Lidstrom:Back Door:Useful Links: Difference between revisions
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*[http://masspec.scripps.edu/book_toc.php Scripps Mass Spec Book] | *[http://masspec.scripps.edu/book_toc.php Scripps Mass Spec Book] | ||
*[http://www.chromatographyonline.com/lcgc/article/articleDetail.jsp?id=327354 Ion Suppression] | *[http://www.chromatographyonline.com/lcgc/article/articleDetail.jsp?id=327354 Ion Suppression] | ||
== HPLC == | |||
* Shimadzu [http://www.ssi.shimadzu.com/LC_VirtualAdvisor/LCVA.htm Virtual Advisor]. | |||
** Ask Nicole, Amanda, or Janet for the lab log-in. | |||
== Misc == | == Misc == | ||
Revision as of 14:00, 30 January 2013
Back to Back Door
General
- general biology/biotech basics from Integrated DNA Technologies (IDT)
- Molecular Biology Background:
- Mitochondrial DNA, Mendelian Genetics, Molecular Facts and Figures, Protein Synthesis, microRNAs, DNA Replication, A Brief History of DNA, What is an Oligo
- Molecular Biology Techniques:
- The Polymerase Chain Reaction, Gel Electrophoresis , Restriction Endonucleases , DNA Sequencing , Antisense Technologies , A Basic PCR Protocol ,
- Molecular Biology Background:
Microbiology
E. coli
- Working with E. coli
- coli Genome Stock Center
- Ecocyc
- EcoSal !!subscription required!! (not available at UW)
- origins of replication
Molecular Biology
DNA/RNA Tools
- Agarose gel electrophoresis basics
- Genewiz DNA sequencing
- IDT DNA oligos
- EBI Sequence Alignment
- BLAST! Sequence Alignment
- RBS strength calculator/engineering tool
- Accuracy stated by FAQ: "on average, the predictions of the RBS Calculator are accurate to within a factor of 2.3, equivalent to an error of 1.82 kcal/mol in the thermodynamic model. There is a 47% chance that a synthetic ribosome binding site will be accurate to within 2-fold of its predicted translation initiation rate." So you can estimate it to have accuracy within an order of magnitude. Pretty sensitive to the amount of upstream & downstream sequence info you provide. Check your forward engineering designs with more bp included in the reverse engineering mode.
- Finnzyme Tm calculator: use if you use Phusion DNA polymerase
- Finnzyme multiple primer analyzer looks for primer dimers (check before ordering primers)
- Replicons and Compatibility
- Nanodrop Info
BioBricks
Protein Tools
- Size Estimation
- Visualization
- Structure Prediction
- Alignment
Synthetic Biology
Mass Spec
HPLC
- Shimadzu Virtual Advisor.
- Ask Nicole, Amanda, or Janet for the lab log-in.
Misc
- Mathematica (not free)
Presentations/Posters
- Website to see how colorblind people will see your slides
- University Art Pack Download: a collection of University of Washington logos
University of Washington
UW Resources
Safety/Lab Technique
- Sample video: sterile technique
Graphics
- inkscape - SVG (vector) drawings, free. Loved by Janet & Amanda
- GIMP - pixels (like photoshp), free
- website about the interface
- http://www.gimp.org/release-notes/gimp-2.8.html - shows the location plus download link
Misc
- Mendeley : reference/paper manager that's awesome
- Endy:Victor3_plate_reader/filters Filters for Fluorescence
- Equilibrator
- BioNumbers: a collection of useful bionumbers
- emolecules Chemical Lookup
