title: Quantitative methods for genome-scale analysis of in situ hybridization and correlation with microarray data.
abstract: With the emergence of genome-wide colorimetric in situ hybridization (ISH) data sets such as the Allen Brain Atlas, it is important to understand the relationship between this gene expression modality and those derived from more quantitative based technologies. This study introduces a novel method for standardized relative quantification of colorimetric ISH signal that enables a large-scale cross-platform expression level comparison of ISH with two publicly available microarray brain data sources.
authors.affiliation: Allen Institute for Brain Science, Seattle, WA 98103, USA.
authors.forename: Chang-Kyu
authors.initials: CK
authors.lastname: Lee
authors.forename: Susan M
authors.initials: SM
authors.lastname: Sunkin
authors.forename: Chihchau
authors.initials: C
authors.lastname: Kuan
authors.forename: Carol L
authors.initials: CL
authors.lastname: Thompson
authors.forename: Sayan
authors.initials: S
authors.lastname: Pathak
authors.forename: Lydia
authors.initials: L
authors.lastname: Ng
authors.forename: Chris
authors.initials: C
authors.lastname: Lau
authors.forename: Shanna
authors.initials: S
authors.lastname: Fischer
authors.forename: Marty
authors.initials: M
authors.lastname: Mortrud
authors.forename: Cliff
authors.initials: C
authors.lastname: Slaughterbeck
authors.forename: Allan
authors.initials: A
authors.lastname: Jones
authors.forename: Ed
authors.initials: E
authors.lastname: Lein
authors.forename: Michael
authors.initials: M
authors.lastname: Hawrylycz
mesh_terms: D000818:Animals; D001923:Brain Chemistry / Q000235:genetics; D003124:Colorimetry; D020869:Gene Expression Profiling; D023281:Genomics / Q000379:methods*; D017403:In Situ Hybridization; D051379:Mice; D008810:Mice, Inbred C57BL; D020411:Oligonucleotide Array Sequence Analysis