iGEM 2009 — Team Heidelberg

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# Team:Heidelberg/Notebook

### From 2009.igem.org

* [Home](https://2009.igem.org/Team%3AHeidelberg)
* [Team](https://2009.igem.org/Team%3AHeidelberg/Team)
  + [Overview](https://2009.igem.org/Team%3AHeidelberg/Team)
  + [Students](https://2009.igem.org/Team%3AHeidelberg/Team_Members#Students)
  + [Advisors](https://2009.igem.org/Team%3AHeidelberg/Team_Members#Advisors)
  + [Scientific Environment](https://2009.igem.org/Team%3AHeidelberg/Team_Scientific_Environment)
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* [Project](https://2009.igem.org/Team%3AHeidelberg/Project)
  + [Abstract](https://2009.igem.org/Team%3AHeidelberg/Project)
  + [Introduction](https://2009.igem.org/Team%3AHeidelberg/Project_Introduction)
  + [Measurement](https://2009.igem.org/Team%3AHeidelberg/Project_Measurement)
  + [Synthetic Promoters](https://2009.igem.org/Team%3AHeidelberg/Project_Synthetic_promoters)
  + [HEARTBEAT](https://2009.igem.org/Team%3AHeidelberg/HEARTBEAT)
  + [Further Subprojects](https://2009.igem.org/Team%3AHeidelberg/Project_Further)
  + [Summary & Outlook](https://2009.igem.org/Team%3AHeidelberg/Project_SaO)
  + [References](https://2009.igem.org/Team%3AHeidelberg/Project_References)
  + [Acknowledgements](https://2009.igem.org/Team%3AHeidelberg/Acknowledgement)
* [Parts](https://2009.igem.org/Team%3AHeidelberg/Parts)
  + [Parts](https://2009.igem.org/Team%3AHeidelberg/Parts)
  + [Characterization](https://2009.igem.org/Team%3AHeidelberg/Parts_Characterization)
* [HEARTBEAT](https://2009.igem.org/Team%3AHeidelberg/HEARTBEAT)
  + [What is HEARTBEAT?](https://2009.igem.org/Team%3AHeidelberg/HEARTBEAT)
  + [HEARTBEAT Database](https://2009.igem.org/Team%3AHeidelberg/HEARTBEAT_database)
  + [HEARTBEAT GUI](https://2009.igem.org/Team%3AHeidelberg/HEARTBEAT_GUI)
  + [GUI Documentation](https://2009.igem.org/Team%3AHeidelberg/HEARTBEAT_gui)
  + [HEARTBEAT Fuzzy Network Modeling](https://2009.igem.org/Team%3AHeidelberg/HEARTBEAT_network)
* [Notebook](https://2009.igem.org/Team%3AHeidelberg/Notebook)
  + [Natural Promoters](https://2009.igem.org/Team%3AHeidelberg/Notebook_natural_promoters_overview)
  + [Synthetic Promoters](https://2009.igem.org/Team%3AHeidelberg/Notebook_synthetic_promoters)
  + [Cell Culture, Promoters](https://2009.igem.org/Team%3AHeidelberg/Notebook_promoters_cells)
  + [Stable Cell Line](https://2009.igem.org/Team%3AHeidelberg/Notebook_cell_line)
  + [Multi-Color Output](https://2009.igem.org/Team%3AHeidelberg/Notebook_color_output)
  + [HEARTBEAT](https://2009.igem.org/Team%3AHeidelberg/Notebook_modeling)
  + [Measurements](https://2009.igem.org/Team%3AHeidelberg/Notebook_measure)
  + [Material & Methods](https://2009.igem.org/Team%3AHeidelberg/Notebook_MaM)
  + [Team Meetings](https://2009.igem.org/Team%3AHeidelberg/Notebook_meetings)
  + [Biosafety](https://2009.igem.org/Team%3AHeidelberg/Biosafety)
* [Eukaryopedia](https://2009.igem.org/Team%3AHeidelberg/Eukaryopedia)
* [Sponsors](https://2009.igem.org/Team%3AHeidelberg/Sponsors)

|  |  |
| --- | --- |
| Notebook Overview  Find the notebooks regarding our subgroups below. They show our daily work in chronological order. Summarized strategies, plans and results are found in the [project](/Team%3AHeidelberg/Project "Team:Heidelberg/Project") or the [HEARTBEAT](/Team%3AHeidelberg/HEARTBEAT "Team:Heidelberg/HEARTBEAT") section respectively. Note that we used abbreviations especially for plasmids and oligos. Find a more detailed description of those in the [material section](/Team%3AHeidelberg/Notebook_MaM#Oligos "Team:Heidelberg/Notebook MaM").   * [Natural Promoter project](/Team%3AHeidelberg/Notebook_natural_promoters_overview "Team:Heidelberg/Notebook natural promoters overview"):   In this subproject we cloned natural promoters from a variety of sources (e. g. [other research groups](/Team%3AHeidelberg/Project_Natural_promoters#Methods "Team:Heidelberg/Project Natural promoters")). We chose promoters that are somewhat specifically inducible. We then tested conditions that we found in [literature](/Team%3AHeidelberg/Notebook_MaM#References "Team:Heidelberg/Notebook MaM") to induce those promoters. Some of those experiments helped us to determine the [induction conditions](/Team%3AHeidelberg/Notebook_MaM#Induction "Team:Heidelberg/Notebook MaM") for our own synthetic promoters.   * [Synthetic Promoter project](/Team%3AHeidelberg/Notebook_synthetic_promoters "Team:Heidelberg/Notebook synthetic promoters"):   This was one of our largest subprojects. During the first few weeks of this year's iGEM we mostly worked on DNA synthesis and cloning of those promoters. Later on, the focus shifted to screening and characterizing those promoters as described in the [methods](/Team%3AHeidelberg/Notebook_MaM#Measurement_and_Screening "Team:Heidelberg/Notebook MaM") and [measurement](/Team%3AHeidelberg/Project_Measurement#Method_details "Team:Heidelberg/Project Measurement") sections.   * [Cell Culture, Promoters](/Team%3AHeidelberg/Notebook_promoters_cells "Team:Heidelberg/Notebook promoters cells"):   We started out with getting used to cell culture work and learned the basics such as [splitting](/Team%3AHeidelberg/Notebook_MaM#Splitting_cells "Team:Heidelberg/Notebook MaM"), [freezing](/Team%3AHeidelberg/Notebook_MaM#Freeze_cells "Team:Heidelberg/Notebook MaM") and [transfecting](/Team%3AHeidelberg/Notebook_MaM#Transfection_of_Mammalian_cells "Team:Heidelberg/Notebook MaM") cells. For the latter, we started out by transfecting our fluorescent protein templates. Later on, the cell culture work became essential for any promoter testing we carried out.   * [Stable Cell Line project](/Team%3AHeidelberg/Notebook_cell_line "Team:Heidelberg/Notebook cell line"):   As selecting stables is a very time consuming task, we tried to start as early as possible with this subproject. After several weeks of selection, cell lines with [stably integrated FRT sites](/Team%3AHeidelberg/stables#Introduction "Team:Heidelberg/stables") were established. After that, our focus shifted towards [characterizing those cell lines](/Team%3AHeidelberg/stables#LAM-PCR "Team:Heidelberg/stables") by identifying the number and genomic localizations of those integration sites.   * [Multi-color Output project](/Team%3AHeidelberg/Notebook_color_output "Team:Heidelberg/Notebook color output"):   Removing restriction sites that are used for the BBb standard (such as PstI, EcoRI and other) from the fluorescent proteins was the first requirement to make those proteins usable for BioBricking. Later on, we created several standardized fluorescent proteins and localization tags. On the way, we tested the creation of fusion plasmids by using the BBb standard. Towards the end of our project, a lot of cloning work for the part submission had to be done.   * [HEARTBEAT project](/Team%3AHeidelberg/Notebook_modeling "Team:Heidelberg/Notebook modeling"):   The notebook of the HEARTBEAT (Heidelberg Artificial Transcription Factor Binding Sites Assembly and Engineering Tool) project comprises the work on three sublanes: HEARTBEAT database (DB), HEARTBEAT graphical user interface (GUI) and HEARTBEAT fuzzy modeling (FN) as well as some additional work on logo as well as wiki design.   * [Measurement project](/Team%3AHeidelberg/Notebook_measure "Team:Heidelberg/Notebook measure"):   The section consists of RT-PCR, flow cytometry, dual plasmid and microscopy notebook, summarizing our large variety of measurements. |  |

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