BU06:resources
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back to the [[:Category: Boston University 2006|BU iGEM main page]] [[Category: Boston University 2006]] | back to the [[:Category: Boston University 2006|BU iGEM main page]] [[Category: Boston University 2006]] | ||
| + | ====books==== | ||
| + | These books are online at ncbi (searchable, but not directly browseable): | ||
| + | * [http://www.ncbi.nlm.nih.gov/books/bv.fcgi?call=bv.View..ShowTOC&rid=mboc4.TOC&depth=10 The Cell] | ||
| + | * [http://www.ncbi.nlm.nih.gov/books/bv.fcgi?call=bv.View..ShowTOC&rid=cooper.TOC&depth=10 The Cell - A Molecular Approach] | ||
| + | * [http://www.ncbi.nlm.nih.gov/books/bv.fcgi?call=bv.View..ShowTOC&rid=cooper.TOC&depth=10 Molecular Cell Biology] | ||
| + | * [http://en.wikibooks.org/wiki/Biochemistry Biochemistry Wikibook] | ||
| + | |||
| + | ====protocols==== | ||
| + | * Tons of protocols at [http://openwetware.org/wiki/Protocols OpenWetWare] | ||
| + | * [https://catalog.invitrogen.com/index.cfm?fuseaction=iProtocol.home Invitrogen iProtocols] | ||
| + | * [http://www1.qiagen.com/literature/ Quigen's Handbooks & protocols] - be sure to check out the Bench Guide under "General Molecular biology protocols" | ||
| + | * [http://www.mrw.interscience.wiley.com/cp/cpmb/cpmb_contents_fs.html Current Protocols in Molecular Biology] from Wiley InterScience | ||
| + | * [http://www.promega.com/guides/ Promega Guides] | ||
| + | |||
| + | ====links==== | ||
| + | * Misc. links at the main iGEM [[Resources]] page (used to be "teaching resources" page | ||
| + | * [http://partsregistry.org/cgi/htdocs/Assembly/index.cgi standard assembly] | ||
| + | * [[Abstraction hierarchy and PoPS]] | ||
| + | |||
| + | * [http://openwetware.org/wiki/Standard_E._coli_Strain_for_BioBricks Standard E. coli Strain for BioBricks] | ||
| + | * Synthetic Biology articles in [https://dspace.mit.edu/handle/1721.1/18185/browse-title DSpace]: | ||
| + | ** [https://dspace.mit.edu/handle/1721.1/31335 Definitions and Measures of Performance for Standard Biological Parts] | ||
| + | ** [https://dspace.mit.edu/handle/1721.1/19813 Engineering the Interface Between Cellular Chassis and Integrated Biological Systems] | ||
| + | ** [https://dspace.mit.edu/handle/1721.1/32981 GeneJax: A Prototype CAD tool in support of Genome Refactoring] | ||
| + | * [http://openwetware.org/wiki/BE.109:Systems_engineering/RT-PCR_data_analysis BE.109: RT-PCR data analysis] | ||
| + | |||
| + | ====vectors==== | ||
| + | : [http://www.ncbi.nlm.nih.gov/VecScreen/replist.html VecScreen] has a list of all the vector nucleotide sequences in ncbi. | ||
| + | : [http://seq.yeastgenome.org/vectordb/ VectorDB] contains annotations and sequence information for many vectors (2600+) commonly used in molecular biology. | ||
| + | : [http://wishart.biology.ualberta.ca/PlasMapper/ PlasMapper] generates sweet annotated vector-based plasmid maps from a web interface. | ||
| + | |||
| + | ====miscellaneous==== | ||
; Why didn't the Registry include empty resistance plasmids in the DNA shipment? | ; Why didn't the Registry include empty resistance plasmids in the DNA shipment? | ||
: Check the [http://partsregistry.org/Registry_FAQ Registry FAQ]. | : Check the [http://partsregistry.org/Registry_FAQ Registry FAQ]. | ||
; [http://partsregistry.org/cgi/htdocs/Assembly/index.cgi Standard Assembly] : the basics of building and manipulating Parts, including details about XbaI and SpeI, the restriction enzymes that are the basis of these operations. | ; [http://partsregistry.org/cgi/htdocs/Assembly/index.cgi Standard Assembly] : the basics of building and manipulating Parts, including details about XbaI and SpeI, the restriction enzymes that are the basis of these operations. | ||
;RBS-CDS design issues : how the ribosomal binding site is [http://partsregistry.org/cgi/htdocs/Assembly/rbs_cds.cgi reconciled] with the location of the BioBrick ends. | ;RBS-CDS design issues : how the ribosomal binding site is [http://partsregistry.org/cgi/htdocs/Assembly/rbs_cds.cgi reconciled] with the location of the BioBrick ends. | ||
| - | ; Key to our | + | ; Key to our design: |
: [http://partsregistry.org/Lux Lux operon] in the Registry Glossary | : [http://partsregistry.org/Lux Lux operon] in the Registry Glossary | ||
| + | : [http://prodoric.tu-bs.de/gbpro.php?spos=2462292&epos=2468907&replicon=Photorhabdus%20luminescens%20(subsp.%20laumondii,%20strain%20TT01)|complete%20chromosome&gene_name=&chk_ln=1&chk_block=1&feature=1&bases=80 LuxCDABE] listing in ''prodoric''. | ||
| + | : [http://prodoric.tu-bs.de/vfp/ Virtual Footprint] at prodoric searches for prokaryote promoters in a given sequence. | ||
: An overview of UT Austin's [http://partsregistry.org/Featured_Parts:Light_Sensor Light Sensor] system. | : An overview of UT Austin's [http://partsregistry.org/Featured_Parts:Light_Sensor Light Sensor] system. | ||
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| - | + | [[BU iGEM Training]] <br> | |
| + | [[Using the wiki]]<br> | ||
| + | [[iGEM 101]] | ||
| + | |||
| + | |||
| + | ---- | ||
| + | Team members can store and reference PDFs of scientific papers at http://www.citeulike.org/user/BUiGEM/ (Get the password from Richard) Take a look at tagging feature and the bookmarklet used for posting. (I'll put in more details soon). Here's a list of tags I have so far: | ||
| + | *''part2b'' for papers describing DNA sequences that we could turn into a part | ||
| + | *''part_XYZ'' for papers describing a specific part we might make | ||
| + | *''gene_XYZ'' for papers describing a particular gene in any detail | ||
| + | |||
| + | Remember you can apply any number of relevant tags you like to a given paper. | ||
| + | |||
| + | Tom Knight's earlier plasmid construction technique: http://web.mit.edu/synbio/release/docs/biobricks.pdf | ||
| + | |||
| + | Randy Rettberg sez [http://partsregistry.org/Part:BBa_B0015 B0015] is a pretty reliable terminator. | ||
Latest revision as of 20:13, 20 July 2006
|
| Schedule | Research | Fundraising | Resources | Members | Contact |
|---|
back to the BU iGEM main page
Contents |
books
These books are online at ncbi (searchable, but not directly browseable):
protocols
- Tons of protocols at OpenWetWare
- Invitrogen iProtocols
- Quigen's Handbooks & protocols - be sure to check out the Bench Guide under "General Molecular biology protocols"
- Current Protocols in Molecular Biology from Wiley InterScience
- Promega Guides
links
- Misc. links at the main iGEM Resources page (used to be "teaching resources" page
- standard assembly
- Abstraction hierarchy and PoPS
- Standard E. coli Strain for BioBricks
- Synthetic Biology articles in DSpace:
- BE.109: RT-PCR data analysis
vectors
- VecScreen has a list of all the vector nucleotide sequences in ncbi.
- VectorDB contains annotations and sequence information for many vectors (2600+) commonly used in molecular biology.
- PlasMapper generates sweet annotated vector-based plasmid maps from a web interface.
miscellaneous
- Why didn't the Registry include empty resistance plasmids in the DNA shipment?
- Check the Registry FAQ.
- Standard Assembly
- the basics of building and manipulating Parts, including details about XbaI and SpeI, the restriction enzymes that are the basis of these operations.
- RBS-CDS design issues
- how the ribosomal binding site is reconciled with the location of the BioBrick ends.
- Key to our design
- Lux operon in the Registry Glossary
- LuxCDABE listing in prodoric.
- Virtual Footprint at prodoric searches for prokaryote promoters in a given sequence.
- An overview of UT Austin's Light Sensor system.
BU iGEM Training
Using the wiki
iGEM 101
Team members can store and reference PDFs of scientific papers at http://www.citeulike.org/user/BUiGEM/ (Get the password from Richard) Take a look at tagging feature and the bookmarklet used for posting. (I'll put in more details soon). Here's a list of tags I have so far:
- part2b for papers describing DNA sequences that we could turn into a part
- part_XYZ for papers describing a specific part we might make
- gene_XYZ for papers describing a particular gene in any detail
Remember you can apply any number of relevant tags you like to a given paper.
Tom Knight's earlier plasmid construction technique: http://web.mit.edu/synbio/release/docs/biobricks.pdf
Randy Rettberg sez B0015 is a pretty reliable terminator.
