Useful Links
Manuals
Manuals frequently used by the microarray core:
- Affymetrix 500K SNP array protocol - Affy 500k Assay Manual
- Affymetrix GeneChip Prokaryotic Expression Target Labeling Assay - Affymetrix Expression manual
- Affymetrix Genechip expression array protocol - Affy Expression Protocol
- Affymetrix Whole Transcript sense target labeling assay manual - Affy WT sensetarget label manual
- Agilent hybridization chamber user manual - Agilent hyb chamber user guide 00061330
- Agilent bioanalyzer user's guide - Bioanalyzer 2100 user guide
- Agilent bioanalyzer maintenance and troubleshooting guide - Bioanalyzer 2100 Maintenance and Troubleshooting
- Nanodrop 1000 user manual - Nanodrop 1000 users manual
- Nugen ExpressionTarget Labeling Assay - Applause 3’ Amp System manual
- Nugen Whole Transcript Sense Target Labeling Assay(small/degraded/ samples) - Ovation Pico WTA System manual
- Nugen Whole Transcript Sense Target Labeling Assay - Applause WT Amp System manual
- Methylated DNA Capture Kit - Diagenode MethylCap Kit manual
- RNA Labeling for Affymetrix miRNA Arrays - Genisphere FlashTag Biotin HSR manual
- RNA/DNA Isolation from FFPE samples - Ambion RecoverAll manual
- RNA Isolation (prokaryotic,eukaryotic cells/tissues) - MRC TriReagent manual
- RNA Isolation/cleanup - Qiagen RNeasy PLUS Mini Column manual
- miRNA Isolation - Qiagen miRNeasy Mini Column manual
- DNA Isolation - Qiagen DNeasy Mini Column manual
- Agilent DNA Labeling - Agilent Mammalian ChIP-on-chip
- Qiagen Tissuelyser Handbook - TissueLyser Handbook
- Qiagen Tissuelyser Operating Manual - Tissuelyser operating manual
- Vector NTI user manual - VectorNTI v.10 users manual
Overview and Reference Sites:
- http://www.nslij-genetics.org/microarray/core.html
- http://info.med.yale.edu/wmkeck/affymetrix/analysis.htm
- http://www.gene-chips.com/
Resources:
- http://stress-genomics.org/stress.fls/expression/array_tech/trouble_shooting/troubles_index.htm
- http://www.chip.org/chip2003/
- http://www.ebi.ac.uk/microarray/
- http://cmgm.stanford.edu/pbrown/mguide/index.html
- http://www.microarrays.org/
- http://www.mcb.arizona.edu/wardlab/microarray.html
- http://oz.berkeley.edu/users/terry/zarray/Html/
- http://biosun1.harvard.edu/complab/
Limited list of vendors of microarray related products
Limited list of vendors and academic providers of microarray analysis software
- Silicon Genetics (GeneSpring)
- BioDiscovery (Imagene and Genesight)
- Affymetrix (Microarray analysis suite and Data Mining Tools)
- Rosetta (Rosetta Resolver)
- WingWong at Harvard (dChip)
- Speed lab