From 2014.igem.org

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Revision as of 08:55, 12 September 2014

DRY LAB JOURNAL

At the start of our project, we undertook a week of boot camp – yes, it was as intense as it sounds! With all team members coming from a range of backgrounds with different abilities, we thought that this would be a good idea to allow everyone to be on the same page with the same basic level of understanding in each component of the project. This week was very useful as it allowed us to become familiar with all aspects of the project. As well as this, it was a great icebreaker that helped our team of students, advisors and supervisors to get to know each other better! Following on from this, we officially began our work over the summer.

BOOTCAMP

MONDAY 16th JUNE

Laboratory Orientation and Safety Training
Laboratory Techniques 1
- Pipetting, LB Broth, LB agar and Overnight Cultures
Project Expectations Discussion
- Medal criteria, weekly meetings to discuss objectives and results, personal logs of what and how things have been done

TUESDAY 17th JUNE

Introduction of Policy and Practices
Discussion of Social Implications of Synthetic Biology
Genome 101
Laboratory Techniques 2
- Plasmid DNA extraction, PCR and Chemical Transformation

WEDNESDAY 18th JUNE

Introduction to Modelling
BioBricks and the Registry
Methodology in Social Science and Data Collection

THURSDAY 19th JUNE

Oxford Meet Up
Wiki and Team Identity Discussion

FRIDAY 20th JUNE

Project Presentation to the Chemical and Biological Engineering Department at the University of Sheffield
Weekly Report and Feedback

WEEK 1

MONDAY 23rd JUNE

Collated contact details of potential sponsors
Drafter sponsorship request letters for money, equipment and expertise

TUESDAY 24th JUNE

Continued working towards producing a sponsorship package
Reading published papers relating to synthetic biology and iGEM regarding awareness and impressions
Set up two meetings: marketing and industry expertise

WEDNESDAY 25th JUNE

Mathematica – 4 of our student team members went on a course to learn Mathematica for the modelling aspect of the project
Further reading of policy and practices papers
Worked on team identity in preparation for the marketing meeting
Sponsorship package completed – this can be found here
Translated written protocols into the lab notation

THURSDAY 26th JUNE

Started planning our Meet Up and contacted teams for potential collaboration
Continued work on the lab notation
Discussed potential research questions to carry out a study within the University
Meeting with industry expert within the University of Sheffield; this provided us with new contacts and a better understanding of the UK sewage system and how it functions. It was also very useful as we began to consider the applications of our project and what we may need to consider
Mathematica

FRIDAY 27th JUNE

Used XML and PYTHON to try to produce a computer language for the lab notation
Mathematica
Weekly meeting and report

WEEK 2

MONDAY 30th JUNE

Weekly meeting to set objectives Weekly meeting to set objectives
Worked on the interview questions to be used for the University of Sheffield case study
Further research on potential sponsors
Mathematica

TUESDAY 1st JULY

Meeting with advisors to discuss suitability of research question and interviews
Began to consider the ethics needed to go alongside this
Mathematica

WEDNESDAY 2nd JULY

Finalised research questions and sent off ethics approval
Began learning HTML and other mark up languages for the Wiki

THURSDAY 3rd JULY

Team identity discussion on potential project names and logo
Researched assays
Wrote COSHH forms
Sent out sponsorship packages
ERASynBio research and application draft

FRIDAY 4th JULY

Sent out invitations for the meet up
Organised speakers and planned the remainder of the meet up
Continued research on assays and writing COSHH forms

WEEK 3

MONDAY 7th JULY

Weekly meeting to set objectives
Write up policy and practices project outline
Emailed Sheffield 2010 iGEM Team regarding their lab notation work
Collated more contacts for sponsors
Contacted modelling expert within the University to set up a meeting
Wiki development meeting

TUESDAY 8th JULY

Project implementation discussion and potential designs drawn on CAD
Assay research
Researched GMO approval requirements for the safety form

WEDNESDAY 9th JULY

Wiki development
Sponsorship requests

THURSDAY 10th JULY

Sponsorship requests
Arranged catering for the meet up
Wiki development
Discussed the improvement of the lab notation
Assay database idea discussed

FRIDAY 11th JULY

Weekly meeting and report
Reading research papers regarding FOGs and whey they are caused
Lab notation development
Collected assays for the database
ERASynBio application sent

WEEK 4

MONDAY 14thJULY

Weekly meeting to set objectives
Finalised logo design
Made contact with experts at Northumbrian Water and Anglian Water
Wiki development meeting

TUESDAY 15th JULY

Modelling meeting – use of Mathematica to analyse the FadR characterisation, use of CFD to model fluid flow and also control system analysis
Meeting with industry expert from the University regarding product development
Produced poster and presentation for the meet up on Friday
Debugged temporary wiki

WEDNESDAY 16th JULY

Discussed second research question further; concluded it would focus on responsibility
Jamboree meeting

THURSDAY 17th JULY

Set up interviews with Sheffield City Council
Sent reminder to all teams attending Friday’s meet up
Finalised meet up details

FRIDAY 18th JULY

Meet up

WEEK 5

MONDAY 21st JULY

Weekly meeting to set objectives
Discussed interview questions for the responsibility question
Modelling meeting – biological modelling may be limited; product design may be better to focus on
FadR characterisation meeting – decided to continue characterising this but not use it in the final construct of our product
CAD drawings of current designs
Interview with University lecturer from Molecular Biology and Biotechnology

TUESDAY 22nd JULY

Researched current enzyme dosing systems to help develop product further
Interview with a food outlet regarding responsibility
Started transcribing lab book protocols into HTML code
Researched the law and legislation regarding fat disposal by the public

WEDNESDAY 23rd JULY

Meeting with expert from Anglian Water
Set up interviews within the University for the faculty wide study
Skype meeting with Manchester iGEM Team for potential collaboration; found that projects were quite different

THURSDAY 24th JULY

Used SolidWorks for new product designs
Contacts schools regarding outreach
Spoke to Oxford iGEM Team regarding collaboration

FRIDAY 25th JULY

Weekly meeting and report
Decided to pursue the Manufacturing track

WEEK 6

MONDAY 28 JULY

Weekly meeting to set objectives
Reading FOG papers
Began writing up parts of the project we have completed so far
Collaborative links established with Valencia iGEM Team

TUESDAY 29 JULY

Interview with expert from Northumbrian Water
Organised lab notation testing sessions and carried these out
Collaborative links with Oxford iGEM Team
Interview with University lecturer in Landscape

WEDNESDAY 30 JULY

Analysed feedback from lab notation testing and made suggested improvements
Interviews with University lecturers from the Medical School and Geography
Began SocioBrick development and discussion

THURSDAY 31 JULY

Contacted Paris Bettencourt iGEM Team to be featured in their newsletter

FRIDAY 1 AUGUST

Weekly meeting and report
Interviews with University lecturers from Civil Engineering and Biomedical Science
SocioBrick development

WEEK 7

MONDAY 4th AUGUST

Weekly meeting to set objectives
Finished improved lab protocols
Skype meetings with Oxford iGEM and Paris Bettencourt iGEM Teams
Interview with a food outlet for the responsibility study

TUESDAY 5th AUGUST

Started writing up SocioBrick descriptions
Wiki development
Product design

WEDNESDAY 6th AUGUST

Interview with University lecturer from Automatic Control and Systems Engineering
Wiki development
Product design

THURSDAY 7th AUGUST

Interviews with University lecturers from Music and Biblical Studies
Product design
Analysis of interviews conducted over the past few weeks

FRIDAY 8th AUGUST

Weekly meeting and report
Skype meeting with Oxford iGEM Team
Added to the wiki write ups

WEEK 8

MONDAY 11th AUGUST

Weekly meeting to set objectives
Interview analysis

TUESDAY 12th AUGUST

Write up of the interviews conducted within the University
Product development
SocioBrick development

WEDNESDAY 13th AUGUST

Interview with a representative from the Labour party
Wiki development
Product development

THURSDAY 14th AUGUST

SocioBrick development
Product development

FRIDAY 15th AUGUST

Weekly meeting and report
Wrote project abstract for the iGEM official team page

WEEK 9

MONDAY 18th AUGUST

Weekly meeting to set objectives
Researched more analysis SocioBricks as these were lacking

TUESDAY 19th AUGUST

Product design
Interview analysis for responsibility report
Wiki development

WEDNESDAY 20th AUGUST

Wiki team meeting to set up deadlines for the next few weeks
Designs for the wiki layout made
Writing up responsibility report

THURSDAY 21st AUGUST

Writing up responsibility report
Interviewed more food outlets and analysed the results
Contacted more water companies
Set up a trip to Veolia for late September

FRIDAY 22nd AUGUST

Weekly meeting and report
Collaborative link with Valencia_UPV iGEM Team – agreed to test our lab notation
Interview with a Labour councillor

WEEK 10

MONDAY 25th AUGUST

Bank Holiday

TUESDAY 26th AUGUST

Planned outreach events for schools
Made poster for YSB/UCL meet up
Sent improved lab notation to Edinburgh iGEM Team for collaboration
Writing up responsibility report

WEDNESDAY 27th AUGUST

Made presentation for YSB/UCL meet up
Product development
Safety form

THURSDAY 28th AUGUST

Treatment plant visit and interviews with the workers there
Product development

FRIDAY 29th AUGUST

Weekly meeting and report – everyone given specific deadlines to meet over the next month
Finalised poster and presentation for YSB/UCL meet up
Wiki development
Uploaded project title and abstract to the official iGEM team page

@@ Line 26: / Line 26: @@
 At the start of our project, we undertook a week of boot camp – yes, it was as intense as it sounds! With all team members coming from a range of backgrounds with different abilities, we thought that this would be a good idea to allow everyone to be on the same page with the same basic level of understanding in each component of the project. This week was very useful as it allowed us to become familiar with all aspects of the project. As well as this, it was a great icebreaker that helped our team of students, advisors and supervisors to get to know each other better! Following on from this, we officially began our work over the summer.
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 Weekly Report and Feedback </br>
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 Weekly meeting and report </br>
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 Continued research on assays and writing COSHH forms </br>
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 	<h2>WEEK 3</h2>
 	<h3>MONDAY 7th JULY</h3>
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 ERASynBio application sent  </br>
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 	<h2>WEEK 4</h2>
 	<h3>MONDAY 14thJULY</h3>
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 Meet up </br>
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 Decided to pursue the Manufacturing track </br>
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 	<h2>WEEK 6</h2>
 	<h3>MONDAY 28 JULY</h3>
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 SocioBrick development </br>
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 	<h2>WEEK 7</h2>
 	<h3>MONDAY 4th AUGUST</h3>
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 Added to the wiki write ups </br>
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 	<h2>WEEK 8</h2>
 	<h3>MONDAY 11th AUGUST</h3>
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 Wrote project abstract for the iGEM official team page  </br>
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 	<h2>WEEK 9</h2>
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 Interview with a Labour councillor  </br>
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 	<h2>WEEK 10</h2>
 	<h3>MONDAY 25th AUGUST </h3>

Team:Sheffield/DLjournal