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) - iPSC's
* David Nyer (Research Tech), Daniel Vargas (Biological Design PhD), Stefan Tekel (Biological Design PhD), David Tze (Biomed Eng. BS)
* Description: Testing the "PcTF" synthetic chromatin protein/transcription activator described in [http://www.ncbi.nlm.nih.gov/pubmed/21669865 Haynes & Silver 2011] to determine its ability to alter the phenotypes of healthy cells, such as cell fate switching from alpha cells to beta cells in the pancreas to treat diabetes or the growing of programmable "organoids" from and transfection of iPS cells to enhance current measurements of pluripotency.
* 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)
* René Daer (Biological Design, PhD), Cassandra Barrett (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.




'''Engineering synthetic chromatin transcription factors'''
'''Synthetic chromatin systems for cell development'''
* Cameron Gardner (FURI, BS)
* David Barclay (Biomedical Eng. BS), Jan Simper (Biomedical Eng. BS), Theodore Kyriacou (Biomedical Eng. BS)
* Description: Building and testing re-engineered versions of the "PcTF" synthetic chromatin protein/ transcription activator described in [http://www.ncbi.nlm.nih.gov/pubmed/21669865 Haynes & Silver 2011].
* Description: Designing a single-cell-level fluorescent reporter that tracks changes in epigenetic states in developing cells.




'''Microbial communication with synthetic quorum sensing'''
'''Microbial communication with synthetic quorum sensing'''
* René Davis (Biological Design, PhD), Ryan Muller (SOLUR, BS)
* René Daer (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/User:David_Benjamin_Nyer/Notebook Ben]
* [http://openwetware.org/wiki/User:David_Benjamin_Nyer/Notebook Ben]
* [http://openwetware.org/wiki/Haynes_Lab:Notebook/Engineering_PC-TFs Cameron]
* [http://openwetware.org/wiki/User:Daniel_A._Vargas/Notebook/General_lab_notebook Daniel]
* [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]
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* [http://openwetware.org/wiki/Haynes_Lab:Notebook:Shared/Cloning_Bootcamp SHARED: Cloning Bootcamp]
* [http://openwetware.org/wiki/Haynes_Lab:Notebook:Shared/Cloning_Bootcamp SHARED: Cloning Bootcamp]
* [http://openwetware.org/wiki/Haynes_Lab:Notebook/Short_Projects SHARED: Short Projects]
* [http://openwetware.org/wiki/Haynes_Lab:Notebook/Short_Projects SHARED: Short Projects]
* [http://openwetware.org/wiki/User:Stefan_J._Tekel/Notebook/Pc-TF_Engineering Stefan Tekel]
* [http://openwetware.org/wiki/User:Mara_Peterson/Notebook/Mara_Peterson Mara Peterson]
}}
}}
'''Lab Notebooks - Archived''' {{hide|
'''Lab Notebooks - Archived''' {{hide|
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* [http://openwetware.org/wiki/User:Behzad_Damadzadeh/Notebook/PcTF_Subcloning_in_E-coli Behzad]
* [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/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]

Latest revision as of 10:44, 7 January 2016


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), Daniel Vargas (Biological Design PhD), Stefan Tekel (Biological Design PhD), 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

  • René Daer (Biological Design, PhD), Cassandra Barrett (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.


Microbial communication with synthetic quorum sensing

  • René Daer (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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