Lab Resources

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Schedules and Calendars

NMR Schedule

Seminars

Biochemistry Seminar Schedule
Chemistry Seminar Schedules
Genome Sciences Seminar Schedule
COMBI (COMputational BIology) Seminar Schedule

Office

Printers

Lab Protocols

General Protocols

Chemical Waste Checklist

NMR

Parameter List: 500
Parameter List: 750
Structure calculations using CYANA ⁄ SPARKY
NMRPipe Tutorial

RNA

Chemical shifts of RNA
In vitro transcription of telomerase RNA gene
Phosphorylation reaction

Protein ⁄ DNA

Protein Expression vs. time
Auto-Induction method
Conventional Telomerase Assay
Detailed Protocol-- conventional telomerase assay
Purification of HuD1,2
Labeled Nucleotide Prep
Preparation and use of E.Coli glycerol stocks
Improved method for plasmid shipment
Preparation of HeLa nuclear extracts
Rnt1p Expression
Superdex 75 size exclusion column standard run
T7 NNA polymerase preparation protocol
TEV protease expression and purification
TRAP assay

Helpful Links and shortcuts

Journals

Biochemistry
Cell
Current Opinions in Biotechnology
Current Opinions in Chemical Biology
Current Opinions in Structural Biology
EMBO
Genes & Development
Journal of the American Chemical Society
Journal of Biological Chemistry
Journal of Biomolecular NMR
Journal of Magnetic Resonance
Journal of Molecular Biology
Molecular and Cell Biology
Molecular Cell
Nature
Nature Biotechnology
Nature Structural & Molecular Biology
Nucleic Acids Research
Proceedings of the National Academy of Sciences (USA)
Protein Science
RNA
Science
Structure

Useful Biochemistry Links

EMBL-EBI Clustal W Multiple Sequence Alignment Submission Form
Restriction Mapper: Online Restriction Mapping
REBASE: Database of Restriction Enzymes
General PCR Notes
Amino Acid Single Letter Codes and Structures
Amino Acid Codon Table
UW HealthLinks BioResearcher Tookit
CODEHOP--Codon Usage Tables for many different organisms

Online Calculators and Conversions

Weight to Mole Converter. Many useful tools here!!
Calculating Amounts of Nucleic Acids
Oligonucleotide Molecular Weight Calculator
Oligonucleotide Properties Calculator
Convert your DNA or AA sequences into many different formats
Rotor Calculations and Conversions
Unit Conversions and Conversion Factors for Molecular Biology

Modeling and Structure Prediction Tools

ESyPred3D Web Server
Jpred: Protein Secondary Structure Prediction
Modeller: Comparative Protein Structure Modeling
The PredictProtein Server: Sequence Analysis and Structure Prediction
CPHmodels 2.0 Server: Homology Modeling Server
Protein BioInformatics
MFOLD: Prediction of RNA Secondary Structure
ProDom: A Comprehensive Set of Protein Domain Families

Other Important Websites

BLAST
Expasy
The Protein Databank
Biochemistry Stores
Health Sciences Academic Services and Facilities
Biochemistry DNA Sequencing Facility
Tips on Designing Primers for Automated Sequencing
UW EH&S Laboratory Safety Manual
ISI Web of Science