Question

Microarray background correction.(affymetrix)

0

Entering edit mode

6.3 years ago

english.server ▴ 300

In microaray analysis, say afymetrix, image analysis is done by Gridding, Segmentation, Intensity Extraction and background correction. This leads to .CEL files. The content in .CEL files is once more background corrected using MAS5.0 or RMA algorithm. Am I right, ie there are 2 background correction steps?

microarray background correction • 1.7k views

ADD COMMENT • link updated 6.2 years ago by Biostar 20 • written 6.3 years ago by english.server ▴ 300

0

Entering edit mode

background correction is just one part of RMA. RMA is a 3 step method english.server

ADD REPLY • link 6.3 years ago by cpad0112 21k

0

Entering edit mode

Thanks. Is there another background correction steps before RMA (before getting CEL file)?

ADD REPLY • link 6.3 years ago by english.server ▴ 300

score 1 · Answer 1 · 2018-08-02

1

Entering edit mode

6.3 years ago

cpad0112 21k

My understanding from this pager, Gridding, Segmentation, Intensity Extraction are part of CEL file generation from dat files, not background correction.

ADD COMMENT • link 6.3 years ago by cpad0112 21k

0

Entering edit mode

Link has expired, cpad?

ADD REPLY • link 6.2 years ago by Kevin Blighe 88k

1

Entering edit mode

doi:10.1093/bib/bbm055

ADD REPLY • link 6.2 years ago by english.server ▴ 300