Lab Protocols
Lab Maintenance
Autoclaving
Dishwashing
Changing CO2 tanks on incubators
Cell Culture
Thawing mammalian cells
Freezing mammalian cells
Aliquoting FBS, pen-strep, and L-glutamine (with FBS heat inactivation protocol)
Cryo-Babies Label Template for Aliquoting (note- ToughSpots label for tubes is here)
Mammalian Cell Lysis & Fractionation
Lysis buffer recipe
Lysing adherent mammalian cells
Cell fractionation: isolation of nuclei
Polyacrylamide Gel Electrophoresis & Immunoblotting
Micro-BCA protein concentration assay
Mini gel casting
Midi gel casting, electrophoresis, and blotting
SDS-PAGE recipe
NuPAGE western blot protocol
Trans-Blot Turbo semi dry blotting
Wet tank transfer protocol
Immunoprecipitation (IP)
IP lysis buffer recipe
Immunoprecipitation (IP) protocol
Retroviral and Lentiviral Vectors for Cell Engineering
Lentivirus preparation
Lentivirus transfection worksheet, 3rd generation packaging
Lentivirus transfection worksheet, 2nd generation packaging
Lentivirus preparation (Fugene-assisted)
Retrovirus preparation using Phoenix cells
Retrovirus transfection worksheet
Retrovirus preparation, VSVG pseudotyping
Retrovirus preparation, (Fugene-assisted)
Concentrating virus without ultracentrifugation
Typical concentrations for eukaryotic antibiotic selections
Cell Transfection
Lipofectamine RNAiMAX for siRNA
Immunofluorescence
Coverslip immunofluorescence
Flow Cytometry
Flow Sorting Preparation
Cell Phenotypic Assays
Growing cell spheroids in collagen
Soft agar colony formation assay
Wound healing assay
Ethanol fixation for cell cycle analysis
Cell Culture Media Recipes
Media recipe for mouse PDAC cell lines
Subculturing glioma stem cells (GSCs)
Plasmid Manipulation, Propagation & Analysis
Transforming competent bacterial cell lines
Transforming bacteria with pSLIK vectors
Making LB agar plates
Growing bacterial cultures
Phenol-chloroform quick DNA extraction
Concentrating DNA by precipitation in ethanol
Reconstituting DNA from filter paper
DNA gel electrophoresis
Ordering Oligos (Thermo) & Geneblocks (Twist Biosciences)
Plasmid Sequencing
Plasmidsaurus Sequencing
NEB Protocols for DNA Work
NEB® Primer Design Tools
PCR Using Q5® High-Fidelity DNA Polymerase (M0491)
PCR Protocol for Phusion® High-Fidelity DNA Polymerase (M0530)
NEBcloner
Dpn1 Digest Protocol
Time-Saver™ Qualified Enzymes
Heat Inactivation
NEBioCalculator
NEBuilder HiFi DNA Assembly Reaction Protocol
Transformation Protocol
Isolation of RNA & qRT-PCR
qRT-PCR using SYBR Green
Qiagen RNeasy Mini Handbook
Computational & Image Analysis Protocols
Heatmap generation in MeV software
R Studio code for PCA, Pearson, and heatmap workflow
PLSR using SIMCA-P
PLSR using R
PLSR using MATLAB
PTM-SEA using R
Cell Profiler Tutorials Page
Puncta quantification in ImageJ
Protocol for Spheroid Analysis
Protocol for Quantifying Protein Expression with Correlation Plots
Protocol for Puncta, Edge Intensity, Area, and Shape Analysis
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