Microarray Я US  

Featuring a user-friendly graphic interface, Microarray Я US is an R-based program that seamlessly integrates functions from over a dozen or so most-widely used Bioconductor packages to offer researchers a streamlined workflow to perform routine microarray expression data analysis without the need of learning R language. 

• An intuitive graphic user interface
  enables users to use many popular Bioconductor microarray data analysis tools with little or no knowledge of Bioconductor/R language.
• Complete data analysis workflow
  covers data import, quality control, pre-processing, differential expression analysis, and power analysis.
• Supports major chips from Affymetrix and Illumina
  enables quick analysis of both user-provided data and public data from GEO/ArrayExpress.
• Latest custom chip description files (CDF) and probe re-annotation 
  allows more accurate analysis and interpretation of both Affymetrix and Illumina data. For more on implemented custom CDF and probe re-annotation, check out this page.
  
• Provides algorithms lacking in some commercial software
  Implements some widely used algorithms for pre-processing (such as MAS5 and dChip) and differential expression analysis (such as Limma, SA, maSigPro).
• Versatile gene list output utility tool
  allows automatic and easy generation of input files for over 20 most widely used functional analysis software, including Ingenuity Pathway Analysis, NextBio, DAVID, GSEA, GeneTrail, WebGestalt, GeneCodis, GenMAPP, Onto-tools, GoMiner, MAGIA, The Connectivity Map, GenePattern, etc. For more information on these software, check out this page.
  
• Multiple OS compatibility
  supports Microsoft Windows, Mac OS and Linux operating systems.

Affymetrix GeneChip (.CEL file):  

• Human: HG-U133A; HG-U133A_2; HG-U133B; HG-U133_Plus_2; HG_U95A; HG_U95Av2; HG_Focus
• Mouse: MG_U74Av2; MG_U74Bv2; MG_U74Cv2; Mouse430_2; Mouse430A_2; MOE430A; MOE430B
• Rat: RG_U34A; Rat230_2; RAE230A; RAE230B

Illumina BeadArray (output from BeadStudio or GenomeStudio):

• Human (versions 1 to 3): HumanWG-6; HumanRef-8; HumanHT-12
• Mouse (versions 1 to 2):  MouseWG-6; MouseRef-8
• Rat (version 1): RatRef-12

Microarray Я US v.1.0 is released.

Please fill out the registration form to get access to the program. 

Any comments, suggestions, bug reports are welcomed! 

Microarray Я US: Reliable statistical and comprehensive functional analysis of microarray data made easy—Harness the power of Bioconductor tools without learning R language

Yilin Dai^1*, Ling Guo^1*, Meng Li², and Yi-Bu Chen^2*

¹. Department of Mathematical Sciences, Michigan Technological University;

². Bioinformatics Service Program, Norris Medical Library, University of Southern California

Manuscript to be submitted.