McClean:Protocols: Difference between revisions
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*[[McClean: Protocol Template| Protocol Template]] | *[[McClean: Protocol Template| Protocol Template]] | ||
*[[McClean: Lab Database | Lab Database]] | *[[McClean: Lab Database | Lab Database]] | ||
*[[McClean: Lab Organization Notes | Lab Organization Notes]] | |||
==Introductory Exercises== | ==Introductory Exercises== | ||
| Line 30: | Line 31: | ||
*[[McClean:Bayanus Transformation | Bayanus Transformation]] | *[[McClean:Bayanus Transformation | Bayanus Transformation]] | ||
*[[McClean: Cleaning Floating Pin Replicators | Cleaning Floating Pin Replicators]] | *[[McClean: Cleaning Floating Pin Replicators | Cleaning Floating Pin Replicators]] | ||
*[[McClean:FISH | Fluorescence in situ Hybridization (Colin)]] | *[[McClean:FISH | Fluorescence in situ Hybridization (Colin)]] | ||
*[[McClean: FISH (Ping) | Fluorescent in situ Hybridization (Ping)]] | *[[McClean: FISH (Ping) | Fluorescent in situ Hybridization (Ping)]] | ||
| Line 74: | Line 74: | ||
==PCR== | ==PCR== | ||
*[[McClean: designing primers | Designing Primers (Yeast)]] | |||
*[[McClean: Colony PCR (Yeast) | Colony PCR (Yeast)]] | |||
*[[McClean:dNTPs | dNTP Stocks]] | *[[McClean:dNTPs | dNTP Stocks]] | ||
*[[McClean:Touchdown_PCR | Touchdown PCR]] | *[[McClean:Touchdown_PCR | Touchdown PCR]] | ||
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*[[McClean:YPD2 | YPD2]] | *[[McClean:YPD2 | YPD2]] | ||
*[[McClean:YPD4 | YPD4]] | *[[McClean:YPD4 | YPD4]] | ||
*[[McClean:Chloramphenicol media | Chloramphenicol media]] | |||
*[[McClean:Kanamycin media | Kanamycin media]] | |||
==Stock Solutions== | ==Stock Solutions== | ||
| Line 123: | Line 127: | ||
*[[McClean: Tris_Buffer | Tris Buffer]] | *[[McClean: Tris_Buffer | Tris Buffer]] | ||
*[[McClean: Yeast glycerol | Yeast Glycerol 30%]] | *[[McClean: Yeast glycerol | Yeast Glycerol 30%]] | ||
*[[McClean:Chloramphenicol | Chloramphenicol]] | |||
*[[McClean:Kanamycin | Kanamycin]] | |||
==Microfluidics== | ==Microfluidics== | ||
*[[McClean: ConA | Concanavalin A Solution for Microfluidics]] | *[[McClean: ConA | Concanavalin A Solution for Microfluidics]] | ||
*[[McClean: Flow Cells | Constructing Flow Cells]] | *[[McClean: Flow Cells | Constructing PDMS Flow Cells]] | ||
*[[McClean: FCS2 for Cycling | FCS2 chamber for Metabolic Cycling]] | *[[McClean: FCS2 for Cycling | FCS2 chamber for Metabolic Cycling]] | ||
*[[User:Bohao Liu/Notebook/Research| Bandwidth Experiments]] | *[[User:Bohao Liu/Notebook/Research| Bandwidth Experiments]] | ||
*[[McClean: BioptechsTempExp | Bioptechs Temperature Experiments]] | |||
==Microscopy== | ==Microscopy== | ||
*[[McClean: Intro to the microscope| Introduction to the microscope]] | |||
*[[McClean: Microscope Dos and Don'ts| Microscope Dos and Don'ts]] | *[[McClean: Microscope Dos and Don'ts| Microscope Dos and Don'ts]] | ||
*[[McClean: Nikon_TI_Basic_Use | Nikon TI Basic Use]] | *[[McClean: Nikon_TI_Basic_Use | Nikon TI Basic Use]] | ||
| Line 155: | Line 163: | ||
*[[McClean:Oligonucleotide phosphorylation, Annealing and Ligation | Oligonucleotide phosphorylation, Annealing and Ligation]] | *[[McClean:Oligonucleotide phosphorylation, Annealing and Ligation | Oligonucleotide phosphorylation, Annealing and Ligation]] | ||
*[[McClean:BlueLightSetup | How to Connect Blue LED to a Power Source, Parts and Instructions]] | *[[McClean:BlueLightSetup | How to Connect Blue LED to a Power Source, Parts and Instructions]] | ||
*[[McClean:InstallKappa |Compiling Kappa in a Linux environment]] | |||
<!--MM Added 10/24/2013 | <!--MM Added 10/24/2013 | ||
Revision as of 17:35, 19 April 2016
Back to McClean Lab
Basics
- Lab Expectations
- Lab Rules
- Joining the Lab
- Leaving the Lab
- Lab Notebooks
- Dilution of Oligos
- Ordering Media
- Ordering Supplies
- Protocol Template
- Lab Database
- Lab Organization Notes
Introductory Exercises
Health and Safety
General Lab Procedures
- Washing Glassware
- Dry Ice-Ethanol Bath
- Pouring Gels for Electrophoresis (Mike)
- Using the Nanodrop2000
Yeast
- Drug Concentrations
- Basic Chemostat Guide
- Bayanus Transformation
- Cleaning Floating Pin Replicators
- Fluorescence in situ Hybridization (Colin)
- Fluorescent in situ Hybridization (Ping)
- Fixation of Yeast (Bisaria Protocol)
- Fixation of Yeast (P. Xu Protocol)
- Frogging a Serial Dilution
- Frogging Tetrads
- Genomic DNA Prep (Bust 'n' Grab Protocol)
- GEV Strain Construction
- Glycerol stocks (yeast)
- Hemacytometer protocol for yeast
- Making and Using Frozen Yeast Competant Cells
- Mating Type Testers
- Phluorin Calibration
- Pinning (96 or 384 format)
- Plasmid Loss Assay
- Random Spore Prep
- Sequencing Colony PCR Product
- Smartstat Startup
- Sporulation
- Tetrad Dissection
- URA Pop-out
- Yeast Dubious ORFs
- Yeast Mating Halo Assay
- Yeast Nomenclature
- Yeast Recombinational Cloning
- Yeast Transformation (S. cerevisiae)
- YMC Induction in Chemostat
- Zygote Picking
- Working with the LoxP/Cre System in S. cerevisiae
- Western Blot
- Membrane Stripping
- Membrane Stripping-Mild
- Invasive growth assay
Bacteria
- Transformation of E. Coli
- E. coli Glycerol Stocks
- E. coli Competent Cells
- Colony PCR (E. coli)
- E. coli Electroporation
- Plasmid Prep from E. coli using a Qiagen Kit
PCR
- Designing Primers (Yeast)
- Colony PCR (Yeast)
- dNTP Stocks
- Touchdown PCR
- Takara PrimeStar PCR
- Anneal and Extend
Flow Cytometry
- General Flow Cytometry Procedure
- Cycloheximide Concentration Assay
- Flourecent Protein Folding Time Assay
- Induction time course
- Phase Plane Mapping
Media
- KS Amino Acid Supplement
- LB1
- LB2
- Low Fluorescence Media
- Low Fluorescence Agar Membranes
- Magic Marker Medias
- Quickie YPD supplemented with Adenine
- Synthetic Complete (SC) Yeast Media
- Synthetic Complete (SC) Media w/Drugs
- Synthetic Complete (SC) Media w/Canavanine
- YNB1
- YNB2
- YNB3
- YNB4
- YPD2
- YPD4
- Chloramphenicol media
- Kanamycin media
Stock Solutions
- Agarose for gels
- α-Factor 1mg/ml Stock
- Bacterial Glycerol 65%
- Carbenicillin Stock Solution
- Concanavalin A Solution without ions
- Cycloheximide Stock Solution
- DNA Ladder Stock for PCR
- EDTA (0.5M)
- Geneticin/G418 Stock Solution
- Glucose Solution for Media
- PBS/0.1%Tween
- Phosphate Buffered Saline (PBS, 10x)
- Potassium Phosphate Buffer
- Seventy Percent (70%) Ethanol
- TAE Buffer (50X)
- TE Buffer (10X)
- Tris Buffer
- Yeast Glycerol 30%
- Chloramphenicol
- Kanamycin
Microfluidics
- Concanavalin A Solution for Microfluidics
- Constructing PDMS Flow Cells
- FCS2 chamber for Metabolic Cycling
- Bandwidth Experiments
- Bioptechs Temperature Experiments
Microscopy
- Introduction to the microscope
- Microscope Dos and Don'ts
- Nikon TI Basic Use
- Registering objectives on the Nikon
- 96 Well Plate Assay
- NIS Elements Repair
- New Scope Settings
- Quickie ImageJ Quantification
- NikonTI-Eclipse Setup and operation using Micromanager
- Cleaning the Camera's Cover
Equipment Maintenance
Misc
- 96 Well Plate Print Out
- AddGene Orders
- Blue Light Overview
- Sequencing
- Bibtex4Word (Add-in for word that allows you to use your existing BibTeX database)
- Orders from IDT/Genewiz/Macrogen/GenScript
- Searching a Sequence for All Database Primers
- Annealing Oligos
- Oligonucleotide phosphorylation, Annealing and Ligation
- How to Connect Blue LED to a Power Source, Parts and Instructions
- Compiling Kappa in a Linux environment
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