicellular organisms.
Plug-n-Play with RNA Isaacs & Collins Deepti & John S.
Date of download: 7/10/2016 Copyright © 2016 McGraw-Hill Education. All rights reserved. Basic steps of gene expression—transcription factors regulate.
Control of Gene Expression in Prokaryotes
Control of Gene Expression
Prolyl‐hydroxylase‐domain proteins regulate hypoxia inducible factor‐α in response to O2 availability. Prolyl‐hydroxylase‐domain proteins regulate hypoxia.
Tuning the response of the DPI
Control of Gene Expression
Distributed computation: the new wave of synthetic biology devices
Regulation of Gene Expression by Eukaryotes
Regulation of gene and cellular activity
Control of Gene Expression
Prosthetic networks. Prosthetic networks. (A) Prosthetic network regulating urate homeostasis. Cells are engineered to respond to elevated levels of uric.
Schematic diagram of the three circuits analysed in this work.
Regulation of Gene Expression
Molecular Genetics Are we controlled by our DNA?
CONTROL MECHANISMS Sections 5.5 Page 255.
Immune Prophets of Lung Cancer: The Prognostic and Predictive Landscape of Cellular and Molecular Immune Markers  Ivana Catacchio, Anna Scattone, Nicola.
Optogenetic Therapeutic Cell Implants
Summary of all the reactions considered in the SmartCell simulation of the three circuits. Summary of all the reactions considered in the SmartCell simulation.
Hnf4g importance in human colon cancer organoids and regulation of the Hnf4a locus Hnf4g importance in human colon cancer organoids and regulation of the.
Motif detectability corresponds to the phylogenetic profile of the cognate transcription factor. Motif detectability corresponds to the phylogenetic profile.
Synthetic circuits based on the rewired cell‐signaling pathways.
Non‐specific activation of gene transcription by exogenous Fe65 in luciferase‐based reporter assays. Non‐specific activation of gene transcription by exogenous.
How MicroRNAs Modify Protein Production
MicroRNAs: regulators of gene expression and cell differentiation
Synthetic circuits responsive to light.
Comparative analysis of RNA and protein profiles.
Large‐scale image‐based CRISPR‐Cas9 gene perturbation profiling
Correlating protein to mRNA and proteins per mRNA ratios
Coordinate Transcriptional Regulation by ERG and Androgen Receptor in Fusion- Positive Prostate Cancers  Yu Chen, Charles L. Sawyers  Cancer Cell  Volume.
The Chapter 15 Homework is due Wednesday, January 30 at 11:59 pm.
Volume 54, Issue 4, Pages (May 2014)
Identification of miR‐499 targets
Changes to the growth conditions break the circuit by changing host gene expression Changes to the growth conditions break the circuit by changing host.
Barbara Jusiak, Sara Cleto, Pablo Perez-Piñera, Timothy K. Lu 
Target identification of ampicillin and ciprofloxacin
Effect of the loss of Kar4 on the induction of various promoters
Neurogenins induce a network of transcription factors that mediate iNGN neurogenesisA network of transcription factors involved in iNGN neurogenesis was.
Francis Crick's central dogma of biology revolves around the transcription of mRNA from DNA, the translation of proteins from mRNA, and the degradation.
Comparison of proteomics and RNA‐Seq data.
Categorizing cell type‐specific auxin responses.
An integrated NHR network.
PKA mediates the primary transcriptional response of cells to glucose.
Maintenance of lysogeny in bacteriophage lambda.
tssRNA promoter analysis and function.
Proteomic analysis of human transcription factors Disease correlation of 19 TFs and 4 well‐studied FOX family members, based on their GO annotations. Proteomic.
Topologies, synthetic implementations and expression profiles of the networks studied Topologies, synthetic implementations and expression profiles of.
Network recovery for isoenzymes and protein complexes
CRISPR‐Cas9 gene perturbation profiling in HeLa cells
Comparison of protein synthesis rate of endogenous E
Establishment of HeLa/rtTAA/TRE-N1-IC cell line.
Presentation transcript:

Multi‐input design for increased circuit complexity. Multi‐input design for increased circuit complexity. (A) Two‐input circuit for cancer cell recognition and destruction. The synthetic promoters CXCL1, SSX1 and H2A1, which show diverse activation strengths in various cancer cell lines, are engineered to control the gene expression of either one of two subunits, DocS‐VP16 and Gal4BD‐Coh2, which together comprise a split transactivator. As the activities of the synthetic promoter combinations (P1; either CXCL1, SSX1 or H2A1, P2; either CXCL1, SSX1 or H2A1) used are regulated by endogenous, cell‐specific transcription factors (TF1, TF2), the split transactivator is only expressed in a cell line where sufficient activities of both promoters are obtained. The association of DocS and Coh2 produces a functional transactivator that activates gene expression of a killer gene (TK1) from a Gal4‐synthetic promoter (PGal4), thus leading to cell death (Nissim and Bar‐Ziv, 2010). (B) Multi‐input circuit for cancer cell recognition and destruction. A cell type classifier for HeLa cells was constructed by implementing endogenous expressed microRNA profiles consisting of high‐ or low‐expressed microRNA (high/low sensors). Three high‐expressed microRNAs (miR‐21, miR‐17 and miR‐30a) targeted the mRNA of the activator rtTA and the repressor LacI (miR‐21t, miR‐17t and miR30at). rtTA was designed to activate the expression of LacI and LacI in its turn was designed to repress the final expression of a output gene (GOI), thereby only allowing for the activation of the gene in the presence of all three high‐expressed microRNAs. Three low‐expressed microRNAs (miR‐141, miR142(3p) and miR‐146a) further targeted the mRNA of the output gene (miR‐141t, miR‐142(3p)t and miR‐146at), only allowing for its expression at low levels of all three of the microRNAs. Regulation of a killer gene (hBax) with this cancer cell classifier enabled cell type‐specific destruction of the HeLa cells (Xie et al, 2011). (C) Two‐input circuits enable construction of plug‐and‐play assemblies performing sophisticated computations. The transcription factors ET1 and TtgA1, which repress the promoter activity of PETR2 and PTtgR1 in response to erythromycin (E) and phloretin (P), were combined with the RNA‐binding proteins MS2 and L7Ae, which inhibit the translation of transcripts containing the specific target motifs MS2box and C/Dbox, to construct circuits capable of performing easy computations such as N‐IMPLY logics, which are induced in the presence of only one specific input molecule. Assembling such simple circuits in a plug‐and‐play fashion allowed the construction of complex circuits capable of performing half‐subtractor and half‐adder computations (Auslander et al, 2012a). William Bacchus et al. Mol Syst Biol 2013;9:691 © as stated in the article, figure or figure legend