Quint Lab:Back Door

resources

• primer lists
  
• enzyme lists
  
• seeds
  
• ordering
  

papers/lab meetings/seminars

• papers of the month
  
• lab meeting/journal club
• ipb progress reports/seminars
• SFB648 seminars

online tools

dna/protein analysis:

• sequence converter
• dna clean-up
• protein clean-up
• reverse complement
• translate dna
• predict protein mw
• protein motif scan
• restriction analysis
  
• genetic code
  
• amino acid structures
  
• plasmapper

oligos:

• oligo analysis
• primer3plus
• duplex analysis

blasts/alignments:

• pairwise dna alignment
• protein alignment
• blast alignment
• clustalw - multiple alignments
• blastn
• blastp
• Vicogenta - comparing genomes to arabidopsis

arabidopsis tools:

• rootdetection - automatic measurements of seedling roots and hypocotyls
• arabidopsis database collection
• tair
• nasc
• 101 ways to grow arabidopsis
• plants-ubq
• salk t-dnas
• genevestigator
• efp-browser/expression angler/etc.
• GEB - gene expression browser for arabidopsis
• tiling array expression atlas
• arex
• mapman
• web mirna designer
• tile viz
• tiling array express
• 1001 genomes
• POLYMORPH reseq SNPs
• arabidopsis hormone database
• JIC microsatellite mapping markers
• Vicogenta - comparing genomes to arabidopsis
• AmiGO - Gene Ontology
• PLAZA
• dCAPS finder

medicago tools:

• medicago gene expression atlas
• medicago database

natural variation/polymorphisms:

• msqt - multiple snp query tool
• masc snp database
• caps finder
• polymorph - reseq. snps
• atprimer ecotypes
• JIC microsatellite mapping markers
• Marker Tracker
• Bergelson A.thaliana Resources

calculators:

• vector:insert ratios
• molar conversions - moles ↔ weight
• concentration conversions - molar units ↔ weight/volume
• pcr mastermix calculator
• buffer calculator
• pcr mastermix calculator
• Konzrechner

white board

• AG Quint - Lab Blog
• - Meta!Blast real-time 3D action-adventure game to explore the vivid, dynamic world of a soybean plant cell - might be worth a try!
• DFG Science TV: Forscher stellen ihre eigenen Projekte vor
• Naturally Obsessed: The making of a Scientist - documentary
• historical papers of the royal society
• professor science
• free PC software for molecular biologists
• Six Important Factors for Reverse Transcription
• Video: Jede Zelle ...
• Video: GFP-tagged HIV infiziert T-Zelle
• The Large Hadron Rap
• medicago gene expression atlas
• the postdoc interview
• craig venter's grand vision on synthetic genomics → video
• Kits and their unique role in molecular biology: a brief retrospective
• recycling electroporation cuvettes
• pimp your plasmid growth medium
• buffer calculator
• Control Your Lab Computers From Home
• run faster gels → new electrophoresis buffers
• how-to-become-a-world-expert-in-your-field → artikel
• quick and dirty screening for cloned inserts
• awesome video → cellular visions: the inner life of a cell
• Journal of Visualized Experiments

lab protocols

→ check also openwetware protocols

e. coli

• cacl2-competent cells e.coli
• e.coli transformation chemical
• electrocompetent cells e.coli + electroporation
• colony pcr

agros

• electrocompetent A.rhizogenes cells + electroporation
• agrobacterium plasmid miniprep

arabidopsis

• southern blot
• arabidopsis dna isolation - quick and dirty
• arabidopsis transformation
• arabidopsis protoplast transformation
• arabidopsis rna isolation protocols (including siliques)
• transient transformation and expression
• kanamycin selection of transgenic seeds
• selection of transgenic seeds on basta plates
• ems mutagenesis
• ats plates
• iaa extraction and quantification

yeast
→ for general yeast handling follow Clontech Yeast Protocols Handbook
→ for Y2H follow Clontech Matchmaker Library Construction & Screening Kit

• genomic dna
• non-lethal ß-galactosidase assay
• Short version ß-galactosidase assay
• plasmid prep
• yeast transformation
• yeast western blot
• mating in 24-well plates
• yeast media

general

• ligation (sticky ends)
• northern
• western