Haynes Lab: Difference between revisions

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CURRENT SYNTHETIC BIOMEDICAL ENGINEERING PROJECTS<br>
CURRENT SYNTHETIC BIOMEDICAL ENGINEERING PROJECTS<br>


'''Synthetic chromatin for cell differentiation'''
'''Synthetic chromatin for cancer research'''
* David Barclay (FURI & SynBERC, BS) - pancreas, Jan Simper (FURI, BS) - cardiac
* David Nyer (Research Tech), David Tze (Biomed Eng. BS)
* Description: Testing the "PcTF" synthetic chromatin protein/ transcription activator described in Haynes & Silver 2011 to determine its ability to alter the phenotypes of healthy cells, such as pancreas beta cells and iPSC's.
* Description: Using the "PcTF" synthetic chromatin protein/ transcription activator described in [http://www.ncbi.nlm.nih.gov/pubmed/21669865 Haynes & Silver 2011] to regulate genes in cancer cells. Building and testing re-engineered versions of PcTF.




'''Editing synthetic genes using CRISPR'''
'''Opening silenced chromatin'''
* René Davis (Biological Design, PhD)
* Daniel Vargas (Biological Design PhD)
* Description: Characterizing chromatin/CRISPR interactions. Re-engineering synthetic gene circuits in human cells using CRISPR.
* Description: Using synthetic chromatin proteins to induce a permanently re-opened state at epigenetically silenced genes.
 
 
'''Synthetic chromatin systems for cell development'''
* David Barclay (Biomedical Eng. BS), Jan Simper (Biomedical Eng. BS), Theodore Kyriacou (Biomedical Eng. BS)
* Description: Designing a single-cell-level fluorescent reporter that tracks changes in epigenetic states in developing cells.




'''Engineering synthetic chromatin transcription factors'''
'''Editing synthetic genes using CRISPR'''
* Cameron Gardner (FURI, BS)
* René Davis (Biological Design PhD)
* Description: Building and testing re-engineered versions of the "PcTF" synthetic chromatin protein/ transcription activator described in Haynes & Silver 2011
* Description: Characterizing chromatin/CRISPR interactions.




'''Microbial communication with synthetic quorum sensing'''
'''Microbial communication with synthetic quorum sensing'''
* René Davis (Biological Design, PhD), Ryan Muller (SOLUR, BS)
* René Davis (Biological Design, PhD), Ryan Muller (Biochem. BS), Jiaqi Wu (Biomedical Eng. BS)
* Description: Characterizing cross-talk between decoupled cell-cell communication systems from bacteria.
* Description: Characterizing cross-talk between decoupled cell-cell communication systems from bacteria.


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'''Lab Notebooks - Active''' {{hide|
'''Lab Notebooks - Active''' {{hide|
* [http://openwetware.org/wiki/Haynes_Lab:Notebook/SynBERC_Scholars_2013 Alfonso & Zazu]
* [http://openwetware.org/wiki/User:David_Benjamin_Nyer/Notebook Ben]
* [http://openwetware.org/wiki/User:Behzad_Damadzadeh/Notebook/PcTF_Subcloning_in_E-coli Behzad]
* [http://openwetware.org/wiki/User:Daniel_A._Vargas/Notebook/General_lab_notebook Daniel]
* [http://openwetware.org/wiki/Haynes_Lab:Notebook/Engineering_PC-TFs Cameron]
* [http://openwetware.org/wiki/User:David_Barclay/Notebook David Barclay]
* [http://openwetware.org/wiki/User:David_Barclay/Notebook David Barclay]
* [http://openwetware.org/wiki/Haynes_Lab:Notebook/Heathers_Lab_Notebook Heather]
* [http://openwetware.org/wiki/Haynes_Lab:Notebook/Synthetic_Chromatin_for_Cancer_Research David Tze]
* [http://openwetware.org/wiki/Haynes_Lab:Notebook/Jan Jan]
* [http://openwetware.org/wiki/Haynes_Lab:Notebook/Jan Jan]
* [http://openwetware.org/wiki/User:Karmella_Haynes/Notebook Karmella]
* [http://openwetware.org/wiki/User:Karmella_Haynes/Notebook Karmella]
* [http://openwetware.org/wiki/Haynes_Lab:Notebook/Lab_Traning_-_Pradyumna_Kadambi#Pradyumna_Kadambi.2FUndergraduate_Lab_Traning Prad]
* [http://openwetware.org/wiki/User:Rene_M_Davis/Notebook Rene]
* [http://openwetware.org/wiki/User:Rene_M_Davis/Notebooks René - Quorum Sensing]
* [http://openwetware.org/wiki/Haynes_Lab:Notebook:Shared/Cloning_Bootcamp SHARED: Cloning Bootcamp]
* [http://openwetware.org/wiki/Haynes_Lab:Notebook/CRISPR_Editing René - CRISPR Editing]
* [http://openwetware.org/wiki/Haynes_Lab:Notebook/Short_Projects SHARED: Short Projects]
* [http://openwetware.org/wiki/User:Brendan_F._Fries/Notebook/Brendan_Fries Brendan]
* [http://openwetware.org/wiki/Haynes_Lab:Notebook:Shared/Cloning_Bootcamp Cloning Bootcamp]
* [http://openwetware.org/wiki/Haynes_Lab:Notebook/Short_Projects Short Projects]
}}
}}
'''Lab Notebooks - Archived''' {{hide|
'''Lab Notebooks - Archived''' {{hide|
* [http://openwetware.org/wiki/Haynes_Lab:Notebook/Chimera_Biosensor_%28C.R.SYS%29 Abhi]
* [http://openwetware.org/wiki/Haynes_Lab:Notebook/Chimera_Biosensor_%28C.R.SYS%29 Abhi]
* [http://openwetware.org/wiki/Haynes_Lab:Notebook/SynBERC_Scholars_2013 Alfonso & Zazu]
* [http://openwetware.org/wiki/Haynes_Lab:Notebook/Inteins Amanda]
* [http://openwetware.org/wiki/Haynes_Lab:Notebook/Inteins Amanda]
* [http://openwetware.org/wiki/User:Behzad_Damadzadeh/Notebook/PcTF_Subcloning_in_E-coli Behzad]
* [http://openwetware.org/wiki/User:Brendan_F._Fries/Notebook/Brendan_Fries Brendan]
* [http://openwetware.org/wiki/Haynes_Lab:Notebook/Engineering_PC-TFs Cameron]
* [http://openwetware.org/wiki/Carly's_Lab_Notebook Carly]
* [http://openwetware.org/wiki/Carly's_Lab_Notebook Carly]
* [http://openwetware.org/wiki/User:David_Dreher/Notebook/Chromatin_controlled_cell_pattern David Dreher]
* [http://openwetware.org/wiki/User:David_Dreher/Notebook/Chromatin_controlled_cell_pattern David Dreher]

Revision as of 10:19, 26 June 2015


Our group uses synthetic, systems, and quantitative biology to engineer useful gene and protein-based biological devices and to deepen our understanding of molecular cell biology. We operate biological devices primarily in human/ mammalian cells. Accelerating the pace of therapeutic technologies (such as tissue regeneration and customizable protein-based drugs) via modular design is the grand challenge that shapes our research plans.

CURRENT SYNTHETIC BIOMEDICAL ENGINEERING PROJECTS

Synthetic chromatin for cancer research

  • David Nyer (Research Tech), David Tze (Biomed Eng. BS)
  • Description: Using the "PcTF" synthetic chromatin protein/ transcription activator described in Haynes & Silver 2011 to regulate genes in cancer cells. Building and testing re-engineered versions of PcTF.


Opening silenced chromatin

  • Daniel Vargas (Biological Design PhD)
  • Description: Using synthetic chromatin proteins to induce a permanently re-opened state at epigenetically silenced genes.


Synthetic chromatin systems for cell development

  • David Barclay (Biomedical Eng. BS), Jan Simper (Biomedical Eng. BS), Theodore Kyriacou (Biomedical Eng. BS)
  • Description: Designing a single-cell-level fluorescent reporter that tracks changes in epigenetic states in developing cells.


Editing synthetic genes using CRISPR

  • René Davis (Biological Design PhD)
  • Description: Characterizing chromatin/CRISPR interactions.


Microbial communication with synthetic quorum sensing

  • René Davis (Biological Design, PhD), Ryan Muller (Biochem. BS), Jiaqi Wu (Biomedical Eng. BS)
  • Description: Characterizing cross-talk between decoupled cell-cell communication systems from bacteria.

Lab Notebooks - Active

Lab Notebooks - Archived

Benchling
Trello Boards

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