Molecular biology
From CSBLwiki
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##do transformation in E. coli (recommend to use electro-competent cells) | ##do transformation in E. coli (recommend to use electro-competent cells) | ||
- | ==Softwares== | + | ==Tools== |
+ | ===Webtools== | ||
+ | #[http://www.basic.northwestern.edu/biotools/oligocalc.html Oligo Tm calculation] | ||
+ | ===Softwares==== | ||
#[[NIH Image]]: Gel analysis software | #[[NIH Image]]: Gel analysis software | ||
#[http://serialbasics.free.fr/Serial_Cloner.html Serial Cloner]: DNA sequence management (PCR, restriction maps, etc.) | #[http://serialbasics.free.fr/Serial_Cloner.html Serial Cloner]: DNA sequence management (PCR, restriction maps, etc.) | ||
- | |||
#BioX (Mac OS X only) | #BioX (Mac OS X only) | ||
+ | #Biological sequence editor [http://www.mbio.ncsu.edu/BioEdit/bioedit.html Bioedit] | ||
+ | #[http://en.wikipedia.org/wiki/Jmol Jmol] test | ||
+ | <jmol> | ||
+ | <jmolApplet> | ||
+ | <uploadedFileContents>test.pdb</uploadedFileContents> | ||
+ | </jmolApplet> | ||
+ | </jmol> |
Revision as of 14:56, 7 August 2008
Contents |
Reagents & Protocols
recipes
- Commonly used reagents and equipment in molecular biology (PDF)
- Concentration of antibiotics commonly used
- For DNA extraction (to remove some protein contaminants & inactivate enzymes): Phenol:Chloroform=1:1(v:v) solution
- DNA sequencing check list
- quality score
- good sequencing result vs. bad sequencing result (see below example)
protocols
- PCR - General rules for primer design
- Genomic DNA extraction
- Competent cell preparation BSGC protocol (PDF)
- Electrocompetent cell Protocol (PDF)
- LIC cloning introduction LIC introduction - Ligation Independent Cloning
- LIC cloning protocol (Berkeley Structural Genomics Center)
- Vector preparation
- Insert preparation
- LIC transformation:
- mix insert and vector in appropriate amounts
- incubate 5~30 min(20 min) at room temperature
- do transformation in E. coli (recommend to use electro-competent cells)
Tools
=Webtools
Softwares=
- NIH Image: Gel analysis software
- Serial Cloner: DNA sequence management (PCR, restriction maps, etc.)
- BioX (Mac OS X only)
- Biological sequence editor Bioedit
- Jmol test