Roche NimbleGen offers six types of promoter designs to suit your ChIP-chip analyses:

• 2.1M Deluxe Promoters are single array designs containing expanded promoter regions for all known and alternative transcript start sites in human and mouse. In addition, these arrays tile through all annotated CpG islands, all annotated miRNA promoters, and manually selected ENCODE regions (human only).
• 3x720K RefSeq Promoters are multiplex slides with 3 identical arrays per slide enabling the simultaneous analysis of 3 ChIP samples for increased sample throughput. These arrays cover the promoters of the well characterized RefSeq genes derived from the UCSC RefFlat files and are available for human, mouse and rat.
• 385K Two-Array Sets contain all annotated splice variants and alternative transcription start sites. This array set provides the most comprehensive tool for genome-wide mapping of transcriptional regulatory elements including all RefSeq genes, the Mammalian Gene Collection, and UCSC known genes to encompass the most comprehensive list of transcripts available. Designs are available for human, mouse, rat, and A. thaliana.
• 385K RefSeq Promoters are single array designs containing all known well-characterized RefSeq genes. The promoter regions on this array are covered by 50-75mer probes with approximately 100bp spacing, dependent on the sequence composition of the region. Designs are available for human and mouse.
• 385K RefSeq XM Promoters are single array designs containing model reference sequences produced by NCBI's Genome Annotation Project (those accessions beginning with XM) that are predicted by genome sequence analysis. The entries represent ab initio predictions, or have some level of transcript or homology to known genes to support the gene predictions. They represent the transcripts and proteins that are annotated on the NCBI Contigs, and they may be different from GenBank submissions for mRNAs and/or the curated RefSeq records with NM, NR, NP accession prefixes. Designs are available for human and mouse.
• 385K Minimal Promoters are currently available for A. thaliana.

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