GeneChip™ Human Tiling 2.0R Array Set - FAQs

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2 product FAQs found

What genome builds were used to design the Tilling Arrays?

The NCBI Human Genome Assemply Build 34 was used to design the Human Tilling 1.0R Set, Human Tilling 2.0R Set and the Human Promoter 1.0R Array Repetitive elements were removed by RepeatMasker. Probes were tiled at an average resolution of 35bp as measured from the central position of adjacent 25-mer oligos, leaving a gap of approximately 10bp between probes. Promoter 1.0 Arrays regions were also selected using sequence information from: 35,685 ENSEMBL genes (version 21_34d, May 14, 2004) 25,172 RefSeq mRNAs (NCBI GenBank, February 7, 2004) 47,062 complete-CDS mRNA (NCBI GenBank, December 15, 2003)
The NCBI Mouse Genome Assembly version 33 was used to design the Mouse Tilling 1.1R Array set, Mouse Tilling 2.0R Array set, and Mouse Promoter 1.0R Array. Repetitive elements were removed by RepeatMasker. Promoter regions for the Mouse Promoter 1.0R Array were selected using sequence information from: 33,559 ENSEMBL genes (version 30_33f March 23, 2005) 18,167 RefSeq mRNAs (NCBI GenBank April 7, 2005) 27,707 complete-CDS mRNAs (NCBI GenBank April 7, 2005)

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How do the Tilling Arrays 1.0R and Tilling Arrays 2.0R compare to each other?

The Tilling 1.0R Array Set is made up of a set of 14 arrays. The array set contains both perfect match and miss match probes. The 1.0R arrays were designed for transcript mapping experiments. The Tilling 2.0R Array Set is available as a whole genome set (made up of 7 arrays) or individual arrays from the set can be purchased separately. This array is not an updated version of the Tilling 1.0R array. The arrays are made up of only perfect match probes obtained from the Tilling 1.0R array set. The Tilling 2.0R arrays were designed for ChIP experiments. The Promoter 1.0R Array is a single arrays made up of a subset of the probes from the Human 2.0R Array focusing on 7.5 kb upstream through 2.45 downstream of 5' transcription start sites. The array is made up of perfect match probes.

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