Real-time PCR
Application guide
Includes:
qPCR basics
Experimental design considerations
Multiplexing considerations
Data analysis
Gene expression analysis
Technical guide
Includes:
Primer and probe design
qPCR optimization
Instrumentation
Troubleshooting
Analysis Software download links:
Installation serial number: 050610
QX200 Digital Droplet PCR
Application guide
Includes:
ddPCR basics
Experimental design considerations
Absolute quantification
Copy number variation analysis
Rare event detection
Data analysis
Troubleshooting
Protocol for Evagreen Supermix
Includes:
DNA input requirements
Restriction digestion recommendations
Reaction setup
Thermal cycling conditions
Protocol for Probe Supermix
Includes:
DNA input requirements
Restriction digestion recommendations
Reaction setup
Thermal cycling conditions
Analysis software download link:
PCR primer design
- NCBI nucleotide database - search for sequences
- Primer Quest - primer design
- BLAST - Nucleotide sequence alignment
- Oligoanalyzer - Primer secondary structure analysis
Nanostring
Wet lab protocols
nCounter XT Assay Protocol
Includes assay description and protocols for:
- nCounter XT Codeset gene expression assay
- nCounter XT Plex2 expression assay
- nCounter Vantage RNA assay
- nCounter Vantage RNA:Protein assay
- nCounter XT DNA assay
- nCounter XT gene expression assays for single cells and low input material
- nCounter Vantage Fusion assay
nCounter Elements XT Reagents
Includes assay description and protocols for:
- nCounter Elements XT gene expression assay
- nCounter Elements XT fusion gene assay
- nCounter Elements XT DNA assay
nCounter miRNA Expression Assay Protocol
Includes assay description and protocol for:
- miRNA expression assay
Data analysis guides
Nanostring nSolver Resource Guide
Includes links to:
nSolver Software (download here) and User Guides
- nSolver User Manual
- nSolver Quick Start Guide
- Gene Expression Data Analysis Guidelines
- Data QC
- Background correction
- Normalization
- Assessing differential expression and fold changes
- CNV Data Analysis Guidelines
- Plexset Guide
- Protein Assay Normalization and Data Analysis Guide
nSolver Advanced Analysis Module (download here)
Includes links to:
- Advanced analysis module user manual
- Quick Start Guide
- SNV Analysis Guide
- Fusion Analysis Guide
nSolver Tutorial Videos
- Links to videos are in the nSolver Resource Guide
Next Generation Sequencing
Illumina Library preparation protocols
DNA sequencing
RNA sequencing
10X Genomics Chromium Single Cell RNA-seq
- Chromium Single Cell 3' Reagent Kit User Guide (v3 chemistry)
- Protocols and guides for sample preparation
How do SPRI beads work?
- DNA fragment size selection guide
- http://core-genomics.blogspot.com/2012/04/how-do-spri-beads-work.html
Tapestation
Protocols
- RNA Screentape
- High Sensitivity RNA Screentape
- D1000 Screentape protocol
- High Sensitivity D1000 Screentape
- D5000 Screentape
- High Sensitivity D5000 Screentape
- Genomic DNA Screentape
Data Analysis
Short Tandem Repeat (STR) Cell Line Authentication
- Geneprint 10 Assay (Promega) Protocol
- ATCC database (USA)
- DSMZ database (European)
- Cell Line Authentication Guidelines (ICLAC)