Lidstrom:Protocols

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(Cell Culture:)
(Cell Culture:)
(37 intermediate revisions not shown.)
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*[[Lidstrom:Preparing Freezer Cell Stocks| Preparing Freezer Cell Stocks]]
*[[Lidstrom:Preparing Freezer Cell Stocks| Preparing Freezer Cell Stocks]]
*[[Lidstrom:Pouring Media Plates|Pouring Media Plates]]
*[[Lidstrom:Pouring Media Plates|Pouring Media Plates]]
 +
*[[Lidstrom:Filtration|Filtration]]
==Cell Culture:==
==Cell Culture:==
*[[Lidstrom:Tube Spec|Tube Spec]]
*[[Lidstrom:Tube Spec|Tube Spec]]
 +
*[[Lidstrom: Bioscreen|Bioscreen Setup]]
 +
 +
=== Methylotrophs ===
 +
*[[Lidstrom:MM1/MM2/MM3/HY|MM1/MM2/MM3/HY]]
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===E. coli === 
*[[Lidstrom:M9|M9 recipe]]
*[[Lidstrom:M9|M9 recipe]]
*[[Lidstrom:TB|Terrific Broth recipe]]
*[[Lidstrom:TB|Terrific Broth recipe]]
-
*[[Lidstrom: Bioscreen|Bioscreen Setup]]
 
*[[Lidstrom: EZ amino acid stock recipe|EZ amino acid stock recipe]]
*[[Lidstrom: EZ amino acid stock recipe|EZ amino acid stock recipe]]
 +
 +
=== OD measurements ===
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* [[Lidstrom:Beckmann DU 640B spectrophotometer|Beckmann DU 640B spectrophotometer]]
 +
*[[Lidstrom:NanoDrop|Nano Drop for Cell Cultures]]
==DNA/RNA:==
==DNA/RNA:==
===DNA===
===DNA===
 +
==== PCR ====
 +
*[[Lidstrom:Colony PCR| Colony PCR]]
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*[[Lidstrom:PCR| PCR (in progress)]]
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*[[Lidstrom:Thermocyclers|Thermocyclers]]
 +
====Isolation ====
====Isolation ====
*[[Lidstrom:QIAquick Gel Extraction Kit Protocol|QIAquick Gel Extraction Kit Protocol]]
*[[Lidstrom:QIAquick Gel Extraction Kit Protocol|QIAquick Gel Extraction Kit Protocol]]
-
*[[Lidstrom:Genomic DNA extraction|Genomic DNA extraction]]
+
*[[Lidstrom:Genomic DNA extraction|Genomic DNA minikit extraction]]
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*[[Lidstrom:Genomic DNA extraction|Genomic DNA phenol/chloroform extraction]]
====Manipulation====
====Manipulation====
*[[Lidstrom:Building with DNA|Intro: Building with DNA (in progress)]]
*[[Lidstrom:Building with DNA|Intro: Building with DNA (in progress)]]
-
*[[Lidstrom:Digestion with Restriction Enzymes|Digestion with Restriction Enzymes]]
 
-
*[[Lidstrom:Gibson Assembly| Gibson Assembly (In progress)]]
 
-
*[[Lidstrom:Ligation |Ligation (in progress)]]
 
*[[Lidstrom:Overlap Extension PCR| Overlap Extension PCR (in progress)]]
*[[Lidstrom:Overlap Extension PCR| Overlap Extension PCR (in progress)]]
*[[Qiagen_Buffers| Qiagen Buffer Recipes]]
*[[Qiagen_Buffers| Qiagen Buffer Recipes]]
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*[[Dorman:P1_phage_%28lysogenic%29|Phage Lysate Prep]]
*[[Dorman:P1_phage_%28lysogenic%29|Phage Lysate Prep]]
*[[Lidstrom:P1 Phage Transduction|P1 Phage Transduction (in progress)]]
*[[Lidstrom:P1 Phage Transduction|P1 Phage Transduction (in progress)]]
 +
 +
==== Restriction Cloning ====
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*[[Lidstrom:Digestion with Restriction Enzymes|Digestion with Restriction Enzymes]]
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*[[Lidstrom:Ligation |Ligation (in progress)]]
 +
 +
==== Gibson Cloning ====
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*[[Lidstrom:Gibson Assembly| Gibson Assembly (In progress)]]
====Obervation====
====Obervation====
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====Misc.====
====Misc.====
-
*[[Lidstrom:PCR| PCR (in progress)]]
 
*[[Lidstrom:Loading Dye Recipe|Loading Dye Recipe]]
*[[Lidstrom:Loading Dye Recipe|Loading Dye Recipe]]
*[[Lidstrom:Purifying DNA|Purifying DNA (in progress)]]
*[[Lidstrom:Purifying DNA|Purifying DNA (in progress)]]
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*[[Lidstrom:Oligo Orders | Oligo Orders]]
*[[Lidstrom:Oligo Orders | Oligo Orders]]
*[[Lidstrom:Diluting Primers | Diluting Primers]]
*[[Lidstrom:Diluting Primers | Diluting Primers]]
 +
*[https://www.neb.com/~/media/NebUs/Files/Brochures/Cloning_Guide_1113.pdf NEB cloning guide]
==Protein==
==Protein==
*[[Lidstrom: SDS-PAGE | SDS-PAGE Protein Gels]]
*[[Lidstrom: SDS-PAGE | SDS-PAGE Protein Gels]]
-
==E. Coli==
+
=== Protein Concentration Determination ===
-
*[[Lidstrom:E. Coli Vector Compatibility| E. Coli Vector Compatibility  (In Progress)]]
+
*[[Lidstrom:Choosing a protein concentration quantification method|Choosing a protein concentration quantification method]]
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*[[Lidstrom:BCA assay|BCA assay]] to determine protein concentration
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*[[Lidstrom:NanoDrop#NanoDrop_for_Proteins|NanoDrop for proteins]]
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 +
== Chemicals ==
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*[[Lidstrom:Chemical Stability|Chemical Stability]]
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* Also, see [[Lidstrom:Solution Stock Info|Solution Stock Info]]
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 +
==Buffers==
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*[[Lidstrom:Buffers|Buffers]]
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 +
==E. coli==
 +
*[[Lidstrom:E. Coli Vector Compatibility| E. coli Vector Compatibility  (In Progress)]]
*[[Lidstrom:Competent Cell Preparation|Competent Cell Preparation (in progress)]]
*[[Lidstrom:Competent Cell Preparation|Competent Cell Preparation (in progress)]]
 +
=== E. coli transformation ===
*[[Lidstrom:Chemical Transformation|Chemical Transformation]]
*[[Lidstrom:Chemical Transformation|Chemical Transformation]]
*[[Lidstrom:Electroporation|Electroporation]]
*[[Lidstrom:Electroporation|Electroporation]]
*[[Lidstrom:Competent Cells|Competent Cell Lines]]
*[[Lidstrom:Competent Cells|Competent Cell Lines]]
-
==Enzyme Assays==
+
== Lysing & Cells & Clarifying Extract ==
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*[[Lidstrom:French Press|French Press]]
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*[[Lidstrom:Sonicator|Sonication]]
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*[[Lidstrom:Ultracentrifuge|Ultracentrifuge]]
 +
 
 +
==Assays==
===General===
===General===
-
*[[Lidstrom: Plate Reader| Plate Reader Setup]]
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*[[Lidstrom:Enzyme Assay Basics|Enzyme Assay Basics]]
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*[[Lidstrom:Solution Stock Info|Solution Stock Info]]
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=== Equipment ===
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*Plate readers:
 +
**[[Lidstrom: Molecular Devices Plate Reader| Molecular Devices (beige) Plate Reader Setup]]
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**[[Lidstrom: Tecan Plate Reader|Tecan (dark grey) Plate Reader]]
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* Cuvette spectrophotometer:
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** [[Lidstrom:UV-2401PC UV-Vis recording spectrophotometer|UV-2401PC UV-Vis recording spectrophotometer]]
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* Centrifuge:
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**[[Lidstrom:Sorvall Centrifuge|Sorvall centrifuge]]  goes faster than the regular centrifuges that allow 50mL tubes
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* Flow Cytometry:
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**[[Lidstrom: Flow Cytometer| Flow Cytometer]]
===in vitro pathway assays (CO<sub>2</sub> project)===
===in vitro pathway assays (CO<sub>2</sub> project)===
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*[[Lidstrom:in vitro Pathway Assay: Crude Extract Prep| Crude Extract Prep (in progress)]]
*[[Lidstrom:in vitro Pathway Assay: Crude Extract Prep| Crude Extract Prep (in progress)]]
*[[Lidstrom:in vitro Pathway Assay: Sample Analysis via UPLC-MS/MS | Sample Analysis via UPLC-MS/MS (in progress)]]
*[[Lidstrom:in vitro Pathway Assay: Sample Analysis via UPLC-MS/MS | Sample Analysis via UPLC-MS/MS (in progress)]]
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==== Misc ====
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*[[Lidstrom:Assaying enzyme libraries in 96-well plates|Assaying enzyme libraries in 96-well plates]]
== Metabolomics ==
== Metabolomics ==

Revision as of 20:23, 25 March 2014

Back home: Lidstrom

Contents

General Lab:

Cell Culture:

Methylotrophs

E. coli

OD measurements

DNA/RNA:

DNA

PCR

Isolation

Manipulation

Fancy Manipulation

Restriction Cloning

Gibson Cloning

Obervation

Misc.

Protein

Protein Concentration Determination

Chemicals

Buffers

E. coli

E. coli transformation

Lysing & Cells & Clarifying Extract

Assays

General

Equipment

in vitro pathway assays (CO2 project)

Misc

Metabolomics

CO2 project

Personal tools